Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 337 of 356
Found at i:108049523 original size:33 final size:33
Alignment explanation
Indices: 108049481--108049578 Score: 169
Period size: 33 Copynumber: 3.0 Consensus size: 33
108049471 TTAAATGATA
*
108049481 AGGATAGGAAGAAAAGTGATAAAGAATTAGCAG
1 AGGATAGGAAGAAAAGTGATGAAGAATTAGCAG
*
108049514 AGGATAGGAAGAAACGTGATGAAGAATTAGCAG
1 AGGATAGGAAGAAAAGTGATGAAGAATTAGCAG
*
108049547 AGGATAGGAAGAAAAGTGATGAAGAAATAGCA
1 AGGATAGGAAGAAAAGTGATGAAGAATTAGCA
108049579 AAGAAGTTGT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.50, C:0.04, G:0.32, T:0.14
Consensus pattern (33 bp):
AGGATAGGAAGAAAAGTGATGAAGAATTAGCAG
Found at i:108049559 original size:20 final size:20
Alignment explanation
Indices: 108049502--108049559 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
108049492 AAAAGTGATA
108049502 AAGAATTAGCAGAGGATAGG
1 AAGAATTAGCAGAGGATAGG
*
108049522 AAGAA--A-C-G-TGAT--G
1 AAGAATTAGCAGAGGATAGG
108049535 AAGAATTAGCAGAGGATAGG
1 AAGAATTAGCAGAGGATAGG
108049555 AAGAA
1 AAGAA
108049560 AAGTGATGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 14
0.64 0.04 0.31
Matches are distributed among these distances:
13 6 0.21
15 4 0.14
16 2 0.07
17 2 0.07
18 4 0.14
20 11 0.38
ACGTcount: A:0.48, C:0.05, G:0.33, T:0.14
Consensus pattern (20 bp):
AAGAATTAGCAGAGGATAGG
Found at i:108050229 original size:15 final size:16
Alignment explanation
Indices: 108050202--108050232 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
108050192 ATATACTAGA
108050202 TTTTATAATTTAATTT
1 TTTTATAATTTAATTT
108050218 TTTTATAA-TTAATTT
1 TTTTATAATTTAATTT
108050233 CTCAATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTATAATTTAATTT
Found at i:108051526 original size:21 final size:19
Alignment explanation
Indices: 108051502--108051540 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
108051492 ATTTGCCTCC
108051502 CTATCTAAGACCATGTTTCCT
1 CTATCTAAG-CCAT-TTTCCT
108051523 CTATCTAAGCCATTTTCC
1 CTATCTAAGCCATTTTCC
108051541 GGAGGATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 4 0.22
21 9 0.50
ACGTcount: A:0.23, C:0.31, G:0.08, T:0.38
Consensus pattern (19 bp):
CTATCTAAGCCATTTTCCT
Found at i:108060159 original size:3 final size:3
Alignment explanation
Indices: 108060151--108060251 Score: 50
Period size: 3 Copynumber: 33.3 Consensus size: 3
108060141 TTAGTCCTTT
* * *
108060151 TTA TTA TTA TTA TTA TTTA GTTCA TTG TT- TTA TTG CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA -TT-A TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
108060198 ATG TTA TTA TTA TTA TTG TT- TCTA -TA TT- TCCTA TTA -TA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA T--TA TTA TTA TTA TTA
108060242 TTA TTA TTA T
1 TTA TTA TTA T
108060252 ATAGGTGCAT
Statistics
Matches: 75, Mismatches: 13, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
2 8 0.11
3 57 0.76
4 8 0.11
5 2 0.03
ACGTcount: A:0.27, C:0.06, G:0.05, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:108062512 original size:19 final size:20
Alignment explanation
Indices: 108062472--108062515 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
108062462 GTCTCTTTAG
* *
108062472 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
108062491 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
108062510 GCATTA
1 GCATTA
108062516 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:108066979 original size:88 final size:88
Alignment explanation
Indices: 108066827--108067133 Score: 479
Period size: 88 Copynumber: 3.5 Consensus size: 88
108066817 CAATGAAGTT
* * * *
108066827 ACAGATCTTGCCTTCCTGCATTGATAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTTTCGGT
1 ACAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
*
108066892 TGTGGTGGAGCTGGTTGAAGACA
66 TGTGGTGGAGCTAGTTGAAGACA
*
108066915 ACAGATCTTGCCTTCCTGTATTGACAGCGAAACAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
1 ACAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
108066980 TGTGGTGGAGCTAGTTGAAGACA
66 TGTGGTGGAGCTAGTTGAAGACA
108067003 ACAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
1 ACAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
* *
108067068 TGTAGTGGAGCTAGTTGAAGATA
66 TGTGGTGGAGCTAGTTGAAGACA
*** * * * *
108067091 GTGGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGA
1 ACAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGA
108067134 AACCAGATCT
Statistics
Matches: 203, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 203 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (88 bp):
ACAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
TGTGGTGGAGCTAGTTGAAGACA
Found at i:108067057 original size:44 final size:43
Alignment explanation
Indices: 108066833--108067059 Score: 153
Period size: 44 Copynumber: 5.2 Consensus size: 43
108066823 AGTTACAGAT
*
108066833 CTTGCCTTCCTGCATTGATAGTGAAGCAGGTCGAAGACACAAAC
1 CTTGCCTTCCTGTATTGA-AGTGAAGCAGGTCGAAGACACAAAC
* * * * * * *
108066877 CTTGCCTCTTTCGGT-TGTG--GTGGAGCTGGTTGAAGACAACAGAT
1 CTTG-C-CTTCCTGTAT-TGAAGTGAAGCAGGTCGAAGAC-ACAAAC
* *
108066921 CTTGCCTTCCTGTATTGACAGCGAAACAGGTCGAAGACACAAAC
1 CTTGCCTTCCTGTATTGA-AGTGAAGCAGGTCGAAGACACAAAC
* * * * *
108066965 CTTGCCTCTCTCGGT-TGTG--GTGGAGCTA-GTTGAAGACAACAGAT
1 CTTGCCT-TC-CTGTAT-TGAAGTGAAGC-AGGTCGAAGAC-ACAAAC
*
108067009 CTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAAC
1 CTTGCCTTCCTGTATTGA-AGTGAAGCAGGTCGAAGACACAAAC
108067053 CTTGCCT
1 CTTGCCT
108067060 CTCTCGGTTG
Statistics
Matches: 135, Mismatches: 30, Indels: 36
0.67 0.15 0.18
Matches are distributed among these distances:
42 13 0.10
43 32 0.24
44 47 0.35
45 31 0.23
46 12 0.09
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (43 bp):
CTTGCCTTCCTGTATTGAAGTGAAGCAGGTCGAAGACACAAAC
Found at i:108067215 original size:176 final size:176
Alignment explanation
Indices: 108066827--108067225 Score: 419
Period size: 176 Copynumber: 2.3 Consensus size: 176
108066817 CAATGAAGTT
* * * * * *
108066827 ACAGATCTTGCCTTCCTGCATTGATAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTTTCGGT
1 ACAGATCTTACCTCCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
* * * *
108066892 TGTGGTGGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGTATTGACAGCGAAACAGGTCGAAG
66 TGTAGTGGAGCTAGTTGAAGACAACAGATCTTGCCTTCCTGTACTGACAGCGAAACAGATCGAAG
* * * ** ** *
108066957 ACACAAACCTTGCCTCTCTCGGTTGTGGTGGAGCTAGTTGAAGACA
131 AAACAAACCTTACCTCCCTAAGCAGTAGTGGAGCTAGTTGAAGACA
* *
108067003 ACAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
1 ACAGATCTTACCTCCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
* *** * * *
108067068 TGTAGTGGAGCTAGTTGAAGATAGTGGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAG
66 TGTAGTGGAGCTAGTTGAAGACAACAGATCTTGCCTTCCTGTACTGACAGCGAAACAGATCGAAG
* * * *
108067133 AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGC-AGATTGAAG-CC
131 AAA-CAAACCTTACCTCCCTAAGCAGTAGTGGAGCTAG-TTGAAGACA
* * * *
108067179 AGAGGTCTTATCTCCCTAAG-ATT-ACAGCGGAGCAGGTCGAAGACACA
1 ACAGATCTTACCTCCCT--GTATTGACAGCGAAGCAGGTCGAAGACACA
108067226 GCGGAGCGGA
Statistics
Matches: 186, Mismatches: 33, Indels: 8
0.82 0.15 0.04
Matches are distributed among these distances:
176 155 0.83
177 30 0.16
178 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (176 bp):
ACAGATCTTACCTCCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
TGTAGTGGAGCTAGTTGAAGACAACAGATCTTGCCTTCCTGTACTGACAGCGAAACAGATCGAAG
AAACAAACCTTACCTCCCTAAGCAGTAGTGGAGCTAGTTGAAGACA
Found at i:108067226 original size:21 final size:21
Alignment explanation
Indices: 108067202--108067245 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
108067192 CCCTAAGATT
*
108067202 ACAGCGGAGCAGG-TCGAAGAC
1 ACAGCGGAGC-GGATCAAAGAC
108067223 ACAGCGGAGCGGATCAAAGAC
1 ACAGCGGAGCGGATCAAAGAC
108067244 AC
1 AC
108067246 TATCCTATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.36, C:0.25, G:0.34, T:0.05
Consensus pattern (21 bp):
ACAGCGGAGCGGATCAAAGAC
Found at i:108068934 original size:15 final size:15
Alignment explanation
Indices: 108068884--108068944 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
108068874 GTCCTTTTTA
*
108068884 TTATTATTATTTA-G
1 TTATTATTATTAATG
* *
108068898 TTCATTGTT-TTATTG
1 TT-ATTATTATTAATG
*
108068913 CTATTATTATTAATG
1 TTATTATTATTAATG
*
108068928 TTATTATTATTATTG
1 TTATTATTATTAATG
108068943 TT
1 TT
108068945 TCTATATTTC
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
14 9 0.25
15 27 0.75
ACGTcount: A:0.25, C:0.03, G:0.08, T:0.64
Consensus pattern (15 bp):
TTATTATTATTAATG
Found at i:108073996 original size:30 final size:31
Alignment explanation
Indices: 108073956--108074025 Score: 106
Period size: 30 Copynumber: 2.3 Consensus size: 31
108073946 AGGCTTAATG
* * *
108073956 TTTTGTCCCCTGTGATATAGT-AAAATCTCA
1 TTTTGACCCCTGTAATATAGTAAAAATATCA
108073986 TTTTGACCCCTGTAATATAGTAAAAATATCA
1 TTTTGACCCCTGTAATATAGTAAAAATATCA
108074017 TTTTGACCC
1 TTTTGACCC
108074026 TTTTCCTTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
30 19 0.53
31 17 0.47
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (31 bp):
TTTTGACCCCTGTAATATAGTAAAAATATCA
Found at i:108078644 original size:17 final size:17
Alignment explanation
Indices: 108078624--108078659 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
108078614 GGCAATTAAA
108078624 GTATAAGGGCTTAATTG
1 GTATAAGGGCTTAATTG
108078641 GTATAAGGGCTTAATTG
1 GTATAAGGGCTTAATTG
108078658 GT
1 GT
108078660 CCTTGGTAAG
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:0.28, C:0.06, G:0.31, T:0.36
Consensus pattern (17 bp):
GTATAAGGGCTTAATTG
Found at i:108083792 original size:40 final size:39
Alignment explanation
Indices: 108083718--108083794 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 39
108083708 ACATGAAACA
*
108083718 TGAGTCTAAATAAGTTTTGTATAATAAAGTAGTATCTATG
1 TGAGTCTAAATAAGTCTTGTATAATAAAG-AGTATCTATG
108083758 TGAGTCTAAATAAGTCTTGTATGATATAAA-AGTATCT
1 TGAGTCTAAATAAGTCTTGTAT-A-ATAAAGAGTATCT
108083795 CATGAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
40 28 0.82
41 1 0.03
42 5 0.15
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (39 bp):
TGAGTCTAAATAAGTCTTGTATAATAAAGAGTATCTATG
Found at i:108091413 original size:18 final size:17
Alignment explanation
Indices: 108091383--108091430 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
108091373 GGGATTGTGA
*
108091383 TGGTTTTGCTTTGGTTT
1 TGGTTTTGCTTTGGCTT
108091400 TGGTTTTGGCTTTGGCTT
1 TGGTTTT-GCTTTGGCTT
*
108091418 TGCATTTTGCTTT
1 TG-GTTTTGCTTT
108091431 AAAGTTTGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 16 0.59
19 4 0.15
ACGTcount: A:0.02, C:0.10, G:0.27, T:0.60
Consensus pattern (17 bp):
TGGTTTTGCTTTGGCTT
Found at i:108094220 original size:17 final size:17
Alignment explanation
Indices: 108094200--108094241 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
108094190 TAAGGATTTT
108094200 ATAAATTAT-TAATAAAA
1 ATAAATTATATAA-AAAA
108094217 ATAAGCATTATATAAAAAA
1 ATAA--ATTATATAAAAAA
108094236 ATAAAT
1 ATAAAT
108094242 CTAATGTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 6 0.27
19 13 0.59
20 3 0.14
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (17 bp):
ATAAATTATATAAAAAA
Found at i:108100801 original size:16 final size:16
Alignment explanation
Indices: 108100780--108100812 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
108100770 TTGATTTTAC
108100780 GCTTAATGCACTCACA
1 GCTTAATGCACTCACA
108100796 GCTTAATGCACTCACA
1 GCTTAATGCACTCACA
108100812 G
1 G
108100813 AAAACGTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (16 bp):
GCTTAATGCACTCACA
Found at i:108101691 original size:8 final size:8
Alignment explanation
Indices: 108101678--108101706 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
108101668 TTATGTTTAG
108101678 TATATTAT
1 TATATTAT
108101686 TATATTAT
1 TATATTAT
108101694 TATATTAT
1 TATATTAT
108101702 TATAT
1 TATAT
108101707 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:108101739 original size:5 final size:5
Alignment explanation
Indices: 108101729--108101765 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
108101719 TTATGTTTTA
108101729 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
108101766 AAACTAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:108102283 original size:15 final size:14
Alignment explanation
Indices: 108102231--108102297 Score: 80
Period size: 14 Copynumber: 4.7 Consensus size: 14
108102221 GTTTGCAGGT
* * *
108102231 AAAATGTTTTCCGT
1 AAAATGATTTCTGG
*
108102245 AAAATGATTTCTGA
1 AAAATGATTTCTGG
*
108102259 AAAATAATTTCTTGG
1 AAAATGATTTC-TGG
108102274 AAAATGATTTCTGG
1 AAAATGATTTCTGG
108102288 AAAATGATTT
1 AAAATGATTT
108102298 ACTTTTCTGG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
14 34 0.74
15 12 0.26
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:108103958 original size:15 final size:15
Alignment explanation
Indices: 108103938--108103994 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
108103928 CGATGAATTT
108103938 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
108103953 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
108103968 ATTGAATTTATATTG
1 ATTGAATTTATATTG
108103983 ATTGAA-TTATAT
1 ATTGAATTTATAT
108103995 AATATATGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:108104394 original size:23 final size:22
Alignment explanation
Indices: 108104364--108104471 Score: 98
Period size: 21 Copynumber: 5.0 Consensus size: 22
108104354 GCTTTACCGA
**
108104364 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTCGTGTGTCGTA-T
*
108104387 TCAGGCACCTCGTGTGTCGTA-
1 TCAGGCACTTCGTGTGTCGTAT
*
108104408 TCAAGCA-TCTCGTGTGTCGTA-
1 TCAGGCACT-TCGTGTGTCGTAT
*
108104429 TCAGGCACCTCGTGTGTCGT-T
1 TCAGGCACTTCGTGTGTCGTAT
* **
108104450 TTAGGCACTTTATGTGTCGTAT
1 TCAGGCACTTCGTGTGTCGTAT
108104472 ACTGATCAGG
Statistics
Matches: 70, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
21 51 0.73
22 1 0.01
23 18 0.26
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.37
Consensus pattern (22 bp):
TCAGGCACTTCGTGTGTCGTAT
Found at i:108104419 original size:21 final size:21
Alignment explanation
Indices: 108104376--108104471 Score: 111
Period size: 21 Copynumber: 4.5 Consensus size: 21
108104366 AGGCACTTTA
108104376 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
* *
108104399 TGTGTCGTATCAAGCATCTCG
1 TGTGTCGTATCAGGCACCTCG
108104420 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
108104441 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
108104462 TGTGTCGTAT
1 TGTGTCGTAT
108104472 ACTGATCAGG
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
21 54 0.86
23 9 0.14
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.38
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:108104466 original size:42 final size:42
Alignment explanation
Indices: 108104363--108104471 Score: 139
Period size: 42 Copynumber: 2.5 Consensus size: 42
108104353 GGCTTTACCG
108104363 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGTA--TCAGGCACCTCGTGTGTCGT
* **
108104407 ATCAAGCA-TCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACT-TTATGTGTCGTATCAGGCACCTCGTGTGTCGT
* *
108104449 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
108104472 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
42 36 0.65
43 2 0.04
44 17 0.31
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.37
Consensus pattern (42 bp):
ATCAGGCACTTTATGTGTCGTATCAGGCACCTCGTGTGTCGT
Found at i:108106092 original size:19 final size:19
Alignment explanation
Indices: 108106070--108106139 Score: 67
Period size: 19 Copynumber: 3.7 Consensus size: 19
108106060 TAATAAAAAT
108106070 ATAAAATAATAATATGTAC
1 ATAAAATAATAATATGTAC
*
108106089 AT-AAAT-ATATATATGTGC
1 ATAAAATAATA-ATATGTAC
*
108106107 ATATAATAA-AAGTATGTA-
1 ATAAAATAATAA-TATGTAC
108106125 ATAATAATAATAATA
1 ATAA-AATAATAATA
108106140 ATAATATCTA
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
17 3 0.07
18 17 0.41
19 18 0.44
20 3 0.07
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.34
Consensus pattern (19 bp):
ATAAAATAATAATATGTAC
Found at i:108106259 original size:19 final size:20
Alignment explanation
Indices: 108106216--108106261 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 20
108106206 CAACAATAAT
108106216 ATAAAATA-ATGATATGTAC
1 ATAAAATATATGATATGTAC
108106235 --AAAATATAT-ATATGTAC
1 ATAAAATATATGATATGTAC
108106252 ATAAAATATA
1 ATAAAATATA
108106262 CACTAATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 14 0.58
18 2 0.08
19 8 0.33
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.33
Consensus pattern (20 bp):
ATAAAATATATGATATGTAC
Found at i:108106399 original size:34 final size:32
Alignment explanation
Indices: 108106339--108106404 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 32
108106329 ATATGGTATT
* *
108106339 TTTAAAATATATATATATGTATATATAATAATA
1 TTTAAAATATATACATAAGTATATATAA-AATA
108106372 TTTAAGAATATATACATAAG-ATGATATAAAATA
1 TTTAA-AATATATACATAAGTAT-ATATAAAATA
108106405 CATACATGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 11 0.38
34 18 0.62
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (32 bp):
TTTAAAATATATACATAAGTATATATAAAATA
Found at i:108106476 original size:11 final size:11
Alignment explanation
Indices: 108106449--108106491 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
108106439 TTGCATTAAA
*
108106449 AAAATATATAC
1 AAAATATATAT
*
108106460 ATAATATATAT
1 AAAATATATAT
*
108106471 AAAATACATAT
1 AAAATATATAT
*
108106482 AATATATATA
1 AAAATATATA
108106492 CGTATTAGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAATATATAT
Found at i:108107243 original size:16 final size:16
Alignment explanation
Indices: 108107180--108107249 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
108107170 TATGTATATA
*
108107180 AAAAGAAAGAAAGAGAG
1 AAAAGAAA-AAAGAAAG
108107197 AAAA-ACAAAAAGAAAG
1 AAAAGA-AAAAAGAAAG
***
108107213 AAAA-AAGATTCGAAAG
1 AAAAGAA-AAAAGAAAG
108107229 AAAAGAAAAAAGAAA-
1 AAAAGAAAAAAGAAAG
108107244 AAAAGA
1 AAAAGA
108107250 TGCAAACCTT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
15 7 0.16
16 28 0.65
17 8 0.19
ACGTcount: A:0.76, C:0.03, G:0.19, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAG
Found at i:108107248 original size:20 final size:20
Alignment explanation
Indices: 108107180--108107249 Score: 54
Period size: 21 Copynumber: 3.5 Consensus size: 20
108107170 TATGTATATA
*
108107180 AAAAGAAAGAAAGAGAGAAAA-
1 AAAA-AAAGAAA-AGAAAAAAG
*
108107201 ACAAAAAG-AAAGAAAAAAG
1 AAAAAAAGAAAAGAAAAAAG
***
108107220 ATTCGAAAGAAAAGAAAAAAG
1 A-AAAAAAGAAAAGAAAAAAG
108107241 AAAAAAAGA
1 AAAAAAAGA
108107250 TGCAAACCTT
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
18 7 0.18
19 3 0.08
20 13 0.34
21 15 0.39
ACGTcount: A:0.76, C:0.03, G:0.19, T:0.03
Consensus pattern (20 bp):
AAAAAAAGAAAAGAAAAAAG
Found at i:108107533 original size:17 final size:17
Alignment explanation
Indices: 108107489--108107537 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
108107479 AGGGTTTCTT
*
108107489 GGTTTTTTTGGGGGGTTA
1 GGTTTTTTT-TGGGGTTA
108107507 GGTTTTTTTTTGGGGTTA
1 GG-TTTTTTTTGGGGTTA
108107525 GGTTTTTTTTGGG
1 GGTTTTTTTTGGG
108107538 CTTAATGGGC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 11 0.38
18 11 0.38
19 7 0.24
ACGTcount: A:0.04, C:0.00, G:0.39, T:0.57
Consensus pattern (17 bp):
GGTTTTTTTTGGGGTTA
Found at i:108107534 original size:18 final size:18
Alignment explanation
Indices: 108107489--108107537 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
108107479 AGGGTTTCTT
*
108107489 GGTTTTTTTGGGGGGTTA
1 GGTTTTTTTTGGGGGTTA
*
108107507 GGTTTTTTTTTGGGGTTA
1 GGTTTTTTTTGGGGGTTA
108107525 GGTTTTTTTTGGG
1 GGTTTTTTTTGGG
108107538 CTTAATGGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.04, C:0.00, G:0.39, T:0.57
Consensus pattern (18 bp):
GGTTTTTTTTGGGGGTTA
Found at i:108108243 original size:30 final size:30
Alignment explanation
Indices: 108108209--108108288 Score: 142
Period size: 30 Copynumber: 2.7 Consensus size: 30
108108199 CTGACTCGAG
108108209 GCTCAACTCACCTCTCGCAAAAATTAAAAA
1 GCTCAACTCACCTCTCGCAAAAATTAAAAA
*
108108239 GCTCAACTCACCTCTCGCAGAAATTAAAAA
1 GCTCAACTCACCTCTCGCAAAAATTAAAAA
*
108108269 ACTCAACTCACCTCTCGCAA
1 GCTCAACTCACCTCTCGCAA
108108289 TATGAGTTGA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.39, C:0.34, G:0.07, T:0.20
Consensus pattern (30 bp):
GCTCAACTCACCTCTCGCAAAAATTAAAAA
Found at i:108118944 original size:57 final size:59
Alignment explanation
Indices: 108118860--108118992 Score: 173
Period size: 58 Copynumber: 2.3 Consensus size: 59
108118850 ATTCATATAA
* *
108118860 TAATAATTATATTAAAAATTTTATTAAATTATATATTA-TTTTATTAAATTATATTTAG
1 TAATAATTATATTAAAAATATGATTAAATTATATATTATTTTTATTAAATTATATTTAG
* * * *
108118918 TAATAATTATGTT-AAAATATGATTAAATTATTTATTATTTTTATTAAATTATTTTTAA
1 TAATAATTATATTAAAAATATGATTAAATTATATATTATTTTTATTAAATTATATTTAG
*
108118976 CAATAATCT-TATTAAAA
1 TAATAAT-TATATTAAAA
108118993 TTTAATAATA
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
57 21 0.33
58 39 0.61
59 4 0.06
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (59 bp):
TAATAATTATATTAAAAATATGATTAAATTATATATTATTTTTATTAAATTATATTTAG
Found at i:108119179 original size:16 final size:16
Alignment explanation
Indices: 108119158--108119212 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
108119148 TAAATTACTG
*
108119158 ATTACAGCTCTATTTC
1 ATTACAGCTCTATTCC
108119174 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
108119190 ATTACACCTCTATTCC
1 ATTACAGCTCTATTCC
108119206 ATTACAG
1 ATTACAG
108119213 TGAACTAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.27, C:0.29, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:108119297 original size:10 final size:10
Alignment explanation
Indices: 108119282--108119325 Score: 63
Period size: 10 Copynumber: 4.4 Consensus size: 10
108119272 GATAATTTTT
108119282 TTTATAAATC
1 TTTATAAATC
*
108119292 TTTATAAATTT
1 TTTATAAA-TC
108119303 TTTATAAATC
1 TTTATAAATC
108119313 TTTATAAAT-
1 TTTATAAATC
108119322 TTTA
1 TTTA
108119326 GTTTATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
9 4 0.13
10 18 0.58
11 9 0.29
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (10 bp):
TTTATAAATC
Found at i:108119305 original size:21 final size:21
Alignment explanation
Indices: 108119279--108119324 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
108119269 TATGATAATT
108119279 TTTTTTATAAATCTTTATAAA
1 TTTTTTATAAATCTTTATAAA
108119300 TTTTTTATAAATCTTTATAAA
1 TTTTTTATAAATCTTTATAAA
108119321 TTTT
1 TTTT
108119325 AGTTTATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTTTATAAATCTTTATAAA
Found at i:108119332 original size:14 final size:13
Alignment explanation
Indices: 108119313--108119348 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
108119303 TTTATAAATC
108119313 TTTATAAATTTTAG
1 TTTATAAATTTT-G
*
108119327 TTTATAAATTTTT
1 TTTATAAATTTTG
108119340 TTTATAAAT
1 TTTATAAAT
108119349 CGATTTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (13 bp):
TTTATAAATTTTG
Found at i:108119394 original size:18 final size:18
Alignment explanation
Indices: 108119373--108119408 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
108119363 TATTAACTAA
*
108119373 TTTATATTTAAATATTTT
1 TTTATATTTAAAAATTTT
*
108119391 TTTATTTTTAAAAATTTT
1 TTTATATTTAAAAATTTT
108119409 GTAATGTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTATATTTAAAAATTTT
Found at i:108121398 original size:20 final size:21
Alignment explanation
Indices: 108121370--108121409 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
108121360 GTACATTTTT
*
108121370 TAAAGTTTATAT-ATATAAAC
1 TAAAATTTATATGATATAAAC
*
108121390 TAAAATTTATGTGATATAAA
1 TAAAATTTATATGATATAAA
108121410 TTTAATATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (21 bp):
TAAAATTTATATGATATAAAC
Found at i:108125319 original size:13 final size:14
Alignment explanation
Indices: 108125301--108125334 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
108125291 TGATATCGTA
*
108125301 TAAAAAAGACT-TT
1 TAAAAAAGAATATT
108125314 TAAAAAAGAATATT
1 TAAAAAAGAATATT
108125328 TAAAAAA
1 TAAAAAA
108125335 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (14 bp):
TAAAAAAGAATATT
Found at i:108134752 original size:21 final size:21
Alignment explanation
Indices: 108134713--108134753 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
108134703 CTAACTATAA
*
108134713 TAATTAAAATTTCATAAATTT
1 TAATTAAAATTACATAAATTT
108134734 TAATTAAAATGTACA-AAATT
1 TAATTAAAAT-TACATAAATT
108134754 AATTATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.41
Consensus pattern (21 bp):
TAATTAAAATTACATAAATTT
Found at i:108135287 original size:20 final size:20
Alignment explanation
Indices: 108135262--108135305 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
108135252 GAAAGGAATA
*
108135262 ATATAT-GTGTGTGTATATAT
1 ATATATAGTGTGTG-AGATAT
108135282 ATATATCAGTGTGTGAGATAT
1 ATATAT-AGTGTGTGAGATAT
108135303 ATA
1 ATA
108135306 ACATGTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 8 0.38
22 7 0.33
ACGTcount: A:0.34, C:0.02, G:0.20, T:0.43
Consensus pattern (20 bp):
ATATATAGTGTGTGAGATAT
Found at i:108135454 original size:43 final size:43
Alignment explanation
Indices: 108135406--108135488 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
108135396 TTTTCTCTTT
108135406 TTATCTCCATTTAGAGCCTCTTTGTACCTATATATATATATCA
1 TTATCTCCATTTAGAGCCTCTTTGTACCTATATATATATATCA
* *
108135449 TTATCTTCATTTAGAGCTTCTTTGTACCTATATATATATA
1 TTATCTCCATTTAGAGCCTCTTTGTACCTATATATATATA
108135489 GGTAAAGTGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.47
Consensus pattern (43 bp):
TTATCTCCATTTAGAGCCTCTTTGTACCTATATATATATATCA
Found at i:108135947 original size:26 final size:24
Alignment explanation
Indices: 108135907--108135966 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
108135897 TTATTTCATT
* * **
108135907 AAATAAAAAAATTTAAAATTATAA
1 AAATAAATATATTTAAAAACATAA
108135931 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
108135957 AAATAAATAT
1 AAATAAATAT
108135967 TAAAACAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 6 0.20
25 8 0.27
26 16 0.53
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:108135978 original size:22 final size:22
Alignment explanation
Indices: 108135937--108135995 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
108135927 ATAATAAATC
* *
108135937 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
108135957 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
* *
108135979 AAAT-GATACTAAAACAA
1 AAATAAATATTAAAACAA
108135996 TTCTTAAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 7 0.21
21 17 0.52
22 9 0.27
ACGTcount: A:0.68, C:0.07, G:0.02, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:108136040 original size:22 final size:21
Alignment explanation
Indices: 108136015--108136079 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
108136005 CAATACAGAA
108136015 ATTAAAAATATAATAAAAAATG
1 ATTAAAAATA-AATAAAAAATG
* **
108136037 ATTATATTAA-AAATTTAAAATG
1 ATTA-A-AAATAAATAAAAAATG
108136059 ATTAAAAATAAAATAAAAAAT
1 ATTAAAAAT-AAATAAAAAAT
108136080 ATACAAATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
20 2 0.06
21 1 0.03
22 26 0.79
23 2 0.06
24 2 0.06
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (21 bp):
ATTAAAAATAAATAAAAAATG
Found at i:108141254 original size:10 final size:10
Alignment explanation
Indices: 108141241--108141275 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
108141231 ATAAAAAATT
108141241 ATAATTAATA
1 ATAATTAATA
* *
108141251 ATAATAAATT
1 ATAATTAATA
108141261 ATAATTAATA
1 ATAATTAATA
108141271 ATAAT
1 ATAAT
108141276 ACTTTTATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
ATAATTAATA
Found at i:108141259 original size:20 final size:20
Alignment explanation
Indices: 108141230--108141276 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
108141220 AGTACAATTA
*
108141230 AATAAAAAATTATAATTAAT
1 AATAATAAATTATAATTAAT
108141250 AATAATAAATTATAATTAAT
1 AATAATAAATTATAATTAAT
108141270 AATAATA
1 AATAATA
108141277 CTTTTATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AATAATAAATTATAATTAAT
Found at i:108143435 original size:20 final size:20
Alignment explanation
Indices: 108143410--108143450 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
108143400 ATATTATATA
108143410 ATTTAAAATATACAA-ATTTT
1 ATTT-AAATATACAATATTTT
*
108143430 ATTTAATTATACAATATTTT
1 ATTTAAATATACAATATTTT
108143450 A
1 A
108143451 AATATTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTTAAATATACAATATTTT
Found at i:108144840 original size:3 final size:3
Alignment explanation
Indices: 108144834--108145024 Score: 54
Period size: 3 Copynumber: 62.0 Consensus size: 3
108144824 CTATTGCTGC
* * *
108144834 TAT TAT TAT TAT TCCT GAT T-T TAT TAT TAT TAAT GTAT TCTT TAT T-T
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT T-AT -TAT T-AT TAT TAT
* *** *
108144881 TAT TAT TAC TAT TAT T-T CTAT TAT TAT TAT GGC TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
108144926 GAT TA- TAT T-T TCT TTT TGAG T-T TAT CTACT TAT TAT T-T TAT TAT
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT -TA-T TAT TAT TAT TAT TAT
* ** * * * *
108144970 TAAT TAACT TAG CGT TATT TAT TAT TAT TGT TAT TTT TAT CAT TAT TAC
1 T-AT T-A-T TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
108145019 TAT TAT
1 TAT TAT
108145025 CTTTTTAAAT
Statistics
Matches: 134, Mismatches: 36, Indels: 36
0.65 0.17 0.17
Matches are distributed among these distances:
2 12 0.09
3 96 0.72
4 22 0.16
5 4 0.03
ACGTcount: A:0.26, C:0.07, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:108144880 original size:26 final size:24
Alignment explanation
Indices: 108144834--108144910 Score: 84
Period size: 24 Copynumber: 3.1 Consensus size: 24
108144824 CTATTGCTGC
108144834 TATTATTATTATTCCTGATTTTAT
1 TATTATTATTATTCCTGATTTTAT
* *
108144858 TATTATTAATGTATTCTTTATTTTAT
1 TATTATT-AT-TATTCCTGATTTTAT
* *
108144884 TATTACTATTATTTCT-ATTATTAT
1 TATTATTATTATTCCTGATT-TTAT
108144908 TAT
1 TAT
108144911 GGCTATTATT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
23 3 0.07
24 19 0.42
25 4 0.09
26 19 0.42
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (24 bp):
TATTATTATTATTCCTGATTTTAT
Found at i:108148280 original size:20 final size:20
Alignment explanation
Indices: 108148235--108148283 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
108148225 AATACATTTG
*
108148235 GCATTGACACATCGTTGACTA
1 GCATTGAC-CATCATTGACTA
* *
108148256 -TATTGACCATTATTGACTA
1 GCATTGACCATCATTGACTA
108148275 GCATTGACC
1 GCATTGACC
108148284 GTTTAATTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (20 bp):
GCATTGACCATCATTGACTA
Found at i:108150041 original size:21 final size:20
Alignment explanation
Indices: 108150017--108150065 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
108150007 TCAAATACTT
108150017 TTTTATTTTATAAAAATAAAA
1 TTTTATTTT-TAAAAATAAAA
* *
108150038 TTTTATATTTAAAATTAAAA
1 TTTTATTTTTAAAAATAAAA
108150058 TTTCTATT
1 TTT-TATT
108150066 CAGAATTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTTATTTTTAAAAATAAAA
Found at i:108156518 original size:23 final size:23
Alignment explanation
Indices: 108156475--108156518 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
108156465 GTTGACAATA
* *
108156475 TAATAATTTTATATGTAATTTTT
1 TAATAATATTATATATAATTTTT
108156498 TAATAATATTAT-TATAGATTT
1 TAATAATATTATATATA-ATTT
108156519 CAAGTCAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (23 bp):
TAATAATATTATATATAATTTTT
Found at i:108156652 original size:15 final size:17
Alignment explanation
Indices: 108156613--108156652 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
108156603 AATTATAACT
108156613 TAAAATTATTTTATATAA
1 TAAAA-TATTTTATATAA
108156631 T-AAATATTTT-TA-AA
1 TAAAATATTTTATATAA
108156645 TAAAATAT
1 TAAAATAT
108156653 ATAAAATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 3 0.14
15 8 0.38
16 6 0.29
17 3 0.14
18 1 0.05
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAAATATTTTATATAA
Found at i:108156939 original size:16 final size:16
Alignment explanation
Indices: 108156914--108156946 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
108156904 CGAGTTACTC
*
108156914 AAAAAGTTAAAAATTA
1 AAAAAATTAAAAATTA
108156930 AAAAAATTAAAAATTA
1 AAAAAATTAAAAATTA
108156946 A
1 A
108156947 GTCGTTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (16 bp):
AAAAAATTAAAAATTA
Found at i:108157483 original size:21 final size:21
Alignment explanation
Indices: 108157459--108157499 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
108157449 TAAAAAAAAT
108157459 ACTA-TCATATTATTATTTTTA
1 ACTATTCATA-TATTATTTTTA
108157480 ACTATTCATATATTATTTTT
1 ACTATTCATATATTATTTTT
108157500 GTTTTAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (21 bp):
ACTATTCATATATTATTTTTA
Found at i:108158303 original size:31 final size:31
Alignment explanation
Indices: 108158265--108158335 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
108158255 ATTTCTTTAA
* *
108158265 ATGTATATAGTTGAATCACAATCAAAATTTT
1 ATGTATATAGTTGAACCACAATCAAAATTTC
** *
108158296 ATGTATATAGTTGAACCATGATCAAAGTTTC
1 ATGTATATAGTTGAACCACAATCAAAATTTC
108158327 ATGTATATA
1 ATGTATATA
108158336 ATTACGCCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (31 bp):
ATGTATATAGTTGAACCACAATCAAAATTTC
Found at i:108161626 original size:58 final size:58
Alignment explanation
Indices: 108161531--108161649 Score: 220
Period size: 58 Copynumber: 2.1 Consensus size: 58
108161521 TTTAAACAAG
*
108161531 CCTCGATTTTGATAGGTTGCTTAAACTAATTGAGATAAGGTTAAGGATAATTTTTGAC
1 CCTCAATTTTGATAGGTTGCTTAAACTAATTGAGATAAGGTTAAGGATAATTTTTGAC
*
108161589 CCTCAATTTTGATAGGTTGCTTGAACTAATTGAGATAAGGTTAAGGATAATTTTTGAC
1 CCTCAATTTTGATAGGTTGCTTAAACTAATTGAGATAAGGTTAAGGATAATTTTTGAC
108161647 CCT
1 CCT
108161650 TTTAGTATAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (58 bp):
CCTCAATTTTGATAGGTTGCTTAAACTAATTGAGATAAGGTTAAGGATAATTTTTGAC
Found at i:108163534 original size:3 final size:3
Alignment explanation
Indices: 108163364--108163514 Score: 78
Period size: 3 Copynumber: 50.7 Consensus size: 3
108163354 TAATGAAAAC
* * * * * *
108163364 AAT AAT ATT AAT AAT ATT GAT AAT AAA AAT AGT GAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
108163412 -AT AAT ACCT -AT GAT ACT AAT AAT AGT AAT AAT AAG AA- AATT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
* * * * *
108163456 ATT AGT ATT AAT AAT AAT GGAA- AAT AAT AAT AAC AAT GAT AAT -AT
1 AAT AAT AAT AAT AAT AAT --AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
108163501 AGT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
108163515 AAGTGAAATT
Statistics
Matches: 109, Mismatches: 30, Indels: 18
0.69 0.19 0.11
Matches are distributed among these distances:
2 9 0.08
3 95 0.87
4 3 0.03
5 2 0.02
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:108170643 original size:16 final size:15
Alignment explanation
Indices: 108170606--108170648 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
108170596 ATAAATATAT
108170606 AAATATTAAAAGTTA
1 AAATATTAAAAGTTA
*
108170621 AATATATTAAAACTTTA
1 AA-ATATTAAAA-GTTA
108170638 AAATATATAAA
1 AAATAT-TAAA
108170649 TATTAGAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 2 0.08
16 13 0.54
17 9 0.38
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (15 bp):
AAATATTAAAAGTTA
Found at i:108171555 original size:11 final size:11
Alignment explanation
Indices: 108171539--108171564 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
108171529 TAAGGTGATT
108171539 TTTTATTATTA
1 TTTTATTATTA
108171550 TTTTATTATTA
1 TTTTATTATTA
108171561 TTTT
1 TTTT
108171565 TTTCGAACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTATTATTA
Found at i:108171633 original size:7 final size:8
Alignment explanation
Indices: 108171617--108171643 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
108171607 TAAAAGAAAT
108171617 AATAAAAA
1 AATAAAAA
108171625 AATAAAAA
1 AATAAAAA
108171633 AATAAAAA
1 AATAAAAA
108171641 AAT
1 AAT
108171644 TTACCTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
AATAAAAA
Found at i:108172627 original size:40 final size:40
Alignment explanation
Indices: 108172583--108172769 Score: 277
Period size: 40 Copynumber: 4.7 Consensus size: 40
108172573 CCAACCCAAT
* * * *
108172583 TGCCTTCGGGATTTAGCCCGGATGTAACAACCAGCACAAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
* *
108172623 TGCCTTCGGGACTTAACCCGGA-ATTAGCAACCAACACGAA
1 TGCCTTCGGGACTTAACCCGGATA-TAACAACCAGCACGAA
*
108172663 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
* *
108172703 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCATGAA
1 TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
108172743 TGCCTTCGGGACTTAACCCGGATATAA
1 TGCCTTCGGGACTTAACCCGGATATAA
108172770 TCCTCAATTG
Statistics
Matches: 135, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
40 134 0.99
41 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATATAACAACCAGCACGAA
Found at i:108194567 original size:22 final size:22
Alignment explanation
Indices: 108194537--108194599 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
108194527 TACGAGGGCT
*
108194537 GTGGAGGTATGGGACTGCTGTA
1 GTGGAGGTATGGGGCTGCTGTA
* *
108194559 GTGGGGGTATGGGGCCGCTGTA
1 GTGGAGGTATGGGGCTGCTGTA
108194581 GTGGAGGTATGGGGCTGCT
1 GTGGAGGTATGGGGCTGCT
108194600 TCATGGTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.13, C:0.11, G:0.51, T:0.25
Consensus pattern (22 bp):
GTGGAGGTATGGGGCTGCTGTA
Found at i:108197019 original size:23 final size:23
Alignment explanation
Indices: 108196989--108197082 Score: 75
Period size: 25 Copynumber: 3.9 Consensus size: 23
108196979 TTAATATTAT
108196989 TATTTTTAATTATATTATGTA-A
1 TATTTTTAATTATATTATGTACA
* *
108197011 GTATTTTTAACATTATATCACGTACA
1 -TATTTTT-A-ATTATATTATGTACA
* *
108197037 TACTTTTAATATCATTATTATGTATA
1 TATTTTTAAT-T-A-TATTATGTACA
108197063 TATTTTTAA-TATATATATGT
1 TATTTTTAATTATAT-TATGT
108197083 GTATATTTAT
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
22 3 0.05
23 15 0.26
24 4 0.07
25 18 0.32
26 17 0.30
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.53
Consensus pattern (23 bp):
TATTTTTAATTATATTATGTACA
Found at i:108197087 original size:23 final size:26
Alignment explanation
Indices: 108196989--108197090 Score: 76
Period size: 23 Copynumber: 4.2 Consensus size: 26
108196979 TTAATATTAT
108196989 TATTTTTAAT-T-A-TATTATGTA-A
1 TATTTTTAATATCATTATTATGTATA
* * * * *
108197011 GTATTTTTAACATTA-TATCACGTACA
1 -TATTTTTAATATCATTATTATGTATA
*
108197037 TACTTTTAATATCATTATTATGTATA
1 TATTTTTAATATCATTATTATGTATA
*
108197063 TATTTTTAATAT-A-TA-TATGTGTA
1 TATTTTTAATATCATTATTATGTATA
108197086 TATTT
1 TATTT
108197091 ATGTAGTATT
Statistics
Matches: 64, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
23 21 0.33
24 3 0.05
25 20 0.31
26 20 0.31
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (26 bp):
TATTTTTAATATCATTATTATGTATA
Found at i:108197532 original size:20 final size:22
Alignment explanation
Indices: 108197479--108197533 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 22
108197469 ATACTATTTC
108197479 ATGTATATACTTTTAATATTACT
1 ATGTATATA-TTTTAATATTACT
*
108197502 ATGTATTTATTTTAATA-TA-T
1 ATGTATATATTTTAATATTACT
*
108197522 ATGTACATATTT
1 ATGTATATATTT
108197534 ATATAGTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 11 0.38
21 2 0.07
22 8 0.28
23 8 0.28
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (22 bp):
ATGTATATATTTTAATATTACT
Found at i:108197618 original size:26 final size:24
Alignment explanation
Indices: 108197450--108197645 Score: 70
Period size: 25 Copynumber: 8.5 Consensus size: 24
108197440 GTATATGTTT
*
108197450 TATTATGTATGTAT-TTTTA-ATA
1 TATTATGTATATATATTTTATATA
*
108197472 CTATTTCATGTATATA-CTTTTA-ATA
1 -TA-TT-ATGTATATATATTTTATATA
*
108197497 TTACTATGTAT-T-TATTTTA-ATA
1 -TATTATGTATATATATTTTATATA
*
108197519 TA-TATG--TACATA-TTTATATA
1 TATTATGTATATATATTTTATATA
* *
108197539 GTGTTAT-TAATATATATTTCT-TTTA
1 -TATTATGT-ATATATATTT-TATATA
* *
108197564 TGTTAT-TA-GTAT-TTTTA-ATA
1 TATTATGTATATATATTTTATATA
*
108197584 TA-TATTGTATATGTTCATTTTATATA
1 TATTA-TGTATAT-AT-ATTTTATATA
108197610 TATTATGTATATATATATTTAGTAT-
1 TATTATGTATATATAT-TTTA-TATA
108197635 TATTATGTATA
1 TATTATGTATA
108197646 CACTTTTCAT
Statistics
Matches: 134, Mismatches: 14, Indels: 48
0.68 0.07 0.24
Matches are distributed among these distances:
18 1 0.01
19 6 0.04
20 14 0.10
21 8 0.06
22 16 0.12
23 10 0.07
24 17 0.13
25 44 0.33
26 16 0.12
27 2 0.01
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (24 bp):
TATTATGTATATATATTTTATATA
Found at i:108199465 original size:13 final size:13
Alignment explanation
Indices: 108199447--108199471 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
108199437 ACGTACATAA
108199447 AAAATATTTACAT
1 AAAATATTTACAT
108199460 AAAATATTTACA
1 AAAATATTTACA
108199472 ACAATAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAATATTTACAT
Found at i:108200034 original size:11 final size:11
Alignment explanation
Indices: 108200000--108200041 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
108199990 AAATCATTTT
108200000 GAAGAGAGAAA
1 GAAGAGAGAAA
* *
108200011 GAA-AAAAAAA
1 GAAGAGAGAAA
*
108200021 GAAGGGAGAAA
1 GAAGAGAGAAA
108200032 GAAGAGAGAA
1 GAAGAGAGAA
108200042 GGGAGGGGGA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAAA
Found at i:108201510 original size:75 final size:74
Alignment explanation
Indices: 108201329--108201746 Score: 554
Period size: 75 Copynumber: 5.6 Consensus size: 74
108201319 AGTGTGTGAT
* *
108201329 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGACAAAAATTGAAAATA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAA-ACAGAAATTGAAAATA
*
108201394 CCTCAGCATGTGAAC
63 CCTCAGC--GTG-TC
* * *
108201409 C-GAGGCTCAACTCACCTCTCGTAATATAAGTTGATTTTTTTTGAAAACAGAAATTGAAAATATC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAACAGAAATTGAAAATACC
*
108201473 TCAACGTGTC
65 TCAGCGTGTC
* ** * *
108201483 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
108201546 CAGCGTGTC
66 CAGCGTGTC
* *
108201555 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATACC
*
108201620 TCAGCATGTC
65 TCAGCGTGTC
* ** * *
108201630 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
108201695 CAGCGTGTC
66 CAGCGTGTC
108201704 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTT
108201747 TTGAAAAATA
Statistics
Matches: 298, Mismatches: 35, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
72 64 0.21
74 65 0.22
75 106 0.36
77 20 0.07
78 12 0.04
79 30 0.10
80 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (74 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
CAGCGTGTC
Found at i:108201860 original size:73 final size:73
Alignment explanation
Indices: 108201761--108202479 Score: 335
Period size: 77 Copynumber: 9.3 Consensus size: 73
108201751 AAAATATAAA
*
108201761 TTGAAAAGCAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTCGTCTCTCGCAATATG
1 TTGAAAAGCAGAAATTGAAATTACCTCAACGTGTCC-TGAGGCTCAACTCATCTCTCGCAATATG
108201825 AGTTGATTT
65 AGTTGATTT
* * *
108201834 TTGACAAA-CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATG
1 TTGA-AAAGCAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCATCTCTCGCAATATG
108201898 AGTTGATTT
65 AGTTGATTT
* * * * ** ** * * *
108201907 TCGAAAA--ATAGATTGAAA-CA-CAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTC
1 TTGAAAAGCAGAAATTGAAATTACCTCAACGTG----T-CCT--GAG-G-CTC-A-ACTC-A-T-
*
108201968 ACCCCTCGCAATATGAGTTGATTT
52 --CTCTCGCAATATGAGTTGATTT
* * * * * * *
108201992 TTGAAAAACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATAA
1 TTGAAAAGCAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGA
108202057 GTTGATTTTTT
66 GTTGA---TTT
* * * *
108202068 TTGAAAA-TAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAAGCAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGA
108202132 GTTGAATTTT
66 GTTG-A-TTT
* * * * * *
108202142 TTAGAAAA-CAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAAT
1 TT-GAAAAGCAGAAATTGAAATTACCTCA--ACGTG-TCCTGAGGCTCAACTCATCTCTCGCAAT
108202205 ATGAGTTGATCTTTGAAT
62 ATGAGTTGA---TT---T
** * * * * * * *
108202223 CTTGAAAAGCAGATTTTGAAAATACCTTGATATGTG-ACTCAAGGCTCAACTCACCTTTCGCAAT
1 -TTGAAAAGCAGAAATTGAAATTACC-TCA-ACGTGTCCT-GAGGCTCAACTCATCTCTCGCAAT
108202287 ATGAGTTGATTT
62 ATGAGTTGATTT
** * * ** * * *
108202299 TTGAAAAATATAAATTGAAGTAAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTC
1 TTGAAAAGCAGAAATT---G----AAATTACCTCAACGTGT--CCTGAGGCTCAACTCATCTCTC
108202364 GCAATATGAGTTGATTTTT
57 GCAATATGAGTTGA--TTT
* * * ** * *
108202383 TTG-AAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCTAAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAG-CAGAAATTGAAATTACCTCA--ACGTGTCCTGAGGCTCAACTCATCTCTCGCAATA
**
108202447 TGAGTCAATTTTT
63 TGAGTTGA--TTT
*
108202460 TTGAAAGGCAGAAATTGAAA
1 TTGAAAAGCAGAAATTGAAA
108202480 AACGGAAATT
Statistics
Matches: 508, Mismatches: 82, Indels: 108
0.73 0.12 0.15
Matches are distributed among these distances:
69 4 0.01
70 1 0.00
71 9 0.02
72 3 0.01
73 83 0.16
74 14 0.03
75 87 0.17
76 15 0.03
77 96 0.19
78 13 0.03
79 8 0.02
80 10 0.02
81 11 0.02
82 92 0.18
83 7 0.01
84 15 0.03
85 26 0.05
87 9 0.02
88 1 0.00
89 4 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (73 bp):
TTGAAAAGCAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGA
GTTGATTT
Found at i:108201901 original size:165 final size:160
Alignment explanation
Indices: 108201595--108202214 Score: 702
Period size: 158 Copynumber: 3.9 Consensus size: 160
108201585 GTTGATTTTT
* * *
108201595 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAA-ACAAAAATTG-AAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGA
108201660 GTTGATTTTTTTGAC-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
64 GTTGA--TTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
108201724 CGCAATATGAGTTGAATTTTTTTTTGAAAAATATAAA
127 CGCAATATGAGTTG-A-TTTTTTTTG-AAAATATAAA
* * *
108201761 TTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCGTCTCTCGCAATATGA
1 TTGAAAA-CAAAAATTGAAA-TACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGA
**
108201826 GTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCG
64 GTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
* * *
108201891 TAATATGAGTTGA---TTTTCGAAAA-ATAGA
129 CAATATGAGTTGATTTTTTTTGAAAATATAAA
** * *
108201919 TTGAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCCCTCGCAATATGA
1 TTGAAA-ACAAAAATTGA-AATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGA
* * * *
108201984 GTTGATTTTTGAAAAACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCG
64 GTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
* *
108202049 CAATATAAGTTGATTTTTTTTGAAAATAGAAA
129 CAATATGAGTTGATTTTTTTTGAAAATATAAA
* * *
108202081 TTG---------A---AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 TTGAAAACAAAAATTGAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGT
* * * *
108202134 TGAATTTTTTAGA-AAACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCT
66 TG-A-TTTTT-GACAAACAGAAATTGAAATTACCTCA--GCGTG-TCCTGAGGCTCAACTCACCT
108202197 CTCGCAATATGAGTTGAT
125 CTCGCAATATGAGTTGAT
108202215 CTTTGAATCT
Statistics
Matches: 397, Mismatches: 42, Indels: 44
0.82 0.09 0.09
Matches are distributed among these distances:
148 43 0.11
149 2 0.01
150 26 0.07
151 2 0.01
152 37 0.09
153 2 0.01
158 127 0.32
159 7 0.02
160 5 0.01
161 9 0.02
162 6 0.02
164 9 0.02
165 64 0.16
166 58 0.15
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.30
Consensus pattern (160 bp):
TTGAAAACAAAAATTGAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGT
TGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTTGAAAATATAAA
Found at i:108202062 original size:472 final size:465
Alignment explanation
Indices: 108201334--108203671 Score: 1281
Period size: 484 Copynumber: 4.9 Consensus size: 465
108201324 GTGATCTGAA
108201334 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGACAAAAATTGAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTGAAAGACAAAAATTGAAAATACCTCA
* *
108201399 GCATGTGAACCGAGGCTCAACTCACCTCTCGTAATATAAGTTGATTTTTTTTGAAAACAGAAATT
63 GCA-GTGAACCGAGGCTCAACTCACCTCTCGTAATATAAGTTGATTTTTATTGAAAACAAAAATT
* * ** ***
108201464 GAAAATATCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAC
127 GAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCCCTCGCAATATGAGTTGAATTTTGAAAAC
* * * *
108201529 AGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
192 AAAAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTT
*
108201593 TTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATAT
257 TTTTGAAA-ACAAAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCGCAATAT
* * * * *
108201658 GAGTTG-ATTTTTTTGACAACAGAAATTGAAATTACCTCA-GCGTG-TCCTGAGGCTCAACTCAC
321 GAGTTGAATTTTTTAGAAAACAGAAATTGAAAATACCTCACGCGTGAGCC-AAGGCTCAACTCAC
108201720 CTCTCGCAATATGAGTTGAATTTTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTAC
385 CTCTCGCAATATGAGTTGAATTTTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTAC
108201785 CTCAACGTGCCTTGAG
450 CTCAACGTGCCTTGAG
** * *
108201801 GCTCAACTCGTCTCTCGCAATATGAGTTGA-TTTTTGACAA-ACAGAAATTGAAATTACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAGACAAAAATTGAAAATACCTCAGC
* ** *
108201864 -GTG-TCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTTCGAAAAATAGATTGAAACA
65 AGTGAACC-GAGGCTCAACTCACCTCTCGTAATATAAGTTGATTTT-------T--ATTGAAA-A
* * *
108201927 CAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCCCTCGCAATATGAGTTGATTT
119 CAAAAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCCCTCGCAATATGAGTTGAATT
*
108201992 TTGAAAAACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATAA
184 TTG-AAAACAAAAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATAA
* * *
108202057 GTTGATTTTTTTTGAAAATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
248 GTTGATTTTTTTTGAAAACAAAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCT
*
108202122 CGCAATATGAGTTGAATTTTTTAGAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCT
313 CGCAATATGAGTTGAATTTTTTAGAAAACAGAAATTGAAAATACCTCA-CGCGTGAGCCAAGGCT
* * **
108202187 CAACTCACCTCTCGCAATATGAGTTG-A----TCTTTG----A-AT--CTTGAAAAGCAGATTTT
377 CAACTCACCTCTCGCAATATGAGTTGAATTTTTTTTTGAAAAATATAAATTGAAAAGCAGAAATT
* * * * **
108202240 GAAAATACCTTGATATGTGACTCAAG
442 GAAATTACC-TCA-ACGTGCCTTGAG
* * * *
108202266 GCTCAACTCACCTTTCGCAATATGAGTTGA-TTTTTGAAAAATATAAATTGAAGTAAAAAAATAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAAAAATT---G----AAAATAC
** * * * * * *
108202330 CTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-TTGAAAGACAG
59 CTCAG-CAGTGAACCGAGGCTCAACTCACCTCTCGTAATATAAGTTGATTTTTATTGAAA-ACAA
* * ** ** * *
108202394 AAATTGAAAATAGCTCAGCGCGTGAGCTAAGGCTCAACTCACCTCTCGCAATATGAG-TCAATTT
122 AAATTGAAAATACCTCA--ACGTGCCCCGAGGCTCAACTCACCCCTCGCAATATGAGTTGAA---
* * * * *
108202458 TTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAAC
182 TTTT--------G-AA---AACAA---AAATTGAAAATACCTCAGCATGT--CCCGAGGCTCAAC
* * * * * *
108202523 TCACCTCTCGTAATATGAGTTGATTTTTTTT-AAAGACAGAAATTGAAAATAGCTCAGCGTGTGA
230 TCACCTCTCGCAATATAAGTTGATTTTTTTTGAAA-ACAAAAATTGAAAATACCTCAACATGT--
** ** *
108202587 GC-CAAGGCTCAACTCACCTCTCGCAATATGAG-TCAATTTTTTTTTTGAAAGGCAGAAATTGAA
292 -CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA----TTTTTT-----------A--G-A
* * * * ** * *
108202650 AAACGGAAATTGAAAATACCTC-GGCGTGTGACCTGAGGCTCAACTTGCCGCTCGCAATACGAGT
338 AAACAGAAATTGAAAATACCTCACGCGTGAG-CC-AAGGCTCAACTCACCTCTCGCAATATGAGT
* *
108202714 TG-A------TTT------T-T---TTGACAA-CAGAAATTGAAATTACCTCAGCGTGTCC-TGA
401 TGAATTTTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTG-CCTTGA
108202760 G
465 G
*
108202761 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAGGCAGAAATTGAAAAACGGAAAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT---------GAAA--G-ACAA---AAAT
* * * * **
108202826 TGAAAATACCTCGGC-GTGTGACCTGAGGCTCAACTCGCCGCTCACAATACT-AGTTGATTTTT-
50 TGAAAATACCTCAGCAGTG-AACC-GAGGCTCAACTCACCTCTCGTAATA-TAAGTTGATTTTTA
* * * ** * * *
108202888 TTGACAACAGAAATTGAAATTACCTCAACGTGTTCTGAGGCTCGACTCACCTCTCGCAATATGAG
112 TTGAAAACAAAAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCCCTCGCAATATGAG
* ** **
108202953 TTGATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCG
177 TTGA-ATTTTGAAA-ACAAAAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCG
* * * * * * *
108203018 CAATATGAGTTGA-TTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAAC
240 CAATATAAGTTGATTTTTTTTGAAAACAAAAATTGAAAATACCTCAACATGTCTTGAGGCTCAAC
* * * *
108203082 TCATTTCTCGTAATATGAGTTG-ATTTTTGAAAAATAGATTGAAACACAAAAATTGACAATACTT
305 TCATTTCTCGCAATATGAGTTGAATTTTT------T--A--GAAA-ACAGAAATTGAAAATACCT
** *
108203146 CA-GCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG-A----TTTTTG---------
359 CACGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTTTGAAAAATATA
* * *
108203196 -A---AAAA-CAGAAATTGAAAATACCTCAGCGTGTCC-TGTG
424 AATTGAAAAGCAGAAATTGAAATTACCTCAACGTG-CCTTGAG
** * *
108203233 GCTCAACTCATTTCTCGCAATATGAGCTGA-TTTTTGAAAAACATAAATTGAACAGAAATTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG--------AAA--G-ACAAAAATTGAAA
* * * *
108203297 ATACCTCA--ATGTG-TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-TTGACA
55 ATACCTCAGCA-GTGAAC-CGAGGCTCAACTCACCTCTCGTAATATAAGTTGATTTTTATTGA-A
* * * * * *
108203358 AACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGAT
117 AACAAAAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCCCTCGCAATATGAGTTGA-
* * * * *
108203423 TTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCT
181 ---ATTTT--------G-AA---AACAA---AAATTGAAAATACCTCAGCATGT--CCCGAGGCT
* ** * * * * *
108203488 CAACTCGCCTCTCGCAATACGAGTTGA-TTTTTTTGACAACAGAAATTAAAAATACCTCAGCGTG
226 CAACTCACCTCTCGCAATATAAGTTGATTTTTTTTGAAAACAAAAATTGAAAATACCTCAACATG
* ** * * *
108203552 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTGAAACATACGAAAAATTGAC
291 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTTAG-AA-A-AC-AGAAATTGAA
** * *
108203616 AATACCTCA-GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTTT
352 AATACCTCACGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTT
108203672 GAAATAAAAC
Statistics
Matches: 1526, Mismatches: 188, Indels: 299
0.76 0.09 0.15
Matches are distributed among these distances:
460 2 0.00
461 38 0.02
463 51 0.03
464 68 0.04
465 114 0.07
466 53 0.03
467 29 0.02
468 12 0.01
469 9 0.01
470 16 0.01
471 58 0.04
472 190 0.12
473 69 0.05
474 43 0.03
475 69 0.05
476 10 0.01
477 59 0.04
478 7 0.00
479 7 0.00
480 1 0.00
481 1 0.00
482 68 0.04
483 4 0.00
484 203 0.13
485 36 0.02
486 26 0.02
487 22 0.01
489 7 0.00
490 3 0.00
492 2 0.00
493 1 0.00
495 34 0.02
496 3 0.00
497 19 0.01
498 6 0.00
499 1 0.00
500 1 0.00
501 13 0.01
502 36 0.02
503 54 0.04
504 20 0.01
505 48 0.03
506 5 0.00
509 3 0.00
512 5 0.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (465 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCA
GTGAACCGAGGCTCAACTCACCTCTCGTAATATAAGTTGATTTTTATTGAAAACAAAAATTGAAA
ATACCTCAACGTGCCCCGAGGCTCAACTCACCCCTCGCAATATGAGTTGAATTTTGAAAACAAAA
ATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTT
GAAAACAAAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
GAATTTTTTAGAAAACAGAAATTGAAAATACCTCACGCGTGAGCCAAGGCTCAACTCACCTCTCG
CAATATGAGTTGAATTTTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAAC
GTGCCTTGAG
Found at i:108202205 original size:77 final size:76
Alignment explanation
Indices: 108201919--108202480 Score: 479
Period size: 77 Copynumber: 7.3 Consensus size: 76
108201909 GAAAAATAGA
* * * * * *
108201919 TTGAAACACAAAAATTGACAATACCTCA-GCGTG-CCCCGAGGCTCAACTCACCCCTCGCAATAT
1 TTGAAA-ACAGAAATTGAAAATACCTCAGGCGTGATCTCAAGGCTCAACTCACCTCTCGCAATAT
108201982 GAGTTGA--TTT
65 GAGTTGATTTTT
* * *
108201992 TTGAAAAACAAAAATTGAAAATACCTCA-GCATG-TC-CTGAGGCTCAACTCACCTCTCGCAATA
1 TTG-AAAACAGAAATTGAAAATACCTCAGGCGTGATCTC-AAGGCTCAACTCACCTCTCGCAATA
*
108202054 TAAGTTGATTTTTT
64 TGAGTTGA-TTTTT
* * ** **
108202068 TTGAAAATAGAAATTGAAAATACCTCA-ACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATG
1 TTGAAAACAGAAATTGAAAATACCTCAGGCGTGATCTCAAGGCTCAACTCACCTCTCGCAATATG
108202131 AGTTGAATTTTT
66 AGTTG-ATTTTT
* * *
108202143 TAGAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGC-CAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAACAGAAATTGAAAATACCTCAG-GCGTGATCTCAAGGCTCAACTCACCTCTCGCAATAT
108202207 GAGTTGATCTTTGAAT
65 GAGTTGAT-TTT---T
** * *** *
108202223 CTTGAAAAGCAGATTTTGAAAATACCTTGATATGTGA-CTCAAGGCTCAACTCACCTTTCGCAAT
1 -TTGAAAA-CAGAAATTGAAAATACC-TCAGGCGTGATCTCAAGGCTCAACTCACCTCTCGCAAT
108202287 ATGAGTTGA--TTT
63 ATGAGTTGATTTTT
* * * *
108202299 TTGAAAAATATAAATTGAAGTAAAAAAATACCTCAGTGTGTGATCTGAA-GCTCAACTCACCTCT
1 TTG-AAAACAGAAATT---G----AAAATACCTCAG-GCGTGATCTCAAGGCTCAACTCACCTCT
108202363 CGCAATATGAGTTGATTTTT
57 CGCAATATGAGTTGATTTTT
* *
108202383 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCT-AAGGCTCAACTCACCTCTCGCAATA
1 TTGAAA-ACAGAAATTGAAAATACCTCAG-GCGTGATCTCAAGGCTCAACTCACCTCTCGCAATA
**
108202447 TGAGTCAATTTTT
64 TGAGTTGATTTTT
*
108202460 TTGAAAGGCAGAAATTGAAAA
1 TTGAAA-ACAGAAATTGAAAA
108202481 ACGGAAATTG
Statistics
Matches: 408, Mismatches: 49, Indels: 60
0.79 0.09 0.12
Matches are distributed among these distances:
72 1 0.00
73 59 0.14
74 3 0.01
75 92 0.23
76 16 0.04
77 107 0.26
78 2 0.00
79 2 0.00
80 1 0.00
81 10 0.02
82 93 0.23
83 9 0.02
84 13 0.03
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (76 bp):
TTGAAAACAGAAATTGAAAATACCTCAGGCGTGATCTCAAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTT
Found at i:108202264 original size:152 final size:146
Alignment explanation
Indices: 108201972--108203659 Score: 585
Period size: 159 Copynumber: 10.6 Consensus size: 146
108201962 CAACTCACCC
* *
108201972 CTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCA
1 CTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTGAAAATACCTCAGCATGGCCTAAGGCTCA
* * *
108202037 ACTCACCTCTCGCAATATAAGTTGATTTTTTTTGAAAATAGAAATTGAAAATACCTCAACGTGTC
66 ACTCACCTCTCGCAATATAAGTTGATTTTTCTTGAAAACAGAAATTGAAAATACCTCAAC-TATC
*
108202102 TTGAGGCTCAACTCATTT
130 GTGA-GCTCAACTCATTT
* * * *
108202120 CTCGCAATATGAGTTGAATTTTTTAGAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAG
1 CTCGCAATATGAGTTG-ATTTTTGA-AAAACAAAAATTGAAAATACCTCA--GCATG-GCCTAAG
* **
108202184 GCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAATCTTGAAAAGCAGATTTTGAAAATACC
61 GCTCAACTCACCTCTCGCAATATAAGTTGAT-TTT---TCTTGAAAA-CAGAAATTGAAAATACC
** *
108202249 TTGA-TAT-GTGACTCAAGGCTCAACTCACCTT
121 TCAACTATCGTG-----A-GCTCAACTCA-TTT
* * ** *
108202280 -TCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAGTAAAAAAATACCTCAGTGTGTGATC
1 CTCGCAATATGAGTTGATTTTTGAAAAACAAAAATT---G----AAAATACCTCAGCATG-G-CC
* *
108202344 TGAA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-TTGAAAGACAGAAATTGAAAATAG
57 T-AAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTCTTGAAA-ACAGAAATTGAAAATAC
* * * **
108202407 CTCAGCGCGTGAGC-TAAGGCTCAACTCACCT
120 CTCA--AC-T-ATCGTGA-GCTCAACTCATTT
** * *
108202438 CTCGCAATATGAGTCAATTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGG
1 CTCGCAATATGAGTTGA--TTTTT--------GAAA---AACAA---AAATTGAAAATACCTCAG
* * * * * *
108202503 CGTGTGATCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTT-TTTAAAGACAGAAATT
50 CATG-G-CCTAAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTCTTGAAA-ACAGAAATT
* * * * **
108202567 GAAAATAGCTCAGCGTGT-GAGCCAAGGCTCAACTCACCT
112 GAAAATACCTCAAC-TATCGTG---A-GCTCAACTCATTT
** *
108202606 CTCGCAATATGAGTCAATTTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCT
1 CTCGCAATATGAG-----TTGATTTTT--------GAAA---AACAA---AAATTGAAAATACCT
* * * ** * ** *
108202671 CGGCGTGTGACCTGAGGCTCAACTTGCCGCTCGCAATACGAGTTGATTTTT-TTGACAACAGAAA
47 CAGCATG-G-CCTAAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTCTTGAAAACAGAAA
* * * * **
108202735 TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCT
110 TTGAAAATACCTCAAC-TATCGTGA-GCTCAACTCATTT
* *
108202774 CTCGCAATATGAGTTGATTTTTTTGGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCG
1 CTCGCAATATGAGTTGA--TTTTT---------GAAA---AACAA---AAATTGAAAATACCTCA
* * * * * *
108202839 GCGTGTGACCTGAGGCTCAACTCGCCGCTCACAATACT-AGTTGATTTTT-TTGACAACAGAAAT
49 GCATG-G-CCTAAGGCTCAACTCACCTCTCGCAATA-TAAGTTGATTTTTCTTGAAAACAGAAAT
* * * **
108202902 TGAAATTACCTCAACGTGTTC-TGAGGCTCGACTCACCT
111 TGAAAATACCTCAAC-T-ATCGTGA-GCTCAACTCATTT
* * * *
108202940 CTCGCAATATGAGTTGATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTC
1 CTCGCAATATGAGTTGA-TTTTTGAAAAACAAAAATTGAAAATACCTCAGCATGGCCTAAGGCTC
** * * * * *
108203005 AACTCATTTCTCGCAATATGAGTTGATTTTT-TTGACAACAGAAATTGAAATTACCTCAGCGTGT
65 AACTCACCTCTCGCAATATAAGTTGATTTTTCTTGAAAACAGAAATTGAAAATACCTCAAC-TAT
*
108203069 CCTGAGGCTCAACTCATTT
129 CGTGA-GCTCAACTCATTT
* * * *
108203088 CTCGTAATATGAGTTGATTTTTGAAAAATAGATTGAAACACAAAAATTGACAATACTTCAGCGTG
1 CTCGCAATATGAGTTGA-TTTT------T-GA---AAA-ACAAAAATTGAAAATACCTCAGCATG
* ** *
108203153 CCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT-TTGAAAAACAGAAATTGAAAAT
54 GCCTAAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTCTTG-AAAACAGAAATTGAAAAT
* *
108203215 ACCTCAGCGTGTCCTGTG-GCTCAACTCATTT
118 ACCTCAAC-TAT-C-GTGAGCTCAACTCATTT
*
108203246 CTCGCAATATGAGCTGATTTTTGAAAAACATAAATTGAACAGAAATTGAAAATACCTCA--ATGT
1 CTCGCAATATGAGTTGATTTTTGAAAAAC---------A-A-AAATTGAAAATACCTCAGCATG-
* * * *
108203309 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-TTGACAAACAGAAATTGAAAT
54 G-CCTAAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTCTTGA-AAACAGAAATTGAAAA
* * **
108203373 TACCTCAACGTGTCCTGAGGCTCAACTCACCT
117 TACCTCAAC-TATCGTGA-GCTCAACTCATTT
* *
108203405 CTAGCAATATGAGTTGATTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTC
1 CTCGCAATATGAGTTGA----TTTTT--------GAAA---AACAA---AAATTGAAAATACCTC
* * * * ** *
108203470 GGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTT-TTGACAACAGAAAT
48 AGCATG-G-CCTAAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTCTTGAAAACAGAAAT
* * * * **
108203534 TAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCT
111 TGAAAATACCTCAAC-TATCGTGA-GCTCAACTCATTT
* * * **
108203572 CTCGCAATATGAGTTGATTTTTTTGAAACATACGAAAAATTGACAATACCTCAGCGTGTCCCGAG
1 CTCGCAATATGAGTTGA--TTTTTGAAA-A-AC-AAAAATTGAAAATACCTCAGCATGGCCTAAG
108203637 GCTCAACTCACCTCTCGCAATAT
61 GCTCAACTCACCTCTCGCAATAT
108203660 GAATTGAATT
Statistics
Matches: 1287, Mismatches: 132, Indels: 238
0.78 0.08 0.14
Matches are distributed among these distances:
146 2 0.00
147 6 0.00
148 114 0.09
149 7 0.01
150 44 0.03
151 1 0.00
152 62 0.05
153 8 0.01
154 23 0.02
155 8 0.01
156 14 0.01
157 93 0.07
158 69 0.05
159 189 0.15
160 7 0.01
161 5 0.00
162 5 0.00
163 12 0.01
164 44 0.03
165 21 0.02
166 169 0.13
167 63 0.05
168 183 0.14
169 4 0.00
170 25 0.02
171 97 0.08
172 4 0.00
173 1 0.00
174 2 0.00
175 5 0.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (146 bp):
CTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTGAAAATACCTCAGCATGGCCTAAGGCTCA
ACTCACCTCTCGCAATATAAGTTGATTTTTCTTGAAAACAGAAATTGAAAATACCTCAACTATCG
TGAGCTCAACTCATTT
Found at i:108202538 original size:91 final size:91
Alignment explanation
Indices: 108202383--108202571 Score: 270
Period size: 91 Copynumber: 2.1 Consensus size: 91
108202373 GTTGATTTTT
* *
108202383 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCTAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTAAGGCTCAACTCACCTCTCGCAATAT
*
108202448 GAGTCAATTTTTTTGAAAGGCAGAAA
66 GAGTCAATTTTTTTGAAAGACAGAAA
* * * * * *
108202474 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGTAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTAAGGCTCAACTCACCTCTCGCAATAT
** *
108202539 GAGTTGATTTTTTTTAAAGACAGAAA
66 GAGTCAATTTTTTTGAAAGACAGAAA
108202565 TTGAAAA
1 TTGAAAA
108202572 TAGCTCAGCG
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
91 86 1.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (91 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTAAGGCTCAACTCACCTCTCGCAATAT
GAGTCAATTTTTTTGAAAGACAGAAA
Found at i:108202615 original size:77 final size:79
Alignment explanation
Indices: 108202474--108202651 Score: 234
Period size: 77 Copynumber: 2.3 Consensus size: 79
108202464 AAGGCAGAAA
* * * * ** *
108202474 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGTAATAT
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
**
108202539 GAGTTGA-TTTTTT
66 GAGTCAATTTTTTT
*
108202552 TT-AAAGACAGAAATTGAAAATAGCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
108202616 GAGTCAATTTTTTTT
66 GAGTCAA-TTTTTTT
*
108202631 TTGAAAGGCAGAAATTGAAAA
1 TTGAAAGACAGAAATTGAAAA
108202652 ACGGAAATTG
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
77 59 0.69
78 2 0.02
79 8 0.09
80 17 0.20
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (79 bp):
TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
GAGTCAATTTTTTT
Found at i:108202797 original size:76 final size:75
Alignment explanation
Indices: 108202655--108203658 Score: 371
Period size: 74 Copynumber: 12.7 Consensus size: 75
108202645 TTGAAAAACG
* **
108202655 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTTGCCGCTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTT
108202720 TTTTGACAACA
65 TTTTGACAACA
* * *
108202731 GAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTT
108202795 TTTGGA-AAGGCA
66 TTT-GACAA--CA
** *** * * * *
108202807 GAAATTGAAAA-A-CGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCA
1 GAAATTGAAAATACCTCAGCGTG----TACCT----GAG-G--CTCA-ACTC-A----CCGCTCG
*
108202870 CAATACTAGTTGATTTTTTTGACAACA
49 CAATACGAGTTGATTTTTTTGACAACA
* * * * * *
108202897 GAAATTGAAATTACCTCAACGTGT-TCTGAGGCTCGACTCACCTCTCGCAATATGAGTTGA-TTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTT
*
108202960 TTTGAAAGACA
66 TTTGACA-ACA
* * * *** *
108202971 AAAATTGAAAATACCTCAGCATGT-CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTT
108203035 TTTGACAACA
66 TTTGACAACA
* *** * *
108203045 GAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCATTTCTCGTAATATGAGTTGA--TT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTT
*
108203107 TTTGA-AAAA
66 TTTGACAACA
* * * ** * ** * * * * * * * **
108203116 TAGATTGAAACACAAAAAT-TGAC-AATACTTCAGCGTGCCCCGAGGCTCAACTCAC-CTCT-CG
1 GAAATTG-AA-A-ATACCTCAG-CGTGTAC--CTGAG-G-CTC-A-ACTCACCGCTCGCAATACG
* *
108203177 CAATATGAGTTGATTTTTGAAAAACA
56 -AGT-TGA-TT--TTTTTG-ACAACA
* *** * *
108203203 GAAATTGAAAATACCTCAGCGTGT-CCTGTGGCTCAACTCATTTCTCGCAATATGAGCTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTT
** *
108203267 TGAAAAACATAAATTGAACA
66 T--------TTGA--CAACA
** * * *
108203287 GAAATTGAAAATACCTCAATGTGT-CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTT
108203351 TTTGACAAACA
66 TTTGAC-AACA
* * * * *
108203362 GAAATTGAAATTACCTCAACGTGT-CCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGA--TT
108203426 TTTTTGA-AAGGCA
64 TTTTTGACAA--CA
** *** * * *
108203439 GAAATTGAAAA-A-CGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCG
1 GAAATTGAAAATACCTCAGCGTG----TACCT----GAG-G--CTCA-ACTC-AC-CG---CTCG
108203502 CAATACGAGTTGATTTTTTTGACAACA
49 CAATACGAGTTGATTTTTTTGACAACA
* * *
108203529 GAAATTAAAAATACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTT
108203593 TTTGAAACATACGA
66 TTTG--ACA-AC-A
* * * *
108203607 AAAATTGACAATACCTCAGCGTGT-CCCGAGGCTCAACTCACCTCTCGCAATA
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATA
108203659 TGAATTGAAT
Statistics
Matches: 703, Mismatches: 135, Indels: 178
0.69 0.13 0.18
Matches are distributed among these distances:
71 8 0.01
72 9 0.01
73 12 0.02
74 201 0.29
75 82 0.12
76 43 0.06
77 27 0.04
78 66 0.09
79 18 0.03
80 21 0.03
81 1 0.00
82 6 0.01
83 7 0.01
84 70 0.10
85 10 0.01
86 6 0.01
87 19 0.03
88 6 0.01
89 2 0.00
90 25 0.04
91 13 0.02
92 36 0.05
93 15 0.02
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (75 bp):
GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTT
TTTGACAACA
Found at i:108202851 original size:166 final size:165
Alignment explanation
Indices: 108202146--108203599 Score: 1549
Period size: 168 Copynumber: 8.9 Consensus size: 165
108202136 AATTTTTTAG
* * * * *
108202146 AAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAACGGAAATTGAAAATACCTCGGCGTGTGA-CCTGAGGCTCAACTCACCTCTCGCAATATGAG
* ** * ** * *
108202210 TTGATCTTTGAATCTTGAAAAGCAGATTTTGAAAATACCT-TGATATGTGACTCAAGGCTCAACT
65 TTGAT-TTT---T-TTGACAA-CAGAAATTGAAAATACCTCAG-CGTGT-CCT-GAGGCTCAACT
* *** *
108202274 CACCTTTCGCAATATGAGTTGA--TTTTTGAAAAATATAAATTG-
121 CACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAATTGA
* * * * *
108202316 --AA-GTAAA---AAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * ** *
108202375 TGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCTAAGGCTCAACTCACCTCT
66 TGATTTTTTTGACA-ACAGAAATTGAAAATACCTCA--GCGTGTCCTGAGGCTCAACTCACCTCT
**
108202440 CGCAATATGAGTCAATTTTTTTGAAAGGCAGAAATTGA
128 CGCAATATGAGTTGATTTTTTTGAAAGGCAGAAATTGA
* *
108202478 AAAACGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGTAATATGAGT
1 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * *
108202543 TGATTTTTTTTAAAGACAGAAATTGAAAATAGCTCAGCGTGTGAGCC-AAGGCTCAACTCACCTC
66 TGATTTTTTTGACA-ACAGAAATTGAAAATACCTCAGCGTGT---CCTGAGGCTCAACTCACCTC
**
108202607 TCGCAATATGAGTCAATTTTTTTTTTGAAAGGCAGAAATTGA
127 TCGCAATATGAGT---TGATTTTTTTGAAAGGCAGAAATTGA
** * *
108202649 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTTGCCGCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
108202714 TGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGATTTTTTTGACAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
108202779 AATATGAGTTGATTTTTTTGGAAAGGCAGAAATTGA
131 AATATGAGTTGATTTTTTT-GAAAGGCAGAAATTGA
* * *
108202815 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCACAATACT-AG
1 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATA-TGAG
* * * *
108202879 TTGATTTTTTTGACAACAGAAATTGAAATTACCTCAACGTGTTCTGAGGCTCGACTCACCTCTCG
65 TTGATTTTTTTGACAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
108202944 CAATATGAGTTGA-TTTTTT--------GAAA--G-
130 CAATATGAGTTGATTTTTTTGAAAGGCAGAAATTGA
* * * * **
108202968 ACAA---AAATTGAAAATACCTCAGCATGT--CTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* ** *
108203028 TGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGT
66 TGATTTTTTTGACAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
* * *
108203093 AATATGAGTTGA--TTTTTGAAA--AATAGATTGA
131 AATATGAGTTGATTTTTTTGAAAGGCAGAAATTGA
* ** * * * * *
108203124 AACACAAAAATTGACAATACTTCAGC--GTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * **
108203187 TGA--TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGTGGCTCAACTCATTTCTCG
66 TGATTTTTTTG-ACAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
* ** *
108203250 CAATATGAGCTGA--TTTTTGAAAAACATAAATTG-
130 CAATATGAGTTGATTTTTTTGAAAGGCAGAAATTGA
* ** * *
108203283 --AACAGAAATTGAAAATACCTC--AATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
108203344 TGATTTTTTTGACAAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAG
66 TGATTTTTTTGAC-AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
108203409 CAATATGAGTTGATTTTTTTTTGAAAGGCAGAAATTGA
130 CAATATGAGTTGA--TTTTTTTGAAAGGCAGAAATTGA
* *
108203447 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
108203512 TGATTTTTTTGACAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGATTTTTTTGACAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
108203577 AATATGAGTTGATTTTTTTGAAA
131 AATATGAGTTGATTTTTTTGAAA
108203600 CATACGAAAA
Statistics
Matches: 1114, Mismatches: 115, Indels: 115
0.83 0.09 0.09
Matches are distributed among these distances:
147 6 0.01
148 96 0.09
150 21 0.02
153 5 0.00
154 1 0.00
155 1 0.00
156 6 0.01
157 62 0.06
158 71 0.06
159 163 0.15
160 11 0.01
161 18 0.02
162 1 0.00
163 21 0.02
164 50 0.04
165 29 0.03
166 176 0.16
167 65 0.06
168 191 0.17
169 1 0.00
170 25 0.02
171 94 0.08
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.29
Consensus pattern (165 bp):
AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTGACAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
AATATGAGTTGATTTTTTTGAAAGGCAGAAATTGA
Found at i:108202901 original size:90 final size:89
Alignment explanation
Indices: 108202731--108202906 Score: 241
Period size: 92 Copynumber: 2.0 Consensus size: 89
108202721 TTTGACAACA
* * *
108202731 GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCGCTCACAATATGAGTTGATTTTT
108202796 TTGGAAAGGCAGAAATTGAAAAACG
66 TTGGAAA-GCAGAAATTGAAAAACG
* *
108202821 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCACAATACT-AGTTGATT
1 GAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCGCTCACAATA-TGAGTTGATT
108202885 TTTTT-GACAA-CAGAAATTGAAA
63 TTTTTGGA-AAGCAGAAATTGAAA
108202907 TTACCTCAAC
Statistics
Matches: 77, Mismatches: 5, Indels: 8
0.86 0.06 0.09
Matches are distributed among these distances:
90 34 0.44
91 2 0.03
92 40 0.52
93 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (89 bp):
GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCGCTCACAATATGAGTTGATTTTT
TTGGAAAGCAGAAATTGAAAAACG
Found at i:108203239 original size:73 final size:73
Alignment explanation
Indices: 108203120--108203426 Score: 344
Period size: 73 Copynumber: 4.0 Consensus size: 73
108203110 GAAAAATAGA
* * * * * * *
108203120 TTGAAACACAAAAATTGACAATACTTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
108203185 GTTGATTT
66 GTTGATTT
* * **
108203193 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGTGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
108203258 GCTGATTT
66 GTTGATTT
* *
108203266 TTGAAAAACATAAATTGAACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTC
1 TTG--------AAA---AACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTC
108203331 TCGCAATATGAGTTGATTTTT
55 TCGCAATATGAGTTGA--TTT
* * *
108203352 TTGACAAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
108203417 GTTGATTT
66 GTTGATTT
108203425 TT
1 TT
108203427 TTTTGAAAGG
Statistics
Matches: 199, Mismatches: 22, Indels: 26
0.81 0.09 0.11
Matches are distributed among these distances:
73 71 0.36
75 60 0.30
78 2 0.01
81 3 0.02
84 57 0.29
86 6 0.03
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (73 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:108203406 original size:75 final size:75
Alignment explanation
Indices: 108203283--108203428 Score: 256
Period size: 75 Copynumber: 1.9 Consensus size: 75
108203273 ACATAAATTG
* * *
108203283 AACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGAT
108203348 TTTTTTGACA
66 TTTTTTGACA
*
108203358 AACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGAT
108203423 TTTTTT
66 TTTTTT
108203429 TTGAAAGGCA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 67 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (75 bp):
AACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGAT
TTTTTTGACA
Found at i:108203519 original size:93 final size:91
Alignment explanation
Indices: 108203352--108203521 Score: 250
Period size: 93 Copynumber: 1.8 Consensus size: 91
108203342 GTTGATTTTT
* * *
108203352 TTGACAAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATACGA
108203417 GTTGATTTTTTTTTGAAAGGCAGAAA
66 GTTGATTTTTTTTTGAAAGGCAGAAA
* ** * *
108203443 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGT--CCTGAGGCTCAACTCACCTCTAGCAATAC
108203508 GAGTTGATTTTTTT
64 GAGTTGATTTTTTT
108203522 GACAACAGAA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
91 29 0.42
93 40 0.58
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.29
Consensus pattern (91 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATACGA
GTTGATTTTTTTTTGAAAGGCAGAAA
Found at i:108203627 original size:78 final size:74
Alignment explanation
Indices: 108203454--108203671 Score: 301
Period size: 78 Copynumber: 2.9 Consensus size: 74
108203444 TGAAAAACGG
* * *
108203454 AAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTT
1 AAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
108203519 TTTGACAACAG
64 TTTGACAACAA
*
108203530 AAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
108203595 TGAAACATACGAA
66 TG--ACA-AC-AA
* * * *
108203608 AAATTGACAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTTT
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
108203672 GAAATAAAAC
Statistics
Matches: 128, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
74 42 0.33
76 24 0.19
77 2 0.02
78 60 0.47
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (74 bp):
AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGACAACAA
Found at i:108207808 original size:13 final size:14
Alignment explanation
Indices: 108207792--108207827 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
108207782 CAATCTCATA
108207792 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
108207805 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
108207818 TCTC-ATTTCA
1 TCTCAATTTCA
108207828 TTCCAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:108207817 original size:18 final size:19
Alignment explanation
Indices: 108207779--108207819 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
108207769 TGGTTCATGT
108207779 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
108207798 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
108207816 TTTC
1 TTTC
108207820 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:108208049 original size:23 final size:23
Alignment explanation
Indices: 108207981--108208067 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
108207971 CCTGATCAGT
* *
108207981 ATACGGCACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
108208003 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
*
108208023 ATACGACACACAAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
108208046 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
108208068 TCGGTAAAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.02
21 32 0.59
22 1 0.02
23 20 0.37
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:108208064 original size:44 final size:42
Alignment explanation
Indices: 108207981--108208068 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 42
108207971 CCTGATCAGT
* * * *
108207981 ATACGGCACATAAAGTGCCTAAAACGACACACGAGGTGCCTG
1 ATACGACACACAAAGTGCCTAAAACGACACACAAAGTGCCTG
* *
108208023 ATACGACACACAAGGTGCCTGAAATACGACACATAAAGTGCCTG
1 ATACGACACACAAAGTGCCT-AAA-ACGACACACAAAGTGCCTG
108208067 AT
1 AT
108208069 CGGTAAAGCT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 17 0.45
43 3 0.08
44 18 0.47
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.16
Consensus pattern (42 bp):
ATACGACACACAAAGTGCCTAAAACGACACACAAAGTGCCTG
Found at i:108208491 original size:19 final size:15
Alignment explanation
Indices: 108208442--108208496 Score: 85
Period size: 15 Copynumber: 3.7 Consensus size: 15
108208432 TATATATTAT
108208442 ATAA-TTCAATCAAA
1 ATAATTTCAATCAAA
108208456 ATAATTTCAATCAAA
1 ATAATTTCAATCAAA
*
108208471 ATAATTTCAATCAAT
1 ATAATTTCAATCAAA
*
108208486 ATAAATTCAAT
1 ATAATTTCAAT
108208497 AAATTCATCG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
14 4 0.11
15 34 0.89
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.35
Consensus pattern (15 bp):
ATAATTTCAATCAAA
Found at i:108209269 original size:13 final size:13
Alignment explanation
Indices: 108209251--108209278 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
108209241 TCCTCTTTTA
108209251 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
108209264 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
108209277 TT
1 TT
108209279 ATATATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (13 bp):
TTCTTTTGTTTCT
Found at i:108215155 original size:27 final size:28
Alignment explanation
Indices: 108215094--108215160 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 28
108215084 CATGTACTAA
*
108215094 TAAT-AAAATAGGAAAAATAATATATTTGG
1 TAATAAAAATA-G-AAAATAATATATATGG
*
108215123 TAATAATAATAGAAAATAATA-ATAT-G
1 TAATAAAAATAGAAAATAATATATATGG
108215149 TACATAAAAATA
1 TA-ATAAAAATA
108215161 CATATATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 3 0.09
27 11 0.33
28 9 0.27
29 5 0.15
30 5 0.15
ACGTcount: A:0.60, C:0.01, G:0.09, T:0.30
Consensus pattern (28 bp):
TAATAAAAATAGAAAATAATATATATGG
Found at i:108215198 original size:3 final size:3
Alignment explanation
Indices: 108215192--108215217 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
108215182 TAAAAGTATG
108215192 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
108215218 TCTACAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:108215284 original size:25 final size:26
Alignment explanation
Indices: 108215253--108215339 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 26
108215243 AACGTACATA
* *
108215253 AAAAATATATACATAA-AATATTTAC
1 AAAAATATATAAATAATAATATGTAC
* *
108215278 AACAATAATATAAAATAATGATATGTAC
1 AAAAAT-ATAT-AAATAATAATATGTAC
108215306 AAAAATATAT--AT-ATACATATGTAC
1 AAAAATATATAAATAATA-ATATGTAC
108215330 ATAAAATATA
1 A-AAAATATA
108215340 CACTAATATA
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
23 2 0.04
24 11 0.22
25 13 0.25
26 4 0.08
27 9 0.18
28 12 0.24
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.31
Consensus pattern (26 bp):
AAAAATATATAAATAATAATATGTAC
Found at i:108215287 original size:28 final size:29
Alignment explanation
Indices: 108215246--108215324 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 29
108215236 ATTAGGAAAC
108215246 GTACATAAAA-AATATATACATAA-AATAT
1 GTACA-AAAATAATATATACATAATAATAT
* * * *
108215274 TTACAACAATAATATA-AAATAATGATAT
1 GTACAAAAATAATATATACATAATAATAT
108215302 GTACAAAAATATATATATACATA
1 GTACAAAAATA-ATATATACATA
108215325 TGTACATAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
27 8 0.20
28 23 0.57
29 5 0.12
30 4 0.10
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.30
Consensus pattern (29 bp):
GTACAAAAATAATATATACATAATAATAT
Found at i:108216318 original size:15 final size:16
Alignment explanation
Indices: 108216295--108216331 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
108216285 GGTGGCTAGG
108216295 TTTTTTTA-GTTTTT-
1 TTTTTTTAGGTTTTTC
108216309 TTTTTGTTAGGTTTTTC
1 TTTTT-TTAGGTTTTTC
108216326 TTTTTT
1 TTTTTT
108216332 CTTCTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.25
15 3 0.15
16 7 0.35
17 5 0.25
ACGTcount: A:0.05, C:0.03, G:0.11, T:0.81
Consensus pattern (16 bp):
TTTTTTTAGGTTTTTC
Found at i:108217431 original size:13 final size:13
Alignment explanation
Indices: 108217413--108217446 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
108217403 GATAAATGAG
108217413 TTTAATTTTAATA
1 TTTAATTTTAATA
108217426 TTTAA-TTTAATA
1 TTTAATTTTAATA
*
108217438 TATAATTTT
1 TTTAATTTT
108217447 TTTAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTAATTTTAATA
Found at i:108217477 original size:27 final size:28
Alignment explanation
Indices: 108217419--108217477 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
108217409 TGAGTTTAAT
* *
108217419 TTTAATATTTAATTTAATATATAATTTT
1 TTTAATATTTAATTTAATATATAATATA
* * *
108217447 TTTAAT-TTTAATTTGATATTTGATATA
1 TTTAATATTTAATTTAATATATAATATA
108217474 TTTA
1 TTTA
108217478 CTCTAATGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (28 bp):
TTTAATATTTAATTTAATATATAATATA
Found at i:108221322 original size:30 final size:30
Alignment explanation
Indices: 108221258--108221325 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
108221248 GGGTTTGATT
* *
108221258 TTAAAATAAATAATTTATTGTGGTTCAATT
1 TTAAAATAAATAATTTATTGTGGCTCAATA
* * *
108221288 TTAAAATAAATAATTTTTTTTGGCTCGATA
1 TTAAAATAAATAATTTATTGTGGCTCAATA
108221318 TTAAAATA
1 TTAAAATA
108221326 TGTTTTGGAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (30 bp):
TTAAAATAAATAATTTATTGTGGCTCAATA
Found at i:108221439 original size:26 final size:27
Alignment explanation
Indices: 108221410--108221476 Score: 82
Period size: 30 Copynumber: 2.4 Consensus size: 27
108221400 TTGAGGGTTA
108221410 AATATATTTAAA-ATTAAAAGTGAATT
1 AATATATTTAAATATTAAAAGTGAATT
*
108221436 AATATAATTAATAAATATTGAAAGTGAATT
1 AATAT-ATT--TAAATATTAAAAGTGAATT
*
108221466 AATATAATTAA
1 AATATATTTAA
108221477 TAAATATTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
26 5 0.14
27 6 0.17
29 6 0.17
30 18 0.51
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.37
Consensus pattern (27 bp):
AATATATTTAAATATTAAAAGTGAATT
Found at i:108221460 original size:30 final size:30
Alignment explanation
Indices: 108221418--108221486 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
108221408 TAAATATATT
*
108221418 TAAA-ATTAAAAGTGAATTAATATAATTAA
1 TAAATATTGAAAGTGAATTAATATAATTAA
108221447 TAAATATTGAAAGTGAATTAATATAATTAA
1 TAAATATTGAAAGTGAATTAATATAATTAA
108221477 TAAATATTGA
1 TAAATATTGA
108221487 GTGATTATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 4 0.11
30 34 0.89
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (30 bp):
TAAATATTGAAAGTGAATTAATATAATTAA
Found at i:108223083 original size:58 final size:56
Alignment explanation
Indices: 108222993--108223110 Score: 209
Period size: 56 Copynumber: 2.1 Consensus size: 56
108222983 TGAACCACCC
108222993 TTAAAAGAGTATTCTAAAAGTACTCTTGCAAAACACCCTGTTATTATTAATTTTCAAG
1 TTAAAAGAGTATTCTAAAAGTACTCTTGC-AAA-ACCCTGTTATTATTAATTTTCAAG
*
108223051 TTAAAAGAGTATTCTAAATGTACTCTTGCAAAACCCTGTTATTATTAATTTTCAAG
1 TTAAAAGAGTATTCTAAAAGTACTCTTGCAAAACCCTGTTATTATTAATTTTCAAG
108223107 TTAA
1 TTAA
108223111 TATTGTGTAG
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
56 28 0.47
57 3 0.05
58 28 0.47
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.38
Consensus pattern (56 bp):
TTAAAAGAGTATTCTAAAAGTACTCTTGCAAAACCCTGTTATTATTAATTTTCAAG
Found at i:108228334 original size:29 final size:30
Alignment explanation
Indices: 108228270--108228345 Score: 84
Period size: 29 Copynumber: 2.5 Consensus size: 30
108228260 ACCTGCCAAG
* *
108228270 TCCCTCTATTATATAAACTGGATCACATTAG
1 TCCCTCTACTAT-TAAACTGGATCACATTAA
*
108228301 TCCCTCTACTATTAAA-TGTATCA-ATTTAA
1 TCCCTCTACTATTAAACTGGATCACA-TTAA
*
108228330 TCCCTATACTATTAAA
1 TCCCTCTACTATTAAA
108228346 AAGAATTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
28 1 0.03
29 24 0.60
30 4 0.10
31 11 0.28
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.38
Consensus pattern (30 bp):
TCCCTCTACTATTAAACTGGATCACATTAA
Found at i:108237484 original size:18 final size:18
Alignment explanation
Indices: 108237461--108237515 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
108237451 TTTTTAAAAA
108237461 TATAAAT-TTTGGAAATTT
1 TATAAATATTT-GAAATTT
*
108237479 TATAAATATTTTAAATTT
1 TATAAATATTTGAAATTT
*
108237497 TAAAAATACTTTG-AATTT
1 TATAAATA-TTTGAAATTT
108237515 T
1 T
108237516 TTGGTAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 26 0.81
19 6 0.19
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (18 bp):
TATAAATATTTGAAATTT
Found at i:108237484 original size:26 final size:26
Alignment explanation
Indices: 108237428--108237484 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
108237418 TATATATTAC
* *
108237428 TTAAAAAAATAAATTTTGTATAGTTT
1 TTAAAAAAATAAATTTTGGATAATTT
*
108237454 TTAAAAATATAAATTTTGGA-AATTT
1 TTAAAAAAATAAATTTTGGATAATTT
108237479 TATAAA
1 T-TAAA
108237485 TATTTTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 5 0.19
26 22 0.81
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (26 bp):
TTAAAAAAATAAATTTTGGATAATTT
Found at i:108239031 original size:17 final size:17
Alignment explanation
Indices: 108239009--108239041 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
108238999 TTGTTATAAC
108239009 TTTTTTAAATTTTTAAT
1 TTTTTTAAATTTTTAAT
*
108239026 TTTTTTAATTTTTTAA
1 TTTTTTAAATTTTTAA
108239042 AAAAGATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTTAAATTTTTAAT
Found at i:108240335 original size:69 final size:69
Alignment explanation
Indices: 108240230--108240360 Score: 169
Period size: 69 Copynumber: 1.9 Consensus size: 69
108240220 TAATAATACT
* *
108240230 AAATATATATATACATAATATATATAAAATGAACATATACAATATATTAGAAATAC-TAATAACA
1 AAATATATATATACATAATATACATAAAATGAACATATACAATATAATA-AAATACATAATAACA
108240294 TAAAA
65 TAAAA
* * *
108240299 AAATATATAT-TA-ATAATACTACATAGATATGTACATATACATTATAATAAAATACATAATAA
1 AAATATATATATACATAATA-TACATA-AAATGAACATATACAATATAATAAAATACATAATAA
108240361 TATTAAAGTA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
67 6 0.11
68 13 0.24
69 35 0.65
ACGTcount: A:0.57, C:0.08, G:0.03, T:0.32
Consensus pattern (69 bp):
AAATATATATATACATAATATACATAAAATGAACATATACAATATAATAAAATACATAATAACAT
AAAA
Found at i:108240377 original size:157 final size:156
Alignment explanation
Indices: 108240216--108240556 Score: 349
Period size: 157 Copynumber: 2.2 Consensus size: 156
108240206 GAAAAGTGTA
108240216 TACATAATAATACTAAATATATATATACATAATATATA-TAAAATGAACATATACA-AT-ATATT
1 TACATAATAATA-TAAATATATATATACATAAT-T-TAGT-AAATGAA-ATATACATATAATATT
* * * **
108240278 AGAAATACTAATAACATAAAAAAATATA-TATTAATAATACTACATAGATATGTACATATACAT-
61 AGAAATAATAATAACATAAAAAAACA-ACTATTAATAATACTACATAAATATACACATATACATA
* *
108240341 TATAATAAAATACATAATAATATT-AAAGTATG
125 T-TAAAAAAATACATAATAATATTAAAAATATG
* * * * *
108240373 TACATAA-AATAGTATTAA-AAATACATACATAATTTAGTTATTGAAATATATATATACATATTA
1 TACATAATAATA-TA--AATATATATATACATAATTTAGTAAATGAAATATACATATA-ATATTA
** * * *
108240436 GAAATAATAATAATGTTAAAAAACAACTATTAATAATATTACATAAATATACACATATATATATT
62 GAAATAATAATAACATAAAAAAACAACTATTAATAATACTACATAAATATACACATATACATATT
108240501 AAAAAAATACATAATAATATTAAAAATATG
127 AAAAAAATACATAATAATATTAAAAATATG
*
108240531 TACATAATATATATACATATA-ATATA
1 TACATAATA-ATATAAATATATATATA
108240557 GTTATTAAAA
Statistics
Matches: 151, Mismatches: 21, Indels: 24
0.77 0.11 0.12
Matches are distributed among these distances:
154 6 0.04
155 9 0.06
156 9 0.06
157 102 0.68
158 19 0.13
159 3 0.02
160 3 0.02
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.34
Consensus pattern (156 bp):
TACATAATAATATAAATATATATATACATAATTTAGTAAATGAAATATACATATAATATTAGAAA
TAATAATAACATAAAAAAACAACTATTAATAATACTACATAAATATACACATATACATATTAAAA
AAATACATAATAATATTAAAAATATG
Found at i:108240529 original size:55 final size:54
Alignment explanation
Indices: 108240458--108240610 Score: 154
Period size: 62 Copynumber: 2.8 Consensus size: 54
108240448 ATGTTAAAAA
108240458 ACAACTATTAATAATATTACATAAATATACACATATATATATTAAAAAAATACAT
1 ACAA-TATTAATAATATTACATAAATATACACATATATATATTAAAAAAATACAT
* * *
108240513 AATAATATTAAAAATATGTACATAATATATATACATATAATATAGTTATTAAAAAAATACAT
1 -ACAATATTAATAATAT-TACAT-A-A-ATATACACAT-ATATA--TATTAAAAAAATACAT
*
108240575 ACAATA-T-ATAATATTA-A-GAATATACACA-ATATATAT
1 ACAATATTAATAATATTACATAAATATACACATATATATAT
108240611 GGTATTAAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 21
0.75 0.06 0.19
Matches are distributed among these distances:
49 3 0.04
51 5 0.06
53 8 0.10
54 1 0.01
55 11 0.13
56 8 0.10
57 2 0.02
58 3 0.04
59 15 0.18
60 6 0.07
61 5 0.06
62 16 0.19
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.34
Consensus pattern (54 bp):
ACAATATTAATAATATTACATAAATATACACATATATATATTAAAAAAATACAT
Found at i:108240692 original size:15 final size:15
Alignment explanation
Indices: 108240669--108240729 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
108240659 ATTGATTAAA
* *
108240669 AATAATAATACTAAT
1 AATAGTAATAGTAAT
108240684 AATAGTAATAGTAA-
1 AATAGTAATAGTAAT
*
108240698 AATACTAATA--AAT
1 AATAGTAATAGTAAT
108240711 AATAG-ATATAGTAAT
1 AATAGTA-ATAGTAAT
108240726 AATA
1 AATA
108240730 AGAACGTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
12 3 0.08
13 7 0.18
14 9 0.24
15 19 0.50
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.31
Consensus pattern (15 bp):
AATAGTAATAGTAAT
Found at i:108242754 original size:12 final size:11
Alignment explanation
Indices: 108242704--108242757 Score: 54
Period size: 12 Copynumber: 4.6 Consensus size: 11
108242694 TTATCGTAGG
*
108242704 AATATACTAAT
1 AATATAATAAT
*
108242715 AATGATAAGAAT
1 AAT-ATAATAAT
*
108242727 AATTGTAATAAT
1 AA-TATAATAAT
108242739 AATATAATAAT
1 AATATAATAAT
108242750 AAATATAA
1 -AATATAA
108242758 AAAAACAGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
11 11 0.31
12 23 0.66
13 1 0.03
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (11 bp):
AATATAATAAT
Found at i:108244605 original size:22 final size:24
Alignment explanation
Indices: 108244551--108244605 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 24
108244541 TATATAACTG
108244551 ATAATAT-TA-AAATATATACATA
1 ATAATATATATAAATATATACATA
* *
108244573 ATATTATATATAAAT-TATTCAT-
1 ATAATATATATAAATATATACATA
108244595 ATAATATATAT
1 ATAATATATAT
108244606 TAAAAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 16 0.57
23 8 0.29
24 4 0.14
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (24 bp):
ATAATATATATAAATATATACATA
Found at i:108244903 original size:3 final size:3
Alignment explanation
Indices: 108244895--108244944 Score: 82
Period size: 3 Copynumber: 16.3 Consensus size: 3
108244885 ACTAATGTGC
*
108244895 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT ATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
108244941 AAT A
1 AAT A
108244945 TGAAAATAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:108245823 original size:35 final size:35
Alignment explanation
Indices: 108245777--108245845 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
108245767 GGGTGTGTGA
108245777 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
1 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
108245812 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
108245846 AGAGGCAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.20, C:0.12, G:0.51, T:0.17
Consensus pattern (35 bp):
TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
Found at i:108246608 original size:16 final size:17
Alignment explanation
Indices: 108246574--108246608 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
108246564 TTGATTTTTG
* *
108246574 AAAAGCATAGATTGAAA
1 AAAAACATAAATTGAAA
108246591 AAAAACATAAATTGAAA
1 AAAAACATAAATTGAAA
108246608 A
1 A
108246609 TACCTCAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.06, G:0.11, T:0.17
Consensus pattern (17 bp):
AAAAACATAAATTGAAA
Found at i:108246875 original size:72 final size:70
Alignment explanation
Indices: 108246682--108246876 Score: 194
Period size: 72 Copynumber: 2.7 Consensus size: 70
108246672 AAAAATTAAA
* * * * * * **
108246682 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTAAAACAAAAATTAAAAATACCTCAACGTG
108246746 CCCCG
66 CCCCG
* *****
108246751 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTAAAAATTTAAAAATACCTCAACG
1 AGGCTCAACTCATCTCTCGCAATATGAGTTGA-TTTTAAAACAAAAA-TTAAAAATACCTCAACG
* **
108246816 TGTCTTG
64 TGCCCCG
108246823 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT--AAAACAAAAATTAAAA
108246877 GGCTTAACTC
Statistics
Matches: 98, Mismatches: 23, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
69 25 0.26
70 2 0.02
71 11 0.11
72 55 0.56
73 5 0.05
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.31
Consensus pattern (70 bp):
AGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTAAAACAAAAATTAAAAATACCTCAACGTG
CCCCG
Found at i:108247104 original size:192 final size:193
Alignment explanation
Indices: 108246627--108247158 Score: 985
Period size: 192 Copynumber: 2.8 Consensus size: 193
108246617 CATGTGAGCC
* *
108246627 GAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTGTGAAAAACAAAAATTAAAAGGCTTAACT
1 GAGGCTCAACTCATCTCTCGCAATATGAGTTGATTT-TGAAAAACAAAAATTAAAAGGCTTAACT
108246692 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
65 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
* *
108246757 AACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
130 AACTCACTTCTCGCAATATGAGTTGA-TTTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
108246822 GAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
108246887 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
108246952 ACTCACTTCTCGCAATATGAGTTGA-TTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
*
108247014 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
*
108247079 ACCTCTCACAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
108247144 ACTCACTTCTCGCAA
131 ACTCACTTCTCGCAA
108247159 AAATTTAAAA
Statistics
Matches: 331, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
192 179 0.54
194 118 0.36
195 34 0.10
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.29
Consensus pattern (193 bp):
GAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
ACTCACTTCTCGCAATATGAGTTGATTTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:108253922 original size:17 final size:17
Alignment explanation
Indices: 108253900--108253957 Score: 75
Period size: 17 Copynumber: 3.4 Consensus size: 17
108253890 TTTTCTAAAA
108253900 AAAAATTTTCAG-GTTTC
1 AAAAATTTTC-GTGTTTC
108253917 AAAAATTTTCGTGCTTTC
1 AAAAATTTTCGTG-TTTC
*
108253935 -AAAATTTTCGTGTTTT
1 AAAAATTTTCGTGTTTC
108253951 AAAAATT
1 AAAAATT
108253958 CTCATTTTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
16 4 0.11
17 29 0.78
18 4 0.11
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.45
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTC
Done.