Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 137 of 433
Found at i:42154062 original size:158 final size:156
Alignment explanation
Indices: 42153799--42154148 Score: 363
Period size: 158 Copynumber: 2.2 Consensus size: 156
42153789 CACTAATGTT
* * *
42153799 TTTTGCGGCGTTTATT-TAAAAAACACCGCTAAT-CCCTATATATACAACTAAAACGACGATGTG
1 TTTTGCGGCGTTT-TTAT-AAAAACGCCGCTAATCCCCGATATATACAACTAAAACGACGACGTG
* *
42153862 TACGGTAAACTTTAATTATTTTGCAGCATTTTTAAAAGCGCCACTAATACCCTCATAT-ACTAAA
64 TACAGTAAACTTTAATTATGTTGCAGCATTTTTAAAAGCGCCACTAATA--CTCA-ATCACTAAA
*
42153926 ACGGCGCCGTTTTCTTTAAACTAAACT-GTC
126 ACGACGCCGTTTTCTTTAAACTAAACTAGTC
* *
42153956 TTTTGTGGCGTTTTCTATAAAAACGCCGCTAATCCCCGATATATTCAACTAAAACGACGACGCT-
1 TTTTGCGGCGTTTT-TATAAAAACGCCGCTAATCCCCGATATATACAACTAAAACGACGACG-TG
* * * * *
42154020 T-CTAGTACACTTTACTTCTGTTGCGGCGTTTTTCAAAA-CGCCACTAATACTCAATCCAACTAA
64 TAC-AGTAAACTTTAATTATGTTGCAGCATTTTT-AAAAGCGCCACTAATACTCAAT-C-ACTAA
* * * * *
42154083 AACGATGCCGTTTTCTTTCAACTATACTATTT
125 AACGACGCCGTTTTCTTTAAACTAAACTAGTC
* *
42154115 TTTTGCGGCGTTTTTTTAAAAAACGCCACTAATC
1 TTTTGCGGCGTTTTTAT-AAAAACGCCGCTAATC
42154149 TCTTAATTTT
Statistics
Matches: 161, Mismatches: 21, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
155 2 0.01
156 5 0.03
157 28 0.17
158 92 0.57
159 34 0.21
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (156 bp):
TTTTGCGGCGTTTTTATAAAAACGCCGCTAATCCCCGATATATACAACTAAAACGACGACGTGTA
CAGTAAACTTTAATTATGTTGCAGCATTTTTAAAAGCGCCACTAATACTCAATCACTAAAACGAC
GCCGTTTTCTTTAAACTAAACTAGTC
Found at i:42154956 original size:21 final size:21
Alignment explanation
Indices: 42154932--42154972 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
42154922 CATATCTAAT
42154932 TAAA-CTCTAACCCCTAAACCA
1 TAAACCTCTAA-CCCTAAACCA
*
42154953 TAAACCTTTAACCCTAAACC
1 TAAACCTCTAACCCTAAACC
42154973 CCTAACCCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAACCTCTAACCCTAAACCA
Found at i:42155461 original size:21 final size:21
Alignment explanation
Indices: 42155426--42155466 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
42155416 CTAATGCTAA
42155426 CTTTTAGCGGCCTTTTTTGAT
1 CTTTTAGCGGCCTTTTTTGAT
42155447 CTTTT-GCGGCGCTTTTTTGA
1 CTTTTAGCGGC-CTTTTTTGA
42155467 AAAACGCCGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.07, C:0.20, G:0.22, T:0.51
Consensus pattern (21 bp):
CTTTTAGCGGCCTTTTTTGAT
Found at i:42158501 original size:12 final size:12
Alignment explanation
Indices: 42158484--42158517 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
42158474 AAAAACACCA
*
42158484 TTGAAGCTGACT
1 TTGAAGCAGACT
42158496 TTGAAGCAGACT
1 TTGAAGCAGACT
42158508 TTGAAGCAGA
1 TTGAAGCAGA
42158518 TTTCCATCAA
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:0.32, C:0.15, G:0.26, T:0.26
Consensus pattern (12 bp):
TTGAAGCAGACT
Found at i:42159427 original size:6 final size:6
Alignment explanation
Indices: 42159418--42159443 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
42159408 TAATTTATCC
42159418 ATTTTA ATTTTA ATTTTA ATTTTA AT
1 ATTTTA ATTTTA ATTTTA ATTTTA AT
42159444 AATTTTGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATTTTA
Found at i:42164141 original size:38 final size:39
Alignment explanation
Indices: 42164056--42164168 Score: 149
Period size: 38 Copynumber: 2.9 Consensus size: 39
42164046 AAATAAGTAT
* * *
42164056 TTAA-GATGTTGAAACTATGAAATAATTAAAGACCCATA
1 TTAATGATGTTCAAACTATGACATAATTAAAGACTCATA
* * *
42164094 TTGATGATGTTCAGATTATGACATAATTAAA-ACTCATA
1 TTAATGATGTTCAAACTATGACATAATTAAAGACTCATA
*
42164132 TTAATGATGTTCAAACTAAGACATAATTAAAGACTCA
1 TTAATGATGTTCAAACTATGACATAATTAAAGACTCA
42164169 AACTAAAAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
38 36 0.57
39 27 0.43
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (39 bp):
TTAATGATGTTCAAACTATGACATAATTAAAGACTCATA
Found at i:42166130 original size:7 final size:7
Alignment explanation
Indices: 42166118--42166174 Score: 64
Period size: 7 Copynumber: 8.1 Consensus size: 7
42166108 AAAAAATAGT
42166118 TAAAAAA
1 TAAAAAA
42166125 TAAAAAA
1 TAAAAAA
42166132 TAAAAAAAA
1 T--AAAAAA
42166141 TAAAAAA
1 TAAAAAA
42166148 T-AAAAA
1 TAAAAAA
* *
42166154 -AATAAT
1 TAAAAAA
42166160 TAAAAAA
1 TAAAAAA
42166167 TAAAAAA
1 TAAAAAA
42166174 T
1 T
42166175 GGTTCTGCGG
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
6 8 0.19
7 27 0.64
9 7 0.17
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (7 bp):
TAAAAAA
Found at i:42166137 original size:8 final size:8
Alignment explanation
Indices: 42166119--42166173 Score: 60
Period size: 8 Copynumber: 6.6 Consensus size: 8
42166109 AAAAATAGTT
42166119 AAAAAAT-
1 AAAAAATA
42166126 AAAAAATA
1 AAAAAATA
42166134 AAAAAA-A
1 AAAAAATA
42166141 TAAAAAATA
1 -AAAAAATA
42166150 AAAAAATAA
1 AAAAAAT-A
42166159 TTAAAAAATA
1 --AAAAAATA
42166169 AAAAA
1 AAAAA
42166174 TGGTTCTGCG
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
7 8 0.19
8 24 0.57
9 2 0.05
10 1 0.02
11 7 0.17
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
AAAAAATA
Found at i:42166138 original size:16 final size:16
Alignment explanation
Indices: 42166119--42166173 Score: 83
Period size: 16 Copynumber: 3.2 Consensus size: 16
42166109 AAAAATAGTT
42166119 AAAAAATAAAAAATAA
1 AAAAAATAAAAAATAA
42166135 AAAAAATAAAAAATAAA
1 AAAAAATAAAAAAT-AA
42166152 AAAATAATTAAAAAATAA
1 AAAA-AA-TAAAAAATAA
42166170 AAAA
1 AAAA
42166174 TGGTTCTGCG
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.39
17 6 0.17
18 8 0.22
19 8 0.22
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAAAATAAAAAATAA
Found at i:42167582 original size:18 final size:16
Alignment explanation
Indices: 42167545--42167600 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 16
42167535 CTTTGTTCTC
42167545 AAAAAAAAAAAAAGAT
1 AAAAAAAAAAAAAGAT
42167561 AAAAAAAGAAAAAA-ATT
1 AAAAAAA-AAAAAAGA-T
* * *
42167578 GAAAAAACAAAATGA-
1 AAAAAAAAAAAAAGAT
42167593 AAAAAAAA
1 AAAAAAAA
42167601 TTGATTAAGC
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
15 6 0.19
16 12 0.38
17 14 0.44
ACGTcount: A:0.84, C:0.02, G:0.07, T:0.07
Consensus pattern (16 bp):
AAAAAAAAAAAAAGAT
Found at i:42169188 original size:23 final size:23
Alignment explanation
Indices: 42169156--42169201 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
42169146 AAGTAAAGAA
42169156 ATTGCATAATTTAGATTAATAGT
1 ATTGCATAATTTAGATTAATAGT
*
42169179 ATTGCGTAATTTAGATTAATAGT
1 ATTGCATAATTTAGATTAATAGT
42169202 GAGAGATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.43
Consensus pattern (23 bp):
ATTGCATAATTTAGATTAATAGT
Found at i:42172074 original size:53 final size:53
Alignment explanation
Indices: 42172016--42172122 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
42172006 TGGCAATCTC
42172016 ATGCAGAAACCTTATACTTACAGTCTTACTATTCAATCACCACATACAGATTT
1 ATGCAGAAACCTTATACTTACAGTCTTACTATTCAATCACCACATACAGATTT
42172069 ATGCAGAAACCTTATACTTACAGTCTTACTATTCAATCACCACATACAGATTT
1 ATGCAGAAACCTTATACTTACAGTCTTACTATTCAATCACCACATACAGATTT
42172122 A
1 A
42172123 CTCATTCAGA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (53 bp):
ATGCAGAAACCTTATACTTACAGTCTTACTATTCAATCACCACATACAGATTT
Found at i:42173771 original size:19 final size:18
Alignment explanation
Indices: 42173734--42173773 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
42173724 CATAATGATA
* *
42173734 TATATAATATATTTTTAT
1 TATATAATACATATTTAT
42173752 TATATAATTACATATTTAT
1 TATATAA-TACATATTTAT
42173771 TAT
1 TAT
42173774 TTTTTATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TATATAATACATATTTAT
Found at i:42175345 original size:26 final size:26
Alignment explanation
Indices: 42175288--42175396 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
42175278 TGATACAAAT
42175288 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
42175313 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
42175339 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
42175365 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
42175391 TGATAA
1 TGATAA
42175397 GAATTTCATG
Statistics
Matches: 82, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
25 21 0.26
26 61 0.74
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:42176913 original size:25 final size:26
Alignment explanation
Indices: 42176872--42176923 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
42176862 ATTTACTGTT
42176872 TACCCCTAGGTGAAAATT-ACCGAAA
1 TACCCCTAGGTGAAAATTGACCGAAA
* *
42176897 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGTG-AAAATTGACCGAAA
42176923 T
1 T
42176924 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 1 0.04
25 15 0.65
26 7 0.30
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGTGAAAATTGACCGAAA
Found at i:42177416 original size:136 final size:136
Alignment explanation
Indices: 42177172--42177455 Score: 550
Period size: 136 Copynumber: 2.1 Consensus size: 136
42177162 AGTAGTCTCC
42177172 CCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
42177237 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
42177302 CTGTTA
131 CTGTTA
42177308 CCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
42177373 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
42177438 CTGTTA
131 CTGTTA
**
42177444 CTGAATGGGCTT
1 CCAAATGGGCTT
42177456 AGGCCCAATA
Statistics
Matches: 146, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 146 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:42178665 original size:26 final size:26
Alignment explanation
Indices: 42178628--42178711 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
42178618 TGATACAAAT
* *
42178628 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
42178654 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
42178680 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
42178706 TGATAA
1 TGATAA
42178712 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:42181389 original size:19 final size:18
Alignment explanation
Indices: 42181362--42181397 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
42181352 TGTAAGAAAG
42181362 AAAAAATTATAAAAAAATT
1 AAAAAATTA-AAAAAAATT
*
42181381 AAAATATTAAAAAAAAT
1 AAAAAATTAAAAAAAAT
42181398 AAGAAGATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (18 bp):
AAAAAATTAAAAAAAATT
Found at i:42181391 original size:17 final size:18
Alignment explanation
Indices: 42181371--42181409 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
42181361 GAAAAAATTA
* *
42181371 TAAAAAAATTAA-AATAT
1 TAAAAAAAATAAGAAGAT
42181388 TAAAAAAAATAAGAAGAT
1 TAAAAAAAATAAGAAGAT
42181406 TAAA
1 TAAA
42181410 TCTTTGTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (18 bp):
TAAAAAAAATAAGAAGAT
Found at i:42190925 original size:14 final size:14
Alignment explanation
Indices: 42190906--42190935 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
42190896 TTTTTTATGG
42190906 TTATTATTATTATA
1 TTATTATTATTATA
42190920 TTATTATTATTATA
1 TTATTATTATTATA
42190934 TT
1 TT
42190936 TCCAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATTATTATTATA
Found at i:42190981 original size:15 final size:15
Alignment explanation
Indices: 42190961--42190989 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
42190951 ACTCAAATAC
42190961 TTTTATTTATCTATG
1 TTTTATTTATCTATG
42190976 TTTTATTTATCTAT
1 TTTTATTTATCTAT
42190990 TTATATTTCT
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:0.21, C:0.07, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTTATTTATCTATG
Found at i:42191068 original size:3 final size:3
Alignment explanation
Indices: 42191040--42191224 Score: 140
Period size: 3 Copynumber: 59.3 Consensus size: 3
42191030 CTATTTCTAT
* * * *
42191040 TTA TGTA TTA ATA TCA TTA TTTA TTA TTA TTT TTA TAAA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA -TTA TTA TTA TTA TTA T-TA TTA TTA TTA
* * * * *
42191088 TTA TCT- TTA TTA TTA CTA TTA GTA CTA TTA TTA TTT TCTA TCA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* * ** *
42191134 TTA TTA TTA CCTTT TTA CTA TTA TTA TT- TCGTA CCA TTA TTG TTA TTA
1 TTA TTA TTA --TTA TTA TTA TTA TTA TTA T--TA TTA TTA TTA TTA TTA
*
42191182 TTA CTA 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 T
42191225 CTATAGTATA
Statistics
Matches: 142, Mismatches: 29, Indels: 22
0.74 0.15 0.11
Matches are distributed among these distances:
2 2 0.01
3 126 0.89
4 12 0.08
5 2 0.01
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:42191342 original size:15 final size:15
Alignment explanation
Indices: 42191280--42191377 Score: 60
Period size: 15 Copynumber: 6.5 Consensus size: 15
42191270 TTTTAGTTTG
*
42191280 TTATT-TTATTTTCA
1 TTATTATTATTTTTA
* *
42191294 ATATT-TT-TTTATA
1 TTATTATTATTTTTA
*
42191307 TTATTATTATTCCTTACA
1 TTATTATTATT--TT-TA
42191325 TTATTATTATTTTTA
1 TTATTATTATTTTTA
* *
42191340 TTATTTTTATTTTTG
1 TTATTATTATTTTTA
*
42191355 TTATTGA-TATTTATAA
1 TTATT-ATTATTT-TTA
42191371 TTATTAT
1 TTATTAT
42191378 AATTATTTCA
Statistics
Matches: 64, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
13 8 0.12
14 8 0.12
15 27 0.42
16 8 0.12
17 1 0.02
18 12 0.19
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (15 bp):
TTATTATTATTTTTA
Found at i:42195113 original size:53 final size:53
Alignment explanation
Indices: 42195014--42195119 Score: 131
Period size: 53 Copynumber: 2.0 Consensus size: 53
42195004 GATAAACTAC
* * * ** *
42195014 TATAAGACAAAGATCCCATGTAAGACCATGCCAAGGCATGTCAATGGTGAGTT
1 TATAAGACAAAGATACCACGTAAGACCATGCCAAGACATGAAAATGGTAAGTT
* * *
42195067 TATAAGGCAAGGATACCACGTAAGACCATGTCAAGACATGAAAATGGTAAGTT
1 TATAAGACAAAGATACCACGTAAGACCATGCCAAGACATGAAAATGGTAAGTT
42195120 AAAAAAGGAA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.22
Consensus pattern (53 bp):
TATAAGACAAAGATACCACGTAAGACCATGCCAAGACATGAAAATGGTAAGTT
Found at i:42195135 original size:53 final size:53
Alignment explanation
Indices: 42195021--42195136 Score: 126
Period size: 53 Copynumber: 2.2 Consensus size: 53
42195011 TACTATAAGA
* * * ** * * *
42195021 CAAAGATCCCATGTAAGACCATGCCAAGGCATGTCAATGGTGAGTTTATAAGG
1 CAAAGATACCACGTAAGACCATGCCAAGACATGAAAATGGTAAGTTAAAAAGG
* *
42195074 CAAGGATACCACGTAAGACCATGTCAAGACATGAAAATGGTAAGTTAAAAAAGG
1 CAAAGATACCACGTAAGACCATGCCAAGACATGAAAATGGTAAGTT-AAAAAGG
42195128 -AAAGATACC
1 CAAAGATACC
42195137 CGTGTATCCT
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
53 46 0.90
54 5 0.10
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.19
Consensus pattern (53 bp):
CAAAGATACCACGTAAGACCATGCCAAGACATGAAAATGGTAAGTTAAAAAGG
Found at i:42197799 original size:57 final size:57
Alignment explanation
Indices: 42197711--42197824 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
42197701 CAATTTTGAG
*
42197711 GATGACAAGGAGGATGCTGTCTATCCACCGGGCTTCACCCAACAAACACCCAAGCAC
1 GATGACAACGAGGATGCTGTCTATCCACCGGGCTTCACCCAACAAACACCCAAGCAC
42197768 GATGACAACGAGGATGCTGTCTATCCACCGGGCTTCACCCAACAAACACCCAAGCAC
1 GATGACAACGAGGATGCTGTCTATCCACCGGGCTTCACCCAACAAACACCCAAGCAC
42197825 AACCCAATGT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.32, C:0.34, G:0.20, T:0.14
Consensus pattern (57 bp):
GATGACAACGAGGATGCTGTCTATCCACCGGGCTTCACCCAACAAACACCCAAGCAC
Found at i:42202056 original size:46 final size:47
Alignment explanation
Indices: 42201999--42202360 Score: 205
Period size: 50 Copynumber: 7.6 Consensus size: 47
42201989 GAGGAGTGCC
*
42201999 AGTGTAAGACATGTCCGGGACATGCATCTGCCTCG-TGACTTA-AGCT
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCTCGATGACTTAGAGCT
* * * *
42202045 AGTGTAAGACATGTCTAGGACATGCATCGGCTACGA-GACAT-G-TC-
1 AGTGTAAGACATGTCTGGGACATGCATCGCCT-CGATGACTTAGAGCT
* * * *
42202089 AGTGTAAGACCATGTCTGGGACATGGCATCAACATGGAT-ACGTAAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC-GCCTCGATGAC-TTAGAGCT
* * *
42202139 AGTGTAAAACCATGTCTGGGACATGGCATCGGCCTCGATG--TTGATAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC-GCCTCGATGACTT-AGAGCT
** * * *
42202188 AGTGTAAGACATGTCTGGGACATGCATCGGAT--AAGAGTT-GTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGCCTCGATGACTTAGAGCT
* * *
42202232 AGTGTAAGACCATGTCTGGGACATGACATCAG-CACGTAAGTAC-GAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATG-CATC-GCCTCG-ATG-ACTTAGAGCT
* * ** * *
42202282 AGTGTAAGACCATGTTTGGGACATGGTATCGGCCTCGATGA-GGATAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC-GCCTCGATGACTTAGAGCT
42202331 AGTGTAAGACTATGTCTGGGACATGGCATC
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATC
42202361 AGCAACTTAA
Statistics
Matches: 247, Mismatches: 42, Indels: 51
0.73 0.12 0.15
Matches are distributed among these distances:
44 22 0.09
45 32 0.13
46 49 0.20
47 7 0.03
48 17 0.07
49 48 0.19
50 68 0.28
51 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCTCGATGACTTAGAGCT
Found at i:42202212 original size:143 final size:142
Alignment explanation
Indices: 42201999--42202360 Score: 443
Period size: 143 Copynumber: 2.5 Consensus size: 142
42201989 GAGGAGTGCC
* * *
42201999 AGTGTAAGA-CATGTCCGGGACAT-GCATCTGCCTCG-TGACTT-A-AGCTAGTGTAAGACATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATG--TTGATAGCCAGTGTAAGACATGT
* * *
42202059 CTAGGACATGCATCGGCTACGAGACATGT-C-AGTGTAAGACCATGTCTGGGACATGGCATCAAC
64 CTGGGACATGCATCGGATA--AGACATGTGCTAGTGTAAGACCATGTCTGGGACATGACATCAAC
* *
42202122 ATGGATACGTA-AGAGCT
127 A-CG-TAAGTACAGAGCT
*
42202139 AGTGTAAAACCATGTCTGGGACATGGCATCGGCCTCGATGTTGATAGCCAGTGTAAGACATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGTTGATAGCCAGTGTAAGACATGTCT
** *
42202204 GGGACATGCATCGGATAAGAGTTGTGCTAGTGTAAGACCATGTCTGGGACATGACATCAGCACGT
66 GGGACATGCATCGGATAAGACATGTGCTAGTGTAAGACCATGTCTGGGACATGACATCAACACGT
42202269 AAGTACGAGAGCT
131 AAGTAC-AGAGCT
* * **
42202282 AGTGTAAGACCATGTTTGGGACATGGTATCGGCCTCGATGAGGATAGCCAGTGTAAGACTATGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGTTGATAGCCAGTGTAAGAC-ATGTC
42202347 TGGGACATGGCATC
65 TGGGACAT-GCATC
42202361 AGCAACTTAA
Statistics
Matches: 194, Mismatches: 17, Indels: 17
0.85 0.07 0.07
Matches are distributed among these distances:
140 8 0.04
141 26 0.13
142 14 0.07
143 128 0.66
144 13 0.07
145 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (142 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGTTGATAGCCAGTGTAAGACATGTCT
GGGACATGCATCGGATAAGACATGTGCTAGTGTAAGACCATGTCTGGGACATGACATCAACACGT
AAGTACAGAGCT
Found at i:42202288 original size:50 final size:49
Alignment explanation
Indices: 42202089--42202364 Score: 219
Period size: 50 Copynumber: 5.7 Consensus size: 49
42202079 GAGACATGTC
* * *
42202089 AGTGTAAGACCATGTCTGGGACATGGCATCAACATGGA-TACGTAAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCACGAAGTACG--AGAGCT
* * * * * * *
42202139 AGTGTAAAACCATGTCTGGGACATGGCATCGGCCTCGATGT-TGATAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CACGAAGTACGAGAGCT
* * * *
42202188 AGTGTAAGA-CATGTCTGGGACAT-GCATC-GGA-TAAG-A-GTTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCACGAAGTACG-AGAGCT
*
42202232 AGTGTAAGACCATGTCTGGGACATGACATCAGCACGTAAGTACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCACG-AAGTACGAGAGCT
* * * * * * * *
42202282 AGTGTAAGACCATGTTTGGGACATGGTATCGGCCTCGATG-AGGATAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CACGAAGTACGAGAGCT
*
42202331 AGTGTAAGACTATGTCTGGGACATGGCATCAGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCA
42202365 ACTTAACCCA
Statistics
Matches: 176, Mismatches: 38, Indels: 26
0.73 0.16 0.11
Matches are distributed among these distances:
43 1 0.01
44 13 0.07
45 14 0.08
46 5 0.03
47 7 0.04
48 15 0.09
49 49 0.28
50 64 0.36
51 7 0.04
52 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCACGAAGTACGAGAGCT
Found at i:42203310 original size:13 final size:13
Alignment explanation
Indices: 42203292--42203316 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42203282 TAGCCGTGTG
42203292 AAAGGACACGGGA
1 AAAGGACACGGGA
42203305 AAAGGACACGGG
1 AAAGGACACGGG
42203317 CGTATGTCCA
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:0.40, T:0.00
Consensus pattern (13 bp):
AAAGGACACGGGA
Found at i:42203420 original size:21 final size:23
Alignment explanation
Indices: 42203394--42203450 Score: 82
Period size: 21 Copynumber: 2.6 Consensus size: 23
42203384 CGGGTGAAGG
*
42203394 ACACGGGCGTGTGCCCTA-A-GC
1 ACACGGGCGTGTGCCCTATACCC
42203415 ACACGGGCGTGTGCCCTATACCC
1 ACACGGGCGTGTGCCCTATACCC
*
42203438 ACAAGGGCGTGTG
1 ACACGGGCGTGTG
42203451 GCACCTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 18 0.56
22 1 0.03
23 13 0.41
ACGTcount: A:0.19, C:0.32, G:0.33, T:0.16
Consensus pattern (23 bp):
ACACGGGCGTGTGCCCTATACCC
Found at i:42204594 original size:17 final size:17
Alignment explanation
Indices: 42204572--42204605 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
42204562 GCTCTTTGAG
* *
42204572 AGAGCTTGTAAAGCAGA
1 AGAGCTAGTAAAACAGA
42204589 AGAGCTAGTAAAACAGA
1 AGAGCTAGTAAAACAGA
42204606 GGAGGAAAGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.12, G:0.26, T:0.15
Consensus pattern (17 bp):
AGAGCTAGTAAAACAGA
Found at i:42210229 original size:12 final size:12
Alignment explanation
Indices: 42210212--42210236 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42210202 ATGTAAGTGA
42210212 TCTTGATGATTT
1 TCTTGATGATTT
42210224 TCTTGATGATTT
1 TCTTGATGATTT
42210236 T
1 T
42210237 TACATTTTTG
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:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:42211122 original size:45 final size:45
Alignment explanation
Indices: 42210957--42211364 Score: 310
Period size: 45 Copynumber: 8.7 Consensus size: 45
42210947 TTCGTGTACA
* *
42210957 AGTGTAAGACCATGTTTGGGACATGGCATCAGC-ATTGAGACGAGTGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTA-TGAGAC-A-TGCC
* * ** * *
42211005 AGTGTAAGA-CATGTCCGGGACATGCATCGACCTCGA-GAGTTAAGCT
1 AGTGTAAGACCATGTCTGGGACATGCATCG-GCT--ATGAGACATGCC
* * *
42211051 AGTGTAAGA-CATGTTTGGGACATGCATCAGCTATGAGACATGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTATGAGACATGCC
* * *
42211095 AGTGTAAGACCATGTCTGGGGCATGCATCGGCTACGAGACATGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTATGAGACATGCC
* * * * *
42211140 AGTGTAAGACCATGTATGGGACATGACATCGAC-ATGGATACGCAAGAGCT
1 AGTGTAAGACCATGTCTGGGACATG-CATCGGCTAT-GAGA--C-A-TGCC
*
42211190 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATA-GCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGG-CT--ATGA-GACATGCC
* *** *
42211239 AGTGTAAGA-CATGTCTGGGACATGCATCGGCTAAGAGTTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTATGAGACATGCC
*
42211283 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-TGATGAGGATAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGG-CTATGA-GA-CAT-GCC
42211332 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGC
42211365 AACTTAACCC
Statistics
Matches: 292, Mismatches: 43, Indels: 50
0.76 0.11 0.13
Matches are distributed among these distances:
43 3 0.01
44 28 0.10
45 71 0.24
46 53 0.18
47 24 0.08
48 29 0.10
49 46 0.16
50 30 0.10
51 3 0.01
53 2 0.01
54 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCTATGAGACATGCC
Found at i:42211289 original size:188 final size:187
Alignment explanation
Indices: 42210957--42211362 Score: 488
Period size: 188 Copynumber: 2.2 Consensus size: 187
42210947 TTCGTGTACA
* * *
42210957 AGTGTAAGACCATGTTTGGGACATGGCATC-AGCATTGAGACGAGTGCCAGTGTAAGACATGTCC
1 AGTGTAAGACCATGTATGGGACATGGCATCGAGCATGGAGACGAGAGCCAGTGTAAGACATGTCC
* * *
42211021 GGGACATGCATCGACCTCGAGAGTTAAGCTAGTGTAAGACATGTTTGGGACATGCATCAGCTATG
66 GGGACATGCATCGACCTCGAGAGATAAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTA-G
* *
42211086 AGACATGTCAGTGTAAGACCATGTCTGGGGCAT-GCATCGG-CTACGA-GA-CAT-GTC
130 AGACATGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGATGAGCATAGCC
* * *
42211140 AGTGTAAGACCATGTATGGGACATGACATCGA-CATGGATACGCAAGAGCTAGTGTAAGACCATG
1 AGTGTAAGACCATGTATGGGACATGGCATCGAGCATGGAGACG--AGAGCCAGTGTAAGA-CATG
* * *
42211204 TCTGGGACATGGCATCGGCCTCGATGATGAT-AGCCAGTGTAAGACATGTCTGGGACATGCATCG
63 TCCGGGACAT-GCATCGACCTCGA-GA-GATAAGCCAGTGTAAGACATGTCTGGGACATGCATCA
** * *
42211268 GCTA-AGAGTTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGATGAGGATAGCC
125 GCTAGAGACATGT-C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAGCATAGCC
*
42211332 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTATGGGACATGGCATCG
42211363 GCAACTTAAC
Statistics
Matches: 189, Mismatches: 20, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
183 36 0.19
184 1 0.01
185 13 0.07
186 19 0.10
187 13 0.07
188 59 0.31
189 11 0.06
190 4 0.02
191 2 0.01
192 31 0.16
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (187 bp):
AGTGTAAGACCATGTATGGGACATGGCATCGAGCATGGAGACGAGAGCCAGTGTAAGACATGTCC
GGGACATGCATCGACCTCGAGAGATAAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTAGA
GACATGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAGCATAGCC
Found at i:42211294 original size:93 final size:91
Alignment explanation
Indices: 42210957--42211364 Score: 382
Period size: 93 Copynumber: 4.4 Consensus size: 91
42210947 TTCGTGTACA
* * * *
42210957 AGTGTAAGACCATGTTTGGGACATGGCATCAGCATTGAGACGA-GTGCCAGTGTAAGA-CATGTC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGC--TAAGA-GATGTGCTAGTGTAAGACCATGTC
* * * *
42211020 CGGGACATGCATCGACCTCGAGAGTTAAGCT
62 TGGGACATGCATCGGCCTCGAGAGAT-AGCC
* * *
42211051 AGTGTAAGA-CATGTTTGGGACATGCATCAGCTATGAGACATGT-C-AGTGTAAGACCATGTCTG
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTA--AGAGATGTGCTAGTGTAAGACCATGTCTG
* * *
42211113 GGGCATGCATCGG-CTACGAGACAT-GTC
64 GGACATGCATCGGCCT-CGAGAGATAGCC
* * * * * *
42211140 AGTGTAAGACCATGTATGGGACATGACATCGACATGGATACGCAAGAGCTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATG-CATCGGC-T-AAGA-G-ATGTGCTAGTGTAAGACCATGT
42211205 CTGGGACATGGCATCGGCCTCGATGATGATAGCC
61 CTGGGACAT-GCATCGGCCTCGA-GA-GATAGCC
*
42211239 AGTGTAAGA-CATGTCTGGGACATGCATCGGCTAAGAGTTGTGCTAGTGTAAGACCATGTCTGGG
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTAAGAGATGTGCTAGTGTAAGACCATGTCTGGG
*
42211303 ACATGGCATCGGCCTTGATGAGGATAGCC
66 ACAT-GCATCGGCCTCGA-GA-GATAGCC
42211332 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGC
42211365 AACTTAACCC
Statistics
Matches: 265, Mismatches: 29, Indels: 39
0.80 0.09 0.12
Matches are distributed among these distances:
89 10 0.04
90 26 0.10
91 33 0.12
92 14 0.05
93 76 0.29
94 25 0.09
95 33 0.12
96 11 0.04
97 10 0.04
98 16 0.06
99 11 0.04
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (91 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCTAAGAGATGTGCTAGTGTAAGACCATGTCTGGG
ACATGCATCGGCCTCGAGAGATAGCC
Found at i:42217776 original size:140 final size:139
Alignment explanation
Indices: 42217469--42217825 Score: 398
Period size: 140 Copynumber: 2.6 Consensus size: 139
42217459 TCACGAATCA
* *
42217469 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTATAAATCACAAACTTATATC-C
1 CAAATCTTATCTCCCTGAAGTTGAAGTGGAGCAGATTAAAGCTATAAATCACAAACTTATCTCTC
* * ** * *
42217533 TTGAAGTTGTAGTGGAACAAGTTGTAGTTACAAGTTTTATCTCCCTGAAATTGCAGTGGAACAGA
66 -TGAAGTTGTAGTGGAACAAGTTGAAGATACAAGTCGTATCTCCCTGAAATTACAGTAGAACAGA
42217598 CTGAAGATAG
130 CTGAAGATAG
* * *
42217608 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCTGATTAAAGCTACAAATCACAAACCTTATCTCT
1 CAAATCTTATCTCCCTGAAGTTGAAGTGGAGCAGATTAAAGCTATAAATCACAAA-CTTATCTCT
** * * * * * *
42217673 CTGAAGTTGTAGTGGAGTAGGTTGAAGATACAAGTCGTATCTTCCT-AAGGTTATAGTAGAGCAT
65 CTGAAGTTGTAGTGGAACAAGTTGAAGATACAAGTCGTATCTCCCTGAA-ATTACAGTAGAACAG
42217737 A-TCGAAGATAG
129 ACT-GAAGATAG
* * * * * * *
42217748 CAAATCTTAT-TTCCTCGAAATTGAAGTGGAACAAATTGAAGCTATAGATTACAAATCTTATCTC
1 CAAATCTTATCTCCCT-GAAGTTGAAGTGGAGCAGATTAAAGCTATAAATCACAAA-CTTATCTC
42217812 TCTGAAGTTGTAGT
64 TCTGAAGTTGTAGT
42217826 AGAGCAGATC
Statistics
Matches: 184, Mismatches: 29, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
139 59 0.32
140 124 0.67
141 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (139 bp):
CAAATCTTATCTCCCTGAAGTTGAAGTGGAGCAGATTAAAGCTATAAATCACAAACTTATCTCTC
TGAAGTTGTAGTGGAACAAGTTGAAGATACAAGTCGTATCTCCCTGAAATTACAGTAGAACAGAC
TGAAGATAG
Found at i:42219448 original size:3 final size:3
Alignment explanation
Indices: 42219436--42219838 Score: 111
Period size: 3 Copynumber: 128.3 Consensus size: 3
42219426 TTTTTTATGC
42219436 TTA TTA -TA TTA 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
* * * * * *
42219483 TTA TTA -TA TT- TCCA GATA TT- TTC TAA CTCAA ATA CTT- TTA TTTA
1 TTA TTA TTA TTA T-TA -TTA TTA TTA TTA -T-TA TTA -TTA TTA -TTA
* * *
42219527 TCTA TGTT TTA TTTA TCTA TT- TATA TT- TCTA TCA TTA TTA TGTT TCTA
1 T-TA T-TA TTA -TTA T-TA TTA T-TA TTA T-TA TTA TTA TTA T-TA T-TA
* * *
42219575 CGTA TTA -TA TT- TCTA TT- TCTA TTTA TGTA TTA ATA TCA TTA TTTA
1 -TTA TTA TTA TTA T-TA TTA T-TA T-TA T-TA TTA TTA TTA TTA -TTA
* * *
42219620 TTA TTA TTT TTA TAAA TTA TT- TTA TTA TCT- TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
* * * * * *
42219665 GTA CTA TTA TTA TTT TCTA TCA TTA TTA TTA TTA CCTTT TTA CTA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA --TTA TTA TTA TTA
** *
42219713 TTA TT- TCGTA CCA TTA TTA TTA TTA TTA TTA TCTA -TA GTA -TA TTTA
1 TTA TTA T--TA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA -TTA
* * ** *
42219759 TTCA TAAA TTGC TCCC TTAA TT- TTA TT- TATA ATA TTA TTA TTA TTA
1 TT-A T-TA TT-A T-TA TT-A TTA TTA TTA T-TA TTA TTA TTA TTA TTA
42219805 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
42219839 AATCTATAGT
Statistics
Matches: 298, Mismatches: 54, Indels: 96
0.67 0.12 0.21
Matches are distributed among these distances:
2 26 0.09
3 214 0.72
4 54 0.18
5 4 0.01
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:42219715 original size:39 final size:37
Alignment explanation
Indices: 42219608--42219748 Score: 135
Period size: 37 Copynumber: 3.7 Consensus size: 37
42219598 TATGTATTAA
* *
42219608 TATCATTATTTATTATTATTTTTA-TA-AATTATTTTAT
1 TATCATTA-TTATTATTATTTTTACTATTATTATTTT-C
* * **
42219645 TATCTTTATTATTACTATTAGTACTATTATTATTTTC
1 TATCATTATTATTATTATTTTTACTATTATTATTTTC
42219682 TATCATTATTATTATTACCTTTTTACTATTATTA-TTTC
1 TATCATTATTATTATTA--TTTTTACTATTATTATTTTC
* *
42219720 GTACCATTATTATTATTATTATTATCTAT
1 -TATCATTATTATTATTATTTTTA-CTAT
42219749 AGTATATTTA
Statistics
Matches: 86, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
36 12 0.14
37 29 0.34
38 16 0.19
39 29 0.34
ACGTcount: A:0.29, C:0.09, G:0.01, T:0.60
Consensus pattern (37 bp):
TATCATTATTATTATTATTTTTACTATTATTATTTTC
Found at i:42219795 original size:97 final size:97
Alignment explanation
Indices: 42219704--42219884 Score: 292
Period size: 97 Copynumber: 1.9 Consensus size: 97
42219694 TATTACCTTT
*
42219704 TTACTATTATTATT-TCGTACCATTATTATTATTATTATTATCTATAGTATATTTATTCATAAAT
1 TTACTATTATTATTAT--TACCATTATTATTATTATTATAATCTATAGTATATTTATTCATAAAT
*
42219768 TGCTCCCTTAATTTTATTTATAATATTATTATTA
64 TGCTCCCTTAATTTTATTTATAATATTACTATTA
* **
42219802 TTATTATTATTATTATTATTATTATTATTATTATTATAATCTATAGTATATTTATTCATAAATTG
1 TTACTATTATTATTATTACCATTATTATTATTATTATAATCTATAGTATATTTATTCATAAATTG
42219867 CTCCCTTAATTTTATTTA
66 CTCCCTTAATTTTATTTA
42219885 CATTTTAGTT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
97 64 0.82
98 13 0.17
99 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.03, T:0.56
Consensus pattern (97 bp):
TTACTATTATTATTATTACCATTATTATTATTATTATAATCTATAGTATATTTATTCATAAATTG
CTCCCTTAATTTTATTTATAATATTACTATTA
Found at i:42219906 original size:97 final size:96
Alignment explanation
Indices: 42219725--42219931 Score: 296
Period size: 97 Copynumber: 2.2 Consensus size: 96
42219715 ATTTCGTACC
*
42219725 ATTATTATTATTATTATTATCTATAGTATATTTATTCATAAATTGCTCCCTTAATTTTATTTATA
1 ATTATTATTATTATTATAATCTATAGTATATTTATTCATAAATTGCTCCCTTAATTTTATTTATA
*
42219790 ATATTATTATTATTATTATTATT-ATTATTATT
66 ATATTATTATTATTATTATT-TTCAATATT-TT
*
42219822 ATTATTATTATTATTATAATCTATAGTATATTTATTCATAAATTGCTCCCTTAATTTTATTTA-C
1 ATTATTATTATTATTATAATCTATAGTATATTTATTCATAAATTGCTCCCTTAATTTTATTTATA
* *
42219886 ATTTTAGTTTGTTATT-TTATTTTCAATATTTT
66 ATATTA--TTATTATTATTATTTTCAATATTTT
*
42219918 TTTA-TATTATTATT
1 ATTATTATTATTATT
42219932 CCTTACATCA
Statistics
Matches: 101, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
95 10 0.10
96 12 0.12
97 72 0.71
98 7 0.07
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.59
Consensus pattern (96 bp):
ATTATTATTATTATTATAATCTATAGTATATTTATTCATAAATTGCTCCCTTAATTTTATTTATA
ATATTATTATTATTATTATTTTCAATATTTT
Found at i:42222501 original size:40 final size:39
Alignment explanation
Indices: 42222341--42222503 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
42222331 TGTGTATGAA
*
42222341 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
42222380 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
42222419 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
42222458 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
42222498 TGTGCG
1 TGTGCG
42222504 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:42222519 original size:40 final size:39
Alignment explanation
Indices: 42222341--42222534 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
42222331 TGTGTATGAA
* *
42222341 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
42222380 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
42222419 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
42222458 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
42222498 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
42222535 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:42230422 original size:40 final size:39
Alignment explanation
Indices: 42230262--42230424 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
42230252 TGTGTATGAA
*
42230262 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
42230301 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
42230340 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
42230379 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
42230419 TGTGCG
1 TGTGCG
42230425 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:42230440 original size:40 final size:39
Alignment explanation
Indices: 42230262--42230455 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
42230252 TGTGTATGAA
* *
42230262 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
42230301 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
42230340 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
42230379 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
42230419 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
42230456 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:42232016 original size:261 final size:260
Alignment explanation
Indices: 42231528--42232048 Score: 1008
Period size: 261 Copynumber: 2.0 Consensus size: 260
42231518 AAAGCCCTGT
42231528 ACAGAGAGATATTCAAGTTGTAACGCGAAGGTCAGTGTAGTCGACCCCTGTAACATGGGTGACTT
1 ACAGAGAGATATTCAAGTTGTAACGCGAAGGTCAGTGTAGTCGACCCCTGTAACATGGGTGACTT
42231593 TAACTAATAAACTGTACCAATTGGCCCGACCAAAAATTCTAGAAATAAATCCATGGATGGATATA
66 TAACTAATAAACTGTACCAATTGGCCCGACCAAAAATTCTAGAAATAAATCCATGGATGGATATA
42231658 TGAGTCTAAATTCAGGGAAAATTTACGGAATCAGTTTCCGAGTTTTGAAACTCGAGATATGATTT
131 TGAGTCTAAATTCAGGGAAAATTTACGGAATCAGTTTCCGAGTTTTGAAACTCGAGATATGATTT
*
42231723 TTAAGGCGACAGTGATGCAGTTTTCCAGCCTGTCTGGAAAGGCCAAATTGGTCGGCACTTTAAGA
196 TTAAGGCGACAGTGACGCAGTTTTCCAGCCTGTCTGGAAAGGCCAAATTGGTCGGCACTTTAAGA
42231788 ACAGAGAGATATTCAAGTTGTAACGCGCGAAGGTCAGTGTAGTCGACCCCTGTAACATGGGTGAC
1 ACAGAGAGATATTCAAGTTGTAA--CGCGAAGGTCAGTGTAGTCGACCCCTGTAACATGGGTGAC
42231853 TTTAACTAATAAACTGTACCAATTGGCCC-ACCAAAAATTCTAGAAATAAATCCATGGATGGATA
64 TTTAACTAATAAACTGTACCAATTGGCCCGACCAAAAATTCTAGAAATAAATCCATGGATGGATA
42231917 TATGAGTCTAAATTCAGGGAAAATTTACGGAATCAGTTTCCGAGTTTTGAAACTCGAGATATGAT
129 TATGAGTCTAAATTCAGGGAAAATTTACGGAATCAGTTTCCGAGTTTTGAAACTCGAGATATGAT
42231982 TTTTAAGGCGACAGTGACGCAGTTTTCCAGCCTGTCTGGAAAGGCCAAATTGGTCGGCACTTTAA
194 TTTTAAGGCGACAGTGACGCAGTTTTCCAGCCTGTCTGGAAAGGCCAAATTGGTCGGCACTTTAA
42232047 GA
259 GA
42232049 GGATTTGTCT
Statistics
Matches: 258, Mismatches: 1, Indels: 3
0.98 0.00 0.01
Matches are distributed among these distances:
260 23 0.09
261 166 0.64
262 69 0.27
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.27
Consensus pattern (260 bp):
ACAGAGAGATATTCAAGTTGTAACGCGAAGGTCAGTGTAGTCGACCCCTGTAACATGGGTGACTT
TAACTAATAAACTGTACCAATTGGCCCGACCAAAAATTCTAGAAATAAATCCATGGATGGATATA
TGAGTCTAAATTCAGGGAAAATTTACGGAATCAGTTTCCGAGTTTTGAAACTCGAGATATGATTT
TTAAGGCGACAGTGACGCAGTTTTCCAGCCTGTCTGGAAAGGCCAAATTGGTCGGCACTTTAAGA
Found at i:42237666 original size:257 final size:260
Alignment explanation
Indices: 42237207--42237725 Score: 1008
Period size: 257 Copynumber: 2.0 Consensus size: 260
42237197 GGTGTTGATG
42237207 GGCAAGGGAAACATGTTTCCAACATGTTTGGTTAGTGAGTTATGTATGAAGAAATAAAATAAGAA
1 GGCAAGGGAAACATGTTTCCAACATGTTTGGTTAGTGAGTTATGTATGAAGAAATAAAATAAGAA
42237272 TTAGCATTAAAGAAATGAACAAAAAAAAAAAGATGAGCATGGATGCCCCCCCTTGCCGTGAGTTG
66 TTAGCATTAAAGAAATGAAC-AAAAAAAAAAGATGAGCATGGATGCCCCCCCTTGCCGTGAGTTG
42237337 TAGAGAAAGAAAGAAAAAAATTTTGTTCATCCATTTTTCACTTCTTTGGCCGAAAATACTAAGGA
130 TAGAGAAAGAAAGAAAAAAATTTTGTTCATCCATTTTTCACTTCTTTGGCCGAAAATACTAAGGA
42237402 AAAAGGGAGGATTTTTGCTCCA-TTTTTGGTTTAGAAGAGATCTAGAAGGAGATTTGGCTATACT
195 AAAAGGGAGGATTTTTGCTCCATTTTTTGGTTTAGAAGAGATCTAGAAGGAGATTTGGCTATACT
42237466 T
260 T
42237467 GGCAAGGGAAACATGTTTCCAACATGTTTGGTTAGTGAGTTATGTATGAAGAAATAAAATAAGAA
1 GGCAAGGGAAACATGTTTCCAACATGTTTGGTTAGTGAGTTATGTATGAAGAAATAAAATAAGAA
42237532 TTAGCATTAAAGAAATGAAC-AAAAAAAAAGATGAGCATGGATG-CCCCCCTTGCCGTGAGTTGT
66 TTAGCATTAAAGAAATGAACAAAAAAAAAAGATGAGCATGGATGCCCCCCCTTGCCGTGAGTTGT
42237595 AGAGAAAGAAAGAAAAAAATTTTGTTCATCCATTTTTCACTTCTTTGGCCGAAAATACTAAGGAA
131 AGAGAAAGAAAGAAAAAAATTTTGTTCATCCATTTTTCACTTCTTTGGCCGAAAATACTAAGGAA
42237660 AAAGGGAGGATTTTTGCTCCATTTTTTGGTTTAGAAGAGATCTAGAAGGAGATTTGGCTATACTT
196 AAAGGGAGGATTTTTGCTCCATTTTTTGGTTTAGAAGAGATCTAGAAGGAGATTTGGCTATACTT
42237725 G
1 G
42237726 CATCAAGATT
Statistics
Matches: 258, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
257 106 0.41
258 67 0.26
260 85 0.33
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (260 bp):
GGCAAGGGAAACATGTTTCCAACATGTTTGGTTAGTGAGTTATGTATGAAGAAATAAAATAAGAA
TTAGCATTAAAGAAATGAACAAAAAAAAAAGATGAGCATGGATGCCCCCCCTTGCCGTGAGTTGT
AGAGAAAGAAAGAAAAAAATTTTGTTCATCCATTTTTCACTTCTTTGGCCGAAAATACTAAGGAA
AAAGGGAGGATTTTTGCTCCATTTTTTGGTTTAGAAGAGATCTAGAAGGAGATTTGGCTATACTT
Found at i:42238858 original size:40 final size:39
Alignment explanation
Indices: 42238698--42238860 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
42238688 TGTGTATGAA
*
42238698 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
42238737 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
42238776 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
42238815 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
42238855 TGTGCG
1 TGTGCG
42238861 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:42238876 original size:40 final size:39
Alignment explanation
Indices: 42238698--42238891 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
42238688 TGTGTATGAA
* *
42238698 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
42238737 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
42238776 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
42238815 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
42238855 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
42238892 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:42246785 original size:40 final size:39
Alignment explanation
Indices: 42246625--42246787 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
42246615 TGTGTATGAA
*
42246625 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
42246664 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
42246703 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
42246742 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
42246782 TGTGCG
1 TGTGCG
42246788 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:42246803 original size:40 final size:39
Alignment explanation
Indices: 42246625--42246818 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
42246615 TGTGTATGAA
* *
42246625 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
42246664 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
42246703 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
42246742 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
42246782 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
42246819 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:42251656 original size:27 final size:27
Alignment explanation
Indices: 42251605--42251763 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
42251595 GCGAGGCTGC
* *
42251605 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
42251632 CAGATATTGTGGCAGAGCCATCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
42251658 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
42251685 CAGATAATTGTGGCATAACCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
42251712 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
42251739 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
42251764 GACGCTTCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.09
27 98 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:42251764 original size:54 final size:54
Alignment explanation
Indices: 42251623--42251766 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
42251613 GTGACGAAGT
* * *
42251623 CACCAGATACAGAT-ATTGTGGCAGAGCCATCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
42251677 CACCAGATCAGATAATTGTGGCATAACCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
42251731 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
42251767 GCTTCCTCCA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 79 0.94
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:42259737 original size:27 final size:27
Alignment explanation
Indices: 42259686--42259790 Score: 126
Period size: 27 Copynumber: 3.9 Consensus size: 27
42259676 GCGAGGCTGC
* *
42259686 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
42259713 CAGATATTGTGGCAGAGCCATCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
42259739 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
42259766 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
42259791 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
26 8 0.12
27 58 0.84
28 3 0.04
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:42262588 original size:20 final size:20
Alignment explanation
Indices: 42262552--42262589 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
42262542 GTAAACTTTG
*
42262552 TAAAATAGATGGTATTTTTC
1 TAAAATAGATGGAATTTTTC
42262572 TAAAATA-ATGGAAATTTT
1 TAAAATAGATGG-AATTTT
42262590 GGGTTTCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.42
Consensus pattern (20 bp):
TAAAATAGATGGAATTTTTC
Found at i:42262589 original size:19 final size:20
Alignment explanation
Indices: 42262552--42262589 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
42262542 GTAAACTTTG
* *
42262552 TAAAATAGATGGTATTTTTC
1 TAAAATAGATGGAAATTTTC
42262572 TAAAATA-ATGGAAATTTT
1 TAAAATAGATGGAAATTTT
42262590 GGGTTTCTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.42
Consensus pattern (20 bp):
TAAAATAGATGGAAATTTTC
Found at i:42263233 original size:49 final size:49
Alignment explanation
Indices: 42263175--42263343 Score: 198
Period size: 49 Copynumber: 3.5 Consensus size: 49
42263165 ATATAAGCTA
*
42263175 GTCTGGGACATGGCATCGACATCGATAGATGAGAGCCAGTGTAAGACCT
1 GTCTGGGACATGGCATCGACATCGATAGATGAAAGCCAGTGTAAGACCT
* * * * * *
42263224 GTCTGGGACACGACATCGGCCTCGATATATGAAAGTCAGTGTAAGACCT
1 GTCTGGGACATGGCATCGACATCGATAGATGAAAGCCAGTGTAAGACCT
* * **
42263273 GTCTGGGACATGGCATCGACTTTGAT-G-TGCTAGCCAGTGTAAGACCAT
1 GTCTGGGACATGGCATCGACATCGATAGATGAAAGCCAGTGTAAGACC-T
* *
42263321 GTCTGGGACATGGCGTCGGCATC
1 GTCTGGGACATGGCATCGACATC
42263344 TTATCCCATG
Statistics
Matches: 99, Mismatches: 20, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
47 16 0.16
48 20 0.20
49 63 0.64
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (49 bp):
GTCTGGGACATGGCATCGACATCGATAGATGAAAGCCAGTGTAAGACCT
Found at i:42266094 original size:40 final size:39
Alignment explanation
Indices: 42265934--42266096 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
42265924 TGTGTATGAA
*
42265934 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
42265973 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
42266012 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
42266051 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
42266091 TGTGCG
1 TGTGCG
42266097 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:42266112 original size:40 final size:39
Alignment explanation
Indices: 42265934--42266127 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
42265924 TGTGTATGAA
* *
42265934 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
42265973 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
42266012 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
42266051 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
42266091 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
42266128 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:42272536 original size:40 final size:39
Alignment explanation
Indices: 42272376--42272538 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
42272366 TGTGTATGAA
*
42272376 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
42272415 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
42272454 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
42272493 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
42272533 TGTGCG
1 TGTGCG
42272539 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:42272554 original size:40 final size:39
Alignment explanation
Indices: 42272376--42272569 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
42272366 TGTGTATGAA
* *
42272376 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
42272415 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
42272454 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
42272493 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
42272533 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
42272570 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:42277025 original size:79 final size:81
Alignment explanation
Indices: 42276888--42277064 Score: 225
Period size: 80 Copynumber: 2.2 Consensus size: 81
42276878 GAATGATATC
* *
42276888 CGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGC-ATTG
1 CGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTG
42276952 TGCGAGTTACCAAAAT
66 TGCGAGTTACCAAAAT
* * *
42276968 CGGGTTAAGTCCCGAAGGCATTTATGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAATT
1 CGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAATT
* * * * *
42277031 GTGCGAATCACTATAAC
65 GTGCGAGTTACCAAAAT
*
42277048 CGGGCTATGTCCCGAAG
1 CGGGCTAAGTCCCGAAG
42277065 ACATCGAGCG
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
78 1 0.01
79 28 0.34
80 54 0.65
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (81 bp):
CGGGCTAAGTCCCGAAGGCATTTATGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTG
TGCGAGTTACCAAAAT
Found at i:42277051 original size:40 final size:40
Alignment explanation
Indices: 42276885--42277064 Score: 163
Period size: 40 Copynumber: 4.5 Consensus size: 40
42276875 TTCGAATGAT
* ** * *
42276885 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAA-TTACTAA
* *
42276926 ATCCGGG-TCAATTCCCGAAGGC-ATTGTGCGAGTTACCAAA
1 ATCCGGGCT-AATTCCCGAAGGCAATTGTGCGAATTA-CTAA
* * * * *
42276966 AT-CGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTAA
1 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATTACTAA
*
42277005 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATA
1 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATTACTA-A
42277046 A-CCGGGCT-ATGTCCCGAAG
1 ATCCGGGCTAAT-TCCCGAAG
42277065 ACATCGAGCG
Statistics
Matches: 116, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
39 25 0.22
40 70 0.60
41 21 0.18
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATTACTAA
Found at i:42277088 original size:79 final size:79
Alignment explanation
Indices: 42276921--42277098 Score: 189
Period size: 79 Copynumber: 2.3 Consensus size: 79
42276911 GTGCTAAGTG
* * * * *
42276921 ACTAAATCCGGGTCAATTCCCGAAGGCATTGTGCGAGTTACCAAAATCGGGTTAAGTCCCGAAGG
1 ACTAAATCCGGGTCAATTCCCGAAGGCATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGA
** *
42276986 CATTTATGCGAGTT
66 CATCGATGCGAGTC
* * *
42277000 ACTAAATCCGGG-CTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAA
1 ACTAAATCCGGGTC-AATTCCCGAAGGC-ATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAA
42277064 GACATCGA-GCGAGTC
64 GACATCGATGCGAGTC
* * * *
42277079 GCTATATCCGGTTAAATTCC
1 ACTAAATCCGGGTCAATTCC
42277099 AAGGTACGTG
Statistics
Matches: 81, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
78 1 0.01
79 46 0.57
80 34 0.42
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (79 bp):
ACTAAATCCGGGTCAATTCCCGAAGGCATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGA
CATCGATGCGAGTC
Found at i:42285292 original size:40 final size:40
Alignment explanation
Indices: 42285241--42285334 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 40
42285231 CTTAGTATCA
* * * *
42285241 CACACTTAGTGCCACATATAGTCGACGCTAT-TCCAACTCG
1 CACACTAAGTGCCACATATAGCCGAAGCTATCTCCAA-ACG
* * *
42285281 CACACTAAGTGCTATATATAGCCGAAGCTATCTCGAAACG
1 CACACTAAGTGCCACATATAGCCGAAGCTATCTCCAAACG
42285321 CACACTAAGTGCCA
1 CACACTAAGTGCCA
42285335 AACTTAGTCT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
40 41 0.91
41 4 0.09
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (40 bp):
CACACTAAGTGCCACATATAGCCGAAGCTATCTCCAAACG
Found at i:42290156 original size:24 final size:24
Alignment explanation
Indices: 42290129--42290185 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
42290119 TCTATATTTG
* *
42290129 CATCTGTGTTTGTATCTGCATCTA
1 CATCTGTGTTAGTAACTGCATCTA
*
42290153 CATCTGTGTTAGTAACTGTATCTA
1 CATCTGTGTTAGTAACTGCATCTA
42290177 CATCTGTGT
1 CATCTGTGT
42290186 CTATATCAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.44
Consensus pattern (24 bp):
CATCTGTGTTAGTAACTGCATCTA
Found at i:42296196 original size:48 final size:48
Alignment explanation
Indices: 42296093--42296458 Score: 279
Period size: 48 Copynumber: 7.7 Consensus size: 48
42296083 CCACTTGTGT
* ** *
42296093 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACA-TTATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATAGAGACGA
* *
42296139 GAGCTAGTGTAAGACCATGTCTGGGAAATGGCATCGGTATAGAGACGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGACGA
* * * *
42296187 GAGCCAGTGTAAGACCATGTTTAGGACAGGGCATCGGCATAGAGACGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGACGA
* * * * *
42296235 GTGTTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGACGTA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGACG-A
* * *
42296282 -AGCCAATGTAAGA-CATGTCTGGGACAT-GCATTGGC-TA-AG-CGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGACGA
* * *** * *
42296324 TGTGTTAGTGTAAGACCATGTCTGGGACATGGCATCAATACAGATATGCGA
1 -GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGA--CGA
** * * * * *
42296375 GAGCTAGCATAAGACCATGTTTGGGACATGGCATTGGCCTCGATGATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGA-GACGA
* *
42296424 TAGCCAGTGTAAGACCATGT-TGGGGACATGGCATC
1 GAGCTAGTGTAAGACCATGTCT-GGGACATGGCATC
42296459 AGCAGTTACC
Statistics
Matches: 250, Mismatches: 55, Indels: 27
0.75 0.17 0.08
Matches are distributed among these distances:
42 1 0.00
43 2 0.01
44 11 0.04
45 15 0.06
46 62 0.25
47 29 0.12
48 65 0.26
49 30 0.12
50 31 0.12
51 4 0.02
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (48 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGACGA
Found at i:42298208 original size:27 final size:27
Alignment explanation
Indices: 42298177--42298228 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
42298167 CATCTGATAT
*
42298177 TGATTCT-GTATTGGGCTTAGGCCCACC
1 TGATTCTAGTAATGGGC-TAGGCCCACC
*
42298204 TGATTCTATTAATGGGCTAGGCCCA
1 TGATTCTAGTAATGGGCTAGGCCCA
42298229 ACTGTTACTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.19, C:0.23, G:0.25, T:0.33
Consensus pattern (27 bp):
TGATTCTAGTAATGGGCTAGGCCCACC
Found at i:42301855 original size:40 final size:40
Alignment explanation
Indices: 42301811--42302014 Score: 313
Period size: 40 Copynumber: 5.1 Consensus size: 40
42301801 CAGGATTTTT
*
42301811 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
42301851 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACCTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
42301891 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
42301931 CCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
42301971 CCGGA-ATTAGTCACTAGCACAAAGGCCTTCGGGACCTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
42302011 CCGG
1 CCGG
42302015 TTATCATCCG
Statistics
Matches: 153, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 2 0.01
40 151 0.99
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.21
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:42309804 original size:40 final size:40
Alignment explanation
Indices: 42309742--42309957 Score: 276
Period size: 40 Copynumber: 5.4 Consensus size: 40
42309732 AAACCAAGTA
* * *
42309742 CCTTCGGGATTTTG-CCGGATATAGCT-ACTAGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTAGCACAAATG
* *
42309781 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCAAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* ***
42309821 CCTTCGGGACCTAGCCCGGATATAGTAACTCTTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
42309861 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
42309901 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCACAAATG
* *
42309941 CTTTCGGGACCTAGCCC
1 CCTTCGGGACTTAGCCC
42309958 AGTTATCATC
Statistics
Matches: 156, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 14 0.09
40 142 0.91
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:42311193 original size:13 final size:13
Alignment explanation
Indices: 42311175--42311218 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
42311165 TTATCCTTAG
42311175 TATTTCTTTTATT
1 TATTTCTTTTATT
* *
42311188 TATTTCCTTTA-G
1 TATTTCTTTTATT
42311200 TATTTCTTTTATT
1 TATTTCTTTTATT
42311213 TATTTC
1 TATTTC
42311219 CTTTCTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.16, C:0.11, G:0.02, T:0.70
Consensus pattern (13 bp):
TATTTCTTTTATT
Found at i:42311222 original size:25 final size:25
Alignment explanation
Indices: 42311152--42311222 Score: 110
Period size: 25 Copynumber: 2.8 Consensus size: 25
42311142 CTTTCATTAT
42311152 TTTCTTTCT-TTTATTATCC-TTAGTA
1 TTTCTTT-TATTTATT-TCCTTTAGTA
42311177 TTTCTTTTATTTATTTCCTTTAGTA
1 TTTCTTTTATTTATTTCCTTTAGTA
42311202 TTTCTTTTATTTATTTCCTTT
1 TTTCTTTTATTTATTTCCTTT
42311223 CTTTTACATA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
24 4 0.09
25 40 0.91
ACGTcount: A:0.14, C:0.14, G:0.03, T:0.69
Consensus pattern (25 bp):
TTTCTTTTATTTATTTCCTTTAGTA
Found at i:42312686 original size:30 final size:32
Alignment explanation
Indices: 42312646--42312705 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
42312636 TCATGCTCAA
42312646 CTTTTACTTTTTAGAC-TTTGAACAAACTTTT
1 CTTTTACTTTTTAGACTTTTGAACAAACTTTT
**
42312677 CTTTT-CTTTTTATTCTTTTGAACAAACTT
1 CTTTTACTTTTTAGACTTTTGAACAAACTT
42312706 ACCTTTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 8 0.31
31 18 0.69
ACGTcount: A:0.23, C:0.17, G:0.05, T:0.55
Consensus pattern (32 bp):
CTTTTACTTTTTAGACTTTTGAACAAACTTTT
Found at i:42312725 original size:31 final size:31
Alignment explanation
Indices: 42312646--42312726 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
42312636 TCATGCTCAA
* **
42312646 CTTTTACTTTTTAGAC-TTTGAACAAACTTTT
1 CTTTT-CTTTTTAGTCTTTTGAACAAACTTAC
*
42312677 CTTTTCTTTTTATTCTTTTGAACAAACTTAC
1 CTTTTCTTTTTAGTCTTTTGAACAAACTTAC
*
42312708 CTTTT-TTCTTTCGTCTTTT
1 CTTTTCTT-TTTAGTCTTTT
42312727 TTTTTGAATC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
30 10 0.24
31 32 0.76
ACGTcount: A:0.19, C:0.19, G:0.05, T:0.58
Consensus pattern (31 bp):
CTTTTCTTTTTAGTCTTTTGAACAAACTTAC
Found at i:42313385 original size:32 final size:32
Alignment explanation
Indices: 42313349--42313412 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
42313339 TTGAACACCA
* *
42313349 GGTAGGGTTGTAATTAAAGAGAGGTGAGTCTT
1 GGTAGGGCTGTAATTAAAGAGAGGTAAGTCTT
42313381 GGTAGGGCTGTAATTAAAGAGAGGTAAGTCTT
1 GGTAGGGCTGTAATTAAAGAGAGGTAAGTCTT
42313413 AGAGACTGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.30, C:0.05, G:0.36, T:0.30
Consensus pattern (32 bp):
GGTAGGGCTGTAATTAAAGAGAGGTAAGTCTT
Found at i:42328870 original size:58 final size:61
Alignment explanation
Indices: 42328808--42328940 Score: 166
Period size: 61 Copynumber: 2.2 Consensus size: 61
42328798 ATCACTTTAA
* *
42328808 TATTAAATTAATATAATACTTATC-A-AA-ATAAATATTAGATTAAATTTAATATT-AAAT
1 TATTAAATTAATATAATACTTATCTATAAGAAAAATATTAAATTAAATTTAATATTAAAAT
* * * *
42328865 CTATTAAATTAATAGAATATTTATCTATAAGAAAAATATTAAATTAATTTTTATATTAAAAT
1 -TATTAAATTAATATAATACTTATCTATAAGAAAAATATTAAATTAAATTTAATATTAAAAT
*
42328927 TATTAAAATAATAT
1 TATTAAATTAATAT
42328941 TATTTTTGAA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
58 22 0.35
59 1 0.02
60 2 0.03
61 34 0.54
62 4 0.06
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (61 bp):
TATTAAATTAATATAATACTTATCTATAAGAAAAATATTAAATTAAATTTAATATTAAAAT
Found at i:42331286 original size:35 final size:35
Alignment explanation
Indices: 42331238--42331342 Score: 122
Period size: 35 Copynumber: 3.0 Consensus size: 35
42331228 GAGCGGTATT
*
42331238 GTGTAAACGATATACAAGTCCTAC-GAGGTGACACC
1 GTGTAAACAATATACAAGTCCTACAG-GGTGACACC
* *
42331273 GTGTAAACAATATACAAGTCCTACAGGGTGATACT
1 GTGTAAACAATATACAAGTCCTACAGGGTGACACC
*** * *
42331308 GTGTAAATGGTATACATGTCCTTCAGGGTGACACC
1 GTGTAAACAATATACAAGTCCTACAGGGTGACACC
42331343 TTAAAAGGAG
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
35 58 0.98
36 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (35 bp):
GTGTAAACAATATACAAGTCCTACAGGGTGACACC
Found at i:42343241 original size:19 final size:19
Alignment explanation
Indices: 42343217--42343262 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
42343207 ATTATTATAT
42343217 CATGTCAAGATTTCCATGC
1 CATGTCAAGATTTCCATGC
42343236 CATGTCAAGATTTCCATGC
1 CATGTCAAGATTTCCATGC
*
42343255 CATCTCAA
1 CATGTCAA
42343263 AAGTTCGATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.30
Consensus pattern (19 bp):
CATGTCAAGATTTCCATGC
Found at i:42345394 original size:78 final size:80
Alignment explanation
Indices: 42345273--42345452 Score: 233
Period size: 78 Copynumber: 2.3 Consensus size: 80
42345263 TACTCGTTCA
* **
42345273 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGA
*
42345337 TTTAATAAC-TCGCAC
65 TTTAATAACTTAGCAC
**
42345352 AATGCCTTCGGG-CTTAGCCCGAA-ATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGAATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
42345415 TTTAGTCACTTAGCAC
65 TTTAATAACTTAGCAC
*
42345431 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
42345453 GACATCATTC
Statistics
Matches: 88, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
77 4 0.05
78 47 0.53
79 28 0.32
80 9 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
TTAATAACTTAGCAC
Found at i:42345454 original size:40 final size:40
Alignment explanation
Indices: 42345271--42345454 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
42345261 GCTACTCGTT
*
42345271 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
42345311 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
42345351 C-AATGCCTTCGGG-CTTAGCCCGAAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
42345389 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
42345430 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42345455 CATCATTCGA
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 24 0.19
39 21 0.17
40 67 0.54
41 13 0.10
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:42353450 original size:78 final size:80
Alignment explanation
Indices: 42353330--42353510 Score: 246
Period size: 78 Copynumber: 2.3 Consensus size: 80
42353320 TACTCGTTCA
* *
42353330 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
42353393 ATTTAGTAACTCA-CAC
65 A-TTAGTAACTCAGCAC
**
42353409 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
42353472 TTAGTCACTTAGCAC
66 TTAGTAACTCAGCAC
*
42353487 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
42353511 CATCATTCGA
Statistics
Matches: 91, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
77 12 0.13
78 55 0.60
79 24 0.26
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TTAGTAACTCAGCAC
Found at i:42353452 original size:39 final size:40
Alignment explanation
Indices: 42353328--42353510 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
42353318 GCTACTCGTT
* *
42353328 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
42353368 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
42353408 C-AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
42353446 CAAATGCCTTC-GGATCTTAGTCCGG-ATTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAATTAGTAAC-TCGCA
42353486 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42353511 CATCATTCGA
Statistics
Matches: 126, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
38 25 0.20
39 44 0.35
40 55 0.44
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:42357372 original size:40 final size:39
Alignment explanation
Indices: 42357207--42357390 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
42357197 AAATTGAATG
* * *
42357207 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
42357247 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
42357287 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
42357327 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
42357366 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
42357391 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:42357415 original size:80 final size:81
Alignment explanation
Indices: 42357247--42357435 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
42357237 GCTGGAAATT
* * * *
42357247 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
42357312 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
42357328 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
42357391 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
42357407 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
42357436 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:42365610 original size:28 final size:27
Alignment explanation
Indices: 42365547--42365616 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
42365537 ATAGTGAGTC
42365547 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
42365574 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
42365602 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42365617 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:42370878 original size:29 final size:29
Alignment explanation
Indices: 42370845--42371005 Score: 259
Period size: 29 Copynumber: 5.6 Consensus size: 29
42370835 GTGACGAGAT
42370845 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
42370874 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
42370903 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
42370932 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
42370961 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
42370990 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
42371006 AGTTCGGAGG
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 123 1.00
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:42378971 original size:29 final size:29
Alignment explanation
Indices: 42378938--42379098 Score: 259
Period size: 29 Copynumber: 5.6 Consensus size: 29
42378928 GTGACGAGAT
42378938 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
42378967 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
42378996 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
42379025 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
42379054 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
42379083 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
42379099 AGTTCGGAGG
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 123 1.00
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:42388693 original size:23 final size:23
Alignment explanation
Indices: 42388665--42388708 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
42388655 ATTGGATTGA
42388665 ATTGTATAAGCTTACTAAGTAAT
1 ATTGTATAAGCTTACTAAGTAAT
42388688 ATTGTATAAGCTTACTAAGTA
1 ATTGTATAAGCTTACTAAGTA
42388709 TTTTACATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (23 bp):
ATTGTATAAGCTTACTAAGTAAT
Found at i:42394613 original size:11 final size:11
Alignment explanation
Indices: 42394597--42394622 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
42394587 CAAAGCCCAC
42394597 ATCACAATAAT
1 ATCACAATAAT
42394608 ATCACAATAAT
1 ATCACAATAAT
42394619 ATCA
1 ATCA
42394623 TACATGCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
ATCACAATAAT
Found at i:42395307 original size:28 final size:27
Alignment explanation
Indices: 42395275--42395364 Score: 108
Period size: 29 Copynumber: 3.1 Consensus size: 27
42395265 CATATACTTG
*
42395275 TATATGGCCCACTAGGCACAATCACATT
1 TATATGGCCCA-TAGGCCCAATCACATT
* *
42395303 TATATGGCCTATTAAGCCCAAATCACATT
1 TATATGGCCCA-TAGGCCC-AATCACATT
42395332 TATATGGCCCATCAGGCCCAATTCACATT
1 TATATGGCCCAT-AGGCCCAA-TCACATT
42395361 TATA
1 TATA
42395365 GTCATGCTCA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
28 18 0.34
29 35 0.66
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (27 bp):
TATATGGCCCATAGGCCCAATCACATT
Found at i:42395610 original size:16 final size:16
Alignment explanation
Indices: 42395589--42395631 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
42395579 GTAGTCAAAC
**
42395589 TTTTGGCTTTTCGGTA
1 TTTTGGCTTTTCGACA
*
42395605 TTTTGGGTTTTCGACA
1 TTTTGGCTTTTCGACA
*
42395621 TTTCGGCTTTT
1 TTTTGGCTTTT
42395632 GCCGATCCAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.07, C:0.14, G:0.23, T:0.56
Consensus pattern (16 bp):
TTTTGGCTTTTCGACA
Found at i:42397346 original size:43 final size:43
Alignment explanation
Indices: 42397298--42397383 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
42397288 TTTGTGTCAA
42397298 ATTTTACCAGGCCTTATTAATAAGCCTTCCACGTAATGCTCAG
1 ATTTTACCAGGCCTTATTAATAAGCCTTCCACGTAATGCTCAG
42397341 ATTTTACCAGGCCTTATTAATAAGCCTTCCACGTAATGCTCAG
1 ATTTTACCAGGCCTTATTAATAAGCCTTCCACGTAATGCTCAG
42397384 GGTTCTTTAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (43 bp):
ATTTTACCAGGCCTTATTAATAAGCCTTCCACGTAATGCTCAG
Found at i:42399472 original size:29 final size:29
Alignment explanation
Indices: 42399382--42399541 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
42399372 ACTCGATTTC
* * **
42399382 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
42399411 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
42399439 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
42399469 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
42399498 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
42399527 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
42399542 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:42407410 original size:29 final size:29
Alignment explanation
Indices: 42407320--42407479 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
42407310 ACTCGATTTC
* * **
42407320 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
42407349 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
42407377 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
42407407 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
42407436 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
42407465 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
42407480 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:42416017 original size:13 final size:13
Alignment explanation
Indices: 42415999--42416035 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
42415989 CTCAGCAAGG
42415999 ACACGCCTGTGGC
1 ACACGCCTGTGGC
*
42416012 ACACGCCCGTGGC
1 ACACGCCTGTGGC
*
42416025 ACACGCGTGTG
1 ACACGCCTGTG
42416036 TTCAATTACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.16, C:0.38, G:0.32, T:0.14
Consensus pattern (13 bp):
ACACGCCTGTGGC
Found at i:42418989 original size:37 final size:37
Alignment explanation
Indices: 42418930--42419038 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
42418920 AGCTCAGATG
* * *
42418930 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGGCA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
42418967 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
42419004 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
42419039 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:42419237 original size:48 final size:48
Alignment explanation
Indices: 42419179--42419374 Score: 320
Period size: 48 Copynumber: 4.0 Consensus size: 48
42419169 ATATACACAC
*
42419179 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
42419227 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
42419275 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATAAAT
1 ATCTC--ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
42419325 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
42419373 AT
1 AT
42419375 ATTTATCTTG
Statistics
Matches: 138, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
48 93 0.67
50 45 0.33
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:42419338 original size:98 final size:98
Alignment explanation
Indices: 42419188--42419374 Score: 338
Period size: 98 Copynumber: 1.9 Consensus size: 98
42419178 CATCTCCTAC
*
42419188 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATAAATATCTCATACATATTTCACACTAGCCA
*
42419253 TTCGGCTTTACCACATATACATATCTCATATAT
66 TTCGGCTTTACCACACATACATATCTCATATAT
*
42419286 ATATTTCACATTAGCCATTCGGCTTTACCACATATAAATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATAAATATCTCATACATATTTCACACTAGCCA
*
42419351 TTCGGCTTTACCACACATATATAT
66 TTCGGCTTTACCACACATACATAT
42419375 ATTTATCTTG
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 85 1.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (98 bp):
ATATTTCACACTAGCCATTCGGCTTTACCACATATAAATATCTCATACATATTTCACACTAGCCA
TTCGGCTTTACCACACATACATATCTCATATAT
Found at i:42422270 original size:79 final size:81
Alignment explanation
Indices: 42422169--42422353 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 81
42422159 ACGACTCGCT
** *
42422169 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGCGA-CTCGCACGAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TA-CGATCTCGCACGAATGCCTTC-GGATCCTAACC
* *
42422231 CGGGTTTAGTAACTT-GCA
63 CGGATATAGTAACTTAGCA
** **
42422249 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTATCTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTACGATCTCGCACGAATGCCTTCGGATCCTAACCCGG
*
42422313 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
42422329 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42422354 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
78 4 0.04
79 52 0.58
80 34 0.38
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTACGATCTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:42422294 original size:39 final size:40
Alignment explanation
Indices: 42422162--42422353 Score: 142
Period size: 40 Copynumber: 4.8 Consensus size: 40
42422152 GGATATAACG
* * * **
42422162 ACTCGCTCAAATGCCTTCGGGAC-GAAGCCCGG-TTATAGCG
1 ACTCGCACGAATGCCTTCGGGACTTAA-CCCGGATT-TAGTA
*
42422202 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
* * * *
42422242 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
* * ** * *
42422281 TCTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGATTTAGTA
* * *
42422321 ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACGAATGCCTTCGGGACTTAACCCGGA
42422354 CATCATTCGA
Statistics
Matches: 123, Mismatches: 23, Indels: 12
0.78 0.15 0.08
Matches are distributed among these distances:
38 2 0.02
39 30 0.24
40 79 0.64
41 12 0.10
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
Found at i:42432984 original size:6 final size:6
Alignment explanation
Indices: 42432973--42433005 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
42432963 GAATCCTATC
*
42432973 TTTTTA TTTTTA TTTTTA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
42433006 CAATTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:42433011 original size:18 final size:18
Alignment explanation
Indices: 42432973--42433012 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
42432963 GAATCCTATC
* **
42432973 TTTTTATTTTTATTTTTA
1 TTTTTATTTTCATTTCAA
42432991 TTTTTATTTTCATTTCAA
1 TTTTTATTTTCATTTCAA
42433009 TTTT
1 TTTT
42433013 ATTATTTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTATTTTCATTTCAA
Found at i:42437525 original size:40 final size:40
Alignment explanation
Indices: 42437481--42437711 Score: 304
Period size: 40 Copynumber: 5.8 Consensus size: 40
42437471 GGATATAGCT
* * * *
42437481 ACTCGCTCAAATGCCTTTGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
42437521 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
42437561 ACTCGCCCAAATGCCTTCGAGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
42437601 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* ** *
42437641 ACTCTCACAAATGCCTTCGGGACTT-GCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
42437680 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
42437712 TTATCATCCA
Statistics
Matches: 169, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 32 0.19
40 135 0.80
41 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:42438422 original size:2 final size:2
Alignment explanation
Indices: 42438415--42438440 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
42438405 ATGTGCAAAC
42438415 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
42438441 GTGCAAGAGC
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:42444159 original size:39 final size:39
Alignment explanation
Indices: 42444075--42444226 Score: 241
Period size: 39 Copynumber: 3.9 Consensus size: 39
42444065 TATGGTAACC
* * * * *
42444075 CGCACAAATGCCTTCGGGACTTAACCCAGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
42444115 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
42444154 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
42444193 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
42444227 CTCGACATTC
Statistics
Matches: 105, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 88 0.84
40 17 0.16
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:42452177 original size:37 final size:37
Alignment explanation
Indices: 42452051--42452199 Score: 228
Period size: 37 Copynumber: 3.9 Consensus size: 37
42452041 TATGGTAACC
* *
42452051 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAAT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCAC-AT
*
42452090 CGCACAATTGCCTTCGGGCTTAG-CCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACA--T
42452128 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAT
42452165 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
42452200 TCGAACTTCA
Statistics
Matches: 103, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
36 1 0.01
37 46 0.45
38 28 0.27
39 28 0.27
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.23
Consensus pattern (37 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAT
Found at i:42459981 original size:40 final size:39
Alignment explanation
Indices: 42459944--42460125 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 39
42459934 GCTACTCGTT
*
42459944 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTT-TAGTAACTCGCA
* * *
42459984 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTTAGTAACTCGCA
**
42460024 C-AATGCCTTCGGG-CTTAGCCCGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTTAGTAACTCGCA
* * *
42460061 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TTTAGTAAC-TCGCA
42460102 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
42460126 ACATCATTCG
Statistics
Matches: 120, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
37 14 0.12
38 17 0.14
39 20 0.17
40 56 0.47
41 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTTAGTAACTCGCA
Found at i:42460073 original size:77 final size:80
Alignment explanation
Indices: 42459946--42460124 Score: 240
Period size: 77 Copynumber: 2.3 Consensus size: 80
42459936 TACTCGTTCA
* **
42459946 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGA
42460010 TTTAATAACTCA-CAC
65 TTTAATAACTCAGCAC
**
42460025 AATGCCTTCGGG-CTTAGCCCGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* * *
42460088 TTAGTCACTTAGCAC
66 TTAATAACTCAGCAC
*
42460103 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
42460125 GACATCATTC
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
76 3 0.03
77 41 0.47
78 23 0.26
79 21 0.24
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
TTAATAACTCAGCAC
Found at i:42465128 original size:27 final size:26
Alignment explanation
Indices: 42465064--42465121 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
42465054 CGTAAGCATT
*
42465064 ATGTTTTCAG--AAAAACATTTGTTG
1 ATGTTTTCAGAAAAAAACAATTGTTG
42465088 ATGTTTTCAGAAAAAAACAATTGTTTG
1 ATGTTTTCAGAAAAAAACAATTG-TTG
42465115 -TGTTTTC
1 ATGTTTTC
42465122 TTGAAAATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 10 0.33
26 17 0.57
27 3 0.10
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.43
Consensus pattern (26 bp):
ATGTTTTCAGAAAAAAACAATTGTTG
Found at i:42465518 original size:34 final size:34
Alignment explanation
Indices: 42465443--42465524 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 34
42465433 TTTCAGTTTG
*
42465443 GGCCTTAGCCCCTTTTCAGTAACAACAACAGTCT
1 GGCCTTAGCCCATTTTCAGTAACAACAACAGTCT
* *
42465477 GGACCTTAGCCCATTTT-AGTGATAA-AAGCAGTCT
1 GG-CCTTAGCCCATTTTCAGTAACAACAA-CAGTCT
42465511 AGGCCTTAGCCCAT
1 -GGCCTTAGCCCAT
42465525 ATCAATACAG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 2 0.05
34 25 0.60
35 15 0.36
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (34 bp):
GGCCTTAGCCCATTTTCAGTAACAACAACAGTCT
Found at i:42468418 original size:20 final size:20
Alignment explanation
Indices: 42468393--42468431 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
42468383 TGTATCCATA
42468393 AAATTTCAAAATTTTTCATC
1 AAATTTCAAAATTTTTCATC
* *
42468413 AAATTTTACAATTTTTCAT
1 AAATTTCAAAATTTTTCAT
42468432 TTTAGTCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (20 bp):
AAATTTCAAAATTTTTCATC
Found at i:42472660 original size:17 final size:17
Alignment explanation
Indices: 42472630--42472662 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
42472620 ACCCAATGAT
42472630 TTCGGTTTGAGGGAGAA
1 TTCGGTTTGAGGGAGAA
42472647 TTCGGCTTTG-GGGAGA
1 TTCGG-TTTGAGGGAGA
42472663 GCTTTAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.18, C:0.09, G:0.42, T:0.30
Consensus pattern (17 bp):
TTCGGTTTGAGGGAGAA
Found at i:42473793 original size:27 final size:27
Alignment explanation
Indices: 42473756--42473860 Score: 147
Period size: 27 Copynumber: 3.9 Consensus size: 27
42473746 CGTTTTGGGA
* *
42473756 AAATACCCCCATTGGGTGAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
42473783 AAATACCCCCATAGGGTAAAATAACCA
1 AAATACCCCCATAGGGTAAAATGACCG
* *
42473810 AAATACTCCCATCGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
*
42473837 AAATACCCCCATAGAGTAAAATGA
1 AAATACCCCCATAGGGTAAAATGA
42473861 TCAAAGTTGT
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.42, C:0.25, G:0.16, T:0.17
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACCG
Found at i:42473837 original size:54 final size:54
Alignment explanation
Indices: 42473755--42473858 Score: 172
Period size: 54 Copynumber: 1.9 Consensus size: 54
42473745 CCGTTTTGGG
* * *
42473755 AAAATACCCCCATTGGGTGAAATGACCGAAATACCCCCATAGGGTAAAATAACC
1 AAAATACCCCCATCGGGTAAAATGACCGAAATACCCCCATAGAGTAAAATAACC
*
42473809 AAAATACTCCCATCGGGTAAAATGACCGAAATACCCCCATAGAGTAAAAT
1 AAAATACCCCCATCGGGTAAAATGACCGAAATACCCCCATAGAGTAAAAT
42473859 GATCAAAGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.42, C:0.25, G:0.15, T:0.17
Consensus pattern (54 bp):
AAAATACCCCCATCGGGTAAAATGACCGAAATACCCCCATAGAGTAAAATAACC
Found at i:42475704 original size:40 final size:39
Alignment explanation
Indices: 42475539--42475730 Score: 145
Period size: 40 Copynumber: 4.8 Consensus size: 39
42475529 AAATTGAATG
* * *
42475539 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
42475579 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
42475619 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
42475659 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * * *
42475698 GATATCCGGGTTAAGTCCCGTAGGCATTGGTGC
1 -ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
42475731 GGGTTACCAT
Statistics
Matches: 120, Mismatches: 27, Indels: 10
0.76 0.17 0.06
Matches are distributed among these distances:
37 4 0.03
38 2 0.02
39 3 0.03
40 111 0.93
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:42475705 original size:80 final size:80
Alignment explanation
Indices: 42475583--42475731 Score: 192
Period size: 80 Copynumber: 1.9 Consensus size: 80
42475573 GAAATTATAA
* * * *
42475583 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
42475648 TGCGAGTCATTCTAT
66 TGCGAGTCATTCTAT
* * * * * *
42475663 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCATTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTC
42475727 GTGCG
65 GTGCG
42475732 GGTTACCATA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.02
80 57 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATTCTAT
Found at i:42475747 original size:80 final size:81
Alignment explanation
Indices: 42475579--42475750 Score: 188
Period size: 80 Copynumber: 2.1 Consensus size: 81
42475569 GCTGGAAATT
* * * *
42475579 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
42475644 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
42475660 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * *
42475723 ATTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
42475739 ATAACCGGGCTA
1 ATAACCGGGCTA
42475751 TGTCCTGAAG
Statistics
Matches: 74, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
79 2 0.03
80 72 0.97
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:42477199 original size:27 final size:27
Alignment explanation
Indices: 42477169--42477358 Score: 222
Period size: 27 Copynumber: 7.0 Consensus size: 27
42477159 GGTGTTACAA
** *
42477169 AAATACCCCCATAGGGTAAAATGACAG
1 AAATACCCCTGTAGGGTAAAATGACTG
* ** * *
42477196 AAATAACCCAATAGAGTAAAATGACCG
1 AAATACCCCTGTAGGGTAAAATGACTG
*
42477223 AAATA-CCCTCATAGGGTAAAATGACTG
1 AAATACCCCT-GTAGGGTAAAATGACTG
42477250 AAATACCCCTGTAGGGTAAAATGACTG
1 AAATACCCCTGTAGGGTAAAATGACTG
* *
42477277 TAATACCCCTGTTGGGTAAAATGACT-
1 AAATACCCCTGTAGGGTAAAATGACTG
*
42477303 ATAATACCCCTGTAAGGTAAAATGACTG
1 A-AATACCCCTGTAGGGTAAAATGACTG
* *
42477331 TAATACCCCTGTAAGGTAAAATGACTG
1 AAATACCCCTGTAGGGTAAAATGACTG
42477358 A
1 A
42477359 TTTGCCCTAC
Statistics
Matches: 144, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
26 3 0.02
27 137 0.95
28 4 0.03
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAAAATGACTG
Found at i:42499874 original size:49 final size:48
Alignment explanation
Indices: 42499765--42499887 Score: 122
Period size: 49 Copynumber: 2.5 Consensus size: 48
42499755 CTTGTTGTGT
* * *
42499765 GTCAGTGTAAGACCTATTTGGGACATGGTATCGACACCGATAGATGAGA
1 GTCAGTGTAAGA-CTGTCTGGGACATGGTATCGACACCGATAGATGAAA
* * * * * *
42499814 GCCAGTATAAGATCTGTCTGAGACATGGTATCGGC-CTCGATATATTAAA
1 GTCAGTGTAAGA-CTGTCTGGGACATGGTATCGACAC-CGATAGATGAAA
42499863 GTCAGTGTAAGACTTGTCTGGGACA
1 GTCAGTGTAAGAC-TGTCTGGGACA
42499888 CGACATCAGC
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
48 2 0.03
49 57 0.97
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (48 bp):
GTCAGTGTAAGACTGTCTGGGACATGGTATCGACACCGATAGATGAAA
Found at i:42507847 original size:70 final size:71
Alignment explanation
Indices: 42507764--42507926 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
42507754 CGATTTGTCT
42507764 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
42507828 CTTTCA
66 CTTTCA
42507834 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
42507899 CTTTCA
66 CTTTCA
42507905 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
42507927 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 52 0.57
71 40 0.43
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Done.