Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 193 of 214
Found at i:56515964 original size:23 final size:23
Alignment explanation
Indices: 56515938--56516035 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
56515928 ATAAGTGCCA
56515938 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
56515961 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
56515984 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
56516006 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
56516029 CACTGAT
1 CACTGAT
56516036 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:56516003 original size:45 final size:45
Alignment explanation
Indices: 56515945--56516033 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
56515935 CCACACTGAT
* *
56515945 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
56515990 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
56516034 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:56519973 original size:29 final size:30
Alignment explanation
Indices: 56519936--56519992 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
56519926 TCCGAGCCTT
*
56519936 GGGGAAAAA-TGTAATTATGTAAAAGTTTA
1 GGGGAAAAATTGTAATTATGAAAAAGTTTA
* *
56519965 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGAAAAATTGTAATTATGAAAAAGTT
56519993 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.42, C:0.02, G:0.25, T:0.32
Consensus pattern (30 bp):
GGGGAAAAATTGTAATTATGAAAAAGTTTA
Found at i:56520222 original size:13 final size:13
Alignment explanation
Indices: 56520204--56520235 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
56520194 TTTCCAGCAA
56520204 TTATGAATTTATT
1 TTATGAATTTATT
56520217 TTATGAATTTATT
1 TTATGAATTTATT
*
56520230 TGATGA
1 TTATGA
56520236 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:56520443 original size:50 final size:50
Alignment explanation
Indices: 56520330--56520571 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
56520320 ATTTGGGTAA
* * *
56520330 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
56520386 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
56520436 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
56520486 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
56520536 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
56520572 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:56520519 original size:100 final size:103
Alignment explanation
Indices: 56520330--56520579 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
56520320 ATTTGGGTAA
56520330 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
56520395 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
56520436 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
56520498 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
56520536 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
56520580 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:56527326 original size:2 final size:2
Alignment explanation
Indices: 56527319--56527345 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
56527309 TATTGGTTTT
56527319 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
56527346 TGGGCATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:56538053 original size:6 final size:6
Alignment explanation
Indices: 56538042--56538095 Score: 72
Period size: 6 Copynumber: 9.0 Consensus size: 6
56538032 AGGTAGAAAA
* * * *
56538042 AGTGAC AGTGAC GGTGAC AGTGAC GGTGAC TGTGAC AGTGAT AGTGAC
1 AGTGAC AGTGAC AGTGAC AGTGAC AGTGAC AGTGAC AGTGAC AGTGAC
56538090 AGTGAC
1 AGTGAC
56538096 CGAGTTTCAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.28, C:0.15, G:0.37, T:0.20
Consensus pattern (6 bp):
AGTGAC
Found at i:56542996 original size:31 final size:31
Alignment explanation
Indices: 56542958--56543019 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
56542948 TGAAAATTTG
56542958 AGGTTCCGAGATGACTTTGAGGTAAACCTGT
1 AGGTTCCGAGATGACTTTGAGGTAAACCTGT
56542989 AGGTTCCGAGATGACTTTGAGGTAAACCTGT
1 AGGTTCCGAGATGACTTTGAGGTAAACCTGT
56543020 TACCAGTACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (31 bp):
AGGTTCCGAGATGACTTTGAGGTAAACCTGT
Found at i:56544302 original size:32 final size:32
Alignment explanation
Indices: 56544266--56544326 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
56544256 TTACGTGACA
*
56544266 AAGTGAGGCGTGCCT-TAATCATTTTCTGTGAT
1 AAGTGAGGCGTG-CTATAATCAATTTCTGTGAT
*
56544298 AAGTGAGGTGTGCTATAATCAATTTCTGT
1 AAGTGAGGCGTGCTATAATCAATTTCTGT
56544327 TAAATTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 2 0.08
32 24 0.92
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.38
Consensus pattern (32 bp):
AAGTGAGGCGTGCTATAATCAATTTCTGTGAT
Found at i:56546398 original size:36 final size:36
Alignment explanation
Indices: 56546331--56546413 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
56546321 AGGATAACCC
* * * *
56546331 TGAGGGGGATATCCTCCAGGTGGATGGTGTCCTACA
1 TGAGGGGGATACCCTCCAGGAGGAAGATGTCCTACA
* *
56546367 TGAGGGGGATACCCTCCAGGAGTAAGATGTCCTCCA
1 TGAGGGGGATACCCTCCAGGAGGAAGATGTCCTACA
* *
56546403 TGTGGTGGATA
1 TGAGGGGGATA
56546414 TCCTGGGTGT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.24
Consensus pattern (36 bp):
TGAGGGGGATACCCTCCAGGAGGAAGATGTCCTACA
Found at i:56547595 original size:27 final size:27
Alignment explanation
Indices: 56547559--56547610 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
56547549 GAAGGGGGGT
56547559 GTGGTGCCTATCCGATAGGCGGCACTG
1 GTGGTGCCTATCCGATAGGCGGCACTG
*
56547586 GTGGTGCCTATCTGATAGGCGGCAC
1 GTGGTGCCTATCCGATAGGCGGCAC
56547611 ACCTAGTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.15, C:0.25, G:0.37, T:0.23
Consensus pattern (27 bp):
GTGGTGCCTATCCGATAGGCGGCACTG
Found at i:56547722 original size:14 final size:15
Alignment explanation
Indices: 56547697--56547725 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
56547687 GGAGAAGAGA
56547697 AGAAAGAAAGAAAAG
1 AGAAAGAAAGAAAAG
56547712 AGAAA-AAAGAAAAG
1 AGAAAGAAAGAAAAG
56547726 GTATTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AGAAAGAAAGAAAAG
Found at i:56547849 original size:39 final size:42
Alignment explanation
Indices: 56547804--56547886 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 42
56547794 TATTATATAG
*
56547804 TTTGTTTAGTGTTATTT-TTA-T-GTTTTGT-TTTAAAGTTAT
1 TTTGTTTAGTGTGATTTGTTAGTAGTTTTGTGTTTAAA-TTAT
*
56547843 TTTGTTTATTGTGATTTGTTAGTAAGTTTTGTGTTTAAATTAT
1 TTTGTTTAGTGTGATTTGTTAGT-AGTTTTGTGTTTAAATTAT
56547886 T
1 T
56547887 GAGAATGTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
39 15 0.41
40 3 0.08
41 1 0.03
43 12 0.32
44 6 0.16
ACGTcount: A:0.19, C:0.00, G:0.17, T:0.64
Consensus pattern (42 bp):
TTTGTTTAGTGTGATTTGTTAGTAGTTTTGTGTTTAAATTAT
Found at i:56551275 original size:33 final size:33
Alignment explanation
Indices: 56551238--56551312 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
56551228 TGTTGTGGTG
56551238 GATACGACCCAGGAGGAGTAG-AATACTGCGGTA
1 GATACGACCCAGGAGGAGT-GTAATACTGCGGTA
* ** * *
56551271 GATACGAGCTGGGAGGAGTGTTATACTGCGGTG
1 GATACGACCCAGGAGGAGTGTAATACTGCGGTA
56551304 GATACGACC
1 GATACGACC
56551313 TAAAGATATC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
32 1 0.03
33 34 0.97
ACGTcount: A:0.28, C:0.17, G:0.36, T:0.19
Consensus pattern (33 bp):
GATACGACCCAGGAGGAGTGTAATACTGCGGTA
Found at i:56551462 original size:24 final size:24
Alignment explanation
Indices: 56551425--56551481 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
56551415 GCGATCGCTT
*
56551425 GAGCTCGGGCTCCGACTGTGGCTC
1 GAGCTCGGGATCCGACTGTGGCTC
*
56551449 GGGCTCGGGATCCGACTGTGGCTC
1 GAGCTCGGGATCCGACTGTGGCTC
56551473 GAGCTCGGG
1 GAGCTCGGG
56551482 CTCGGCCTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.09, C:0.30, G:0.42, T:0.19
Consensus pattern (24 bp):
GAGCTCGGGATCCGACTGTGGCTC
Found at i:56554074 original size:9 final size:8
Alignment explanation
Indices: 56554057--56554115 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
56554047 CCTTCCCGCC
*
56554057 CTCTCCTT
1 CTCTTCTT
56554065 CTCATTCTT
1 CTC-TTCTT
56554074 CTTCTTCTT
1 C-TCTTCTT
56554083 CTCTTCTT
1 CTCTTCTT
*
56554091 TTCTTC-T
1 CTCTTCTT
56554098 CT-TTCTCT
1 CTCTTCT-T
*
56554106 TTCTTCTT
1 CTCTTCTT
56554114 CT
1 CT
56554116 TCACTCGCGG
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
6 3 0.07
7 2 0.05
8 19 0.46
9 15 0.37
10 2 0.05
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.63
Consensus pattern (8 bp):
CTCTTCTT
Found at i:56554077 original size:3 final size:3
Alignment explanation
Indices: 56554069--56554117 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
56554059 CTCCTTCTCA
56554069 TTC TTC TTC TTC TTC -TC TTC TT- TTC TTC -TC TT- TCTC TTTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T-TC -TTC TTC
56554112 TTC TTC
1 TTC TTC
56554118 ACTCGCGGGG
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
2 7 0.17
3 30 0.75
4 2 0.05
5 1 0.03
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:56567892 original size:73 final size:73
Alignment explanation
Indices: 56567785--56567926 Score: 284
Period size: 73 Copynumber: 1.9 Consensus size: 73
56567775 ATTATTTTAT
56567785 ACACACACACTCTAATCTTCTTCCTAACTAAGCTACTATTTACCATCATCATCGCATTTATTTAT
1 ACACACACACTCTAATCTTCTTCCTAACTAAGCTACTATTTACCATCATCATCGCATTTATTTAT
56567850 TTAGATAC
66 TTAGATAC
56567858 ACACACACACTCTAATCTTCTTCCTAACTAAGCTACTATTTACCATCATCATCGCATTTATTTAT
1 ACACACACACTCTAATCTTCTTCCTAACTAAGCTACTATTTACCATCATCATCGCATTTATTTAT
56567923 TTAG
66 TTAG
56567927 TAGGGTAACC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.37
Consensus pattern (73 bp):
ACACACACACTCTAATCTTCTTCCTAACTAAGCTACTATTTACCATCATCATCGCATTTATTTAT
TTAGATAC
Found at i:56573226 original size:21 final size:21
Alignment explanation
Indices: 56573200--56573251 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
56573190 GCTCAAAGTG
56573200 TATGTGACGGATAATGTGGAA
1 TATGTGACGGATAATGTGGAA
56573221 TATGTGACGGATAATGTGGAA
1 TATGTGACGGATAATGTGGAA
56573242 TA-GTTGACGG
1 TATG-TGACGG
56573252 GTAGAGATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 1 0.03
21 29 0.97
ACGTcount: A:0.31, C:0.06, G:0.35, T:0.29
Consensus pattern (21 bp):
TATGTGACGGATAATGTGGAA
Found at i:56575641 original size:20 final size:20
Alignment explanation
Indices: 56575618--56575657 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
56575608 ACCTTTTTAC
56575618 ATATATTATTA-TA-TAAAT
1 ATATATTATTATTATTAAAT
*
56575636 ATATATTATTTTTATTAAAT
1 ATATATTATTATTATTAAAT
56575656 AT
1 AT
56575658 TTCATTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 2 0.11
20 7 0.37
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATATTATTATTATTAAAT
Found at i:56588543 original size:24 final size:26
Alignment explanation
Indices: 56588496--56588546 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
56588486 AAAATTTTAA
56588496 TAAATAAAAAAATAATTTATTAAATAT
1 TAAATAAAAAAATAA-TTATTAAATAT
*
56588523 TAAATTAAAAAATAA-TA-TAAATAT
1 TAAATAAAAAAATAATTATTAAATAT
56588547 ATTTTTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 7 0.30
25 2 0.09
27 14 0.61
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (26 bp):
TAAATAAAAAAATAATTATTAAATAT
Found at i:56588561 original size:35 final size:35
Alignment explanation
Indices: 56588492--56588561 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
56588482 ATATAAAATT
*
56588492 TTAATAAATAAAAAAATAATTTATTAAATATTAAA
1 TTAAAAAATAAAAAAATAATTTATTAAATATTAAA
*
56588527 TTAAAAAATAATATAAATATATTT-TTAAAT-TTAAA
1 TTAAAAAATAA-AAAAATA-ATTTATTAAATATTAAA
56588562 AATAATATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 15 0.48
36 12 0.39
37 4 0.13
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (35 bp):
TTAAAAAATAAAAAAATAATTTATTAAATATTAAA
Found at i:56597253 original size:48 final size:49
Alignment explanation
Indices: 56597200--56597297 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 49
56597190 TTTATATGTC
56597200 AAATAT-TTACT-TTTCGACCTATATTGTGGGTATCATAAATTCTAATAT
1 AAATATATTACTCTTTC-ACCTATATTGTGGGTATCATAAATTCTAATAT
** *
56597248 AAATATAATTGTTCTTTCACCTATATTGTGGGTATGATAAATTCTAATAT
1 AAATAT-ATTACTCTTTCACCTATATTGTGGGTATCATAAATTCTAATAT
56597298 TATAAATTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
48 6 0.14
50 34 0.77
51 4 0.09
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (49 bp):
AAATATATTACTCTTTCACCTATATTGTGGGTATCATAAATTCTAATAT
Found at i:56599427 original size:32 final size:33
Alignment explanation
Indices: 56599386--56599508 Score: 113
Period size: 33 Copynumber: 3.5 Consensus size: 33
56599376 ATATAAAGGG
56599386 GGTTGCTAAGTGCTGATTCCCCG-CTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
* * *
56599418 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A-C-T-CAT-TG---GT
* *
56599460 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
56599493 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
56599509 ATCCATCGAT
Statistics
Matches: 73, Mismatches: 8, Indels: 19
0.73 0.08 0.19
Matches are distributed among these distances:
32 19 0.26
33 20 0.27
36 3 0.04
37 2 0.03
38 3 0.04
39 2 0.03
40 1 0.01
41 3 0.04
42 20 0.27
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
Found at i:56600471 original size:85 final size:85
Alignment explanation
Indices: 56600328--56600498 Score: 324
Period size: 85 Copynumber: 2.0 Consensus size: 85
56600318 ATATGTTTAC
*
56600328 TTACTAAGCTATATGCTTACTCGTTTGTATTTTCCCTTGATTATAGTGATATCAGCCAGTTCGAA
1 TTACTAAGCTATATGCTTACTCGTTTGTATTTTCCCTTGATTATAGTGACATCAGCCAGTTCGAA
56600393 ACTTGGACAAAGTCAGGAAA
66 ACTTGGACAAAGTCAGGAAA
56600413 TTACTAAGCTATATGCTTACTCGTTTGTATTTTCCCTTGATTATAGTGACATCAGCCAGTTCGAA
1 TTACTAAGCTATATGCTTACTCGTTTGTATTTTCCCTTGATTATAGTGACATCAGCCAGTTCGAA
*
56600478 ACTTGGACGAAGTCAGGAAA
66 ACTTGGACAAAGTCAGGAAA
56600498 T
1 T
56600499 CATCCACACT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (85 bp):
TTACTAAGCTATATGCTTACTCGTTTGTATTTTCCCTTGATTATAGTGACATCAGCCAGTTCGAA
ACTTGGACAAAGTCAGGAAA
Found at i:56602306 original size:50 final size:50
Alignment explanation
Indices: 56602236--56602414 Score: 225
Period size: 51 Copynumber: 3.5 Consensus size: 50
56602226 TATCATTCGA
* * *
56602236 TACACGTAGTAGCATTCACATAGTACTACACACGTGATCAAACTTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGATCAAACTATCCGG
* * *
56602286 TTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAA-TATCCGA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGATCA--AACTATCCGG
* *
56602337 TACACGTAGTAGCCTGCACATAGTACTACACGCGTGATCGAAGCTATCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGATC-AAACTATCCGG
* * *
56602388 TACGCATAGTAGTCTGCACATAGTACT
1 TACACGTAGTAGCCTGCACATAGTACT
56602415 GCATATGCGA
Statistics
Matches: 111, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
50 37 0.33
51 71 0.64
52 3 0.03
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (50 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGATCAAACTATCCGG
Found at i:56602359 original size:51 final size:51
Alignment explanation
Indices: 56602236--56602474 Score: 210
Period size: 51 Copynumber: 4.8 Consensus size: 51
56602226 TATCATTCGA
* * * *
56602236 TACACGTAGTAGCATTCACATAGTACTACACACGTGATCA--AACTTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAA-TATCCGG
* *
56602286 TTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAATATCCGA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAATATCCGG
* * *
56602337 TACACGTAGTAGCCTGCACATAGTACTACACGCGTGATCGA--AGCTATCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATTA-ATATCCGG
* * * * * * * * *
56602388 TACGCATAGTAGTCTGCACATAGTACTGCATATGCGACCTTTCAT-TCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAATATCCGG
*
56602438 TACAC-----AGCCTACACATAGTACTACACACGTGACCATT
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATT
56602475 CTTTCACTTA
Statistics
Matches: 152, Mismatches: 31, Indels: 17
0.76 0.16 0.09
Matches are distributed among these distances:
45 25 0.16
50 47 0.31
51 76 0.50
52 4 0.03
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (51 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAATATCCGG
Found at i:56602442 original size:101 final size:100
Alignment explanation
Indices: 56602228--56602469 Score: 271
Period size: 101 Copynumber: 2.5 Consensus size: 100
56602218 TTAACTATTA
* * * * *
56602228 TCATT-CGATACACGTAGTAGCATTCACATAGTACTACACACGTGATCAAACTTTCCGGTTCACG
1 TCATTCCGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAACTATCCGGTACACA
*
56602292 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
66 TAGTAGCCTGCACATAGTACTACACACGCGACCAT
* * * * *
56602327 TAATATCCGATACACGTAGTAGCCTGCACATAGTACTACACGCGTGATCGAAGCTATCCGGTACG
1 TCAT-TCCGATACACGTAGTAGCCTACACATAGTACTACACACGTGATC-AAACTATCCGGTACA
* * * * *
56602392 CATAGTAGTCTGCACATAGTACTGCATATGCGACCTT
64 CATAGTAGCCTGCACATAGTACTACACACGCGACCAT
*
56602429 TCATTCCGGTACAC-----AGCCTACACATAGTACTACACACGTGA
1 TCATTCCGATACACGTAGTAGCCTACACATAGTACTACACACGTGA
56602470 CCATTCTTTC
Statistics
Matches: 121, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
96 25 0.21
99 3 0.02
100 1 0.01
101 48 0.40
102 44 0.36
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (100 bp):
TCATTCCGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAACTATCCGGTACACA
TAGTAGCCTGCACATAGTACTACACACGCGACCAT
Found at i:56603743 original size:9 final size:9
Alignment explanation
Indices: 56603729--56603771 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
56603719 GTTTTCGAAT
56603729 TCGAATAAC
1 TCGAATAAC
*
56603738 TCGAATAAT
1 TCGAATAAC
56603747 TCGAATAAC
1 TCGAATAAC
*
56603756 TCGAATAAT
1 TCGAATAAC
56603765 TCGAATA
1 TCGAATA
56603772 TCAAACCATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (9 bp):
TCGAATAAC
Found at i:56603747 original size:18 final size:18
Alignment explanation
Indices: 56603726--56603771 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
56603716 TGAGTTTTCG
56603726 AATTCGAATAACTCGAAT
1 AATTCGAATAACTCGAAT
56603744 AATTCGAATAACTCGAAT
1 AATTCGAATAACTCGAAT
56603762 AATTCGAATA
1 AATTCGAATA
56603772 TCAAACCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (18 bp):
AATTCGAATAACTCGAAT
Found at i:56605055 original size:27 final size:27
Alignment explanation
Indices: 56605019--56605086 Score: 95
Period size: 26 Copynumber: 2.5 Consensus size: 27
56605009 AATATATAAT
56605019 AAATATTTTTTTTATTTTTTTA-TTTTA
1 AAATA-TTTTTTTATTTTTTTATTTTTA
56605046 AAATATTTTTTTA-TTTTTTATTTTTA
1 AAATATTTTTTTATTTTTTTATTTTTA
*
56605072 AAATAAATTTTTTAT
1 AAAT-ATTTTTTTAT
56605087 GTTTATTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
25 7 0.19
26 17 0.46
27 13 0.35
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (27 bp):
AAATATTTTTTTATTTTTTTATTTTTA
Found at i:56605091 original size:26 final size:25
Alignment explanation
Indices: 56605026--56605093 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 25
56605016 AATAAATATT
* *
56605026 TTTTTTATTTTTTTATTTTAAAATAT
1 TTTTTTATTTTTAT-TTTTAAAATAA
56605052 TTTTTTATTTTTTATTTTTAAAATAAA
1 TTTTTTA-TTTTTATTTTTAAAAT-AA
*
56605079 TTTTTTATGTTTATT
1 TTTTTTATTTTTATT
56605094 AAAAAAATAG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 23 0.62
27 14 0.38
ACGTcount: A:0.26, C:0.00, G:0.01, T:0.72
Consensus pattern (25 bp):
TTTTTTATTTTTATTTTTAAAATAA
Found at i:56624897 original size:52 final size:52
Alignment explanation
Indices: 56624812--56624915 Score: 163
Period size: 52 Copynumber: 2.0 Consensus size: 52
56624802 GATCATAGAC
*
56624812 ATGTAATCTACTCTAATATTATGTTAACGAATTTTAAAACTATTGGATAATT
1 ATGTAATCTACTCTAATATTATGTTAACGAATTTTAAAACTAGTGGATAATT
* * * *
56624864 ATGTAATCTATTTTAATATTATGTTGACTAATTTTAAAACTAGTGGATAATT
1 ATGTAATCTACTCTAATATTATGTTAACGAATTTTAAAACTAGTGGATAATT
56624916 CAAAATCTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.44
Consensus pattern (52 bp):
ATGTAATCTACTCTAATATTATGTTAACGAATTTTAAAACTAGTGGATAATT
Found at i:56625286 original size:36 final size:36
Alignment explanation
Indices: 56625236--56625304 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
56625226 ATTATCATCA
56625236 TCTTCATCTCCATCT-CAATCTCCATATTCATCTACT
1 TCTTCATCTCCATCTCCAATCT-CATATTCATCTACT
* * * *
56625272 TCTTGATCTTCATCTCCAATGTTATATTCATCT
1 TCTTCATCTCCATCTCCAATCTCATATTCATCT
56625305 TGTTATTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
36 23 0.82
37 5 0.18
ACGTcount: A:0.22, C:0.30, G:0.03, T:0.45
Consensus pattern (36 bp):
TCTTCATCTCCATCTCCAATCTCATATTCATCTACT
Found at i:56630696 original size:21 final size:22
Alignment explanation
Indices: 56630667--56630713 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
56630657 CAGAAGGAGT
*
56630667 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
56630689 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
56630710 GAGT
1 GAGT
56630714 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:56643619 original size:3 final size:3
Alignment explanation
Indices: 56643611--56643641 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
56643601 GTCACTCTTA
56643611 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
56643642 TTTTATTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:56646735 original size:36 final size:36
Alignment explanation
Indices: 56646685--56646756 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
56646675 TAAGCTCAAA
* *
56646685 ACTTGACTATCATATCCGTAAGTTATTCCGAATAAT
1 ACTTGACTACCATATCCATAAGTTATTCCGAATAAT
*
56646721 ACTTGACTACCATATCCATAAGTTATTCTGAATAAT
1 ACTTGACTACCATATCCATAAGTTATTCCGAATAAT
56646757 TTCATCTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (36 bp):
ACTTGACTACCATATCCATAAGTTATTCCGAATAAT
Found at i:56647799 original size:18 final size:17
Alignment explanation
Indices: 56647764--56647804 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
56647754 CATTAAAAAT
*
56647764 AAAATATAATTTACAAA
1 AAAATATAAATTACAAA
**
56647781 AAAATATAAATTATGAA
1 AAAATATAAATTACAAA
56647798 AAAATAT
1 AAAATAT
56647805 TAAAAATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (17 bp):
AAAATATAAATTACAAA
Found at i:56649313 original size:16 final size:16
Alignment explanation
Indices: 56649292--56649347 Score: 69
Period size: 16 Copynumber: 3.4 Consensus size: 16
56649282 GTAAATATTT
56649292 TTTTTTAT-ATTTTGTA
1 TTTTTTATAATTTT-TA
56649308 TTTTTTATAATTTTTA
1 TTTTTTATAATTTTTA
*
56649324 TTTTTTGTAATTTTATA
1 TTTTTTATAATTTT-TA
56649341 TTATTTT
1 TT-TTTT
56649348 TGAAACATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
16 23 0.64
17 9 0.25
18 4 0.11
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (16 bp):
TTTTTTATAATTTTTA
Found at i:56649329 original size:25 final size:26
Alignment explanation
Indices: 56649293--56649348 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
56649283 TAAATATTTT
*
56649293 TTTTTATATTTTGT-ATTTTTTATAA
1 TTTTTATATTTTGTAATTTTATATAA
* *
56649318 TTTTTATTTTTTGTAATTTTATATTA
1 TTTTTATATTTTGTAATTTTATATAA
56649344 TTTTT
1 TTTTT
56649349 GAAACATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 13 0.48
26 14 0.52
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (26 bp):
TTTTTATATTTTGTAATTTTATATAA
Found at i:56649545 original size:20 final size:21
Alignment explanation
Indices: 56649522--56649573 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
56649512 ACTTTTAAAT
* *
56649522 TTTTTTTATAATTTTTATGA-
1 TTTTTATATAATTTTAATGAC
56649542 TTTTCTATA-AATTTTAATGAC
1 TTTT-TATATAATTTTAATGAC
56649563 TTTTTATATAA
1 TTTTTATATAA
56649574 AATACCAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (21 bp):
TTTTTATATAATTTTAATGAC
Found at i:56657261 original size:25 final size:25
Alignment explanation
Indices: 56657226--56657314 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
56657216 ACACACCACA
*
56657226 GCTCTCTTGAGCTTCCCGATACTTG
1 GCTCTCATGAGCTTCCCGATACTTG
*
56657251 GCTCTCATGAGCTTCCCGATA-TACG
1 GCTCTCATGAGCTTCCCGATACT-TG
* * *
56657276 GCTCGT-ATGAGTTTCCCGTTACTTA
1 GCTC-TCATGAGCTTCCCGATACTTG
* *
56657301 GCTCACACGAGCTT
1 GCTCTCATGAGCTT
56657315 TCCGTTATTC
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
24 1 0.02
25 48 0.94
26 2 0.04
ACGTcount: A:0.17, C:0.30, G:0.20, T:0.33
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCCGATACTTG
Found at i:56657330 original size:50 final size:50
Alignment explanation
Indices: 56657233--56657341 Score: 119
Period size: 50 Copynumber: 2.2 Consensus size: 50
56657223 ACAGCTCTCT
* * * *
56657233 TGAGCTTCCCGATACTTGGCTCTCATGAGCTTCCCGATATACGGCTCGTA
1 TGAGCTTCCCGATACTTAGCTCACACGAGCTTCCCGATATACAGCTCGTA
* * * * * *
56657283 TGAGTTTCCCGTTACTTAGCTCACACGAGCTTTCCGTTATTCAGCTCGAA
1 TGAGCTTCCCGATACTTAGCTCACACGAGCTTCCCGATATACAGCTCGTA
*
56657333 AGAGCTTCC
1 TGAGCTTCC
56657342 TGTTTACATG
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.19, C:0.29, G:0.20, T:0.31
Consensus pattern (50 bp):
TGAGCTTCCCGATACTTAGCTCACACGAGCTTCCCGATATACAGCTCGTA
Found at i:56665124 original size:3 final size:3
Alignment explanation
Indices: 56665116--56665145 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
56665106 CTAAGAATCC
56665116 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA
56665146 AGAACCGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.33, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:56671323 original size:14 final size:14
Alignment explanation
Indices: 56671304--56671339 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
56671294 TGGTTCAAGA
56671304 GCTGAAAGGCAGCG
1 GCTGAAAGGCAGCG
*
56671318 GCTGAAA-GCAGTG
1 GCTGAAAGGCAGCG
56671331 GCTGAAAGG
1 GCTGAAAGG
56671340 GAGAAGGTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.31, C:0.17, G:0.42, T:0.11
Consensus pattern (14 bp):
GCTGAAAGGCAGCG
Found at i:56682552 original size:17 final size:15
Alignment explanation
Indices: 56682510--56682557 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
56682500 AGATCTGACA
*
56682510 CCTTCTCTTCTTTTT
1 CCTTCTTTTCTTTTT
56682525 CCTTCTTTTCTTTTT
1 CCTTCTTTTCTTTTT
*
56682540 CTCTCTTTTTTCTTTTT
1 C-CT-TCTTTTCTTTTT
56682557 C
1 C
56682558 ATGTTTAGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 15 0.52
16 2 0.07
17 12 0.41
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (15 bp):
CCTTCTTTTCTTTTT
Found at i:56702415 original size:20 final size:20
Alignment explanation
Indices: 56702390--56702429 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
56702380 CACTAAATAA
*
56702390 TCAATATCATTGATA-TGTAT
1 TCAATA-CATTAATAGTGTAT
56702410 TCAATACATTAATAGTGTAT
1 TCAATACATTAATAGTGTAT
56702430 AAATTTATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (20 bp):
TCAATACATTAATAGTGTAT
Found at i:56704342 original size:18 final size:19
Alignment explanation
Indices: 56704319--56704361 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
56704309 TATTTTTTAT
*
56704319 TTTTTTA-TTTTAAAATAC
1 TTTTTTATTTTTAAAATAA
56704337 TTTTTTATTTTTAAAATAA
1 TTTTTTATTTTTAAAATAA
56704356 TTTTTT
1 TTTTTT
56704362 GGTGTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTTTATTTTTAAAATAA
Found at i:56716627 original size:21 final size:21
Alignment explanation
Indices: 56716601--56716656 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
56716591 AATAGCGGTG
* *
56716601 GCGGTGAGATTAGTTATTGTA
1 GCGGTGAGATTAGATACTGTA
*
56716622 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
56716643 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
56716657 AACAACGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.07, G:0.38, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:56716890 original size:15 final size:15
Alignment explanation
Indices: 56716870--56716925 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
56716860 ATTTACTAAA
*
56716870 ATTATAATATATAAT
1 ATTATAAAATATAAT
56716885 ATTATAAAATAT-A-
1 ATTATAAAATATAAT
*
56716898 ATT-TAAAATA-ATT
1 ATTATAAAATATAAT
*
56716911 ATTATTAAATATAAT
1 ATTATAAAATATAAT
56716926 TTAACAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 7 0.21
13 6 0.18
14 7 0.21
15 13 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATAAAATATAAT
Found at i:56716920 original size:26 final size:25
Alignment explanation
Indices: 56716880--56716942 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 25
56716870 ATTATAATAT
56716880 ATAATATTATAAAATATAATTTAAA
1 ATAATATTATAAAATATAATTTAAA
*
56716905 ATAATTATTATTAAATATAATTTAACA
1 ATAA-TATTATAAAATATAATTTAA-A
*
56716932 AAAATA-TATAA
1 ATAATATTATAA
56716943 TTTAATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 8 0.24
26 21 0.64
27 4 0.12
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
ATAATATTATAAAATATAATTTAAA
Found at i:56716938 original size:59 final size:59
Alignment explanation
Indices: 56716875--56717073 Score: 201
Period size: 59 Copynumber: 3.3 Consensus size: 59
56716865 CTAAAATTAT
56716875 AATATATAATATT-ATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
1 AATATATAAT-TTAATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
* * * * * * ** *
56716934 AATATATAATTTAATAAAATTCTTAGTATT-AAAT-ATTCTTATATGAATTTACTAAAATC-AT
1 AATATATAATTTAATAAAA-T-ATAAT-TTAAAATAATTATTAT-TAAATATAATTTAA-CAAA
* *
56716995 AATATATAATACT-ATAAAATATAATTTAAAATAATTATGATTAAATATAATTTAACAAA
1 AATATATAAT-TTAATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
56717054 AATATATAATTTAATAAAAT
1 AATATATAATTTAATAAAAT
56717074 TCTTAGTATT
Statistics
Matches: 108, Mismatches: 21, Indels: 22
0.72 0.14 0.15
Matches are distributed among these distances:
58 6 0.06
59 50 0.46
60 15 0.14
61 33 0.31
62 4 0.04
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (59 bp):
AATATATAATTTAATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
Found at i:56716986 original size:120 final size:120
Alignment explanation
Indices: 56716853--56717092 Score: 453
Period size: 120 Copynumber: 2.0 Consensus size: 120
56716843 TTTAATAGAA
* * *
56716853 TATATGAATTTACTAAAATTATAATATATAATATTATAAAATATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATGATTA
56716918 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
56716973 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATGATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATGATTA
56717038 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
56717093 AATGATTGTA
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
120 117 1.00
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (120 bp):
TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATGATTA
AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
Found at i:56724120 original size:15 final size:16
Alignment explanation
Indices: 56724095--56724128 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
56724085 TTACTAGATC
56724095 TGCAGATAGCTTTCCT
1 TGCAGATAGCTTTCCT
56724111 TGCA-ATAGCTTTCCT
1 TGCAGATAGCTTTCCT
56724126 TGC
1 TGC
56724129 TCCTGATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (16 bp):
TGCAGATAGCTTTCCT
Found at i:56724236 original size:60 final size:60
Alignment explanation
Indices: 56724164--56724284 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
56724154 GCTTTTCTGA
56724164 ATTGCCATCCTTGTCATTGCCTTTAAGATAATCAGCGAACCAGCAAGCAGTAGCTCTTTC
1 ATTGCCATCCTTGTCATTGCCTTTAAGATAATCAGCGAACCAGCAAGCAGTAGCTCTTTC
*
56724224 ATTGCCATCCTTGTCATTGCCTTTAAGATAATCAGCGAACCAGGAAGCAGTAGCTCTTTC
1 ATTGCCATCCTTGTCATTGCCTTTAAGATAATCAGCGAACCAGCAAGCAGTAGCTCTTTC
56724284 A
1 A
56724285 GACTTCACCA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (60 bp):
ATTGCCATCCTTGTCATTGCCTTTAAGATAATCAGCGAACCAGCAAGCAGTAGCTCTTTC
Found at i:56730199 original size:15 final size:15
Alignment explanation
Indices: 56730174--56730206 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
56730164 AATTGTTTCA
56730174 ATTTTATTTTAT-TT
1 ATTTTATTTTATATT
56730188 ATTTTAATTTTATATT
1 ATTTT-ATTTTATATT
56730204 ATT
1 ATT
56730207 CTATAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 7 0.41
16 5 0.29
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTTTATTTTATATT
Found at i:56730812 original size:136 final size:136
Alignment explanation
Indices: 56730568--56730840 Score: 546
Period size: 136 Copynumber: 2.0 Consensus size: 136
56730558 TAAGCAGAAA
56730568 GGAACGCAAAACAGAAGACACTGGTCGCTTACTGAGATTGGGTTCTGCTTCACATCCTTCAATAT
1 GGAACGCAAAACAGAAGACACTGGTCGCTTACTGAGATTGGGTTCTGCTTCACATCCTTCAATAT
56730633 TCAACCCACTCAGGTTTTTCTTTTTTCTTCCTTTTCTGTTTCCCTTCTTATCTCCTTCTTCCCTT
66 TCAACCCACTCAGGTTTTTCTTTTTTCTTCCTTTTCTGTTTCCCTTCTTATCTCCTTCTTCCCTT
56730698 CAGTTT
131 CAGTTT
56730704 GGAACGCAAAACAGAAGACACTGGTCGCTTACTGAGATTGGGTTCTGCTTCACATCCTTCAATAT
1 GGAACGCAAAACAGAAGACACTGGTCGCTTACTGAGATTGGGTTCTGCTTCACATCCTTCAATAT
56730769 TCAACCCACTCAGGTTTTTCTTTTTTCTTCCTTTTCTGTTTCCCTTCTTATCTCCTTCTTCCCTT
66 TCAACCCACTCAGGTTTTTCTTTTTTCTTCCTTTTCTGTTTCCCTTCTTATCTCCTTCTTCCCTT
56730834 CAGTTT
131 CAGTTT
56730840 G
1 G
56730841 CTTCATTTTT
Statistics
Matches: 137, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
136 137 1.00
ACGTcount: A:0.18, C:0.28, G:0.14, T:0.40
Consensus pattern (136 bp):
GGAACGCAAAACAGAAGACACTGGTCGCTTACTGAGATTGGGTTCTGCTTCACATCCTTCAATAT
TCAACCCACTCAGGTTTTTCTTTTTTCTTCCTTTTCTGTTTCCCTTCTTATCTCCTTCTTCCCTT
CAGTTT
Found at i:56732919 original size:40 final size:40
Alignment explanation
Indices: 56732862--56732967 Score: 158
Period size: 40 Copynumber: 2.6 Consensus size: 40
56732852 GCTCTCCCAT
*
56732862 CCCTCTCCCTCTTCCCCACCATCCCTCCCCCCTACTCCGA
1 CCCTCTCCCTCTCCCCCACCATCCCTCCCCCCTACTCCGA
** * *
56732902 TTCTCTCCCTCTCCCCCACCATCCCTGCCCCCTACTCTGA
1 CCCTCTCCCTCTCCCCCACCATCCCTCCCCCCTACTCCGA
*
56732942 CCCTCTCCCTCTCCCCCACCGTCCCT
1 CCCTCTCCCTCTCCCCCACCATCCCT
56732968 TTCCCTCTGC
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.08, C:0.63, G:0.04, T:0.25
Consensus pattern (40 bp):
CCCTCTCCCTCTCCCCCACCATCCCTCCCCCCTACTCCGA
Found at i:56737033 original size:39 final size:40
Alignment explanation
Indices: 56736958--56737036 Score: 101
Period size: 39 Copynumber: 2.0 Consensus size: 40
56736948 TTATTAAAAA
56736958 TTTTAGAATATATATTTTTATATTTTTTAATGATTTTTAAT
1 TTTTAGAATATATATTTTTATATTTTTT-ATGATTTTTAAT
*
56736999 TTTTAGAA-ATA-GTTTTTATAATTTTTT-TGAATTTTTAA
1 TTTTAGAATATATATTTTTAT-ATTTTTTATG-ATTTTTAA
56737037 AATTTTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
38 2 0.06
39 15 0.43
40 10 0.29
41 8 0.23
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (40 bp):
TTTTAGAATATATATTTTTATATTTTTTATGATTTTTAAT
Found at i:56737041 original size:41 final size:43
Alignment explanation
Indices: 56736945--56737042 Score: 109
Period size: 41 Copynumber: 2.3 Consensus size: 43
56736935 ATATTTAATT
*
56736945 AATTTATTAAAAATTTTAGAATATATATTTTTATATTTTTTAATG
1 AATTT-TTAAAATTTTTAGAATATATATTTTTATATTTTTT-ATG
*
56736990 -ATTTTT--AATTTTTAGAA-ATA-GTTTTTATAATTTTTT-TG
1 AATTTTTAAAATTTTTAGAATATATATTTTTAT-ATTTTTTATG
56737028 AATTTTTAAAATTTT
1 AATTTTTAAAATTTT
56737043 AAAAAATTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
38 2 0.04
39 13 0.28
40 10 0.21
41 16 0.34
43 2 0.04
44 4 0.09
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (43 bp):
AATTTTTAAAATTTTTAGAATATATATTTTTATATTTTTTATG
Found at i:56737043 original size:40 final size:42
Alignment explanation
Indices: 56736945--56737043 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 42
56736935 ATATTTAATT
56736945 AATTTATTAAAAATTTTAGAATATATATTTTTATATTTTTTAATG
1 AATTT-TT-AAAATTTTAGAATATATATTTTTATATTTTTT-ATG
* *
56736990 -ATTTTT-AATTTTTAGAA-ATA-GTTTTTATAATTTTTT-TG
1 AATTTTTAAAATTTTAGAATATATATTTTTAT-ATTTTTTATG
56737028 AATTTTTAAAATTTTA
1 AATTTTTAAAATTTTA
56737044 AAAAATTAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
38 2 0.04
39 13 0.27
40 17 0.35
41 10 0.21
43 2 0.04
44 4 0.08
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (42 bp):
AATTTTTAAAATTTTAGAATATATATTTTTATATTTTTTATG
Found at i:56743097 original size:20 final size:20
Alignment explanation
Indices: 56743063--56743104 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
56743053 AACTATTTAA
** *
56743063 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
56743083 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
56743103 AT
1 AT
56743105 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:56743575 original size:16 final size:18
Alignment explanation
Indices: 56743540--56743577 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
56743530 ATCTTTATTT
*
56743540 AAATAAAATACAGTAGTA
1 AAATAAAATACAGAAGTA
56743558 AAATAAAATA-A-AAGTA
1 AAATAAAATACAGAAGTA
56743574 AAAT
1 AAAT
56743578 CCCTATAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 10 0.53
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAGAAGTA
Found at i:56746082 original size:714 final size:720
Alignment explanation
Indices: 56744698--56746145 Score: 2496
Period size: 714 Copynumber: 2.0 Consensus size: 720
56744688 GATATATATC
* **
56744698 AATTCTAATTTGATGTCCTTAAAAGTAATTTTCTATTCTCACTTCACCGTCACAGCTGTATTTGA
1 AATTCTAATTTGATGTCCTTAAAAGTAATCTTCTATTCTCACTTCACCGTCACAGCTACATTTGA
*
56744763 ATCCAAACACATACTCCACCGTTGTTTCTAATTTCACCGCTACAGTATCCAATCTCACTACTACA
66 ATCCAAACACATACTCCACCGTTGTTTCTAATTTCACCGCTACAATATCCAATCTCACTACTACA
* * *
56744828 ATAACTAATCTCATCGCCACTACTGTTTTTAACCTCACCGGAGCTAAATACACTGCCCATCCAAA
131 ATAACTAATCTCACCGCCACTACTGTTTTTAACCTCACCGGAACTAAATACACCGCCCATCCAAA
56744893 CTAAGCCTTTATATAATTTTCTATTACGATTGAAGAGTTAAAAGTCAATATATATAAACAACATC
196 CTAAGCCTTTATATAATTTTCTATTACGATTGAAGAGTT-AAAGTCAATATATATAAACAACATC
*
56744958 AACCATTAAAGTAACAATTTTTTTCTCTCCCTTGTTGGTTTCCTAATTTATTATCTTTATTTCAA
260 AACCATTAAAGTAACAATTTTTTTCTCTCCCTTGTTGGTTTCCTAAATTATTATCTTTATTTCAA
*
56745023 ATACTAAATTTTTGTTGAAACTCTACATATACTGTTAAAATATGTTGTTGATTTTTTTTATAGAG
325 ATACTAAATTTTTGTTGAAACTCTACATATAC---------ATGTTGTTGATTTTTTTTATAGAA
*
56745088 GAAAAGAAAATCAGAATTAGTTAGCCCTCATATTACAACTTTCTCTATTATAAATATATTATAAA
381 GAAAAGAAAATCAGAATTAGTTAGCCCTCACATTACAACTTTCTCTATTATAAATATATTATAAA
* *
56745153 CAATAATTGGAGGAACATCATATTCACTATGATAAATGATGGAACGCAAGGCCAATTTAACTAGC
446 CAATAATCGGAGGAACATCATATTCACTATGATAAATGATGGAACGCAAGGCCAATCTAACTAGC
56745218 TCATCTGTCACTTTGTTAAGCTCTCATGGCACGTGATTAATCAGAACCAACCAATATTGTGATAT
511 TCATCTGTCACTTTGTTAAGCTCTCATGGCACGTGATTAATCAGAACCAACCAATATTGTGATAT
56745283 AAATCCTTTAATTCTTCTAGAAATTGGCAAACTCTCCTCTTCACTTTCTTTAAGAATGTCGATTG
576 AAATCCTTTAATTCTTCTAGAAATTGGCAAACTCTCCTCTTCACTTTCTTTAAGAATGTCGATTG
* * *
56745348 CTTCCTTGCAGTCTACTTCCAACACAACTTTCGTAGCACCCCTCTCCTATGTGATCGAAAGTCCC
641 CTTCCTTGCAATCCACTTCCAACACAACTTTCGTAGCACCCCTCTCCTATATGATCGAAAGTCCC
*
56745413 TCATAGGCTCCTTAT
706 TCATAGGCTCCTCAT
* *
56745428 AATTCTAATTTGATGTCCTTAAAAGTTATCTTCTATTCTCACTTCACCGTCATAGCTACATTTGA
1 AATTCTAATTTGATGTCCTTAAAAGTAATCTTCTATTCTCACTTCACCGTCACAGCTACATTTGA
* * *
56745493 ATCCAAACACATACTCCA-CTTCTGTTTCTAATTTCACCGCTACAATATCCAATTTCACTACTAT
66 ATCCAAACACATACTCCACCGT-TGTTTCTAATTTCACCGCTACAATATCCAATCTCACTACTAC
**
56745557 AATAACTAATCTCACCGCCACTGTTGTTTTTAACCTCACCGGAACTAAATACACCGCCCATCCAA
130 AATAACTAATCTCACCGCCACTACTGTTTTTAACCTCACCGGAACTAAATACACCGCCCATCCAA
56745622 ACTAAGCCTTTATATAATTTTCTATTACGATTGAAGAGTT-AAGTCAATATATATAAACAACATC
195 ACTAAGCCTTTATATAATTTTCTATTACGATTGAAGAGTTAAAGTCAATATATATAAACAACATC
56745686 AACCATTAAAGTAACAATTTTTTTCTCTCCCTTGTTGGTTTCCTAAATTATTATCTTTATTTCAA
260 AACCATTAAAGTAACAATTTTTTTCTCTCCCTTGTTGGTTTCCTAAATTATTATCTTTATTTCAA
56745751 ATACTAAATTTTTGTTGAAACTCTACATATAC-TG-T-TT-A-TTTTTTTATAGAAGAAAAGAAA
325 ATACTAAATTTTTGTTGAAACTCTACATATACATGTTGTTGATTTTTTTTATAGAAGAAAAGAAA
56745811 ATCAGAATTAGTTAGCCCTCACATTACAACTTTCTCTATTATAAATATATTATAAACAATAATCG
390 ATCAGAATTAGTTAGCCCTCACATTACAACTTTCTCTATTATAAATATATTATAAACAATAATCG
* *
56745876 GAGGAACATCATATTCACTATGATAAATGGTGGAATGCAAGGCCAATCTAACTAGCTCATCTGTC
455 GAGGAACATCATATTCACTATGATAAATGATGGAACGCAAGGCCAATCTAACTAGCTCATCTGTC
*
56745941 ACTTTGTTAAGCTCTCATGGCACGTGATTAATCAGAACCAACCAATATTGTGATATAAGTCCTTT
520 ACTTTGTTAAGCTCTCATGGCACGTGATTAATCAGAACCAACCAATATTGTGATATAAATCCTTT
56746006 AATTCTTCTAGAAATTGGCAAACTCTCCTCTTCACTTTCTTTAAGAATGTCGATTGCTTCCTTGC
585 AATTCTTCTAGAAATTGGCAAACTCTCCTCTTCACTTTCTTTAAGAATGTCGATTGCTTCCTTGC
* *
56746071 AATCCACTTCCAACACAACTTTCGTAGCACCCCTCTCCTATATGATTGAAAGTCTCTCATAGGCT
650 AATCCACTTCCAACACAACTTTCGTAGCACCCCTCTCCTATATGATCGAAAGTCCCTCATAGGCT
56746136 CCTCAT
715 CCTCAT
56746142 AATT
1 AATT
56746146 TTACCTCCGA
Statistics
Matches: 689, Mismatches: 28, Indels: 18
0.94 0.04 0.02
Matches are distributed among these distances:
714 344 0.50
715 1 0.00
716 2 0.00
717 1 0.00
718 2 0.00
728 120 0.17
729 2 0.00
730 217 0.31
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.36
Consensus pattern (720 bp):
AATTCTAATTTGATGTCCTTAAAAGTAATCTTCTATTCTCACTTCACCGTCACAGCTACATTTGA
ATCCAAACACATACTCCACCGTTGTTTCTAATTTCACCGCTACAATATCCAATCTCACTACTACA
ATAACTAATCTCACCGCCACTACTGTTTTTAACCTCACCGGAACTAAATACACCGCCCATCCAAA
CTAAGCCTTTATATAATTTTCTATTACGATTGAAGAGTTAAAGTCAATATATATAAACAACATCA
ACCATTAAAGTAACAATTTTTTTCTCTCCCTTGTTGGTTTCCTAAATTATTATCTTTATTTCAAA
TACTAAATTTTTGTTGAAACTCTACATATACATGTTGTTGATTTTTTTTATAGAAGAAAAGAAAA
TCAGAATTAGTTAGCCCTCACATTACAACTTTCTCTATTATAAATATATTATAAACAATAATCGG
AGGAACATCATATTCACTATGATAAATGATGGAACGCAAGGCCAATCTAACTAGCTCATCTGTCA
CTTTGTTAAGCTCTCATGGCACGTGATTAATCAGAACCAACCAATATTGTGATATAAATCCTTTA
ATTCTTCTAGAAATTGGCAAACTCTCCTCTTCACTTTCTTTAAGAATGTCGATTGCTTCCTTGCA
ATCCACTTCCAACACAACTTTCGTAGCACCCCTCTCCTATATGATCGAAAGTCCCTCATAGGCTC
CTCAT
Found at i:56756452 original size:118 final size:118
Alignment explanation
Indices: 56756244--56756479 Score: 472
Period size: 118 Copynumber: 2.0 Consensus size: 118
56756234 TCTGATGCAA
56756244 TCAATGTTGTAATGCACATTATTTTCATTATTAATGGCATGTCAATAGCAAAGAGTGCATGATAG
1 TCAATGTTGTAATGCACATTATTTTCATTATTAATGGCATGTCAATAGCAAAGAGTGCATGATAG
56756309 TAATATAGGGGGCTGTAGGTAGTAGTTTTACCTAATTCTTAACCAGAAAGCGT
66 TAATATAGGGGGCTGTAGGTAGTAGTTTTACCTAATTCTTAACCAGAAAGCGT
56756362 TCAATGTTGTAATGCACATTATTTTCATTATTAATGGCATGTCAATAGCAAAGAGTGCATGATAG
1 TCAATGTTGTAATGCACATTATTTTCATTATTAATGGCATGTCAATAGCAAAGAGTGCATGATAG
56756427 TAATATAGGGGGCTGTAGGTAGTAGTTTTACCTAATTCTTAACCAGAAAGCGT
66 TAATATAGGGGGCTGTAGGTAGTAGTTTTACCTAATTCTTAACCAGAAAGCGT
56756480 GGCTATTGTT
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
118 118 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (118 bp):
TCAATGTTGTAATGCACATTATTTTCATTATTAATGGCATGTCAATAGCAAAGAGTGCATGATAG
TAATATAGGGGGCTGTAGGTAGTAGTTTTACCTAATTCTTAACCAGAAAGCGT
Found at i:56759895 original size:62 final size:63
Alignment explanation
Indices: 56759780--56759906 Score: 238
Period size: 62 Copynumber: 2.0 Consensus size: 63
56759770 GAGTATCTAA
*
56759780 AATGATTTACTCTTGTCACAACAAAAGGGGTATGCTAAAGCTTTAATTTAAACAGGTTGCTTG
1 AATGATTTACTCTTGTCACAACAAAAGAGGTATGCTAAAGCTTTAATTTAAACAGGTTGCTTG
56759843 AATGATTTACTCTTGTCACAACAAAA-AGGTATGCTAAAGCTTTAATTTAAACAGGTTGCTTG
1 AATGATTTACTCTTGTCACAACAAAAGAGGTATGCTAAAGCTTTAATTTAAACAGGTTGCTTG
56759905 AA
1 AA
56759907 GGAGATCAAT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
62 37 0.59
63 26 0.41
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.33
Consensus pattern (63 bp):
AATGATTTACTCTTGTCACAACAAAAGAGGTATGCTAAAGCTTTAATTTAAACAGGTTGCTTG
Found at i:56763105 original size:16 final size:18
Alignment explanation
Indices: 56763066--56763099 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56763056 TAAGTTTATA
56763066 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
56763083 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
56763100 AATTTAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:56763976 original size:21 final size:21
Alignment explanation
Indices: 56763950--56763990 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
56763940 CAACGTGGCA
56763950 AGTTAACTGGCCACACCAGCT
1 AGTTAACTGGCCACACCAGCT
* *
56763971 AGTTAACTTGCCACATCAGC
1 AGTTAACTGGCCACACCAGC
56763991 GGTCCCGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (21 bp):
AGTTAACTGGCCACACCAGCT
Found at i:56764088 original size:29 final size:30
Alignment explanation
Indices: 56764025--56764092 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
56764015 ACTGTTAATC
*
56764025 AGTGACTGTTTTGTCACTTTTTTATAACGTT
1 AGTGACTGTTTTGTCAC-TTTTTATAAAGTT
*
56764056 AGTGACTGTTTTGTTA-TTTTTA-AAAGTT
1 AGTGACTGTTTTGTCACTTTTTATAAAGTT
56764084 GAGTGACTG
1 -AGTGACTG
56764093 AAATGAAACC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 5 0.15
29 14 0.41
31 15 0.44
ACGTcount: A:0.22, C:0.09, G:0.21, T:0.49
Consensus pattern (30 bp):
AGTGACTGTTTTGTCACTTTTTATAAAGTT
Found at i:56765209 original size:30 final size:30
Alignment explanation
Indices: 56765175--56765237 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
56765165 ACTTAACAAT
*
56765175 CAAATTCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTTTAAAATAATAACAAAATTAA
56765205 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTTTAAAATAATAACAAAATTAA
56765235 CAA
1 CAA
56765238 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAACAAAATTAA
Found at i:56765918 original size:25 final size:22
Alignment explanation
Indices: 56765884--56765939 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 22
56765874 ATTTTCTACA
56765884 ATTTTTAATTTAAAAAATGTTTTT
1 ATTTTTAATTT-AAAAA-GTTTTT
* *
56765908 GTTTTTGAATTTTAAAAGTTTTT
1 ATTTTT-AATTTAAAAAGTTTTT
56765931 ATTTTTAAT
1 ATTTTTAAT
56765940 AAAATCATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 3 0.11
23 11 0.39
24 9 0.32
25 5 0.18
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (22 bp):
ATTTTTAATTTAAAAAGTTTTT
Found at i:56767101 original size:6 final size:6
Alignment explanation
Indices: 56767090--56767123 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
56767080 CCATCAACAT
56767090 TGCTCA TGCTCA TGCTCA TGCTCA TGCTCA TGCT
1 TGCTCA TGCTCA TGCTCA TGCTCA TGCTCA TGCT
56767124 GTCGCTCTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.15, C:0.32, G:0.18, T:0.35
Consensus pattern (6 bp):
TGCTCA
Found at i:56769732 original size:24 final size:24
Alignment explanation
Indices: 56769682--56769733 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
56769672 AATCAAAGTC
* **
56769682 AAATATATCATGCTAATAAATGTT
1 AAATATATCATACTAATAAATACT
* *
56769706 AAATATATTATACTCATAAATACT
1 AAATATATCATACTAATAAATACT
56769730 AAAT
1 AAAT
56769734 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATCATACTAATAAATACT
Found at i:56773927 original size:28 final size:28
Alignment explanation
Indices: 56773890--56773949 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
56773880 TACTAGCAGG
56773890 CCTAAACCCACCCAAG-CCCAAACTAAA
1 CCTAAACCCACCCAAGCCCCAAACTAAA
* *
56773917 CCTAATACCCACCTAAGCCCCAAACTAAC
1 CCTAA-ACCCACCCAAGCCCCAAACTAAA
56773946 CCTA
1 CCTA
56773950 GCCCAGCAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 5 0.17
28 10 0.34
29 14 0.48
ACGTcount: A:0.40, C:0.45, G:0.03, T:0.12
Consensus pattern (28 bp):
CCTAAACCCACCCAAGCCCCAAACTAAA
Found at i:56775130 original size:16 final size:17
Alignment explanation
Indices: 56775111--56775144 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
56775101 TTTTTAAAAC
56775111 TTTTATATATTT-TATA
1 TTTTATATATTTATATA
56775127 TTTTATATATTTATATA
1 TTTTATATATTTATATA
56775144 T
1 T
56775145 ACTCAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTATATATTTATATA
Found at i:56775317 original size:14 final size:14
Alignment explanation
Indices: 56775289--56775336 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
56775279 GTGTGTCTGA
56775289 TATATATTATATTTG
1 TATATATT-TATTTG
56775304 TATATATTTATTTG
1 TATATATTTATTTG
* * *
56775318 CAAATATTTATTCG
1 TATATATTTATTTG
56775332 TATAT
1 TATAT
56775337 GCTGTAAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 20 0.71
15 8 0.29
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.56
Consensus pattern (14 bp):
TATATATTTATTTG
Found at i:56776307 original size:24 final size:24
Alignment explanation
Indices: 56776292--56776343 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
56776282 AATCAAAGTC
56776292 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
56776316 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
56776340 AAAT
1 AAAT
56776344 TTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:56784504 original size:30 final size:30
Alignment explanation
Indices: 56784469--56784525 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
56784459 ATCAGTTCCC
*
56784469 CCTCCCCACCTCATCAT-GCATATCATCCAA
1 CCTCCCCACCTCACCATAGC-TATCATCCAA
*
56784499 CCTCCCCTCCTCACCATAGCTATCATC
1 CCTCCCCACCTCACCATAGCTATCATC
56784526 AGCCCACCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.23, C:0.49, G:0.04, T:0.25
Consensus pattern (30 bp):
CCTCCCCACCTCACCATAGCTATCATCCAA
Found at i:56800140 original size:29 final size:29
Alignment explanation
Indices: 56800086--56800141 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
56800076 TTTGAAGGAT
* ***
56800086 AAACTATTAAACAATTAGGTTGCTTAAGA
1 AAACTATTAAACAAGTAGGCAACTTAAGA
56800115 AAACTATTAAACAAGTAGGCAACTTAA
1 AAACTATTAAACAAGTAGGCAACTTAA
56800142 TAAAGATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.27
Consensus pattern (29 bp):
AAACTATTAAACAAGTAGGCAACTTAAGA
Found at i:56802530 original size:24 final size:24
Alignment explanation
Indices: 56802486--56802564 Score: 88
Period size: 24 Copynumber: 3.2 Consensus size: 24
56802476 CCGGGCTTAA
*
56802486 TAACAGGAAGCTCACAAAGAGC-CT
1 TAACAGGAAGCTC-CGAAGAGCACT
* * *
56802510 ATATCGGGTAGCTCCGAAGAGCACT
1 -TAACAGGAAGCTCCGAAGAGCACT
56802535 TAACAGGAAGCTCCGAAGAGCACTT
1 TAACAGGAAGCTCCGAAGAGCAC-T
56802560 TAACA
1 TAACA
56802565 TAGAGCACCG
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
24 27 0.60
25 18 0.40
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (24 bp):
TAACAGGAAGCTCCGAAGAGCACT
Found at i:56802909 original size:18 final size:19
Alignment explanation
Indices: 56802880--56802919 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
56802870 ATCGAGTTTC
* *
56802880 ATTCATTTTATCGGGACTT
1 ATTCATTTTATCAGGAATT
56802899 ATTCA-TTTATCAGGAATT
1 ATTCATTTTATCAGGAATT
56802917 ATT
1 ATT
56802920 AGATATGAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (19 bp):
ATTCATTTTATCAGGAATT
Found at i:56803158 original size:33 final size:33
Alignment explanation
Indices: 56803115--56803177 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
56803105 CTGAATCTAT
*
56803115 ATGAGTAAATTTAACATCAATTCTATCCAAGTC
1 ATGAGCAAATTTAACATCAATTCTATCCAAGTC
56803148 ATGAGCAAATTTAACATCAATTCTATCCAA
1 ATGAGCAAATTTAACATCAATTCTATCCAA
56803178 CTCACATCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (33 bp):
ATGAGCAAATTTAACATCAATTCTATCCAAGTC
Found at i:56806689 original size:46 final size:46
Alignment explanation
Indices: 56806617--56806850 Score: 364
Period size: 46 Copynumber: 5.1 Consensus size: 46
56806607 ACAATGCTAT
* *
56806617 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTTTTCATTGAAATACCATACCTACTTTTCAC
* *
56806663 AACTCAGTATGGTTTTTTTCATTGAAACACCATACCTATTTTTCAC
1 AACTCAGTATGGTTTTTTTCATTGAAATACCATACCTACTTTTCAC
*
56806709 AACTCAGTATGGTTTTCTTT-ATTGAAATACCATATCTACTTTTCAC
1 AACTCAGTATGGTTTT-TTTCATTGAAATACCATACCTACTTTTCAC
56806755 AACTCAGTATGGTTTTCTTT-ATTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTT-TTTCATTGAAATACCATACCTACTTTTCAC
* * *
56806801 AACTCTGTATGGTTTTCTTCATTGAAAAACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTTTTCATTGAAATACCATACCTACTTTTCAC
56806847 AACT
1 AACT
56806851 TTGCCATGGA
Statistics
Matches: 175, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
45 2 0.01
46 170 0.97
47 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.40
Consensus pattern (46 bp):
AACTCAGTATGGTTTTTTTCATTGAAATACCATACCTACTTTTCAC
Found at i:56811717 original size:18 final size:21
Alignment explanation
Indices: 56811681--56811719 Score: 57
Period size: 18 Copynumber: 2.0 Consensus size: 21
56811671 TGAGCTTTTC
56811681 ATTTTTAATATATATTTAAAT
1 ATTTTTAATATATATTTAAAT
56811702 ATTTTT-ATAT-TA-TTAAAT
1 ATTTTTAATATATATTTAAAT
56811720 TATATTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 2 0.11
20 4 0.22
21 6 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTTTAATATATATTTAAAT
Found at i:56816122 original size:14 final size:14
Alignment explanation
Indices: 56816103--56816141 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
56816093 AAAGATAAAT
*
56816103 AAAAAATAAAACGA
1 AAAAAATAAAAAGA
*
56816117 AAAAAAGAAAAAGA
1 AAAAAATAAAAAGA
56816131 AAAAGAATAAA
1 AAAA-AATAAA
56816142 CTTAAAGGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.82, C:0.03, G:0.10, T:0.05
Consensus pattern (14 bp):
AAAAAATAAAAAGA
Found at i:56816258 original size:16 final size:16
Alignment explanation
Indices: 56816228--56816301 Score: 80
Period size: 15 Copynumber: 4.7 Consensus size: 16
56816218 AAATCTAAGT
*
56816228 ATAAGAATAATAAATAA
1 ATAA-AATAAAAAATAA
*
56816245 ATAAAATAAAAAATTA
1 ATAAAATAAAAAATAA
**
56816261 GGAAAAT-AAAAATAA
1 ATAAAATAAAAAATAA
*
56816276 ATAATATAAAAAAT-A
1 ATAAAATAAAAAATAA
56816291 ATAAAATAAAA
1 ATAAAATAAAA
56816302 TAAAAGGGGT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
15 22 0.47
16 21 0.45
17 4 0.09
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (16 bp):
ATAAAATAAAAAATAA
Found at i:56816277 original size:31 final size:30
Alignment explanation
Indices: 56816233--56816305 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 30
56816223 TAAGTATAAG
*
56816233 AATAATAAATAAATAAAATAAAAAATTAGGAA
1 AATAA-AAATAAATAAAATAAAAAA-TAAGAA
* *
56816265 AATAAAAATAAATAATATAAAAAATAATAA
1 AATAAAAATAAATAAAATAAAAAATAAGAA
56816295 AAT-AAAATAAA
1 AATAAAAATAAA
56816306 AGGGGTAGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 8 0.21
30 7 0.18
31 18 0.47
32 5 0.13
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (30 bp):
AATAAAAATAAATAAAATAAAAAATAAGAA
Found at i:56834958 original size:2 final size:2
Alignment explanation
Indices: 56834951--56834977 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
56834941 CTAGTCTCTT
56834951 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
56834978 TGTAAGCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:56836497 original size:3 final size:3
Alignment explanation
Indices: 56836489--56836519 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
56836479 TGGAATAGTC
56836489 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
56836520 TTTTGCATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:56836894 original size:23 final size:22
Alignment explanation
Indices: 56836848--56836897 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
56836838 TCTGAATTTA
* *
56836848 TAAATTTTAAAAATAGAGAGAC
1 TAAATTTTAAAAATACAAAGAC
*
56836870 TAAATTTCTAAAAATACAAATAC
1 TAAATTT-TAAAAATACAAAGAC
56836893 TAAAT
1 TAAAT
56836898 GGTTAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.56, C:0.08, G:0.06, T:0.30
Consensus pattern (22 bp):
TAAATTTTAAAAATACAAAGAC
Found at i:56840042 original size:26 final size:26
Alignment explanation
Indices: 56840013--56840066 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
56840003 ATATATAGCC
* *
56840013 ATTCATAATAAATAATATATGAAATA
1 ATTCAAAATAAATAATATATAAAATA
* * *
56840039 ATTCAAAATACATCATATCTAAAATA
1 ATTCAAAATAAATAATATATAAAATA
56840065 AT
1 AT
56840067 ATAAAACAGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (26 bp):
ATTCAAAATAAATAATATATAAAATA
Found at i:56840092 original size:24 final size:23
Alignment explanation
Indices: 56840060--56840146 Score: 79
Period size: 24 Copynumber: 3.6 Consensus size: 23
56840050 ATCATATCTA
*
56840060 AAATAATATA-AAACAGTTTAATAT
1 AAATAATATATAAA-AG-TTAAAAT
56840084 AAATAATATATAAAAGTTAAAAT
1 AAATAATATATAAAAGTTAAAAT
*
56840107 AAATAAAAATATAAAACTGTTAAAA-
1 AAAT-AATATATAAAA--GTTAAAAT
*
56840132 ATGATAATATATAAA
1 A-AATAATATATAAA
56840147 GGGAAAAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
23 10 0.19
24 22 0.41
25 13 0.24
26 9 0.17
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (23 bp):
AAATAATATATAAAAGTTAAAAT
Found at i:56840094 original size:26 final size:26
Alignment explanation
Indices: 56840065--56840146 Score: 82
Period size: 25 Copynumber: 3.3 Consensus size: 26
56840055 ATCTAAAATA
*
56840065 ATATAAAACAGTTTAATATAAATAAT
1 ATATAAAACAGTTTAAAATAAATAAT
*
56840091 ATAT-AAA-AG-TTAAAATAAATAAAA
1 ATATAAAACAGTTTAAAATAAAT-AAT
* * *
56840115 ATATAAAACTGTTAAAAAT-GATAAT
1 ATATAAAACAGTTTAAAATAAATAAT
56840140 ATATAAA
1 ATATAAA
56840147 GGGAAAAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
23 10 0.22
24 8 0.17
25 15 0.33
26 7 0.15
27 6 0.13
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.30
Consensus pattern (26 bp):
ATATAAAACAGTTTAAAATAAATAAT
Found at i:56843764 original size:42 final size:42
Alignment explanation
Indices: 56843717--56843799 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
56843707 GTGCTTGATA
*
56843717 ATGTAAAGGAGGAAGACGAGTACTATGAAAAGCCAATATCTG
1 ATGTAAAGAAGGAAGACGAGTACTATGAAAAGCCAATATCTG
* * * *
56843759 ATGTAAAGAAGGAAGGCGAGTACTGTGATAAGCTAATATCT
1 ATGTAAAGAAGGAAGACGAGTACTATGAAAAGCCAATATCT
56843800 TTCCTAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.41, C:0.11, G:0.27, T:0.22
Consensus pattern (42 bp):
ATGTAAAGAAGGAAGACGAGTACTATGAAAAGCCAATATCTG
Found at i:56846408 original size:50 final size:50
Alignment explanation
Indices: 56846293--56846450 Score: 235
Period size: 50 Copynumber: 3.1 Consensus size: 50
56846283 AATAATAACA
** *
56846293 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * **
56846344 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
56846394 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
56846444 TGCCAAA
1 TGCCAAA
56846451 TATAGCCCAA
Statistics
Matches: 95, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 62 0.65
51 33 0.35
ACGTcount: A:0.20, C:0.31, G:0.24, T:0.25
Consensus pattern (50 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:56848587 original size:17 final size:17
Alignment explanation
Indices: 56848567--56848599 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
56848557 AAAAATATAT
56848567 AAATTATTAAAAAGTTA
1 AAATTATTAAAAAGTTA
*
56848584 AAATTATTTAAAAGTT
1 AAATTATTAAAAAGTT
56848600 GTAAAAAATG
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:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (17 bp):
AAATTATTAAAAAGTTA
Found at i:56848958 original size:19 final size:19
Alignment explanation
Indices: 56848934--56848998 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
56848924 TAACTTTTAT
*
56848934 TTTTTAAAATTATTTATAA
1 TTTTTAAAATTTTTTATAA
* *
56848953 TTTTTAAATTTCTTTTATTA
1 TTTTTAAAATT-TTTTATAA
*
56848973 TTTTTAATTATTTTTTATAA
1 TTTTTAA-AATTTTTTATAA
56848993 TATTTT
1 T-TTTT
56848999 GAATTATGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
19 10 0.27
20 21 0.57
21 6 0.16
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTTAAAATTTTTTATAA
Found at i:56848969 original size:20 final size:20
Alignment explanation
Indices: 56848946--56849005 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 20
56848936 TTTAAAATTA
56848946 TTTATAATTTTTAAATT-TCT
1 TTTATAATTTTT-AATTATCT
* *
56848966 TTTATTATTTTTAATTATTT
1 TTTATAATTTTTAATTATCT
56848986 TTTATAATATTTTGAATTAT
1 TTTATAAT-TTTT-AATTAT
56849006 GTTCCTAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.12
20 20 0.59
21 4 0.12
22 6 0.18
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTATAATTTTTAATTATCT
Found at i:56849169 original size:20 final size:19
Alignment explanation
Indices: 56849117--56849174 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
56849107 TTTTTTAGGA
*
56849117 TTTTT-TAATATTTTATAA-
1 TTTTTATAATATTCTA-AAC
56849135 TTTTTAATAAT-TTCTACAAC
1 TTTTT-ATAATATTCTA-AAC
56849155 TTTTTATAATATTCTAAAC
1 TTTTTATAATATTCTAAAC
56849174 T
1 T
56849175 ACGTCCAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
18 5 0.15
19 15 0.44
20 14 0.41
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTTATAATATTCTAAAC
Found at i:56861678 original size:32 final size:32
Alignment explanation
Indices: 56861637--56861720 Score: 82
Period size: 32 Copynumber: 2.6 Consensus size: 32
56861627 CCTTTCAAAA
* *
56861637 TTTTAAAAATTCTCATTATACCT-TCTT-CTTAT
1 TTTTGAAAATTCTCATTA-ACCTCTCTTAATT-T
* * *
56861669 TTTTGAAAATTTTAATTAAGCTCTCTTAAATTT
1 TTTTGAAAATTCTCATTAACCTCTCTT-AATTT
56861702 TTTTGAAAATTCTCATTAA
1 TTTTGAAAATTCTCATTAA
56861721 TCTCACAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
31 3 0.07
32 19 0.45
33 18 0.43
34 2 0.05
ACGTcount: A:0.32, C:0.13, G:0.04, T:0.51
Consensus pattern (32 bp):
TTTTGAAAATTCTCATTAACCTCTCTTAATTT
Found at i:56861733 original size:33 final size:33
Alignment explanation
Indices: 56861668--56861735 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 33
56861658 CTTCTTCTTA
* * **
56861668 TTTTTGAAAATTTTAATTAAGCTCTCTTAAATT
1 TTTTTGAAAATTCTAATTAAGCTCACAAAAATT
* *
56861701 TTTTTGAAAATTCTCATTAATCTCACAAAAATT
1 TTTTTGAAAATTCTAATTAAGCTCACAAAAATT
56861734 TT
1 TT
56861736 AGTATAAACT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.04, T:0.49
Consensus pattern (33 bp):
TTTTTGAAAATTCTAATTAAGCTCACAAAAATT
Found at i:56862751 original size:21 final size:21
Alignment explanation
Indices: 56862727--56862767 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
56862717 AATAAACCTC
56862727 AAATAA-AAACAAAGCCCAAAT
1 AAATAACAAACAAA-CCCAAAT
*
56862748 AAATAACCAACAAACCCAAA
1 AAATAACAAACAAACCCAAA
56862768 ACAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.66, C:0.24, G:0.02, T:0.07
Consensus pattern (21 bp):
AAATAACAAACAAACCCAAAT
Found at i:56868085 original size:22 final size:24
Alignment explanation
Indices: 56868059--56868102 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
56868049 GAAAAATATT
56868059 AAATAT-ATA-TATTTTATTTTTA
1 AAATATAATAGTATTTTATTTTTA
*
56868081 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTATTTTATTTT
56868103 AAGTTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 3 0.16
24 10 0.53
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
AAATATAATAGTATTTTATTTTTA
Found at i:56868231 original size:59 final size:58
Alignment explanation
Indices: 56868166--56868326 Score: 221
Period size: 50 Copynumber: 2.9 Consensus size: 58
56868156 TCAAGTTTGT
56868166 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTT-TTACAACAATTAATACAATTAATAATTTGATAAA
* *
56868225 TTTACTAATCAAATGTTAGA--TTTT-----ATTTCA-ACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTTTACAACAATTAATACAATTAATAATTTGATAAA
*
56868275 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATT
1 TTTACTAATCAAATGTTAGATTTT-TTACAACAATTAATACAATTAATAATT
56868327 AATAATTTGA
Statistics
Matches: 88, Mismatches: 5, Indels: 18
0.79 0.05 0.16
Matches are distributed among these distances:
50 40 0.45
51 4 0.05
52 2 0.02
53 2 0.02
56 2 0.02
57 2 0.02
58 4 0.05
59 32 0.36
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.42
Consensus pattern (58 bp):
TTTACTAATCAAATGTTAGATTTTTTACAACAATTAATACAATTAATAATTTGATAAA
Found at i:56868362 original size:22 final size:23
Alignment explanation
Indices: 56868337--56868389 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
56868327 AATAATTTGA
* * *
56868337 TAATTTTACT-AACAATTAGTTT
1 TAATTTTACTAAAAAAGTAATTT
*
56868359 TAATTTTATTAAAAAAGTAATTT
1 TAATTTTACTAAAAAAGTAATTT
56868382 TAATTTTA
1 TAATTTTA
56868390 ATTAAAAACG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (23 bp):
TAATTTTACTAAAAAAGTAATTT
Found at i:56868892 original size:16 final size:18
Alignment explanation
Indices: 56868873--56868911 Score: 64
Period size: 16 Copynumber: 2.3 Consensus size: 18
56868863 AAAAAAATAA
56868873 AAAAAGAAAAGAA-AA-G
1 AAAAAGAAAAGAAGAACG
56868889 AAAAAGAAAAGAAGAACG
1 AAAAAGAAAAGAAGAACG
56868907 AAAAA
1 AAAAA
56868912 ATAAAATGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 13 0.62
17 2 0.10
18 6 0.29
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAGAAGAACG
Found at i:56868898 original size:24 final size:23
Alignment explanation
Indices: 56868860--56868912 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
56868850 TACTTCACTT
*
56868860 GAAAAAAAAATAAAAAAAGAAAA
1 GAAAAAAAAAGAAAAAAAGAAAA
* *
56868883 GAAAAGAAAAAGAAAAGAAG-AAC
1 GAAAA-AAAAAGAAAAAAAGAAAA
56868906 GAAAAAA
1 GAAAAAA
56868913 TAAAATGAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 2 0.08
23 12 0.46
24 12 0.46
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.02
Consensus pattern (23 bp):
GAAAAAAAAAGAAAAAAAGAAAA
Found at i:56869649 original size:15 final size:15
Alignment explanation
Indices: 56869629--56869669 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
56869619 TGGCATTCTA
56869629 CATTCATACAAATAT
1 CATTCATACAAATAT
*
56869644 CATTCAATGCAAATAT
1 CATTC-ATACAAATAT
56869660 CATTCATACA
1 CATTCATACA
56869670 CATCTAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.32
Consensus pattern (15 bp):
CATTCATACAAATAT
Found at i:56869972 original size:45 final size:43
Alignment explanation
Indices: 56869831--56870093 Score: 258
Period size: 44 Copynumber: 6.0 Consensus size: 43
56869821 GAAGTCATTA
* * * *
56869831 AAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAT
1 AAGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAG
* * * *
56869874 ATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCAAAG
1 A-AGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAG
* * * * *
56869918 ATGCAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAAG
1 AAGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAG
*
56869962 AACGCAGATCTTGTCTTCCTATATTGGCAGTGAAGTAGATCGAAG
1 AA-GCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAG
* * * *
56870007 ATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAG
1 A-AGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAG
* * * *
56870051 ATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
1 AAGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAA
56870094 AAAAACAGAT
Statistics
Matches: 177, Mismatches: 37, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
43 43 0.24
44 72 0.41
45 61 0.34
46 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (43 bp):
AAGCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAG
Found at i:56870015 original size:133 final size:132
Alignment explanation
Indices: 56869833--56870093 Score: 459
Period size: 133 Copynumber: 2.0 Consensus size: 132
56869823 AGTCATTAAA
* * *
56869833 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAATATAGCAGGTCCTGTCTTCCTATAT
1 GCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATAT
56869898 TGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAAGA
66 TGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAAGA
56869963 AC
131 AC
*
56869965 GCAGATCTTGTCTTCCTATATTGGCAGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATA
1 GCAGATCTTGTCTTCATATATTGGC-GTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATA
* *
56870030 TTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
65 TTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAA
56870094 AAAAACAGAT
Statistics
Matches: 122, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
132 23 0.19
133 99 0.81
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (132 bp):
GCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATAT
TGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAAGA
AC
Found at i:56870226 original size:50 final size:50
Alignment explanation
Indices: 56870172--56870426 Score: 183
Period size: 50 Copynumber: 5.1 Consensus size: 50
56870162 GTAGAAGAGC
*
56870172 AGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGACATTGCAATTTAAA
1 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGCAATTTAAA
** * * * * * ** * ** **
56870222 AGATTAAAGCCGCAACGGTGAATCTTACTTTCATGGTGA-TGCAGTGGAGC
1 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCT-GACATTGCAATTTAAA
* * * *
56870272 AGATTAAAGCTACAACGACAAATCTTGCTTCCCCGACATTGCAATTTAAA
1 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGCAATTTAAA
* * * ** * ** **
56870322 AGATTGAAG-T-CGCAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAGC
1 AGATTAAAGCTACG--ACGGCGAATCTTGCTTCCCTGACATTGCAATTTAAA
* *
56870372 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGATATTACAATTTAAA
1 AGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGCAATTTAAA
56870422 AGATT
1 AGATT
56870427 GAAGTCGCAA
Statistics
Matches: 144, Mismatches: 55, Indels: 12
0.68 0.26 0.06
Matches are distributed among these distances:
48 1 0.01
49 3 0.02
50 135 0.94
51 3 0.02
52 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (50 bp):
AGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGCAATTTAAA
Found at i:56870315 original size:100 final size:100
Alignment explanation
Indices: 56870142--56870707 Score: 702
Period size: 100 Copynumber: 5.8 Consensus size: 100
56870132 GATCATATCA
* * ** * *
56870142 AATCTTACTTCCCTGGCGGTGTAGAAGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCTG
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTG
*
56870207 ACATTGCAATTTAAAAGATTAAAGCCGCAACGGTG
66 ACATTGCAATTTAAAAGATTGAAGCCGCAACGGTG
* * * * * *
56870242 AATCTTACTTTCATGGTGATGCAGTGGAGCAGATTAAAGCTACAACGACAAATCTTGCTTCCCCG
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTG
* *
56870307 ACATTGCAATTTAAAAGATTGAAGTCGCAACGGCG
66 ACATTGCAATTTAAAAGATTGAAGCCGCAACGGTG
* *
56870342 AATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTG
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTG
* * *
56870407 ATATTACAATTTAAAAGATTGAAGTCGCAACGGTG
66 ACATTGCAATTTAAAAGATTGAAGCCGCAACGGTG
** * * *
56870442 AATCTTACTTTTCTGGCGATGCAGTGGATCAGATTGAAGCTACAACGGTGAATCTTG------T-
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTG
* * *
56870500 ---TTGCAATTAAAAATATTGAAGCCGCCACGGTG
66 ACATTGCAATTTAAAAGATTGAAGCCGCAACGGTG
* ** * *
56870532 AATCTTACTTCCCTGGTGATATAGTGGGGCAGATTAAAGTTACAACGGCGAATCTTGCTTCCCTG
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTG
* *
56870597 ACATTGCAATTTAAAATATTGAAGCCGCAACGGCG
66 ACATTGCAATTTAAAAGATTGAAGCCGCAACGGTG
* * * * *
56870632 AATCTTACTTCCCTGGCGATACAGTGGAGCACATTAAAGCTACAACAGTGAATCTTGCTTCCCCG
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTG
56870697 ACATTGCAATT
66 ACATTGCAATT
56870708 AATCGAATTA
Statistics
Matches: 397, Mismatches: 59, Indels: 20
0.83 0.12 0.04
Matches are distributed among these distances:
90 74 0.19
94 1 0.00
96 1 0.00
100 321 0.81
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (100 bp):
AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCTACAACGGCGAATCTTGCTTCCCTG
ACATTGCAATTTAAAAGATTGAAGCCGCAACGGTG
Found at i:56870772 original size:40 final size:40
Alignment explanation
Indices: 56870728--56871322 Score: 508
Period size: 40 Copynumber: 14.3 Consensus size: 40
56870718 AAACCATAGA
*
56870728 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
*
56870768 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAAAAACCAA-
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG-----AATCAAG
** * ** ** *
56870811 TCTTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAG
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCGAATCA-AG
*
56870854 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
*
56870895 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAAAACCAA-
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG----AATCAAG
* ** * ** **
56870937 TCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATCATAG
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCGAATCA-AG
* *
56870980 ATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
* *
56871021 TCTTATCTCCCTAAGCAGTAGTGGAGTAGA-CAGAACCACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAATCA-AG
*
56871062 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
*
56871103 TCTCATCTCCCTAAGCAGTAGTGGAGCAGATC-ACATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA-ATCAAG
* *
56871143 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC----GAATCAAG
*
56871186 ATCTTATCTCACTAAGCAGTAGTGGAGCAGATC-ACATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA-ATCAAG
* * *
56871227 TCTTATCTCCCTAAGCAGTAGTGGAGTAGA-CGAAAGAAACCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC----GAATCAAG
* * *
56871270 ATCTTATCTCCCTAAGCATTAGTGAAGCACATC-ATATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA-ATCAAG
56871311 TCTTATCTCCCT
1 TCTTATCTCCCT
56871323 GAAGTTGCAG
Statistics
Matches: 449, Mismatches: 64, Indels: 84
0.75 0.11 0.14
Matches are distributed among these distances:
39 7 0.02
40 200 0.45
41 25 0.06
42 55 0.12
43 63 0.14
44 97 0.22
45 2 0.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
Found at i:56871013 original size:126 final size:125
Alignment explanation
Indices: 56870714--56871407 Score: 746
Period size: 126 Copynumber: 5.5 Consensus size: 125
56870704 AATTAATCGA
*
56870714 ATTAAAACCATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCC
1 ATTAAAACCA-AGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGCATCAAGTCTTATCTCCC
*
56870779 TAAGCAGTAGTGGAGCAGACGAAAAAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGTGG
65 TAAGCAGTAGTGGAGCAGACG-AAAAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCGG
*
56870841 ATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCC
1 ATTAAAACCA-AGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGCATCAAGTCTTATCTCCC
* *
56870906 TAAGCAGTAGTGGAGCAGACGAAAAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGTGG
65 TAAGCAGTAGTGGAGCAGACGAAAAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCGG
*
56870967 ATTAAAATCATAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGCATCAAGTCTTATCTCCC
1 ATTAAAACCA-AGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGCATCAAGTCTTATCTCCC
* * * ** * *
56871032 TAAGCAGTAGTGGAGTAGAC--AGAACCACAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAG
65 TAAGCAGTAGTGGAGCAGACGAAAAAAC-CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCGG
*** * * * *
56871092 A-TCGCATCAAG-TCTCATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCT
1 ATTAAAACCAAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGCATCAAGTCTTATCTCCCT
* ** * *
56871155 AAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCACT-AAGCAGTAGTGGAGCAG
66 AAGCAGTAGTGGAGCAGACGAAA-AAACCA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCGG
* * * ** * * *
56871216 A-TCACATCAAG-TCTTATCTCCCTAAGCAGTAGTGGAGTAG-ACGAAAGAAACCAGATCTTATC
1 ATTAAAACCAAGATCTTATCTCCCTAAGCAGTAGT--AG-AGCA-GATCGCATCAAG-TCTTATC
* * ** * *
56871278 TCCCTAAGCATTAGTGAAGC--AC-ATCATATCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCG
61 TCCCTAAGCAGTAGTGGAGCAGACGAAAAAACCAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCG
56871340 G
125 G
* * ** * * *
56871341 ATTAAAACCACAGATATTATCTCTCTCAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTACCTCC
1 ATTAAAACCA-AGATCTTATCTCCCT-AAGCAGTAGTAGAGCAGATCGCATCAAGTCTTATCTCC
56871406 CT
64 CT
56871408 GAAGTTGCAG
Statistics
Matches: 493, Mismatches: 57, Indels: 36
0.84 0.10 0.06
Matches are distributed among these distances:
122 67 0.14
123 3 0.01
124 88 0.18
125 44 0.09
126 151 0.31
127 98 0.20
128 35 0.07
129 7 0.01
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (125 bp):
ATTAAAACCAAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGCATCAAGTCTTATCTCCCT
AAGCAGTAGTGGAGCAGACGAAAAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCGG
Found at i:56871090 original size:208 final size:207
Alignment explanation
Indices: 56870811--56871322 Score: 642
Period size: 208 Copynumber: 2.5 Consensus size: 207
56870801 AAAAAACCAA
** * * *
56870811 TCTTATCTCCCTGAAGTTGCAGTGGAGTGGATTAA-AACCACAGATCTTATCTCCCTAAGCAGTA
1 TCTTATCTCCCT-AAGCAGTAGTGGAGTAGA-CAAGAACCACAGATCTTATCTCCCTAAGCAGTA
56870875 GTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAAAACCAA-T
64 GTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATC----AAACCAAGT
** ** ** * * *
56870938 CCTATCTCCCTGAAGTTGCAGTGGAGTGGA-TTAA-AATCATAGATCTTATCTCCCTAAGCAGTA
125 CCTATCTCCCT-AAGCAGCAGTGGAGCAGACGAAAGAAAC-CAGATCTTATCTCACTAAGCAGTA
*
56871001 GTAGAGCAGATCGCATCAAG
188 GTAGAGCAGATCACATCAAG
56871021 TCTTATCTCCCTAAGCAGTAGTGGAGTAGAC-AGAACCACAGATCTTATCTCCCTAAGCAGTAGT
1 TCTTATCTCCCTAAGCAGTAGTGGAGTAGACAAGAACCACAGATCTTATCTCCCTAAGCAGTAGT
* * * *
56871085 GGAGCAGATCGCATCAAGTCTCATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATC
66 GGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAACCAAGTCCTATC
* *
56871150 TCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCACTAAGCAGTAGTGGAGCA
131 TCCCTAAGCAGCAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCACTAAGCAGTAGTAGAGCA
56871215 GATCACATCAAG
196 GATCACATCAAG
* *
56871227 TCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAAAC-CAGATCTTATCTCCCTAAGCATTA
1 TCTTATCTCCCTAAGCAGTAGTGGAGTAGAC--AAGAACCACAGATCTTATCTCCCTAAGCAGTA
* * **
56871291 GTGAAGCACATCATATCAAGTCTTATCTCCCT
64 GTGGAGCAGATCGCATCAAGTCTTATCTCCCT
56871323 GAAGTTGCAG
Statistics
Matches: 266, Mismatches: 28, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
205 18 0.07
206 84 0.32
207 4 0.02
208 128 0.48
209 20 0.08
210 12 0.05
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (207 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGTAGACAAGAACCACAGATCTTATCTCCCTAAGCAGTAGT
GGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAACCAAGTCCTATC
TCCCTAAGCAGCAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCACTAAGCAGTAGTAGAGCA
GATCACATCAAG
Found at i:56871221 original size:84 final size:84
Alignment explanation
Indices: 56870851--56871322 Score: 538
Period size: 84 Copynumber: 5.7 Consensus size: 84
56870841 ATTAAAACCA
*
56870851 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
56870916 TGGAGCAGACGAAA-AAAC
66 TGGAGCAGACGAAAGAAAC
* ** * ** * *
56870934 CA-ATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATCATAGATCTTATCTCCCTAAGCA
1 CAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCACATCA-AG-TCTTATCTCCCTAAGCA
* * *
56870998 GTAGTAGAGCAGATC----GCATC
62 GTAGTGGAGCAGA-CGAAAGAAAC
* * * *
56871018 AAG-TCTTATCTCCCTAAGCAGTAGTGGAGTAGA-CAGAACCACAGATCTTATCTCCCTAAGCAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA-CATCA-AG-TCTTATCTCCCTAAGCAG
* *
56871081 TAGTGGAGCAGATC----GCATC
63 TAGTGGAGCAGA-CGAAAGAAAC
* *
56871100 AAG-TCTCATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
56871164 TGGAGCAGACGAAAGAAAC
66 TGGAGCAGACGAAAGAAAC
*
56871183 CAGATCTTATCTCACTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
*
56871248 TGGAGTAGACGAAAGAAAC
66 TGGAGCAGACGAAAGAAAC
* * * *
56871267 CAGATCTTATCTCCCTAAGCATTAGTGAAGCACATCATATCAAGTCTTATCTCCCT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCT
56871323 GAAGTTGCAG
Statistics
Matches: 338, Mismatches: 37, Indels: 27
0.84 0.09 0.07
Matches are distributed among these distances:
79 1 0.00
80 30 0.09
81 3 0.01
82 89 0.26
83 36 0.11
84 147 0.43
85 2 0.01
86 29 0.09
87 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (84 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAG
TGGAGCAGACGAAAGAAAC
Found at i:56871355 original size:84 final size:82
Alignment explanation
Indices: 56870728--56871407 Score: 531
Period size: 84 Copynumber: 8.1 Consensus size: 82
56870718 AAACCATAGA
** *
56870728 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-TCGCATCA-AG-TCTTATCTCCCTAAGCAGTAGT
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACT-AAAACACAGATCTTATCTCCCTAAGCAGTAGT
* *
56870790 GGAGCAGA-CGAAAAAAACCAA-
65 GGAGCAGATC-----ACATCAAG
** * ** *
56870811 TCTTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCCCTAAGCAGTAG
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGACTAAAA-CACAGATCTTATCTCCCTAAGCAGTAG
*
56870876 TGGAGCAGATCGCATCAAG
64 TGGAGCAGATCACATCAAG
* * * ** *
56870895 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAAAACCA-ATCCTATCTCCCTGAAGTTGCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACTAAAACA-CAGATCTTATCTCCCT-AAGCAGTAG
** * *
56870959 TGGAGTGGATTAAAATCATAG
64 TGGAGCAGA-TCACATCA-AG
* ** *
56870980 ATCTTATCTCCCTAAGCAGTAGTAGAGCAGA-TCGCATCA-AG-TCTTATCTCCCTAAGCAGTAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGACT-AAAACACAGATCTTATCTCCCTAAGCAGTAG
* * *
56871042 TGGAGTAGA-CAGAACCACAG
64 TGGAGCAGATCA-CATCA-AG
** * *
56871062 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-TCGCATCA-AG-TCTCATCTCCCTAAGCAGTAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGACT-AAAACACAGATCTTATCTCCCTAAGCAGTAG
56871124 TGGAGCAGATCACATCAAG
64 TGGAGCAGATCACATCAAG
* * *
56871143 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAGATCTTATCTCACTAAGCAGTAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACTAAA-ACA-CAGATCTTATCTCCCTAAGCAGTAG
56871208 TGGAGCAGATCACATCAAG
64 TGGAGCAGATCACATCAAG
* * * *
56871227 TCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAAACCAGATCTTATCTCCCTAAGCATTAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACTAAA-ACA-CAGATCTTATCTCCCTAAGCAGTAG
* * *
56871292 TGAAGCACATCATATCAAG
64 TGGAGCAGATCACATCAAG
** * * * * * ** *
56871311 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATATTATCTCTCTCAAGTTGCA
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGACTAAAA-CACAGATCTTATCTCCCT-AAGCAGTA
* * *
56871376 GTAGAGCAGATCGCATCCAG
63 GTGGAGCAGATCACATCAAG
*
56871396 TCTTACCTCCCT
1 TCTTATCTCCCT
56871408 GAAGTTGCAG
Statistics
Matches: 492, Mismatches: 81, Indels: 46
0.79 0.13 0.07
Matches are distributed among these distances:
80 31 0.06
81 4 0.01
82 90 0.18
83 66 0.13
84 186 0.38
85 51 0.10
86 33 0.07
87 30 0.06
88 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (82 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGACTAAAACACAGATCTTATCTCCCTAAGCAGTAGTG
GAGCAGATCACATCAAG
Found at i:56871723 original size:21 final size:21
Alignment explanation
Indices: 56871699--56871739 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
56871689 AATAAAACCC
56871699 AAATAA-AAACAAAGCCCAAAT
1 AAATAACAAACAAA-CCCAAAT
*
56871720 AAATAACCAACAAACCCAAA
1 AAATAACAAACAAACCCAAA
56871740 ACAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.66, C:0.24, G:0.02, T:0.07
Consensus pattern (21 bp):
AAATAACAAACAAACCCAAAT
Found at i:56874223 original size:23 final size:23
Alignment explanation
Indices: 56874179--56874223 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
56874169 TCGTGGACCA
* *
56874179 AAATCGTTGTTTTAATAAAATCT
1 AAATCGTTGTATTAAAAAAATCT
56874202 AAATCGTT-TATTAAAAACAATC
1 AAATCGTTGTATTAAAAA-AATC
56874224 GTTTTACGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (23 bp):
AAATCGTTGTATTAAAAAAATCT
Done.