Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 18 of 292
Found at i:4822429 original size:53 final size:53
Alignment explanation
Indices: 4822349--4822455 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
4822339 GCGGTGGATT
4822349 GCTTTGAGTTCCAACCACCACTAACTGCTTTTTCCTTAGTTTTGTTTCCTTTC
1 GCTTTGAGTTCCAACCACCACTAACTGCTTTTTCCTTAGTTTTGTTTCCTTTC
*
4822402 GCTTTGAGTTCCAACCACCACTGACTGCTTTTTCCTTAGTTTTGTTTCCTTTC
1 GCTTTGAGTTCCAACCACCACTAACTGCTTTTTCCTTAGTTTTGTTTCCTTTC
4822455 G
1 G
4822456 ATTAGCTTTC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.14, C:0.28, G:0.13, T:0.45
Consensus pattern (53 bp):
GCTTTGAGTTCCAACCACCACTAACTGCTTTTTCCTTAGTTTTGTTTCCTTTC
Found at i:4824032 original size:3 final size:3
Alignment explanation
Indices: 4824024--4824061 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
4824014 TATCATTGGT
*
4824024 TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4824062 CTCGCTTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:4824228 original size:36 final size:33
Alignment explanation
Indices: 4824167--4824253 Score: 88
Period size: 34 Copynumber: 2.5 Consensus size: 33
4824157 CCATTATTTT
*
4824167 TGTTTTATACTATTATTAT-CGCATATACATTGTTAA
1 TGTTTTATA-TATTATT-TGCGCATAT--ATTCTTAA
*
4824203 TGTTTTATATATTATTTGCTTCATATATTCTTAA
1 TGTTTTATATATTATTTGC-GCATATATTCTTAA
*
4824237 TTTTTTAT-TATTATTTG
1 TGTTTTATATATTATTTG
4824254 TCTGTTCCGA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
33 9 0.20
34 15 0.33
35 8 0.17
36 14 0.30
ACGTcount: A:0.26, C:0.08, G:0.07, T:0.59
Consensus pattern (33 bp):
TGTTTTATATATTATTTGCGCATATATTCTTAA
Found at i:4835136 original size:18 final size:18
Alignment explanation
Indices: 4835102--4835153 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
4835092 TCCCAACTAC
* *
4835102 TGTATACGTGAACAGTAA
1 TGTATACGTAAATAGTAA
*
4835120 TGTATACGTAAATAGTAC
1 TGTATACGTAAATAGTAA
*
4835138 CGTATACGTAAATAGT
1 TGTATACGTAAATAGT
4835154 GTCATATACG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (18 bp):
TGTATACGTAAATAGTAA
Found at i:4835161 original size:18 final size:18
Alignment explanation
Indices: 4835122--4835174 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
4835112 AACAGTAATG
* *
4835122 TATACGTAAATAGTACCG
1 TATACGTAAATAGTGCCA
*
4835140 TATACGTAAATAGTGTCA
1 TATACGTAAATAGTGCCA
*
4835158 TATACGTGAATAGTGCC
1 TATACGTAAATAGTGCC
4835175 GTAAATGGTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (18 bp):
TATACGTAAATAGTGCCA
Found at i:4844146 original size:22 final size:22
Alignment explanation
Indices: 4844108--4844188 Score: 60
Period size: 22 Copynumber: 3.7 Consensus size: 22
4844098 ATATTTTTGC
*
4844108 TATTATCTATTATTATCATATT
1 TATTATCTATTATTATCATATA
* *
4844130 TATTAT-TATTTTCTATCCTATA
1 TATTATCTATTAT-TATCATATA
* * *
4844152 TATTTTCTTTTTAGTATCA-ATCA
1 TATTATC-TATTATTATCATAT-A
4844175 TATTAT-TATTATTA
1 TATTATCTATTATTA
4844189 CTTTCCTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 9
0.69 0.17 0.14
Matches are distributed among these distances:
21 11 0.25
22 20 0.45
23 10 0.23
24 3 0.07
ACGTcount: A:0.30, C:0.10, G:0.01, T:0.59
Consensus pattern (22 bp):
TATTATCTATTATTATCATATA
Found at i:4844379 original size:3 final size:3
Alignment explanation
Indices: 4844367--4844415 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
4844357 TTTGTTTTTG
* * * *
4844367 TAT T-T TAT TAT TAT TAG TAT TAC TAT TAT TAT TAT TAT TGT TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4844414 TA
1 TA
4844416 ATGTACATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:4844626 original size:23 final size:24
Alignment explanation
Indices: 4844584--4844633 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
4844574 TTCTAACATG
4844584 TATATATTGTACTTACTTCTAATAC
1 TATATATTGTAC-TACTTCTAATAC
*
4844609 TATATATTGTA-TATTTCTAATAC
1 TATATATTGTACTACTTCTAATAC
4844632 TA
1 TA
4844634 CTATGCTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 13 0.54
25 11 0.46
ACGTcount: A:0.34, C:0.12, G:0.04, T:0.50
Consensus pattern (24 bp):
TATATATTGTACTACTTCTAATAC
Found at i:4845013 original size:15 final size:15
Alignment explanation
Indices: 4844993--4845027 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
4844983 TTACCAACTT
4844993 TTATTATCATTATTA
1 TTATTATCATTATTA
*
4845008 TTATTATCATTGTTA
1 TTATTATCATTATTA
4845023 TTATT
1 TTATT
4845028 GCTATTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (15 bp):
TTATTATCATTATTA
Found at i:4849858 original size:66 final size:66
Alignment explanation
Indices: 4849662--4849858 Score: 229
Period size: 66 Copynumber: 3.0 Consensus size: 66
4849652 GTCAATAGCC
* * * * * *
4849662 TCACACGGCTTAGCACATGAGTGTGTGG-TTGGCTGTGTGACACAAGAT-AGTATACCTAGTATT
1 TCACACGGCCTAGCACACGAGCGTGTGGCTTGGCCGTGTGACACAAG-TCAGTATACTTACTATT
4849725 TT
65 TT
* * * * *
4849727 TCACACGGCCTAGCACACGGGCGTGTGGCTTGGCCGTGTGTCACAAGTCAGTATGCTCACCATTT
1 TCACACGGCCTAGCACACGAGCGTGTGGCTTGGCCGTGTGACACAAGTCAGTATACTTACTATTT
4849792 T
66 T
* * *
4849793 TC-CCCTGGCCTAGCACACGAGCGTGTGGCTTGGCCGTGTGACCCAAGTCAGTAAACTTACTATT
1 TCACAC-GGCCTAGCACACGAGCGTGTGGCTTGGCCGTGTGACACAAGTCAGTATACTTACTATT
4849857 TT
65 TT
4849859 GGGTACCGGC
Statistics
Matches: 110, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
65 27 0.25
66 83 0.75
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (66 bp):
TCACACGGCCTAGCACACGAGCGTGTGGCTTGGCCGTGTGACACAAGTCAGTATACTTACTATTT
T
Found at i:4855371 original size:42 final size:42
Alignment explanation
Indices: 4855324--4855417 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
4855314 ATGAGTTTTA
* * *
4855324 GTTTAACCCTAATGGGTTTCCGTTTAGCTCTTTTGAGCTTAT
1 GTTTAACCCTAATGGGTTTCCGTTCAGCTATTATGAGCTTAT
* ** * *
4855366 GTTTAATCCTTCTGGGTTTTCGTTCAGCTATTATGAGCTTCT
1 GTTTAACCCTAATGGGTTTCCGTTCAGCTATTATGAGCTTAT
*
4855408 GTTCAACCCT
1 GTTTAACCCT
4855418 TACAAGTTTT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.45
Consensus pattern (42 bp):
GTTTAACCCTAATGGGTTTCCGTTCAGCTATTATGAGCTTAT
Found at i:4858814 original size:43 final size:43
Alignment explanation
Indices: 4858753--4858902 Score: 155
Period size: 43 Copynumber: 3.5 Consensus size: 43
4858743 GTTATAGAGA
*
4858753 TGTGATTACATGTAAGACCATGTCTGGGATATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
*
4858796 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCAT-TAA
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTAT
* * * * * *
4858840 T-CGATTA-AGTGTAAGGCCCTGTTTGGGACAGTGGCATCG-AT
1 TGTGATTACA-TGTAAGACCATGTCTGGGACATTGGCATTGTAT
*
4858881 ATGTGATAACATGTAAGACCAT
1 -TGTGATTACATGTAAGACCAT
4858903 AAATGGGATA
Statistics
Matches: 87, Mismatches: 13, Indels: 14
0.76 0.11 0.12
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 79 0.91
44 4 0.05
45 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:4863139 original size:11 final size:11
Alignment explanation
Indices: 4863119--4863165 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
4863109 TATCTAAGAT
*
4863119 ATATATAAAAA
1 ATATACAAAAA
4863130 ATATAC-AAAA
1 ATATACAAAAA
4863140 ATATACAAAAA
1 ATATACAAAAA
* *
4863151 AAATAATAAAAA
1 ATAT-ACAAAAA
4863163 ATA
1 ATA
4863166 CCATATTTCG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
10 10 0.33
11 12 0.40
12 8 0.27
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.21
Consensus pattern (11 bp):
ATATACAAAAA
Found at i:4863141 original size:10 final size:10
Alignment explanation
Indices: 4863121--4863150 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
4863111 TCTAAGATAT
4863121 ATATA-AAAA
1 ATATACAAAA
4863130 ATATACAAAA
1 ATATACAAAA
4863140 ATATACAAAA
1 ATATACAAAA
4863150 A
1 A
4863151 AAATAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.25
10 15 0.75
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (10 bp):
ATATACAAAA
Found at i:4864893 original size:60 final size:60
Alignment explanation
Indices: 4864758--4864896 Score: 165
Period size: 60 Copynumber: 2.3 Consensus size: 60
4864748 TTTAGTGTTA
* *
4864758 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTAAAAGAGTAT
1 ACTGGGCCTT-GCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTAAAAGAGTAT
* * * **
4864819 ACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGT-CGAGA-TAT
1 ACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTAC-AGTAAAAGAGTAT
*
4864879 ATTGGGCCTTGCCCATAT
1 ACTGGGCCTTGCCCATAT
4864897 TAACACAGTT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
60 48 0.72
61 16 0.24
62 3 0.04
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (60 bp):
ACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTAAAAGAGTAT
Found at i:4864932 original size:19 final size:20
Alignment explanation
Indices: 4864889--4864944 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
4864879 ATTGGGCCTT
4864889 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
4864909 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
4864928 GCCCATAGTAAAACAGT
1 GCCCATATTAACACAGT
4864945 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:4867110 original size:19 final size:18
Alignment explanation
Indices: 4867073--4867116 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
4867063 ATACATACAG
4867073 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
4867090 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
4867109 TACTAATT
1 TAATAATT
4867117 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:4867565 original size:15 final size:15
Alignment explanation
Indices: 4867545--4867573 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4867535 TAATGTTATT
4867545 ATTATTATTATTACC
1 ATTATTATTATTACC
4867560 ATTATTATTATTAC
1 ATTATTATTATTAC
4867574 TAATATGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATTATTATTACC
Found at i:4873952 original size:29 final size:29
Alignment explanation
Indices: 4873885--4873952 Score: 68
Period size: 29 Copynumber: 2.3 Consensus size: 29
4873875 ATCAAAATTC
4873885 CATGTATAAAATTGCACAAAATCAAAGTTTA
1 CATGTAT--AATTGCACAAAATCAAAGTTTA
* *
4873916 CATATATAATTGCACATTAAATCATAG-TT-
1 CATGTATAATTGCACA--AAATCAAAGTTTA
4873945 CATGTATA
1 CATGTATA
4873953 GTTTTGGGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
29 16 0.50
30 2 0.06
31 14 0.44
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.34
Consensus pattern (29 bp):
CATGTATAATTGCACAAAATCAAAGTTTA
Found at i:4878190 original size:41 final size:44
Alignment explanation
Indices: 4878075--4878164 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 44
4878065 AAATTGTACT
* * * * *
4878075 TTAAATTCTAATTATTTTTAAATGTGTAGTTATCACAACTTCTA
1 TTAAATTATAAATATTTTTAAACGTATAATTATCACAACTTCTA
4878119 TTAAATTATAAATATTTTTAAACGTATAATTATCACAACTTCTA
1 TTAAATTATAAATATTTTTAAACGTATAATTATCACAACTTCTA
4878163 TT
1 TT
4878165 TTATTTTAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.47
Consensus pattern (44 bp):
TTAAATTATAAATATTTTTAAACGTATAATTATCACAACTTCTA
Found at i:4879742 original size:3 final size:3
Alignment explanation
Indices: 4879725--4879817 Score: 170
Period size: 3 Copynumber: 31.3 Consensus size: 3
4879715 AATATCCTTG
*
4879725 TTA TTT TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4879772 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4879818 GTACTGTTGC
Statistics
Matches: 87, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
2 2 0.02
3 85 0.98
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4879960 original size:2 final size:2
Alignment explanation
Indices: 4879955--4879989 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4879945 TATGTTTTAG
4879955 TA TA TA TA 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 TA TA TA TA T
4879990 TTATGTATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4880240 original size:20 final size:21
Alignment explanation
Indices: 4880215--4880256 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
4880205 GTTATATACG
*
4880215 TATATATTATGTGTATT-TTA
1 TATATATTATGTATATTATTA
4880235 TATATATTATGTATATTATTA
1 TATATATTATGTATATTATTA
4880256 T
1 T
4880257 TTTTATTAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (21 bp):
TATATATTATGTATATTATTA
Found at i:4880247 original size:18 final size:19
Alignment explanation
Indices: 4880215--4880253 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
4880205 GTTATATACG
*
4880215 TATATATTATGTGTATTTTA
1 TATATATTA-GTGTATATTA
4880235 TATATATTA-TGTATATTA
1 TATATATTAGTGTATATTA
4880253 T
1 T
4880254 TATTTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
20 9 0.50
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (19 bp):
TATATATTAGTGTATATTA
Found at i:4880893 original size:10 final size:10
Alignment explanation
Indices: 4880878--4880903 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
4880868 TTAAATATGT
4880878 TATGTATGCA
1 TATGTATGCA
4880888 TATGTATGCA
1 TATGTATGCA
4880898 TATGTA
1 TATGTA
4880904 CCTATATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (10 bp):
TATGTATGCA
Found at i:4892080 original size:43 final size:43
Alignment explanation
Indices: 4892024--4892145 Score: 115
Period size: 44 Copynumber: 2.8 Consensus size: 43
4892014 ATGCTTGAAG
*
4892024 AAAAAGAAA-ATCAAGATGAAAACCCGAAAGGGCATCTT-A-A
1 AAAAAAAAAGATCAAGATGAAAACCCGAAAGGGCATCTTGATA
* * * *
4892064 AAAAAAAAAGGGATCAAGGTGAAAACCTGAAAAGGGCGTCTTGATT
1 AAAAAAAAA--GATCAAGATGAAAACCCG-AAAGGGCATCTTGATA
* * * *
4892110 AACATAAAAGATTAGGATGAAAACCCGAAAGGGCAT
1 AAAAAAAAAGATCAAGATGAAAACCCGAAAGGGCAT
4892146 TCTAATGAAG
Statistics
Matches: 64, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
40 8 0.12
43 23 0.36
44 25 0.39
45 1 0.02
46 7 0.11
ACGTcount: A:0.50, C:0.13, G:0.22, T:0.15
Consensus pattern (43 bp):
AAAAAAAAAGATCAAGATGAAAACCCGAAAGGGCATCTTGATA
Found at i:4893029 original size:74 final size:72
Alignment explanation
Indices: 4892917--4893068 Score: 223
Period size: 74 Copynumber: 2.1 Consensus size: 72
4892907 TTTTAATTCA
* * * *
4892917 TGTTTTCAAAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGTCGAGGTATTTT
1 TGTTTTCAAAAATCAACTCAAATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCAAGGTATTTT
4892982 CAATTTC
66 CAATTTC
* *
4892989 TGTTTGTCAAAAAGTCAACTCAAATTGTGAGAGGTGAGTTGAGCCTCGGGGCACGCCAAGGTATT
1 TGTTT-TCAAAAA-TCAACTCAAATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCAAGGTATT
4893054 TTCAATTTC
64 TTCAATTTC
*
4893063 TATTTT
1 TGTTTT
4893069 TCAGTTTATA
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
72 5 0.07
73 8 0.11
74 58 0.82
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (72 bp):
TGTTTTCAAAAATCAACTCAAATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCAAGGTATTTT
CAATTTC
Found at i:4893071 original size:14 final size:14
Alignment explanation
Indices: 4893052--4893086 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
4893042 CGCCAAGGTA
*
4893052 TTTTCAATTTCTAT
1 TTTTCAATTTATAT
*
4893066 TTTTCAGTTTATAT
1 TTTTCAATTTATAT
4893080 TTTTCAA
1 TTTTCAA
4893087 AGAAATCAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.23, C:0.11, G:0.03, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTATAT
Found at i:4893341 original size:73 final size:74
Alignment explanation
Indices: 4893255--4893477 Score: 326
Period size: 74 Copynumber: 3.0 Consensus size: 74
4893245 ATTAAGTTCC
*
4893255 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-CACGCGCTGAGGTATTTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGTCACACGCTGAGGTATTTTCAATTTC
4893319 TGCTTTTCA
66 TGCTTTTCA
* * ** * *
4893328 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATACTGAGGCATTTTTAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-TCACACGCTGAGGTATTTTCAATTT
4893393 CTGCTTTTC-
65 CTGCTTTTCA
*
4893402 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGGTCACACGCTGAGGTATTTTCAAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GTCACACGCTGAGGTATTTTC-AATT
4893467 T-TGCTTTTCA
64 TCTGCTTTTCA
4893477 A
1 A
4893478 TTCTACTTTT
Statistics
Matches: 131, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
73 37 0.28
74 59 0.45
75 35 0.27
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGTCACACGCTGAGGTATTTTCAATTTC
TGCTTTTCA
Found at i:4893602 original size:84 final size:86
Alignment explanation
Indices: 4893385--4893609 Score: 307
Period size: 84 Copynumber: 2.6 Consensus size: 86
4893375 CTGAGGCATT
*
4893385 TTTAATTTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGGTCACACGC
1 TTTAATTTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGC
4893450 TGAGGTATTTTCAAATTTTGC
66 TGAGGTATTTTCAAATTTTGC
* **
4893471 TTTTCAA-TTCTACTTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG-GGCA
1 -TTT-AATTTCTGCTTTT-CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA
* *
4893533 TGCTGAGGTA-TTTCCAATTTCTG-
63 CGCTGAGGTATTTTCAAATTT-TGC
*
4893556 TTTAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT
1 TTTAATTTCTGCTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
4893610 TTTAATTCTG
Statistics
Matches: 125, Mismatches: 8, Indels: 13
0.86 0.05 0.09
Matches are distributed among these distances:
83 3 0.02
84 47 0.38
85 9 0.07
86 13 0.10
87 14 0.11
88 39 0.31
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (86 bp):
TTTAATTTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGC
TGAGGTATTTTCAAATTTTGC
Found at i:4893637 original size:53 final size:53
Alignment explanation
Indices: 4893556--4893677 Score: 208
Period size: 53 Copynumber: 2.3 Consensus size: 53
4893546 CCAATTTCTG
*
4893556 TTTAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT
1 TTTAA-TTCTGTTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT
* *
4893610 TTTAATTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGCGCCT
1 TTTAATTCTGTTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT
4893663 TTTAATTCTGTTTTT
1 TTTAATTCTGTTTTT
4893678 TTTTCAAAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
53 60 0.92
54 5 0.08
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (53 bp):
TTTAATTCTGTTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT
Found at i:4895592 original size:3 final size:3
Alignment explanation
Indices: 4895575--4895645 Score: 119
Period size: 3 Copynumber: 24.3 Consensus size: 3
4895565 AATATCCTTG
*
4895575 TTA TTT TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4895622 TTA TTA TTA -TA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
4895646 GTACTCTTGT
Statistics
Matches: 64, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
2 4 0.06
3 60 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4895888 original size:3 final size:3
Alignment explanation
Indices: 4895873--4895928 Score: 82
Period size: 3 Copynumber: 19.3 Consensus size: 3
4895863 TTCAATCTTG
4895873 TTA TTA -TA TTTA TTA TTA TTA TTA TTA TT- TTA TTA TTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4895917 -TA TTA TTA TTA T
1 TTA TTA TTA TTA T
4895929 AGTGTATATT
Statistics
Matches: 49, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
2 6 0.12
3 41 0.84
4 2 0.04
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4895907 original size:17 final size:17
Alignment explanation
Indices: 4895873--4895928 Score: 89
Period size: 17 Copynumber: 3.4 Consensus size: 17
4895863 TTCAATCTTG
4895873 TTATTA-TATT-TATTA
1 TTATTATTATTATATTA
*
4895888 TTATTATTATTATTTTA
1 TTATTATTATTATATTA
4895905 TTATTATTATTATATTA
1 TTATTATTATTATATTA
4895922 TTATTAT
1 TTATTAT
4895929 AGTGTATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.16
16 4 0.11
17 27 0.73
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTATTATTATTATATTA
Found at i:4896077 original size:20 final size:21
Alignment explanation
Indices: 4896052--4896093 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
4896042 GTTATATACG
*
4896052 TATATATTATGTGTATT-TTA
1 TATATATTATGTATATTATTA
4896072 TATATATTATGTATATTATTA
1 TATATATTATGTATATTATTA
4896093 T
1 T
4896094 TTATTAGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (21 bp):
TATATATTATGTATATTATTA
Found at i:4896090 original size:18 final size:19
Alignment explanation
Indices: 4896052--4896100 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
4896042 GTTATATACG
*
4896052 TATATATTATGTGTATTTTA
1 TATATATTA-GTGTATATTA
4896072 TATATATTA-TGTATATTA
1 TATATATTAGTGTATATTA
*
4896090 TTATTTATTAG
1 -TATATATTAG
4896101 ACATATTACG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 8 0.32
19 8 0.32
20 9 0.36
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (19 bp):
TATATATTAGTGTATATTA
Found at i:4896724 original size:10 final size:10
Alignment explanation
Indices: 4896709--4896734 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
4896699 AAATATTATG
4896709 TATGTATGCA
1 TATGTATGCA
4896719 TATGTATGCA
1 TATGTATGCA
4896729 TATGTA
1 TATGTA
4896735 CCCATATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (10 bp):
TATGTATGCA
Found at i:4899862 original size:5 final size:5
Alignment explanation
Indices: 4899852--4899880 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
4899842 TTATCACAAC
4899852 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
4899881 TAATTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:4916789 original size:2 final size:2
Alignment explanation
Indices: 4916782--4916822 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
4916772 CCTAATTTGT
4916782 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA T
4916823 TCAAATTCCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4921543 original size:20 final size:20
Alignment explanation
Indices: 4921504--4921543 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4921494 TTGCGAAGAA
*
4921504 AGATAGGGAATTACTCATTG
1 AGATAGGGAATCACTCATTG
*
4921524 AGATAGGGAATCACTTATTG
1 AGATAGGGAATCACTCATTG
4921544 TATTTATGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (20 bp):
AGATAGGGAATCACTCATTG
Found at i:4926624 original size:13 final size:12
Alignment explanation
Indices: 4926606--4926642 Score: 56
Period size: 13 Copynumber: 2.9 Consensus size: 12
4926596 ATCATATTCT
4926606 TTAGTTAATTTAA
1 TTAGTTAATTT-A
4926619 TTAGTTAATTTA
1 TTAGTTAATTTA
4926631 TTAAGTTAATTT
1 TT-AGTTAATTT
4926643 TAGTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 3 0.13
13 20 0.87
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (12 bp):
TTAGTTAATTTA
Found at i:4927166 original size:28 final size:28
Alignment explanation
Indices: 4927126--4927182 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
4927116 ATTATCAACT
4927126 CCATAAGTTATAAAACTCTTCCTATACC
1 CCATAAGTTATAAAACTCTTCCTATACC
* * *
4927154 CCATAAGTTATAAGATTTTTCCTATACC
1 CCATAAGTTATAAAACTCTTCCTATACC
4927182 C
1 C
4927183 TATTAATATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.35
Consensus pattern (28 bp):
CCATAAGTTATAAAACTCTTCCTATACC
Found at i:4927347 original size:14 final size:14
Alignment explanation
Indices: 4927307--4927347 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
4927297 AAAAGGAAGA
4927307 TACACTCTCTCTTC
1 TACACTCTCTCTTC
4927321 TACA-T-TCTC-TC
1 TACACTCTCTCTTC
*
4927332 TACACTCTTTCTTC
1 TACACTCTCTCTTC
4927346 TA
1 TA
4927348 TCACATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 6 0.26
12 5 0.22
13 4 0.17
14 8 0.35
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (14 bp):
TACACTCTCTCTTC
Found at i:4933065 original size:6 final size:6
Alignment explanation
Indices: 4933035--4933109 Score: 73
Period size: 6 Copynumber: 12.3 Consensus size: 6
4933025 AAAAAACATT
* * *
4933035 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
*
4933084 ATCAGA ATCAGG ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCAGA AT
4933110 TAGGTGACAG
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
5 2 0.04
6 49 0.88
7 4 0.07
8 1 0.02
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:4933085 original size:19 final size:19
Alignment explanation
Indices: 4933061--4933127 Score: 93
Period size: 19 Copynumber: 3.6 Consensus size: 19
4933051 AAATGAGAAT
4933061 CAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGGTGA
4933080 CAGAATCAGAATCA-G-GA
1 CAGAATCAGAATCAGGTGA
*
4933097 TCAGAATCAGAATTAGGTGA
1 -CAGAATCAGAATCAGGTGA
*
4933117 CAGAATTAGAA
1 CAGAATCAGAA
4933128 CCAGAATGTG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
17 2 0.05
18 14 0.33
19 25 0.58
20 2 0.05
ACGTcount: A:0.45, C:0.13, G:0.24, T:0.18
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTGA
Found at i:4933085 original size:37 final size:37
Alignment explanation
Indices: 4933044--4933122 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
4933034 TATCAGAACT
*
4933044 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* * *
4933081 AGAATCAGAATCAGGATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
4933118 AGAAT
1 AGAAT
4933123 TAGAACCAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.47, C:0.13, G:0.23, T:0.18
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:4933141 original size:37 final size:37
Alignment explanation
Indices: 4933056--4933134 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
4933046 AATCAAAATG
*
4933056 AGAATCAGAATCAGAATCAGGTGACAGAATCAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATCAGAACC
* * *
4933093 AGGATCAGAATCAGAATTAGGTGACAGAATTAGAACC
1 AGAATCAGAATCAGAATCAGGTGACAGAATCAGAACC
4933130 AGAAT
1 AGAAT
4933135 GTGAATCCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.46, C:0.14, G:0.23, T:0.18
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATCAGAACC
Found at i:4933382 original size:27 final size:27
Alignment explanation
Indices: 4933344--4933402 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 27
4933334 GCATGGCTGC
* *
4933344 CAGAACAGATA-TTGTGACAGAGTCAT
1 CAGAACAAATATTTGTGACAGAGCCAT
**
4933370 CAGATACAAATATTTGTGGTAGAGCCAT
1 CAGA-ACAAATATTTGTGACAGAGCCAT
4933398 CAGAA
1 CAGAA
4933403 TCAGATAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 4 0.15
27 7 0.26
28 16 0.59
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (27 bp):
CAGAACAAATATTTGTGACAGAGCCAT
Found at i:4933772 original size:27 final size:27
Alignment explanation
Indices: 4933731--4933838 Score: 130
Period size: 27 Copynumber: 4.0 Consensus size: 27
4933721 ATCGGTCAAT
* * *
4933731 AGATA-TTGTGACAGAGTCACCGGATAC
1 AGATATTTGTGGCAGAGCCACCAGA-AC
4933758 AGATA-TTGTGGCAGAGCCACCAGAAC
1 AGATATTTGTGGCAGAGCCACCAGAAC
* *
4933784 AGATATTTGTGGCATAACCACCAGAAAC
1 AGATATTTGTGGCAGAGCCACCAG-AAC
*
4933812 AGATATTTGTGGCATAGCCACCAGAAC
1 AGATATTTGTGGCAGAGCCACCAGAAC
4933839 GCTTCCTCCA
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
26 7 0.10
27 40 0.55
28 26 0.36
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.20
Consensus pattern (27 bp):
AGATATTTGTGGCAGAGCCACCAGAAC
Found at i:4933821 original size:28 final size:28
Alignment explanation
Indices: 4933756--4933837 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
4933746 GTCACCGGAT
*
4933756 ACAGATA-TTGTGGCAGAGCCACCAG-A
1 ACAGATATTTGTGGCATAGCCACCAGAA
*
4933782 ACAGATATTTGTGGCATAACCACCAGAA
1 ACAGATATTTGTGGCATAGCCACCAGAA
4933810 ACAGATATTTGTGGCATAGCCACCAGAA
1 ACAGATATTTGTGGCATAGCCACCAGAA
4933838 CGCTTCCTCC
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
26 7 0.14
27 16 0.31
28 28 0.55
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (28 bp):
ACAGATATTTGTGGCATAGCCACCAGAA
Found at i:4934121 original size:54 final size:54
Alignment explanation
Indices: 4934063--4934194 Score: 131
Period size: 54 Copynumber: 2.4 Consensus size: 54
4934053 GGGCAAAATG
* * *
4934063 GTAATTTTACCCCACAAGGGTATCTCGA-AAATTTTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCCACAAGGGTAT-TCGAGAAATTCTACCCTACAGGGGTATTTCA
* * * ** * *
4934117 GTAATTCTATCCTACATGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCCACAAGGGTATTCGAGAAATTCTACCCTACAGGGGTATTTCA
* * *
4934171 GTAATTCTAACCTACAGGGGTATT
1 GTAATTCTACCCCACAAGGGTATT
4934195 TCAGTAATTC
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 2 0.03
54 63 0.97
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCCACAAGGGTATTCGAGAAATTCTACCCTACAGGGGTATTTCA
Found at i:4934122 original size:27 final size:27
Alignment explanation
Indices: 4934092--4934206 Score: 167
Period size: 27 Copynumber: 4.3 Consensus size: 27
4934082 GTATCTCGAA
* *
4934092 AATTTTACCCTACAGGGGTATTTTAGT
1 AATTCTACCCTACAGGGGTATTTCAGT
* * *
4934119 AATTCTATCCTACATGGGTATTTTAGT
1 AATTCTACCCTACAGGGGTATTTCAGT
*
4934146 AATTCTACCCTATAGGGGTATTTCAGT
1 AATTCTACCCTACAGGGGTATTTCAGT
*
4934173 AATTCTAACCTACAGGGGTATTTCAGT
1 AATTCTACCCTACAGGGGTATTTCAGT
4934200 AATTCTA
1 AATTCTA
4934207 TAAATCGAGG
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 79 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (27 bp):
AATTCTACCCTACAGGGGTATTTCAGT
Found at i:4934218 original size:27 final size:27
Alignment explanation
Indices: 4934196--4934705 Score: 425
Period size: 27 Copynumber: 18.9 Consensus size: 27
4934186 AGGGGTATTT
4934196 CAGTAATTCTATAAATCGAGGGTAAAA
1 CAGTAATTCTATAAATCGAGGGTAAAA
* *
4934223 CAGTAATTTTGTAAA-CTGAGGGTAAAA
1 CAGTAATTCTATAAATC-GAGGGTAAAA
* * *
4934250 CGGTAATTTTATAAACCGAGGGTAAAA
1 CAGTAATTCTATAAATCGAGGGTAAAA
* *
4934277 CAGTAATTTTATAAATCGAGGGCAAAA
1 CAGTAATTCTATAAATCGAGGGTAAAA
** * *
4934304 TGGTAATTTTTTAAATCGAGGGTAAAA
1 CAGTAATTCTATAAATCGAGGGTAAAA
4934331 C-GATAATTCTATAAATCGAGGGTAAAA
1 CAG-TAATTCTATAAATCGAGGGTAAAA
* * *
4934358 TAGTAATTCTGTAAATTGAGGGTAAAA
1 CAGTAATTCTATAAATCGAGGGTAAAA
* * * * *
4934385 CGGTAATTCTGTAAACCAAGGGTAAAC
1 CAGTAATTCTATAAATCGAGGGTAAAA
* * * *
4934412 CAATAATTTTGTAAATCGATGGTAAAA
1 CAGTAATTCTATAAATCGAGGGTAAAA
* *
4934439 CAATAATTTTATAAATCGAGGGTAAAA
1 CAGTAATTCTATAAATCGAGGGTAAAA
* * *
4934466 CGGTAATTCTGTAAATCGAGGATAAAA
1 CAGTAATTCTATAAATCGAGGGTAAAA
* * * * *
4934493 CGGTAATTCTGTAAATCAATGGCAAAA
1 CAGTAATTCTATAAATCGAGGGTAAAA
* * *
4934520 TAGTAATTTTGTAAATCGAGGGTAAAA
1 CAGTAATTCTATAAATCGAGGGTAAAA
* * *
4934547 C-GCTAATTCTGTAAATCAAGAGTAAAA
1 CAG-TAATTCTATAAATCGAGGGTAAAA
* * * * *
4934574 TAGTAATTCTGTAAATCAATGGCAAAA
1 CAGTAATTCTATAAATCGAGGGTAAAA
* * * *
4934601 CGGTAATTTTGTAAATCAAGGGTAAAA
1 CAGTAATTCTATAAATCGAGGGTAAAA
* * * * *
4934628 CGGTAATTCTGTAAATCAATGGCAAAA
1 CAGTAATTCTATAAATCGAGGGTAAAA
* * *
4934655 -TGATAATTTTGTAAATCGAGGGTAAAA
1 CAG-TAATTCTATAAATCGAGGGTAAAA
* * *
4934682 CGGTAATTCTGTAAATTGAGGGTA
1 CAGTAATTCTATAAATCGAGGGTA
4934706 CTTTGGTAAT
Statistics
Matches: 404, Mismatches: 71, Indels: 16
0.82 0.14 0.03
Matches are distributed among these distances:
26 4 0.01
27 396 0.98
28 4 0.01
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (27 bp):
CAGTAATTCTATAAATCGAGGGTAAAA
Found at i:4934227 original size:54 final size:54
Alignment explanation
Indices: 4934116--4934230 Score: 124
Period size: 54 Copynumber: 2.1 Consensus size: 54
4934106 GGGGTATTTT
* * * ** ***
4934116 AGTAATTCTATCCTACATGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTC
1 AGTAATTCTAACCTACAGGGGTATTTCAGTAATTCTACCAAATAGGGGTAAAAC
* *
4934170 AGTAATTCTAACCTACAGGGGTATTTCAGTAATTCTA-TAAATCGAGGGTAAAAC
1 AGTAATTCTAACCTACAGGGGTATTTCAGTAATTCTACCAAATAG-GGGTAAAAC
4934224 AGTAATT
1 AGTAATT
4934231 TTGTAAACTG
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 3 0.06
54 47 0.94
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (54 bp):
AGTAATTCTAACCTACAGGGGTATTTCAGTAATTCTACCAAATAGGGGTAAAAC
Found at i:4934716 original size:81 final size:80
Alignment explanation
Indices: 4934196--4934705 Score: 536
Period size: 81 Copynumber: 6.3 Consensus size: 80
4934186 AGGGGTATTT
* * * * * * * * *
4934196 CAGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACTGAGGGTAAAACGGTAATTTTA
1 CAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAA-TCAAGGTAAAACGATAATTCTG
*
4934261 TAAACCGAGGGTAAAA
65 TAAATCGAGGGTAAAA
* * * * * * *
4934277 CAGTAATTTTATAAATCGAGGGCAAAATGGTAATTTTTTAAATCGAGGGTAAAACGATAATTCTA
1 CAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC-AAGGTAAAACGATAATTCTG
4934342 TAAATCGAGGGTAAAA
65 TAAATCGAGGGTAAAA
* * * * * * *
4934358 TAGTAATTCTGTAAATTGAGGGTAAAACGGTAATTCTGTAAACCAAGGGTAAACCAATAATTTTG
1 CAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAA-GGTAAAACGATAATTCTG
*
4934423 TAAATCGATGGTAAAA
65 TAAATCGAGGGTAAAA
* * * *
4934439 CAATAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGATAAAACGGTAATTCTG
1 CAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGG-TAAAACGATAATTCTG
* * *
4934504 TAAATCAATGGCAAAA
65 TAAATCGAGGGTAAAA
* * *
4934520 TAGTAATTTTGTAAATCGAGGGTAAAACGCTAATTCTGTAAATCAAGAGTAAAA-TAGTAATTCT
1 CAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAG-GTAAAACGA-TAATTCT
* * *
4934584 GTAAATCAATGGCAAAA
64 GTAAATCGAGGGTAAAA
* * * * *
4934601 CGGTAATTTTGTAAATCAAGGGTAAAACGGTAATTCTGTAAATCAATGGCAAAATGATAATTTTG
1 CAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAA-GGTAAAACGATAATTCTG
4934666 TAAATCGAGGGTAAAA
65 TAAATCGAGGGTAAAA
* * *
4934682 CGGTAATTCTGTAAATTGAGGGTA
1 CAGTAATTTTGTAAATCGAGGGTA
4934706 CTTTGGTAAT
Statistics
Matches: 365, Mismatches: 57, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
80 4 0.01
81 358 0.98
82 3 0.01
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (80 bp):
CAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGTAAAACGATAATTCTGT
AAATCGAGGGTAAAA
Found at i:4934718 original size:54 final size:54
Alignment explanation
Indices: 4934198--4934705 Score: 532
Period size: 54 Copynumber: 9.4 Consensus size: 54
4934188 GGGTATTTCA
* *
4934198 GTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATC-GAGGGTAAAACG
* * * * * * *
4934252 GTAATTTTATAAACCGAGGGTAAAACAGTAATTTTATAAATCGAGGGCAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACG
* * * * * **
4934306 GTAATTTTTTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACG
* * * * * *
4934360 GTAATTCTGTAAATTGAGGGTAAAACGGTAATTCTGTAAACCAAGGGTAAACCA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACG
* * * ** *
4934414 ATAATTTTGTAAATCGATGGTAAAACAATAATTTTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACG
* * * * * **
4934468 GTAATTCTGTAAATCGAGGATAAAACGGTAATTCTGTAAATCAATGGCAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACG
* * * * * **
4934522 GTAATTTTGTAAATCGAGGGTAAAACGCTAATTCTGTAAATCAAGAGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACG
* * * *
4934576 GTAATTCTGTAAATCAATGGCAAAACGGTAATTTTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACG
* * * * *
4934630 GTAATTCTGTAAATCAATGGCAAAATGATAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACG
*
4934684 GTAATTCTGTAAATTGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
4934706 CTTTGGTAAT
Statistics
Matches: 385, Mismatches: 68, Indels: 2
0.85 0.15 0.00
Matches are distributed among these distances:
54 384 1.00
55 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.29
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACG
Found at i:4937075 original size:22 final size:21
Alignment explanation
Indices: 4937045--4937091 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
4937035 TACAAATTAA
4937045 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
4937067 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
4937088 ATCT
1 ATCT
4937092 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:4937097 original size:19 final size:19
Alignment explanation
Indices: 4937062--4937121 Score: 88
Period size: 17 Copynumber: 3.2 Consensus size: 19
4937052 AGATTACAAG
4937062 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
4937083 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
4937100 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
4937119 ATC
1 ATC
4937122 CTTAAAGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
17 17 0.46
19 11 0.30
20 1 0.03
21 8 0.22
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:4937794 original size:134 final size:134
Alignment explanation
Indices: 4937613--4937891 Score: 459
Period size: 134 Copynumber: 2.1 Consensus size: 134
4937603 CGAATATGGA
* * *
4937613 GATGCCAAATCTACTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTTG
1 GATGTCAAATCTACTACCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTAAAATCTTTG
*
4937678 ATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTACTATGTCTTCGATCTATTCCCTGTAAACA
66 ATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTACTATGTCTTCGATCTATTCCCTATAAACA
*
4937743 TAGG
131 CAGG
* *
4937747 GATGTCAAATCTGCTACCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGTTAAAATCTTTG
1 GATGTCAAATCTACTACCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTAAAATCTTTG
* * *
4937812 ATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCGATCTGTTCCCTATAAACA
66 ATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTACTATGTCTTCGATCTATTCCCTATAAACA
4937877 CAGG
131 CAGG
*
4937881 GATGTAAAATC
1 GATGTCAAATC
4937892 ATCTTGGATC
Statistics
Matches: 134, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
134 134 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (134 bp):
GATGTCAAATCTACTACCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTAAAATCTTTG
ATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTACTATGTCTTCGATCTATTCCCTATAAACA
CAGG
Found at i:4938139 original size:44 final size:45
Alignment explanation
Indices: 4938080--4938471 Score: 312
Period size: 44 Copynumber: 8.9 Consensus size: 45
4938070 ATGTCTTTGA
* *
4938080 TCTGTTCCCTGTAAACACAGGGATGCCAAATCTGTTATCTTCAAC
1 TCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
* ** *
4938125 T-TGTTCCTTATAAACACAGGGATGCC--ATGCTGAAATCTTCGA-
1 TCTGTTCCCTATAAACACAGGGATGCCAAAT-CTGCTATCTTCAAC
*
4938167 TCTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAAC
1 TCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
** * *
4938212 T-TGTTCCCTATAAACACAGGGATGCC--ATGCTGAAATCTTTGATC
1 TCTGTTCCCTATAAACACAGGGATGCCAAAT-CTGCTATC-TTCAAC
* * * * ** * * *
4938256 TACT-TT-GCTGTAAGCACAGGAATTTCAGATCTACTATCTTCGA-
1 T-CTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
4938299 TCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
1 TCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
** **
4938344 T-TGTTCCCTATAAACACAGGGATGCC--ATGCTGGAATCTTTGA-
1 TCTGTTCCCTATAAACACAGGGATGCCAAAT-CTGCTATCTTCAAC
* * * * * * * **
4938386 TCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGTTATCTTTGA-
1 TCTG-TTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
4938431 TCTGTTCCCTATAAACACAGGGATGCCAAATCTTGCT-TCTT
1 TCTGTTCCCTATAAACACAGGGATGCCAAATC-TGCTATCTT
4938472 TGATCTACAT
Statistics
Matches: 273, Mismatches: 54, Indels: 41
0.74 0.15 0.11
Matches are distributed among these distances:
42 10 0.04
43 53 0.19
44 175 0.64
45 30 0.11
46 5 0.02
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (45 bp):
TCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAAC
Found at i:4938172 original size:87 final size:87
Alignment explanation
Indices: 4938073--4938370 Score: 359
Period size: 87 Copynumber: 3.4 Consensus size: 87
4938063 ATCTACTATG
* * ** *
4938073 TCTTTGATCTGTTCCCTGTAAACACAGGGATGCCAAATCTGTTATCTTCAACTTGTTCCTTATAA
1 TCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACTTGTTCCCTATAA
4938138 ACACAGGGATGCCATGCTGAAA
66 ACACAGGGATGCCATGCTGAAA
4938160 TCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACTTGTTCCCTATAA
1 TCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACTTGTTCCCTATAA
4938225 ACACAGGGATGCCATGCTGAAA
66 ACACAGGGATGCCATGCTGAAA
* * ** * * * ** * *
4938247 TCTTTGATCTACTTTGCTGTAAGCACAGGAATTTCAGATCTACTATCTTCGA-TCTGTTCCCTAT
1 TCTTCGATCT-GTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACT-TGTTCCCTAT
**
4938311 AAACACAGGGATGCCAAAT-CTGCTA
64 AAACACAGGGATGCC--ATGCTGAAA
*
4938336 TCTTC-AACTTGTTCCCTATAAACACAGGGATGCCA
1 TCTTCGATC-TGTTCCCTATAAACACAGGGATGCCA
4938371 TGCTGGAATC
Statistics
Matches: 178, Mismatches: 28, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
87 92 0.52
88 75 0.42
89 9 0.05
90 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (87 bp):
TCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACTTGTTCCCTATAA
ACACAGGGATGCCATGCTGAAA
Found at i:4938321 original size:132 final size:132
Alignment explanation
Indices: 4938159--4938463 Score: 538
Period size: 132 Copynumber: 2.3 Consensus size: 132
4938149 CCATGCTGAA
4938159 ATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACTTGTTCCCTATA
1 ATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACTTGTTCCCTATA
* *
4938224 AACACAGGGATGCCATGCTGAAATCTTTGATCTACTTTGCTGTAAGCACAGGAATTTCAGATCTA
66 AACACAGGGATGCCATGCTGAAATCTTTGATCTACTTCGCTGTAAGCACAGGAATGTCAGATCTA
4938289 CT
131 CT
*
4938291 ATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATA
1 ATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACTTGTTCCCTATA
* * *
4938356 AACACAGGGATGCCATGCTGGAATCTTTGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTG
66 AACACAGGGATGCCATGCTGAAATCTTTGATCTACTTCGCTGTAAGCACAGGAATGTCAGATCTA
*
4938421 TT
131 CT
*
4938423 ATCTTTGATCTGTTCCCTATAAACACAGGGATGCCAAATCT
1 ATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCT
4938464 TGCTTCTTTG
Statistics
Matches: 165, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 165 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (132 bp):
ATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACTTGTTCCCTATA
AACACAGGGATGCCATGCTGAAATCTTTGATCTACTTCGCTGTAAGCACAGGAATGTCAGATCTA
CT
Found at i:4939429 original size:23 final size:23
Alignment explanation
Indices: 4939377--4939419 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
4939367 GGCCTCTCCA
4939377 CTTTTTTCTTTTTTCTCTTTTTT
1 CTTTTTTCTTTTTTCTCTTTTTT
4939400 CTTTTTTCTTTTTTCT-TTTT
1 CTTTTTTCTTTTTTCTCTTTT
4939420 AATTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (23 bp):
CTTTTTTCTTTTTTCTCTTTTTT
Found at i:4939434 original size:7 final size:7
Alignment explanation
Indices: 4939377--4939433 Score: 71
Period size: 7 Copynumber: 8.0 Consensus size: 7
4939367 GGCCTCTCCA
4939377 CTTTTTT
1 CTTTTTT
4939384 CTTTTTTCT
1 C-TTTTT-T
4939393 CTTTTTT
1 CTTTTTT
4939400 CTTTTTT
1 CTTTTTT
4939407 CTTTTTT
1 CTTTTTT
*
4939414 CTTTTTA
1 CTTTTTT
*
4939421 ATTTTTT
1 CTTTTTT
4939428 -TTTTTT
1 CTTTTTT
4939434 TGAAATAGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
6 6 0.13
7 27 0.60
8 10 0.22
9 2 0.04
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (7 bp):
CTTTTTT
Found at i:4945071 original size:21 final size:21
Alignment explanation
Indices: 4945045--4945087 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4945035 AAAGGATATC
*
4945045 TACAAATTAAATCTCCAAGAT
1 TACAAATCAAATCTCCAAGAT
* *
4945066 TACAAATCATATCTTCAAGAT
1 TACAAATCAAATCTCCAAGAT
4945087 T
1 T
4945088 GCATATCATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.33
Consensus pattern (21 bp):
TACAAATCAAATCTCCAAGAT
Found at i:4945106 original size:19 final size:19
Alignment explanation
Indices: 4945061--4945168 Score: 166
Period size: 19 Copynumber: 5.7 Consensus size: 19
4945051 TTAAATCTCC
* *
4945061 AAGATTACAAATCATATCTT
1 AAGATTGCATATCATATC-T
4945081 CAAGATTGCATATCATATCT
1 -AAGATTGCATATCATATCT
4945101 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
4945120 AAGATTG--TATCATATCT
1 AAGATTGCATATCATATCT
4945137 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
4945156 AAGATTGCATATC
1 AAGATTGCATATC
4945169 CTTAAAGATT
Statistics
Matches: 83, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
17 17 0.20
19 49 0.59
20 1 0.01
21 16 0.19
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (19 bp):
AAGATTGCATATCATATCT
Found at i:4945138 original size:36 final size:37
Alignment explanation
Indices: 4945061--4945168 Score: 155
Period size: 36 Copynumber: 2.8 Consensus size: 37
4945051 TTAAATCTCC
* *
4945061 AAGATTACAAATCATATCTTCAAGATTGCATATCATATCT
1 AAGATTGCATATCATATC-T-AAGATTG-ATATCATATCT
4945101 AAGATTGCATATCATATCTAAGATTG-TATCATATCT
1 AAGATTGCATATCATATCTAAGATTGATATCATATCT
4945137 AAGATTGCATATCATATCTAAGATTGCATATC
1 AAGATTGCATATCATATCTAAGATTG-ATATC
4945169 CTTAAAGATT
Statistics
Matches: 64, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
36 36 0.56
38 11 0.17
39 1 0.02
40 16 0.25
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (37 bp):
AAGATTGCATATCATATCTAAGATTGATATCATATCT
Found at i:4945535 original size:28 final size:28
Alignment explanation
Indices: 4945495--4945557 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
4945485 GTTATTATCA
4945495 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * * *
4945523 ACCCCATAAGTTATGAGATTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
4945551 ACCCCAT
1 ACCCCAT
4945558 TAATATGGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:4946572 original size:25 final size:26
Alignment explanation
Indices: 4946540--4946593 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
4946530 TTTTTTTTTT
**
4946540 AAAAAATT-AATAGTTTGGTGACTTA
1 AAAAAATTAAATAGTTCAGTGACTTA
4946565 AAAAAATTAGAATAGTTCAGTGACTTA
1 AAAAAATTA-AATAGTTCAGTGACTTA
4946592 AA
1 AA
4946594 TTAAAACTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.32
27 17 0.68
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.31
Consensus pattern (26 bp):
AAAAAATTAAATAGTTCAGTGACTTA
Found at i:4951270 original size:30 final size:29
Alignment explanation
Indices: 4951227--4951307 Score: 108
Period size: 30 Copynumber: 2.7 Consensus size: 29
4951217 TCGGCTATCA
*
4951227 ACTATCAATTATGAAAAGGGATGGTGACG
1 ACTATCAATTATGAAAAGGGATGATGACG
* **
4951256 ACTATCGATTTATGAAAAAAGATGATGACG
1 ACTATC-AATTATGAAAAGGGATGATGACG
4951286 ACTATCAAATTATGAAAAGGGA
1 ACTATC-AATTATGAAAAGGGA
4951308 AAGCTTCGGC
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 6 0.14
30 37 0.86
ACGTcount: A:0.43, C:0.10, G:0.22, T:0.25
Consensus pattern (29 bp):
ACTATCAATTATGAAAAGGGATGATGACG
Found at i:4951321 original size:30 final size:30
Alignment explanation
Indices: 4951287--4951368 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 30
4951277 ATGATGACGA
4951287 CTATCAAATTATGAAAAGGGA-AAGCTTCGG
1 CTATCAAATTATGAAAAGGGATAA-CTTCGG
* *
4951317 CTATCGAACTATGAAAAGGGATAACTTCGG
1 CTATCAAATTATGAAAAGGGATAACTTCGG
* *
4951347 TTATCAATTTATGAAAAGGGAT
1 CTATCAAATTATGAAAAGGGAT
4951369 GCGCTAACCA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 43 0.96
31 2 0.04
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (30 bp):
CTATCAAATTATGAAAAGGGATAACTTCGG
Found at i:4957676 original size:12 final size:13
Alignment explanation
Indices: 4957661--4957697 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
4957651 AAACAAAAGG
4957661 TTAA-TAAGTAAA
1 TTAATTAAGTAAA
*
4957673 TTAATTAA-TTAA
1 TTAATTAAGTAAA
4957685 TTAATTAAGTAAA
1 TTAATTAAGTAAA
4957698 ACAAAACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (13 bp):
TTAATTAAGTAAA
Found at i:4957837 original size:12 final size:12
Alignment explanation
Indices: 4957804--4957837 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
4957794 TTCCCTGTAA
*
4957804 AATAGTAAAAAT
1 AATAGTAAAGAT
4957816 AATAGTAAAGAT
1 AATAGTAAAGAT
4957828 AATAGTAAAG
1 AATAGTAAAG
4957838 GGGAAGTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.24
Consensus pattern (12 bp):
AATAGTAAAGAT
Found at i:4958736 original size:20 final size:20
Alignment explanation
Indices: 4958711--4958758 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
4958701 TAAATTTTAA
* *
4958711 AAAGATAAATACATTTAATT
1 AAAGATAAATAAATATAATT
*
4958731 AAAGATAATTAAATATAATT
1 AAAGATAAATAAATATAATT
4958751 AAA-ATAAA
1 AAAGATAAA
4958759 ATCCTAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (20 bp):
AAAGATAAATAAATATAATT
Found at i:4958769 original size:19 final size:18
Alignment explanation
Indices: 4958745--4958788 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
4958735 ATAATTAAAT
4958745 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
4958765 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
4958782 ATAATTA
1 ATAATTA
4958789 TCCTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:4958806 original size:15 final size:15
Alignment explanation
Indices: 4958758--4958818 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
4958748 ATTAAAATAA
*
4958758 AATCCTAAAATTTAAAT
1 AATCCTAATA-TT-AAT
4958775 AATCCT-A-A-TAAT
1 AATCCTAATATTAAT
*
4958787 TATCCTAATATTAAT
1 AATCCTAATATTAAT
*
4958802 AATCCTAATATAAAT
1 AATCCTAATATTAAT
4958817 AA
1 AA
4958819 AATGGAGTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
12 8 0.21
13 2 0.05
14 1 0.03
15 20 0.53
16 1 0.03
17 6 0.16
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (15 bp):
AATCCTAATATTAAT
Found at i:4959388 original size:30 final size:29
Alignment explanation
Indices: 4959352--4959559 Score: 168
Period size: 30 Copynumber: 7.0 Consensus size: 29
4959342 AGGGATGGTG
* **
4959352 GCTTCGGCTATCGATCTATGAAAATAGATA
1 GCTTCGGCTATCAAT-TATGAAAAGGGATA
*
4959382 GCTTCGGATATCAATTATGAAAAGGGATA
1 GCTTCGGCTATCAATTATGAAAAGGGATA
* * * *
4959411 G-TGACGACCATCAAATTATGAAAAGGGATG
1 GCT-TCGGCTATC-AATTATGAAAAGGGATA
** * *
4959441 GCTTCGGCTATCATACAATGAAAAGAGATG
1 GCTTCGGCTATCA-ATTATGAAAAGGGATA
* *
4959471 GCTTCGACTATCGATATATGAAAAGGGATA
1 GCTTCGGCTATCAAT-TATGAAAAGGGATA
*
4959501 GCTTCGTCTATCAATTATGAAAAGGGAT-
1 GCTTCGGCTATCAATTATGAAAAGGGATA
* * * *
4959529 GGTGACGACTATCGATTTATGAAAAGGGATA
1 GCT-TCGGCTATC-AATTATGAAAAGGGATA
4959560 CACTAACCAT
Statistics
Matches: 143, Mismatches: 27, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
28 3 0.02
29 40 0.28
30 99 0.69
31 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.26
Consensus pattern (29 bp):
GCTTCGGCTATCAATTATGAAAAGGGATA
Found at i:4959445 original size:59 final size:58
Alignment explanation
Indices: 4959336--4959559 Score: 216
Period size: 59 Copynumber: 3.7 Consensus size: 58
4959326 TCATTGACGA
* * * ** *
4959336 ATGAAAAGGGATGGTGGCTTCGGCTATCGATCTATGAAAATAGATAGCTTCGGATATCAATT
1 ATGAAAAGGGATGGT-G--ACGACTATCAAT-TATGAAAAGGGATAGCTTCGGCTATCAATT
* * * **
4959398 ATGAAAAGGGATAGTGACGACCATCAAATTATGAAAAGGGATGGCTTCGGCTATCATACA
1 ATGAAAAGGGATGGTGACGACTATC-AATTATGAAAAGGGATAGCTTCGGCTATCA-ATT
* * * *
4959458 ATGAAAAGAGATGGCT-TCGACTATCGATATATGAAAAGGGATAGCTTCGTCTATCAATT
1 ATGAAAAGGGATGG-TGACGACTATCAAT-TATGAAAAGGGATAGCTTCGGCTATCAATT
*
4959517 ATGAAAAGGGATGGTGACGACTATCGATTTATGAAAAGGGATA
1 ATGAAAAGGGATGGTGACGACTATC-AATTATGAAAAGGGATA
4959560 CACTAACCAT
Statistics
Matches: 132, Mismatches: 24, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
58 1 0.01
59 67 0.51
60 48 0.36
61 2 0.02
62 14 0.11
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.26
Consensus pattern (58 bp):
ATGAAAAGGGATGGTGACGACTATCAATTATGAAAAGGGATAGCTTCGGCTATCAATT
Found at i:4959551 original size:89 final size:89
Alignment explanation
Indices: 4959336--4959559 Score: 242
Period size: 89 Copynumber: 2.5 Consensus size: 89
4959326 TCATTGACGA
*
4959336 ATGAAAAGGGATGGTGGCTTCGGCTATCGATCTATGAAAATAGATAGCTTCGGATATCAATTATG
1 ATGAAAAGGGATGGT-G--TCGGCTATCGATCTATGAAAAGAGATAGCTTCGGATATCAATTATG
4959401 AAAAGGGATAGTGACGACCATCAAATT
63 AAAAGGGATAGTGACGACCATCAAATT
* * *
4959428 ATGAAAAGGGATGGCT-TCGGCTATC-ATACAATGAAAAGAGATGGCTTC-GACTATCGATATAT
1 ATGAAAAGGGATGG-TGTCGGCTATCGAT-CTATGAAAAGAGATAGCTTCGGA-TATCAAT-TAT
* * *
4959490 GAAAAGGGATAGCT-TCGTCTATC-AATT
62 GAAAAGGGATAG-TGACGACCATCAAATT
* * * *
4959517 ATGAAAAGGGATGGTGACGACTATCGATTTATGAAAAGGGATA
1 ATGAAAAGGGATGGTGTCGGCTATCGATCTATGAAAAGAGATA
4959560 CACTAACCAT
Statistics
Matches: 112, Mismatches: 13, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
88 5 0.04
89 68 0.61
90 23 0.21
91 1 0.01
92 14 0.12
93 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.26
Consensus pattern (89 bp):
ATGAAAAGGGATGGTGTCGGCTATCGATCTATGAAAAGAGATAGCTTCGGATATCAATTATGAAA
AGGGATAGTGACGACCATCAAATT
Found at i:4959695 original size:2 final size:2
Alignment explanation
Indices: 4959690--4959719 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4959680 ACACACACAC
4959690 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4959720 GATTTTTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4962956 original size:26 final size:26
Alignment explanation
Indices: 4962920--4963029 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
4962910 CATGAAATTT
4962920 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
4962946 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
4962972 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
4962998 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
4963024 TTATCA
1 TTATCA
4963030 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:4968439 original size:25 final size:26
Alignment explanation
Indices: 4968402--4968453 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
4968392 TCAAACATGC
4968402 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
4968428 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
4968453 A
1 A
4968454 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:4969968 original size:26 final size:26
Alignment explanation
Indices: 4969932--4970041 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
4969922 CATGAAATTC
4969932 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
4969958 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
4969984 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
4970010 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
4970036 TTATCA
1 TTATCA
4970042 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:4971711 original size:26 final size:25
Alignment explanation
Indices: 4971682--4971738 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 25
4971672 GTAATTTTTC
*
4971682 CCAAATTTTATACGTTT-TTTTACAGT
1 CCAAATTGTATAC-TTTATTTTACA-T
4971708 CCAAA-TGTATACTTTATTTTACAT
1 CCAAATTGTATACTTTATTTTACAT
4971732 CCTAAAT
1 CC-AAAT
4971739 GTACACTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 6 0.22
25 16 0.59
26 5 0.19
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.46
Consensus pattern (25 bp):
CCAAATTGTATACTTTATTTTACAT
Found at i:4971727 original size:25 final size:25
Alignment explanation
Indices: 4971690--4971741 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
4971680 TCCCAAATTT
4971690 TATACGTTTTTTTACAGTCC-AAATG
1 TATACGTTTTTTTACA-TCCTAAATG
4971715 TATAC-TTTATTTTACATCCTAAATG
1 TATACGTTT-TTTTACATCCTAAATG
4971740 TA
1 TA
4971742 CACTAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (25 bp):
TATACGTTTTTTTACATCCTAAATG
Found at i:4974355 original size:22 final size:22
Alignment explanation
Indices: 4974327--4974370 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4974317 GTGTCGTAGG
*
4974327 ACCAATGACCAAATACGTCTTA
1 ACCAATGACCAAAAACGTCTTA
*
4974349 ACCAATGATCAAAAACGTCTTA
1 ACCAATGACCAAAAACGTCTTA
4974371 CTATCCTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.25, G:0.09, T:0.23
Consensus pattern (22 bp):
ACCAATGACCAAAAACGTCTTA
Found at i:4979693 original size:13 final size:13
Alignment explanation
Indices: 4979675--4979699 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4979665 ATGAAGTGTT
4979675 GAAGATCAAGCTA
1 GAAGATCAAGCTA
4979688 GAAGATCAAGCT
1 GAAGATCAAGCT
4979700 GCTATAATAT
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:0.44, C:0.16, G:0.24, T:0.16
Consensus pattern (13 bp):
GAAGATCAAGCTA
Found at i:4979748 original size:49 final size:49
Alignment explanation
Indices: 4979689--4979782 Score: 125
Period size: 49 Copynumber: 1.9 Consensus size: 49
4979679 ATCAAGCTAG
* * *
4979689 AAGATCAAGCTGCTATAATATTTCTGGATGAAGTACATGCAGCTGTAAA
1 AAGATCAAGCTACTACAATATTTCTGAATGAAGTACATGCAGCTGTAAA
* * **
4979738 AAGATTAAGCTACTGCAATATTTCTGAATGAAGTGTATGCAGCTG
1 AAGATCAAGCTACTACAATATTTCTGAATGAAGTACATGCAGCTG
4979783 CTGAAGTTGA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
49 38 1.00
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (49 bp):
AAGATCAAGCTACTACAATATTTCTGAATGAAGTACATGCAGCTGTAAA
Found at i:4985167 original size:43 final size:43
Alignment explanation
Indices: 4985118--4985203 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
4985108 TTCCACAACT
*
4985118 TATAAAAGTTTCTTTTTTGGCCTTGGAAATATCATAGTTTGAC
1 TATAAAAGTTTCTTTTTTGGCCTTGGAAATATAATAGTTTGAC
4985161 TATAAAAGTTTCTTTTTTGGCCTTGGAAATATAATAGTTTGAC
1 TATAAAAGTTTCTTTTTTGGCCTTGGAAATATAATAGTTTGAC
4985204 CTGCATGTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.44
Consensus pattern (43 bp):
TATAAAAGTTTCTTTTTTGGCCTTGGAAATATAATAGTTTGAC
Found at i:4992814 original size:18 final size:18
Alignment explanation
Indices: 4992771--4992820 Score: 75
Period size: 17 Copynumber: 2.8 Consensus size: 18
4992761 TGATGAGCGA
*
4992771 TGTAAGTCCTAGGATCGC
1 TGTAAGTCCAAGGATCGC
*
4992789 TG-AAGTCCAAGGATTGC
1 TGTAAGTCCAAGGATCGC
4992806 TGTAAGTCCAAGGAT
1 TGTAAGTCCAAGGAT
4992821 ATCTATAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 15 0.52
18 14 0.48
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (18 bp):
TGTAAGTCCAAGGATCGC
Found at i:4994253 original size:12 final size:12
Alignment explanation
Indices: 4994236--4994260 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4994226 TTGTGTGTTC
4994236 TTTATTTTATTT
1 TTTATTTTATTT
4994248 TTTATTTTATTT
1 TTTATTTTATTT
4994260 T
1 T
4994261 ATTTTTACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:4998682 original size:5 final size:5
Alignment explanation
Indices: 4998672--4998708 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
4998662 TTGTGTGTTC
4998672 TTTAT TTTAT TTTA- TTT-T TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
4998709 ACAAAGTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 6 0.20
5 24 0.80
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:4998694 original size:13 final size:13
Alignment explanation
Indices: 4998676--4998702 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4998666 GTGTTCTTTA
4998676 TTTTATTTTATTT
1 TTTTATTTTATTT
4998689 TTTTATTTTATTT
1 TTTTATTTTATTT
4998702 T
1 T
4998703 ATTTTAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTATTTTATTT
Found at i:4998695 original size:18 final size:18
Alignment explanation
Indices: 4998672--4998707 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4998662 TTGTGTGTTC
4998672 TTTATTTTATTTTATTTT
1 TTTATTTTATTTTATTTT
4998690 TTTATTTTATTTTATTTT
1 TTTATTTTATTTTATTTT
4998708 AACAAAGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTATTTTATTTTATTTT
Found at i:5002431 original size:40 final size:40
Alignment explanation
Indices: 5002380--5002515 Score: 134
Period size: 40 Copynumber: 3.4 Consensus size: 40
5002370 ACTATATTTT
* * * * *
5002380 GCACTTTGTGTGCGTTTCGAGGTAGCTTTGGCTATATAAA
1 GCACTTAGTGTGCGATTCGAGATAGCTTCGGCTATATAAG
* * *
5002420 GCACTTAGTGTGCGAATC-AGAATAGCTTCAGCTATATATG
1 GCACTTAGTGTGCGATTCGAG-ATAGCTTCGGCTATATAAG
*
5002460 GCACTTAGTGTGCTAGGTT-GAGATAGCTTCGGCTATGA-AAG
1 GCACTTAGTGTGC--GATTCGAGATAGCTTCGGCTAT-ATAAG
5002501 GCACTTAGTGTGCGA
1 GCACTTAGTGTGCGA
5002516 GTTTATAATA
Statistics
Matches: 78, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
39 3 0.04
40 42 0.54
41 28 0.36
42 5 0.06
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (40 bp):
GCACTTAGTGTGCGATTCGAGATAGCTTCGGCTATATAAG
Found at i:5002527 original size:41 final size:40
Alignment explanation
Indices: 5002402--5002535 Score: 128
Period size: 41 Copynumber: 3.3 Consensus size: 40
5002392 CGTTTCGAGG
* * *
5002402 TAGCTTTGGCTATATAAAGCACTTAGTGTGCGA-ATCAGAA
1 TAGCTTCGGCTATATAAGGCACTTAGTGTGCGAGTTCA-AA
* * * * *
5002442 TAGCTTCAGCTATATATGGCACTTAGTGTGCTAGGTTGAGA
1 TAGCTTCGGCTATATAAGGCACTTAGTGTGCGA-GTTCAAA
*
5002483 TAGCTTCGGCTATGA-AAGGCACTTAGTGTGCGAGTTTATAA
1 TAGCTTCGGCTAT-ATAAGGCACTTAGTGTGCGAGTTCA-AA
*
5002524 TAGCATCGGCTA
1 TAGCTTCGGCTA
5002536 AGCTTTAGCA
Statistics
Matches: 76, Mismatches: 14, Indels: 7
0.78 0.14 0.07
Matches are distributed among these distances:
40 32 0.42
41 41 0.54
42 3 0.04
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (40 bp):
TAGCTTCGGCTATATAAGGCACTTAGTGTGCGAGTTCAAA
Found at i:5004801 original size:48 final size:48
Alignment explanation
Indices: 5004724--5004910 Score: 232
Period size: 48 Copynumber: 3.9 Consensus size: 48
5004714 GGGAGTTTCA
* * * * * **
5004724 CACCCTAAGTGCCT-ATATCATGGCTCGAAGCCAAATCAATGTAACTCG
1 CACCCGAAGTG-CTAATATCATAGCCCAAAGCCAAATCAATATAGTTCG
* *
5004772 CACTCGAAGTGCTAATATCATAGCCCGAAGCCAAATCAATATAGTTCG
1 CACCCGAAGTGCTAATATCATAGCCCAAAGCCAAATCAATATAGTTCG
* * * * *
5004820 TACCCGAAGTGCTAATATTATGGCTCAAAGCCAAATCGATATAGTTCG
1 CACCCGAAGTGCTAATATCATAGCCCAAAGCCAAATCAATATAGTTCG
5004868 CACCCGAAGTGCTAATATCATAGCCCAAAGCCAAATCAATATA
1 CACCCGAAGTGCTAATATCATAGCCCAAAGCCAAATCAATATA
5004911 TCTTCTAATG
Statistics
Matches: 119, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
47 2 0.02
48 117 0.98
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (48 bp):
CACCCGAAGTGCTAATATCATAGCCCAAAGCCAAATCAATATAGTTCG
Found at i:5004899 original size:96 final size:96
Alignment explanation
Indices: 5004725--5004910 Score: 275
Period size: 96 Copynumber: 1.9 Consensus size: 96
5004715 GGAGTTTCAC
* * * *
5004725 ACCCTAAGTGCCTATATCATGGCTCGAAGCCAAATCAATGTAACTCGCACTCGAAGTGCTAATAT
1 ACCCGAAGTGCCTATATCATGGCTCAAAGCCAAATCAATATAACTCGCACCCGAAGTGCTAATAT
*
5004790 CATAGCCCGAAGCCAAATCAATATAGTTCGT
66 CATAGCCCAAAGCCAAATCAATATAGTTCGT
* * **
5004821 ACCCGAAGTG-CTAATATTATGGCTCAAAGCCAAATCGATATAGTTCGCACCCGAAGTGCTAATA
1 ACCCGAAGTGCCT-ATATCATGGCTCAAAGCCAAATCAATATAACTCGCACCCGAAGTGCTAATA
5004885 TCATAGCCCAAAGCCAAATCAATATA
65 TCATAGCCCAAAGCCAAATCAATATA
5004911 TCTTCTAATG
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
95 2 0.03
96 78 0.98
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.23
Consensus pattern (96 bp):
ACCCGAAGTGCCTATATCATGGCTCAAAGCCAAATCAATATAACTCGCACCCGAAGTGCTAATAT
CATAGCCCAAAGCCAAATCAATATAGTTCGT
Found at i:5007433 original size:8 final size:9
Alignment explanation
Indices: 5007410--5007436 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
5007400 TTACTTGACT
5007410 TTAAAAATA
1 TTAAAAATA
5007419 TTAAAAATA
1 TTAAAAATA
5007428 TTAAAAATA
1 TTAAAAATA
5007437 AGTAGCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
TTAAAAATA
Found at i:5007744 original size:16 final size:17
Alignment explanation
Indices: 5007706--5007747 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
5007696 TAAAAATAAA
5007706 ATATAA-AAATTTGATT
1 ATATAATAAATTTGATT
*
5007722 TTATAATAAATTTGATT
1 ATATAATAAATTTGATT
5007739 AT-TAATAAA
1 ATATAATAAA
5007748 ATGTCAGTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (17 bp):
ATATAATAAATTTGATT
Found at i:5007746 original size:19 final size:16
Alignment explanation
Indices: 5007707--5007748 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 16
5007697 AAAAATAAAA
5007707 TATAAAAATTTGATTT
1 TATAAAAATTTGATTT
5007723 TATAATAAATTTGATTAT
1 TATAA-AAATTTGATT-T
5007741 TAATAAAA
1 T-ATAAAA
5007749 TGTCAGTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 5 0.22
17 10 0.43
18 4 0.17
19 4 0.17
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (16 bp):
TATAAAAATTTGATTT
Found at i:5009520 original size:11 final size:12
Alignment explanation
Indices: 5009504--5009535 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
5009494 ACTAGGCGAT
5009504 AATTTTTTTAA-
1 AATTTTTTTAAG
5009515 AA-TTTTTTAAG
1 AATTTTTTTAAG
5009526 AATTTTTTTA
1 AATTTTTTTA
5009536 GATTTGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 8 0.42
11 4 0.21
12 7 0.37
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (12 bp):
AATTTTTTTAAG
Found at i:5010493 original size:7 final size:7
Alignment explanation
Indices: 5010481--5010506 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
5010471 TTATATACAT
5010481 GAAATGG
1 GAAATGG
5010488 GAAATGG
1 GAAATGG
5010495 GAAATGG
1 GAAATGG
5010502 GAAAT
1 GAAAT
5010507 AGATGTGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.38, T:0.15
Consensus pattern (7 bp):
GAAATGG
Found at i:5016036 original size:6 final size:6
Alignment explanation
Indices: 5016027--5016066 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
5016017 CGGAGGCGAT
5016027 GGTTGC GGTTGC GGTTGC GGTTGC GGTTGC GGTTGC GGTT
1 GGTTGC GGTTGC GGTTGC GGTTGC GGTTGC GGTTGC GGTT
5016067 ATCGACGGCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.00, C:0.15, G:0.50, T:0.35
Consensus pattern (6 bp):
GGTTGC
Found at i:5017042 original size:15 final size:15
Alignment explanation
Indices: 5017022--5017064 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
5017012 AATCATTTTT
*
5017022 TAATAATAATAATTA
1 TAATAATTATAATTA
*
5017037 TAATAATTATAACTA
1 TAATAATTATAATTA
5017052 TAATAATTATAAT
1 TAATAATTATAAT
5017065 CAATTTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
TAATAATTATAATTA
Found at i:5027817 original size:22 final size:23
Alignment explanation
Indices: 5027787--5027834 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
5027777 ATATCAAAAT
5027787 CATCAACTA-AACATCCAACTATA
1 CATCAACTATAA-ATCCAACTATA
* *
5027810 CATC-ACTATAAGTCCATCTATA
1 CATCAACTATAAATCCAACTATA
5027832 CAT
1 CAT
5027835 GCCATTGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.42, C:0.29, G:0.02, T:0.27
Consensus pattern (23 bp):
CATCAACTATAAATCCAACTATA
Found at i:5029660 original size:30 final size:30
Alignment explanation
Indices: 5029626--5029683 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
5029616 CACAGACTGG
5029626 CACATGGGCGTGTGGCCAGCCCGTGTGGCT
1 CACATGGGCGTGTGGCCAGCCCGTGTGGCT
** *
5029656 CACATGGGTTTGTGGCCAGCTCGTGTGG
1 CACATGGGCGTGTGGCCAGCCCGTGTGG
5029684 ATACTGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.10, C:0.26, G:0.40, T:0.24
Consensus pattern (30 bp):
CACATGGGCGTGTGGCCAGCCCGTGTGGCT
Found at i:5031715 original size:23 final size:22
Alignment explanation
Indices: 5031656--5031739 Score: 71
Period size: 23 Copynumber: 3.7 Consensus size: 22
5031646 TTTAAAATAT
* * *
5031656 AAATATAAGAATAATAAATAAA
1 AAATAAAAAAATAAAAAATAAA
**
5031678 AAATTAGTAAAATAAAAAATAAA
1 AAA-TAAAAAAATAAAAAATAAA
*
5031701 AAATAAAAAATATAACAAAT-AA
1 AAATAAAAAA-ATAAAAAATAAA
*
5031723 TAATAAATAAAATAAAA
1 AAATAAA-AAAATAAAA
5031740 TAAAAATGGG
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
22 21 0.42
23 29 0.58
ACGTcount: A:0.75, C:0.01, G:0.02, T:0.21
Consensus pattern (22 bp):
AAATAAAAAAATAAAAAATAAA
Found at i:5031735 original size:15 final size:14
Alignment explanation
Indices: 5031649--5031743 Score: 81
Period size: 14 Copynumber: 6.8 Consensus size: 14
5031639 TAATTAATTT
5031649 AAAAT-ATAAATATA
1 AAAATAATAAATA-A
*
5031663 AGAATAATAAATAA
1 AAAATAATAAATAA
*
5031677 AAAATTAGTAAAATAA
1 AAAA-TAAT-AAATAA
*
5031693 AAAATAAAAAATAA
1 AAAATAATAAATAA
*
5031707 AAAAT-AT-AACAA
1 AAAATAATAAATAA
*
5031719 ATAATAATAAATAA
1 AAAATAATAAATAA
5031733 AATAA-AATAAA
1 AA-AATAATAAA
5031744 AATGGGGTGA
Statistics
Matches: 65, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
12 8 0.12
13 3 0.05
14 30 0.46
15 14 0.22
16 10 0.15
ACGTcount: A:0.75, C:0.01, G:0.02, T:0.22
Consensus pattern (14 bp):
AAAATAATAAATAA
Found at i:5038091 original size:34 final size:34
Alignment explanation
Indices: 5038024--5038091 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
5038014 GCCAGACGGC
* **
5038024 CGTGTGACTTCTGTTTTTTGTTTTTATTGTACTT
1 CGTGTGACTTCTATTTTTTGTTTTTATCATACTT
5038058 CGTGTGACTTCTATTTTTTGTTTTTATCATACTT
1 CGTGTGACTTCTATTTTTTGTTTTTATCATACTT
5038092 TTATGTTATG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.12, C:0.13, G:0.15, T:0.60
Consensus pattern (34 bp):
CGTGTGACTTCTATTTTTTGTTTTTATCATACTT
Found at i:5042297 original size:7 final size:7
Alignment explanation
Indices: 5042285--5042354 Score: 61
Period size: 7 Copynumber: 10.0 Consensus size: 7
5042275 ATTAAAAAAT
5042285 AATTGAG
1 AATTGAG
5042292 AATTGAG
1 AATTGAG
*
5042299 AATTAAG
1 AATTGAG
5042306 AATTGA-
1 AATTGAG
5042312 AGATTGAG
1 A-ATTGAG
*
5042320 GATTGAG
1 AATTGAG
*
5042327 GATTGAG
1 AATTGAG
*
5042334 GATTGAG
1 AATTGAG
* *
5042341 GATTTAG
1 AATTGAG
*
5042348 GATTGAG
1 AATTGAG
5042355 TTAAAAAGAA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
6 1 0.02
7 55 0.98
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.30
Consensus pattern (7 bp):
AATTGAG
Found at i:5042309 original size:21 final size:21
Alignment explanation
Indices: 5042285--5042354 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
5042275 ATTAAAAAAT
*
5042285 AATTGAGAATTGAGAATTAAG
1 AATTGAGAATTGAGGATTAAG
*
5042306 AATTGA-AGATTGAGGATTGAG
1 AATTGAGA-ATTGAGGATTAAG
* * *
5042327 GATTGAGGATTGAGGATTTAG
1 AATTGAGAATTGAGGATTAAG
*
5042348 GATTGAG
1 AATTGAG
5042355 TTAAAAAGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 1 0.02
21 41 0.98
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.30
Consensus pattern (21 bp):
AATTGAGAATTGAGGATTAAG
Found at i:5042324 original size:14 final size:14
Alignment explanation
Indices: 5042286--5042354 Score: 84
Period size: 14 Copynumber: 4.9 Consensus size: 14
5042276 TTAAAAAATA
* *
5042286 ATTGAGAATTGAGA
1 ATTGAGGATTGAGG
* * *
5042300 ATTAAGAATTGAAG
1 ATTGAGGATTGAGG
5042314 ATTGAGGATTGAGG
1 ATTGAGGATTGAGG
5042328 ATTGAGGATTGAGG
1 ATTGAGGATTGAGG
*
5042342 ATTTAGGATTGAG
1 ATTGAGGATTGAG
5042355 TTAAAAAGAA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 48 1.00
ACGTcount: A:0.36, C:0.00, G:0.33, T:0.30
Consensus pattern (14 bp):
ATTGAGGATTGAGG
Found at i:5044858 original size:2 final size:2
Alignment explanation
Indices: 5044851--5044908 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
5044841 TCATTACAAG
5044851 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5044893 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
5044909 ATGTTCAATG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5056537 original size:20 final size:20
Alignment explanation
Indices: 5056509--5056598 Score: 67
Period size: 20 Copynumber: 4.5 Consensus size: 20
5056499 TTTTAAAATC
*
5056509 AAGTGAAAATGATTTTAACA
1 AAGTCAAAATGATTTTAACA
* ***
5056529 AAGTCAAAATGATCTTAGTT
1 AAGTCAAAATGATTTTAACA
* * *
5056549 AAGTTAAAATCATTTTAATA
1 AAGTCAAAATGATTTTAACA
*
5056569 CA-TCAAAATGATTTTCGAAC-
1 AAGTCAAAATGATTTT--AACA
5056589 AAGTCAAAAT
1 AAGTCAAAAT
5056599 TGCTCCAGGC
Statistics
Matches: 52, Mismatches: 15, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
19 11 0.21
20 32 0.62
21 9 0.17
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.32
Consensus pattern (20 bp):
AAGTCAAAATGATTTTAACA
Found at i:5066453 original size:17 final size:17
Alignment explanation
Indices: 5066422--5066459 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
5066412 TAATTTTCAG
*
5066422 AAAATAATCAATTAATA
1 AAAATAATCAATTAACA
5066439 AAAATAA-CAATTTAACA
1 AAAATAATCAA-TTAACA
5066456 AAAA
1 AAAA
5066460 AAGCATACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAATAATCAATTAACA
Found at i:5068381 original size:6 final size:5
Alignment explanation
Indices: 5068360--5068394 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
5068350 TGAAAATGTG
5068360 AAAAT AAAAT AAAAT AAAAAT AAAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT AAA
5068395 GAACACACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 18 0.62
6 11 0.38
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:5068381 original size:11 final size:11
Alignment explanation
Indices: 5068360--5068394 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
5068350 TGAAAATGTG
5068360 AAAATAAAAT-
1 AAAATAAAATA
5068370 AAAATAAAAATA
1 AAAAT-AAAATA
5068382 AAAATAAAATA
1 AAAATAAAATA
5068393 AA
1 AA
5068395 GAACACACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.22
11 13 0.57
12 5 0.22
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:5072843 original size:18 final size:17
Alignment explanation
Indices: 5072815--5072850 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
5072805 CCAATTTGTG
5072815 AAAATAAAATAAAATAA
1 AAAATAAAATAAAATAA
5072832 AAAATAAAAATAAAATAA
1 AAAAT-AAAATAAAATAA
5072850 A
1 A
5072851 GAACACACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (17 bp):
AAAATAAAATAAAATAA
Found at i:5074034 original size:16 final size:16
Alignment explanation
Indices: 5074013--5074043 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5074003 TTTGAAAAGT
5074013 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
5074029 TTTCAAATTTATATG
1 TTTCAAATATATATG
5074044 CTCTAATATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Done.