Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 82 of 82
Found at i:31810919 original size:6 final size:6
Alignment explanation
Indices: 31810908--31810952 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
31810898 TTAATTTAAG
* * *
31810908 TGGGTT TGGGTT TGGGAT TGGGAT TGGGAT TGGGAT TGGGTT TGG
1 TGGGAT TGGGAT TGGGAT TGGGAT TGGGAT TGGGAT TGGGAT TGG
31810953 AAGAAGTGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.09, C:0.00, G:0.51, T:0.40
Consensus pattern (6 bp):
TGGGAT
Found at i:31810934 original size:18 final size:18
Alignment explanation
Indices: 31810908--31810952 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
31810898 TTAATTTAAG
*
31810908 TGGGTTTGGGTTTGGGAT
1 TGGGTTTGGGATTGGGAT
*
31810926 TGGGATTGGGATTGGGAT
1 TGGGTTTGGGATTGGGAT
31810944 TGGGTTTGG
1 TGGGTTTGG
31810953 AAGAAGTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.09, C:0.00, G:0.51, T:0.40
Consensus pattern (18 bp):
TGGGTTTGGGATTGGGAT
Found at i:31822251 original size:45 final size:45
Alignment explanation
Indices: 31822187--31822276 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
31822177 CTCTTCAGCT
*
31822187 TTGCTTTTGGCCGTATCATACCCTTCTTTAGCTTTCTCCTTGGCC
1 TTGCTTTTGGCCGCATCATACCCTTCTTTAGCTTTCTCCTTGGCC
* *
31822232 TTGCTTTTGGCGGCATCATAGCCTTCTTTAGCTTTCTCCTTGGCC
1 TTGCTTTTGGCCGCATCATACCCTTCTTTAGCTTTCTCCTTGGCC
31822277 CAGCTCAGGT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.09, C:0.30, G:0.18, T:0.43
Consensus pattern (45 bp):
TTGCTTTTGGCCGCATCATACCCTTCTTTAGCTTTCTCCTTGGCC
Found at i:31851934 original size:2 final size:2
Alignment explanation
Indices: 31851927--31851952 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
31851917 TTATTGAATT
31851927 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
31851953 ATACAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:31859940 original size:10 final size:10
Alignment explanation
Indices: 31859925--31859950 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
31859915 ATACATATAC
31859925 ATATATGTAT
1 ATATATGTAT
31859935 ATATATGTAT
1 ATATATGTAT
31859945 ATATAT
1 ATATAT
31859951 ATAAACTCAA
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:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (10 bp):
ATATATGTAT
Found at i:31861892 original size:26 final size:26
Alignment explanation
Indices: 31861863--31861914 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
31861853 AAGGCAAAAG
31861863 CCGCTGCTGCTAGTCATAGGCAGGCA
1 CCGCTGCTGCTAGTCATAGGCAGGCA
31861889 CCGCTGCTGCTAGTCATAGGCAGGCA
1 CCGCTGCTGCTAGTCATAGGCAGGCA
31861915 GGCAGACCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.31, G:0.31, T:0.19
Consensus pattern (26 bp):
CCGCTGCTGCTAGTCATAGGCAGGCA
Found at i:31868163 original size:24 final size:24
Alignment explanation
Indices: 31868135--31868184 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
31868125 GCATGCCACA
31868135 GAATGTTTGTTCTGTTTGGGATAG
1 GAATGTTTGTTCTGTTTGGGATAG
31868159 GAATGTTTGTTCTGTTTGGGATAG
1 GAATGTTTGTTCTGTTTGGGATAG
31868183 GA
1 GA
31868185 CTTAGTGGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.18, C:0.04, G:0.34, T:0.44
Consensus pattern (24 bp):
GAATGTTTGTTCTGTTTGGGATAG
Found at i:31870733 original size:8 final size:7
Alignment explanation
Indices: 31870711--31870745 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
31870701 ATATTAATAN
*
31870711 AAATATA
1 AAATAAA
*
31870718 AATTAAA
1 AAATAAA
31870725 AAATAAA
1 AAATAAA
31870732 AAATAAA
1 AAATAAA
31870739 AAATAAA
1 AAATAAA
31870746 CAATTATACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (7 bp):
AAATAAA
Found at i:31871128 original size:24 final size:25
Alignment explanation
Indices: 31871078--31871129 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
31871068 TATATTATCA
*
31871078 AAATATTAATATTTTAAATAAATAT
1 AAATATTAATATTTTAAATAAAAAT
31871103 AAAT-TTAATATTTTAAA-AATAAAT
1 AAATATTAATATTTTAAATAA-AAAT
31871127 AAA
1 AAA
31871130 ATAAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 2 0.08
24 19 0.76
25 4 0.16
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
AAATATTAATATTTTAAATAAAAAT
Found at i:31871138 original size:26 final size:24
Alignment explanation
Indices: 31871085--31871135 Score: 59
Period size: 26 Copynumber: 2.1 Consensus size: 24
31871075 TCAAAATATT
**
31871085 AATATTTTAAATAAATATAAATTT
1 AATATTTTAAATAAATATAAATAA
31871109 AATATTTTAAAAATAAATA-AAATAA
1 AATATTTT--AAATAAATATAAATAA
31871134 AA
1 AA
31871136 ATAAATAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 8 0.35
25 6 0.26
26 9 0.39
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
AATATTTTAAATAAATATAAATAA
Found at i:31871186 original size:20 final size:20
Alignment explanation
Indices: 31871155--31871230 Score: 77
Period size: 20 Copynumber: 3.8 Consensus size: 20
31871145 CATAATACAT
31871155 TTAA-ATTATAAATTAATATA
1 TTAATATTATAAA-TAATATA
*
31871175 TTAATATT-TAAATATTAATA
1 TTAATATTATAAATAAT-ATA
*
31871195 TTAA-ATTATAAATAAAATA
1 TTAATATTATAAATAATATA
*
31871214 TTTAATATTAAAAATAA
1 -TTAATATTATAAATAA
31871231 AAAAATAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
19 9 0.19
20 25 0.53
21 13 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TTAATATTATAAATAATATA
Found at i:31871191 original size:14 final size:13
Alignment explanation
Indices: 31871166--31871225 Score: 61
Period size: 14 Copynumber: 4.5 Consensus size: 13
31871156 TAAATTATAA
31871166 ATTAATATATTAAT
1 ATTAA-ATATTAAT
31871180 ATTTAAATATTAAT
1 A-TTAAATATTAAT
31871194 ATTAAAT-TATAA-
1 ATTAAATAT-TAAT
*
31871206 ATAAAATATTTAAT
1 ATTAAATA-TTAAT
31871220 ATTAAA
1 ATTAAA
31871226 AATAAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
12 7 0.18
13 12 0.31
14 16 0.41
15 4 0.10
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTAAATATTAAT
Found at i:31871241 original size:20 final size:20
Alignment explanation
Indices: 31871216--31871254 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
31871206 ATAAAATATT
31871216 TAATATTAAA-AATAAAAAAA
1 TAATA-TAAATAATAAAAAAA
31871236 TAATATAAATAATAAAAAA
1 TAATATAAATAATAAAAAA
31871255 TATTTTTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (20 bp):
TAATATAAATAATAAAAAAA
Found at i:31871246 original size:26 final size:27
Alignment explanation
Indices: 31871185--31871253 Score: 81
Period size: 26 Copynumber: 2.6 Consensus size: 27
31871175 TTAATATTTA
*
31871185 AATATTAATATTAAATTATAAATAAAAT
1 AATATTAATATTAAA-AATAAATAAAAT
31871213 -AT-TTAATATTAAAAATAAA-AAAAT
1 AATATTAATATTAAAAATAAATAAAAT
* *
31871237 AATATAAATAATAAAAA
1 AATATTAATATTAAAAA
31871254 ATATTTTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
24 5 0.14
25 7 0.19
26 22 0.61
27 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (27 bp):
AATATTAATATTAAAAATAAATAAAAT
Found at i:31879749 original size:12 final size:12
Alignment explanation
Indices: 31879734--31879768 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
31879724 ATAATTTTTT
*
31879734 TATTTAATCGGG
1 TATTTAAACGGG
31879746 TATTTAAACGGG
1 TATTTAAACGGG
31879758 TATTTAAACGG
1 TATTTAAACGG
31879769 ATTAGGGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.31, C:0.09, G:0.23, T:0.37
Consensus pattern (12 bp):
TATTTAAACGGG
Found at i:31879991 original size:2 final size:2
Alignment explanation
Indices: 31879984--31880019 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
31879974 TGATGTTAAA
31879984 AT AT AT 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 AT AT AT
31880020 NNNNNNNNNN
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31880952 original size:108 final size:108
Alignment explanation
Indices: 31880830--31881039 Score: 348
Period size: 108 Copynumber: 1.9 Consensus size: 108
31880820 TATAAGAAAT
* * *
31880830 TTTGAGTAAATTTAAAAAAAAGGTAAATTGGGTAAGAGTTGAATAATTGCAAAAGAATATGTATT
1 TTTGAGTAAATTTAAAAAAAAGGTAAATTAGGTAAGAGTTGAATAATTGCAAAAGAATATATACT
* *
31880895 TGTAAATTGTGAAAGTTGTAATTAAATCAACATATTTTGTTAA
66 TGTAAATTGTGAAAGTTATAACTAAATCAACATATTTTGTTAA
* * *
31880938 TTTGAGTAAATTTAAATAAAAGGTAAATTAGGTAAGAGTTGAATAATTTCAAAAGAATGTATACT
1 TTTGAGTAAATTTAAAAAAAAGGTAAATTAGGTAAGAGTTGAATAATTGCAAAAGAATATATACT
31881003 TGTAAATTGTGAAAGTTATAACTAAATCAACATATTT
66 TGTAAATTGTGAAAGTTATAACTAAATCAACATATTT
31881040 AGTCATTTTA
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
108 94 1.00
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (108 bp):
TTTGAGTAAATTTAAAAAAAAGGTAAATTAGGTAAGAGTTGAATAATTGCAAAAGAATATATACT
TGTAAATTGTGAAAGTTATAACTAAATCAACATATTTTGTTAA
Found at i:31887140 original size:14 final size:13
Alignment explanation
Indices: 31887123--31887178 Score: 55
Period size: 14 Copynumber: 4.4 Consensus size: 13
31887113 TTATATATTT
31887123 TTTTTATTATACTA
1 TTTTTATTATA-TA
*
31887137 TTTTTATTTTATA
1 TTTTTATTATATA
*
31887150 -TATT-TT-TATA
1 TTTTTATTATATA
31887160 TTTTTATTATTATA
1 TTTTTATTA-TATA
31887174 TTTTT
1 TTTTT
31887179 TCATAAGCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 4 0.11
11 5 0.14
12 5 0.14
13 2 0.06
14 19 0.54
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTTATTATATA
Found at i:31887153 original size:23 final size:23
Alignment explanation
Indices: 31887129--31887174 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
31887119 ATTTTTTTTA
31887129 TTATACTATTTTTATTTTATATAT
1 TTATA-TATTTTTATTTTATATAT
*
31887153 TTTTATATTTTTATTATTATAT
1 TTATATATTTTTATT-TTATAT
31887175 TTTTTCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (23 bp):
TTATATATTTTTATTTTATATAT
Found at i:31887170 original size:17 final size:15
Alignment explanation
Indices: 31887110--31887158 Score: 71
Period size: 15 Copynumber: 3.1 Consensus size: 15
31887100 GTGAACAAAA
31887110 ATTTTATATATTTTT
1 ATTTTATATATTTTT
*
31887125 TTTATTATACTATTTTT
1 ATT-TTATA-TATTTTT
31887142 ATTTTATATATTTTT
1 ATTTTATATATTTTT
31887157 AT
1 AT
31887159 ATTTTTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 11 0.37
16 10 0.33
17 9 0.30
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (15 bp):
ATTTTATATATTTTT
Found at i:31887178 original size:23 final size:23
Alignment explanation
Indices: 31887135--31887179 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
31887125 TTTATTATAC
31887135 TATTTTTATTTTATATATTTTTA
1 TATTTTTATTTTATATATTTTTA
31887158 TATTTTTATTATTATAT-TTTTT
1 TATTTTTATT-TTATATATTTTT
31887180 CATAAGCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (23 bp):
TATTTTTATTTTATATATTTTTA
Found at i:31887425 original size:11 final size:10
Alignment explanation
Indices: 31887391--31887434 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
31887381 TATGTTTGAA
31887391 TTATTATTAT
1 TTATTATTAT
* *
31887401 TTTTTATCAT
1 TTATTATTAT
31887411 TTATTATTTAT
1 TTATTA-TTAT
31887422 TTATTATT-T
1 TTATTATTAT
31887431 TTAT
1 TTAT
31887435 CAAGTAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 5 0.17
10 15 0.52
11 9 0.31
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (10 bp):
TTATTATTAT
Found at i:31887720 original size:17 final size:16
Alignment explanation
Indices: 31887698--31887739 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
31887688 CAATTACATA
31887698 TTTTA-TTCTACTATATT
1 TTTTATTTCTA-T-TATT
31887715 TTTTATTTCTATTATT
1 TTTTATTTCTATTATT
31887731 TTATTATTT
1 TT-TTATTT
31887740 TTTCTTATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 6 0.26
17 12 0.52
18 5 0.22
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTATTTCTATTATT
Found at i:31887748 original size:21 final size:21
Alignment explanation
Indices: 31887711--31887753 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
31887701 TATTCTACTA
*
31887711 TATTTTTTATTTCTATTATTT
1 TATTATTTATTTCTATTATTT
*
31887732 TATTATTT-TTTCTTATTCTTT
1 TATTATTTATTTC-TATTATTT
31887753 T
1 T
31887754 CCATGTACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (21 bp):
TATTATTTATTTCTATTATTT
Found at i:31889063 original size:72 final size:72
Alignment explanation
Indices: 31888973--31889111 Score: 190
Period size: 72 Copynumber: 1.9 Consensus size: 72
31888963 TTTGCAAGGT
* * * * *
31888973 GTCCTCCCACTACTTTGCCAGACACGATTTTCGCGTCTGGCACTGTAGTGGTTGTTTGGTGCTGG
1 GTCCTCCCACTACTTTGCCAGACACGATTTTCACGTCTAGCACTATAGTGGTTGCTTGGTACTGG
31889038 CAGAGGC
66 CAGAGGC
* * *
31889045 GTCCTCCCACTA-TGTTGCCAGACGCGATTTTCACGTTTAGCACTATAGTGTTTGCTTGGTACTG
1 GTCCTCCCACTACT-TTGCCAGACACGATTTTCACGTCTAGCACTATAGTGGTTGCTTGGTACTG
31889109 GCA
65 GCA
31889112 AGGGCATCCC
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
71 1 0.02
72 57 0.98
ACGTcount: A:0.16, C:0.26, G:0.26, T:0.32
Consensus pattern (72 bp):
GTCCTCCCACTACTTTGCCAGACACGATTTTCACGTCTAGCACTATAGTGGTTGCTTGGTACTGG
CAGAGGC
Found at i:31902355 original size:19 final size:20
Alignment explanation
Indices: 31902328--31902373 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
31902318 AAGAGACAAG
*
31902328 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
31902347 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
31902366 ATAATATT
1 ATAATATT
31902374 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:31905974 original size:38 final size:38
Alignment explanation
Indices: 31905932--31906011 Score: 142
Period size: 38 Copynumber: 2.1 Consensus size: 38
31905922 TGAAGAATTG
*
31905932 TTTCTTCTTTCTTGTGTTTCATACTTCTTTTAAAATCT
1 TTTCTTCTTGCTTGTGTTTCATACTTCTTTTAAAATCT
*
31905970 TTTCTTCTTGCTTGTGTTTCATTCTTCTTTTAAAATCT
1 TTTCTTCTTGCTTGTGTTTCATACTTCTTTTAAAATCT
31906008 TTTC
1 TTTC
31906012 ATGATGGAGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.14, C:0.19, G:0.06, T:0.61
Consensus pattern (38 bp):
TTTCTTCTTGCTTGTGTTTCATACTTCTTTTAAAATCT
Found at i:31906250 original size:22 final size:22
Alignment explanation
Indices: 31906172--31906253 Score: 69
Period size: 22 Copynumber: 3.8 Consensus size: 22
31906162 AAGGTAAGGA
* * **
31906172 TTTTAATGTTTTTTTTTTATTT
1 TTTTAAGGTTTTTTTTTAAGAT
* *
31906194 TTTTAAGG--ATTTTTAAAGAT
1 TTTTAAGGTTTTTTTTTAAGAT
* **
31906214 TTTTAATGTCCTTTTTTAAGAT
1 TTTTAAGGTTTTTTTTTAAGAT
31906236 TTTTAAGGTTTTTTTTTA
1 TTTTAAGGTTTTTTTTTA
31906254 TTTTTATGGT
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
20 14 0.30
22 32 0.70
ACGTcount: A:0.22, C:0.02, G:0.10, T:0.66
Consensus pattern (22 bp):
TTTTAAGGTTTTTTTTTAAGAT
Found at i:31906386 original size:16 final size:16
Alignment explanation
Indices: 31906367--31906403 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
31906357 GTATTATGGG
31906367 TTTTTGAATTAAGTTA
1 TTTTTGAATTAAGTTA
* *
31906383 TTTTTGAGTTAAGTTG
1 TTTTTGAATTAAGTTA
31906399 TTTTT
1 TTTTT
31906404 AGGTTTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (16 bp):
TTTTTGAATTAAGTTA
Found at i:31906418 original size:24 final size:25
Alignment explanation
Indices: 31906383--31906436 Score: 78
Period size: 24 Copynumber: 2.2 Consensus size: 25
31906373 AATTAAGTTA
31906383 TTTTT-GAGTTAAGTTGTTTTT-AGG
1 TTTTTGGAGTTAAGTTGTTTTTCA-G
31906407 TTTTTGGA-TTAAGTTGTTTTTCAG
1 TTTTTGGAGTTAAGTTGTTTTTCAG
31906431 TTTTTG
1 TTTTTG
31906437 TATTTGTGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
24 25 0.89
25 3 0.11
ACGTcount: A:0.15, C:0.02, G:0.22, T:0.61
Consensus pattern (25 bp):
TTTTTGGAGTTAAGTTGTTTTTCAG
Found at i:31907613 original size:14 final size:14
Alignment explanation
Indices: 31907594--31907628 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
31907584 GTCGGTTAGT
31907594 GAAGAAAAA-AAAG
1 GAAGAAAAATAAAG
31907607 AGAAGAAAAATAAAG
1 -GAAGAAAAATAAAG
31907622 GAAGAAA
1 GAAGAAA
31907629 GAAATGAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (14 bp):
GAAGAAAAATAAAG
Found at i:31907998 original size:47 final size:46
Alignment explanation
Indices: 31907934--31908072 Score: 206
Period size: 47 Copynumber: 3.0 Consensus size: 46
31907924 TATCAATTTG
* *
31907934 TGCAAACAAATTGGAGCTATTTGCTACCAATTTGTGCAGAACAATTA
1 TGCAAAAAAATTGGAGCTATTTGCTGCCAATTTGTGCAGAA-AATTA
* *
31907981 TGCAAAAAAATTAGAGCTATTTGCTGCCAATTTGTGCAGAAAAATTG
1 TGCAAAAAAATTGGAGCTATTTGCTGCCAATTTGTGCAG-AAAATTA
* *
31908028 TGCAAAAAAATTGGAGCTGTTTGCTGCCAATTTGTACAGAAAATT
1 TGCAAAAAAATTGGAGCTATTTGCTGCCAATTTGTGCAGAAAATT
31908073 GGACAGCTTT
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
46 6 0.07
47 76 0.90
48 2 0.02
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (46 bp):
TGCAAAAAAATTGGAGCTATTTGCTGCCAATTTGTGCAGAAAATTA
Found at i:31908281 original size:19 final size:22
Alignment explanation
Indices: 31908209--31908289 Score: 114
Period size: 22 Copynumber: 3.8 Consensus size: 22
31908199 GAGAGGAAAG
*
31908209 GAAGAGAGGAAGCCACGGTGAT
1 GAAGAGAGGAAGCCACGGTGGT
* *
31908231 GAAGAGAGGAAGCCATGATGGT
1 GAAGAGAGGAAGCCACGGTGGT
31908253 GAAGAGAGGAAGCCACGGTGGT
1 GAAGAGAGGAAGCCACGGTGGT
31908275 G-A-A-AGGAAGCCACGG
1 GAAGAGAGGAAGCCACGG
31908290 GCTGGAAAGA
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
19 12 0.22
20 1 0.02
21 1 0.02
22 40 0.74
ACGTcount: A:0.36, C:0.14, G:0.42, T:0.09
Consensus pattern (22 bp):
GAAGAGAGGAAGCCACGGTGGT
Found at i:31908297 original size:19 final size:19
Alignment explanation
Indices: 31908259--31908298 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
31908249 TGGTGAAGAG
*
31908259 AGGAAGCCACGGTGGTGAA
1 AGGAAGCCACGGTGCTGAA
31908278 AGGAAGCCACGG-GCTGGAA
1 AGGAAGCCACGGTGCT-GAA
31908297 AG
1 AG
31908299 AAAAAAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.33, C:0.17, G:0.42, T:0.07
Consensus pattern (19 bp):
AGGAAGCCACGGTGCTGAA
Found at i:31908350 original size:18 final size:19
Alignment explanation
Indices: 31908329--31908366 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
31908319 TGAAAGAGTG
31908329 AAAAAGAAA-GAAAAAAAA
1 AAAAAGAAATGAAAAAAAA
*
31908347 AAAAATAAATGAAAAAAAA
1 AAAAAGAAATGAAAAAAAA
31908366 A
1 A
31908367 TAAATGGGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.87, C:0.00, G:0.08, T:0.05
Consensus pattern (19 bp):
AAAAAGAAATGAAAAAAAA
Found at i:31908366 original size:19 final size:18
Alignment explanation
Indices: 31908329--31908371 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
31908319 TGAAAGAGTG
*
31908329 AAAAAGAAAGAAAAAAAA
1 AAAAATAAAGAAAAAAAA
31908347 AAAAATAAATGAAAAAAAA
1 AAAAATAAA-GAAAAAAAA
*
31908366 ATAAAT
1 AAAAAT
31908372 GGGCATGACC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.84, C:0.00, G:0.07, T:0.09
Consensus pattern (18 bp):
AAAAATAAAGAAAAAAAA
Found at i:31908367 original size:15 final size:15
Alignment explanation
Indices: 31908343--31908372 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
31908333 AGAAAGAAAA
31908343 AAAAAAAAATAAATG
1 AAAAAAAAATAAATG
31908358 AAAAAAAAATAAATG
1 AAAAAAAAATAAATG
31908373 GGCATGACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (15 bp):
AAAAAAAAATAAATG
Found at i:31908399 original size:25 final size:26
Alignment explanation
Indices: 31908363--31908420 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 26
31908353 AAATGAAAAA
31908363 AAAATAAATGGGCATGACCCAAT-AG
1 AAAATAAATGGGCATGACCCAATAAG
* *
31908388 AAAATAAGTGGGCATGGCCCAATAAG
1 AAAATAAATGGGCATGACCCAATAAG
31908414 -AAATAAA
1 AAAATAAA
31908421 AATAATTGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 27 0.93
26 2 0.07
ACGTcount: A:0.50, C:0.14, G:0.21, T:0.16
Consensus pattern (26 bp):
AAAATAAATGGGCATGACCCAATAAG
Found at i:31908431 original size:31 final size:33
Alignment explanation
Indices: 31908383--31908445 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 33
31908373 GGCATGACCC
*
31908383 AATAGAAAATAAGTGGGCATGGCCC-AATAAGA
1 AATAGAAAATAAGTGGGCATAGCCCAAATAAGA
* *
31908415 AATA-AAAATAATTGGGCTTAGCCCAAATAAG
1 AATAGAAAATAAGTGGGCATAGCCCAAATAAG
31908446 GAAAATGGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 17 0.63
32 10 0.37
ACGTcount: A:0.48, C:0.13, G:0.21, T:0.19
Consensus pattern (33 bp):
AATAGAAAATAAGTGGGCATAGCCCAAATAAGA
Found at i:31922740 original size:33 final size:34
Alignment explanation
Indices: 31922665--31922758 Score: 120
Period size: 34 Copynumber: 2.7 Consensus size: 34
31922655 AGTTGTACAA
* * *
31922665 AAAAATTAGAGTTATTTGCTACCAATTTGTGCAG
1 AAAAATTGGAGCTATTTGCTGCCAATTTGTGCAG
31922699 AAAAATTGGAGCTATTTGCTGCCAATTTGTGC-G
1 AAAAATTGGAGCTATTTGCTGCCAATTTGTGCAG
31922732 AAAAATTGGACAGCT-TTATGCTGCCAA
1 AAAAATTGG--AGCTATT-TGCTGCCAA
31922759 AATTGAGGAG
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
33 10 0.19
34 31 0.57
35 13 0.24
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (34 bp):
AAAAATTGGAGCTATTTGCTGCCAATTTGTGCAG
Found at i:31922948 original size:19 final size:22
Alignment explanation
Indices: 31922875--31922955 Score: 105
Period size: 22 Copynumber: 3.8 Consensus size: 22
31922865 GAGAGGAAAG
* * *
31922875 GAAGAGAGAAAGCCACGATGAT
1 GAAGAGAGGAAGCCACGGTGGT
*
31922897 GAAGAGAGGAAGCCATGGTGGT
1 GAAGAGAGGAAGCCACGGTGGT
31922919 GAAGAGAGGAAGCCACGGTGGT
1 GAAGAGAGGAAGCCACGGTGGT
31922941 G-A-AG-GGAAGCCACGG
1 GAAGAGAGGAAGCCACGG
31922956 GCTGGAAAGA
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
19 11 0.20
20 2 0.04
21 1 0.02
22 40 0.74
ACGTcount: A:0.36, C:0.14, G:0.42, T:0.09
Consensus pattern (22 bp):
GAAGAGAGGAAGCCACGGTGGT
Found at i:31923042 original size:22 final size:22
Alignment explanation
Indices: 31923005--31923046 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
31922995 AAAAAGAAAG
31923005 AAAAAAGAAATGAAATGAAATGA
1 AAAAAAGAAATGAAAT-AAATGA
*
31923028 AAAAAATAAAT-AAATAAAT
1 AAAAAAGAAATGAAATAAAT
31923047 AAATGGGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 4 0.22
23 10 0.56
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.17
Consensus pattern (22 bp):
AAAAAAGAAATGAAATAAATGA
Found at i:31923071 original size:25 final size:25
Alignment explanation
Indices: 31923043--31923099 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
31923033 ATAAATAAAT
31923043 AAATAAATGGGCATGACCCAATAGA
1 AAATAAATGGGCATGACCCAATAGA
*
31923068 AAATAAGTGGGCATGACCCAATAGA
1 AAATAAATGGGCATGACCCAATAGA
31923093 AAATAAA
1 AAATAAA
31923100 AATAATTGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.51, C:0.14, G:0.19, T:0.16
Consensus pattern (25 bp):
AAATAAATGGGCATGACCCAATAGA
Found at i:31928242 original size:10 final size:10
Alignment explanation
Indices: 31928205--31928242 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
31928195 TTTTTTAAAA
*
31928205 TTTTAAGAAT
1 TTTTAAGGAT
31928215 TTTTAAGG-T
1 TTTTAAGGAT
31928224 TTTTAAAGGAT
1 TTTT-AAGGAT
31928235 TTTTAAGG
1 TTTTAAGG
31928243 TTAAGCATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 5 0.20
10 15 0.60
11 5 0.20
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (10 bp):
TTTTAAGGAT
Found at i:31928305 original size:21 final size:22
Alignment explanation
Indices: 31928281--31928326 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
31928271 TTTTAAGGAC
*
31928281 TTTAAAGGAATTTTA-GGATTT
1 TTTAAAGGAAGTTTATGGATTT
*
31928302 TTT-ATGGAAGTTTATGGATTT
1 TTTAAAGGAAGTTTATGGATTT
31928323 TTTA
1 TTTA
31928327 GGTTTTGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.28, C:0.00, G:0.20, T:0.52
Consensus pattern (22 bp):
TTTAAAGGAAGTTTATGGATTT
Found at i:31928310 original size:20 final size:21
Alignment explanation
Indices: 31928287--31928326 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
31928277 GGACTTTAAA
*
31928287 GGAATTTTA-GGATTTTTTAT
1 GGAAGTTTATGGATTTTTTAT
31928307 GGAAGTTTATGGATTTTTTA
1 GGAAGTTTATGGATTTTTTA
31928327 GGTTTTGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.53
Consensus pattern (21 bp):
GGAAGTTTATGGATTTTTTAT
Found at i:31928360 original size:10 final size:10
Alignment explanation
Indices: 31928268--31928451 Score: 54
Period size: 10 Copynumber: 18.1 Consensus size: 10
31928258 TTTTTTTATA
31928268 GATTTTTAAG
1 GATTTTTAAG
* *
31928278 GACTTTAAAG
1 GATTTTTAAG
*
31928288 GAATTTT-AG
1 GATTTTTAAG
*
31928297 GATTTTTTATG
1 GA-TTTTTAAG
** *
31928308 GAAGTTTATG
1 GATTTTTAAG
*
31928318 GATTTTTTAG
1 GATTTTTAAG
*
31928328 G-TTTTGTAACT
1 GATTTT-TAA-G
*
31928339 TATTTTTAAAG
1 GATTTTT-AAG
31928350 GATTTTTAAG
1 GATTTTTAAG
*
31928360 G-TCTTTTAAAA
1 GAT-TTTT-AAG
* *
31928371 CATTTTTAAT
1 GATTTTTAAG
** *
31928381 TTTTTTTATG
1 GATTTTTAAG
31928391 GATTTTTAAAG
1 GATTTTT-AAG
*
31928402 G-TTTTGAAG
1 GATTTTTAAG
*
31928411 GTCTTTTTAAG
1 G-ATTTTTAAG
* ** *
31928422 GAATTCGAAA
1 GATTTTTAAG
*
31928432 GATTTTTGA-
1 GATTTTTAAG
31928441 GATTTTTAAG
1 GATTTTTAAG
31928451 G
1 G
31928452 GGAACACGAA
Statistics
Matches: 122, Mismatches: 39, Indels: 26
0.65 0.21 0.14
Matches are distributed among these distances:
9 21 0.17
10 67 0.55
11 27 0.22
12 7 0.06
ACGTcount: A:0.28, C:0.03, G:0.18, T:0.50
Consensus pattern (10 bp):
GATTTTTAAG
Found at i:31928881 original size:21 final size:21
Alignment explanation
Indices: 31928855--31928900 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
31928845 TCTAAGTTAT
*
31928855 TTTTAAAAG-ATTTTTAAAGTC
1 TTTT-AAAGCATTTATAAAGTC
*
31928876 TTTTAAAGCATTTATAAAGTT
1 TTTTAAAGCATTTATAAAGTC
31928897 TTTT
1 TTTT
31928901 CATGTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (21 bp):
TTTTAAAGCATTTATAAAGTC
Found at i:31928950 original size:20 final size:20
Alignment explanation
Indices: 31928907--31928952 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
31928897 TTTTCATGTA
*
31928907 TTTTTAAGCATTTTAAGGTC
1 TTTTTAAGCATTTTAAGATC
*
31928927 TTTTTAAGGATATTTAAGAT-
1 TTTTTAAGCAT-TTTAAGATC
31928947 TTTTTA
1 TTTTTA
31928953 GATATTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.28, C:0.04, G:0.13, T:0.54
Consensus pattern (20 bp):
TTTTTAAGCATTTTAAGATC
Found at i:31928981 original size:7 final size:7
Alignment explanation
Indices: 31928969--31929075 Score: 101
Period size: 7 Copynumber: 15.1 Consensus size: 7
31928959 TTTCAAGGAA
31928969 TTAGGGT
1 TTAGGGT
31928976 TTAGGGT
1 TTAGGGT
31928983 TTAGGGT
1 TTAGGGT
*
31928990 TGAGGGT
1 TTAGGGT
*
31928997 TGAGGGT
1 TTAGGGT
*
31929004 TGAAGGG-
1 T-TAGGGT
*
31929011 TTAGGGG
1 TTAGGGT
*
31929018 TTAGGGG
1 TTAGGGT
31929025 TTAGGGT
1 TTAGGGT
31929032 TTAGGGGT
1 TTA-GGGT
31929040 TTAGGGT
1 TTAGGGT
31929047 TTAGGGGT
1 TTA-GGGT
*
31929055 TT-GGGG
1 TTAGGGT
*
31929061 TTGGGGT
1 TTAGGGT
*
31929068 TTGGGGT
1 TTAGGGT
31929075 T
1 T
31929076 GGGGGTTGGG
Statistics
Matches: 89, Mismatches: 6, Indels: 10
0.85 0.06 0.10
Matches are distributed among these distances:
6 9 0.10
7 63 0.71
8 17 0.19
ACGTcount: A:0.12, C:0.00, G:0.51, T:0.36
Consensus pattern (7 bp):
TTAGGGT
Found at i:31929012 original size:8 final size:7
Alignment explanation
Indices: 31928971--31929104 Score: 73
Period size: 7 Copynumber: 18.9 Consensus size: 7
31928961 TCAAGGAATT
*
31928971 AGGGTTT
1 AGGGTTG
*
31928978 AGGGTTT
1 AGGGTTG
31928985 AGGGTTG
1 AGGGTTG
31928992 AGGGTTG
1 AGGGTTG
31928999 AGGGTTG
1 AGGGTTG
31929006 AAGGGTT-
1 -AGGGTTG
31929013 AGGGGTT-
1 A-GGGTTG
31929020 AGGGGTT-
1 A-GGGTTG
*
31929027 AGGGTTT
1 AGGGTTG
*
31929034 AGGGGTTT
1 A-GGGTTG
*
31929042 AGGGTTT
1 AGGGTTG
31929049 AGGGGTTTG
1 A-GGG-TTG
31929058 -GGGTTG
1 AGGGTTG
31929064 -GGGTTTG
1 AGGG-TTG
31929071 -GGGTTG
1 AGGGTTG
*
31929077 GGGGTTG
1 AGGGTTG
*
31929084 GGGGTTGG
1 AGGGTT-G
*
31929092 GGGGTTG
1 AGGGTTG
*
31929099 CGGGTT
1 AGGGTT
Statistics
Matches: 115, Mismatches: 3, Indels: 18
0.85 0.02 0.13
Matches are distributed among these distances:
6 15 0.13
7 75 0.65
8 23 0.20
9 2 0.02
ACGTcount: A:0.10, C:0.01, G:0.56, T:0.34
Consensus pattern (7 bp):
AGGGTTG
Found at i:31929080 original size:7 final size:7
Alignment explanation
Indices: 31928986--31929104 Score: 78
Period size: 7 Copynumber: 16.7 Consensus size: 7
31928976 TTAGGGTTTA
*
31928986 GGGTTGA
1 GGGTTGG
*
31928993 GGGTTGA
1 GGGTTGG
*
31929000 GGGTTGAA
1 GGGTTG-G
*
31929008 GGGTTAG
1 GGGTTGG
*
31929015 GGGTTAG
1 GGGTTGG
*
31929022 GGGTTAG
1 GGGTTGG
*
31929029 GGTTTAGG
1 GGGTT-GG
* *
31929037 GGTTTAG
1 GGGTTGG
* *
31929044 GGTTTAG
1 GGGTTGG
*
31929051 GGGTTTG
1 GGGTTGG
31929058 GGGTT-G
1 GGGTTGG
*
31929064 GGGTTTG
1 GGGTTGG
31929071 GGGTTGG
1 GGGTTGG
31929078 GGGTTGG
1 GGGTTGG
31929085 GGGTTGGG
1 GGGTT-GG
*
31929093 GGGTTGC
1 GGGTTGG
31929100 GGGTT
1 GGGTT
Statistics
Matches: 99, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
6 6 0.06
7 74 0.75
8 19 0.19
ACGTcount: A:0.08, C:0.01, G:0.58, T:0.33
Consensus pattern (7 bp):
GGGTTGG
Found at i:31929082 original size:14 final size:14
Alignment explanation
Indices: 31928979--31929104 Score: 94
Period size: 14 Copynumber: 8.9 Consensus size: 14
31928969 TTAGGGTTTA
* *
31928979 GGGTTTAGGGTTGA
1 GGGTTTGGGGTTGG
*
31928993 GGG-TTGAGGGTTGAA
1 GGGTTTG-GGGTTG-G
* *
31929008 GGGTTAGGGGTTAG
1 GGGTTTGGGGTTGG
* * *
31929022 GGGTTAGGGTTTAG
1 GGGTTTGGGGTTGG
* *
31929036 GGGTTTAGGGTTTAG
1 GGGTTT-GGGGTTGG
31929051 GGGTTTGGGGTT-G
1 GGGTTTGGGGTTGG
31929064 GGGTTTGGGGTTGG
1 GGGTTTGGGGTTGG
*
31929078 GGGTTGGGGGTTGG
1 GGGTTTGGGGTTGG
*
31929092 GGGGTTGCGGGTT
1 GGGTTTG-GGGTT
Statistics
Matches: 96, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
13 15 0.16
14 51 0.53
15 28 0.29
16 2 0.02
ACGTcount: A:0.09, C:0.01, G:0.57, T:0.33
Consensus pattern (14 bp):
GGGTTTGGGGTTGG
Done.