Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 94 of 185
Found at i:29892403 original size:27 final size:27
Alignment explanation
Indices: 29892263--29892440 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
29892253 TAAATTGTAC
29892263 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
29892290 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
29892316 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
29892344 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
29892372 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
29892399 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
29892426 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29892441 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:29892404 original size:82 final size:81
Alignment explanation
Indices: 29892264--29892419 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
29892254 AAATTGTACA
* * * *
29892264 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
29892329 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
29892345 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
29892408 TGTGCGAGTTGA
63 TGTGCGAATTGA
29892420 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:29894194 original size:27 final size:27
Alignment explanation
Indices: 29894161--29894472 Score: 328
Period size: 27 Copynumber: 11.6 Consensus size: 27
29894151 ATAACAGTCA
29894161 GTATTTCGATAATTTTACCCATCGAGG
1 GTATTTCGATAATTTTACCCATCGAGG
*
29894188 GTCTTTCGATAATTTTACCCATCGAGG
1 GTATTTCGATAATTTTACCCATCGAGG
*
29894215 GTATTTCGATAATTTTACCCTTCG-GG
1 GTATTTCGATAATTTTACCCATCGAGG
* * *
29894241 GATATTTCGGTAATTTTACCTATCGGGG
1 G-TATTTCGATAATTTTACCCATCGAGG
* *
29894269 GTATTTCGATAATTTTACCCTTCGGGG
1 GTATTTCGATAATTTTACCCATCGAGG
29894296 GTATTTC-AGTAATTTTACCCATCGAGG
1 GTATTTCGA-TAATTTTACCCATCGAGG
* *
29894323 GCATTTC-ATTAATTTTACACATCGAGG
1 GTATTTCGA-TAATTTTACCCATCGAGG
* * *
29894350 ATATTTC-AGTAGTTTGACCCATCGAGG
1 GTATTTCGA-TAATTTTACCCATCGAGG
* * * * * *
29894377 GTATTTTGGTAGTTTTATCTACCGAGG
1 GTATTTCGATAATTTTACCCATCGAGG
* * * *
29894404 GTATTTTGGTAAGTTTACCCATCGAGT
1 GTATTTCGATAATTTTACCCATCGAGG
*
29894431 GTATTTC-AGCAATTTTACCCATCGAGG
1 GTATTTCGA-TAATTTTACCCATCGAGG
*
29894458 GTATTTTGATAATTT
1 GTATTTCGATAATTT
29894473 AGGCCTATTA
Statistics
Matches: 239, Mismatches: 40, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
26 4 0.02
27 231 0.97
28 4 0.02
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.39
Consensus pattern (27 bp):
GTATTTCGATAATTTTACCCATCGAGG
Found at i:29895265 original size:24 final size:23
Alignment explanation
Indices: 29895237--29895281 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
29895227 AAAAGAAAAA
29895237 GAAAA-TAGAGCAGAAAACGTACTC
1 GAAAACTAG-GCA-AAAACGTACTC
*
29895261 GAAAACTTGGCAAAAACGTAC
1 GAAAACTAGGCAAAAACGTAC
29895282 CAAACACGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 9 0.47
24 8 0.42
25 2 0.11
ACGTcount: A:0.49, C:0.18, G:0.20, T:0.13
Consensus pattern (23 bp):
GAAAACTAGGCAAAAACGTACTC
Found at i:29895698 original size:25 final size:25
Alignment explanation
Indices: 29895648--29895701 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
29895638 TGAACCTCTA
*
29895648 ACCTCCTTACCACACCTGTGATGCC
1 ACCTCCTTACCACACCTATGATGCC
*
29895673 ACCTCCTTGCCACACCTATG-TCGCC
1 ACCTCCTTACCACACCTATGAT-GCC
29895698 ACCT
1 ACCT
29895702 TGGCACTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 25 0.96
ACGTcount: A:0.19, C:0.46, G:0.11, T:0.24
Consensus pattern (25 bp):
ACCTCCTTACCACACCTATGATGCC
Found at i:29898999 original size:34 final size:35
Alignment explanation
Indices: 29898954--29899021 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 35
29898944 CCAGTAAAAT
*
29898954 ATTTTCCGTAAAATGATTT-CGGGAAAATGTTTTA
1 ATTTTCCGTAAAATGATTTACGGGAAAATATTTTA
* *
29898988 ATTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 ATTTTCCGTAAAATGATTTACGGGAAAATATTTT
29899022 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 18 0.60
35 12 0.40
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (35 bp):
ATTTTCCGTAAAATGATTTACGGGAAAATATTTTA
Found at i:29899025 original size:14 final size:15
Alignment explanation
Indices: 29898988--29899025 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
29898978 AAATGTTTTA
*
29898988 ATTTTCTGTAAAATG
1 ATTTTCTGGAAAATG
*
29899003 ATTTACTGGAAAAT-
1 ATTTTCTGGAAAATG
29899017 ATTTTCTGG
1 ATTTTCTGG
29899026 TGTTTGATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.45
Consensus pattern (15 bp):
ATTTTCTGGAAAATG
Found at i:29900140 original size:40 final size:40
Alignment explanation
Indices: 29900096--29900173 Score: 131
Period size: 40 Copynumber: 1.9 Consensus size: 40
29900086 GGTTAAATAA
*
29900096 TTATTATTAATTAAATTATGAAAAGAG-CCTCAATTGTGAC
1 TTATTATGAATTAAATTATGAAAAGAGACC-CAATTGTGAC
29900136 TTATTATGAATTAAATTATGAAAAGAGACCCAATTGTG
1 TTATTATGAATTAAATTATGAAAAGAGACCCAATTGTG
29900174 CTGAACCGAG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 34 0.94
41 2 0.06
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (40 bp):
TTATTATGAATTAAATTATGAAAAGAGACCCAATTGTGAC
Found at i:29901339 original size:26 final size:26
Alignment explanation
Indices: 29901310--29901364 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
29901300 AACACACTAA
29901310 TATCGCAACAAAGCTACCAGTAACAG
1 TATCGCAACAAAGCTACCAGTAACAG
* *
29901336 TATCGCAGCAAAGCTGCCAGTAACAG
1 TATCGCAACAAAGCTACCAGTAACAG
29901362 TAT
1 TAT
29901365 ACTTCCTCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.18
Consensus pattern (26 bp):
TATCGCAACAAAGCTACCAGTAACAG
Found at i:29901632 original size:80 final size:80
Alignment explanation
Indices: 29901526--29902440 Score: 1652
Period size: 80 Copynumber: 11.4 Consensus size: 80
29901516 GGGTATAAAA
*
29901526 GTCATTTTACCCTGTGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTGTCATTTTACCT
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTGTCATTTTACCT
29901591 TATAGGGGTATTTTG
66 TATAGGGGTATTTTG
29901606 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTGTCATTTTACCT
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTGTCATTTTACCT
29901671 TATAGGGGTATTTTG
66 TATAGGGGTATTTTG
29901686 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTGTCATTTTACCT
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTGTCATTTTACCT
29901751 TATAGGGGTATTTTG
66 TATAGGGGTATTTTG
29901766 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTGTCATTTTACCT
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTGTCATTTTACCT
29901831 TATAGGGGTATTTTG
66 TATAGGGGTATTTTG
29901846 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTGTCATTTTACCT
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTGTCATTTTACCT
29901911 TATAGGGGTATTTTG
66 TATAGGGGTATTTTG
29901926 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTGTCATTTTACCT
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTGTCATTTTACCT
29901991 TATAGGGGTATTTTG
66 TATAGGGGTATTTTG
29902006 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTGTCATTTTACCT
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTGTCATTTTACCT
29902071 TATAGGGGTATTTTG
66 TATAGGGGTATTTTG
29902086 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTGTCATTTTACCT
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTGTCATTTTACCT
29902151 TATAGGGGTATTTTG
66 TATAGGGGTATTTTG
29902166 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTGTCATTTTACCT
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTGTCATTTTACCT
29902231 TATAGGGGTATTTTG
66 TATAGGGGTATTTTG
* *
29902246 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTCTGGTCATTTTACC
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATT-TTGTCATTTTACC
*
29902311 CTAT-GGGGTATTTTG
65 TTATAGGGGTATTTTG
* * * * *
29902326 GTCATTTTACCCTATGAGGGTATTTCAATCATTTTACCCTGTGGGGGTATTTTGGTTATTTTACC
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTT-GTCATTTTACC
* * * *
29902391 CTGTGGGGGTATTTCG
65 TTATAGGGGTATTTTG
* * * *
29902407 GTCATTTTATCCTGTGGGGGTAATTCGGTCATTT
1 GTCATTTTACCCTATGGGGGTATTTCGATCATTT
29902441 ATTGACCTTT
Statistics
Matches: 815, Mismatches: 17, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
79 1 0.00
80 761 0.93
81 53 0.07
ACGTcount: A:0.18, C:0.15, G:0.22, T:0.45
Consensus pattern (80 bp):
GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTGTCATTTTACCT
TATAGGGGTATTTTG
Found at i:29910642 original size:16 final size:15
Alignment explanation
Indices: 29910616--29910649 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
29910606 ATAACTAGTA
*
29910616 TATAAATATATTTAT
1 TATAAATATATTAAT
29910631 TATAATATATATTAAT
1 TATAA-ATATATTAAT
29910647 TAT
1 TAT
29910650 TATCAATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATAAATATATTAAT
Found at i:29912219 original size:3 final size:3
Alignment explanation
Indices: 29912211--29912245 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
29912201 CGAGGATCTC
29912211 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
29912246 TCCCACAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:29915232 original size:40 final size:39
Alignment explanation
Indices: 29915134--29915396 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
29915124 TCCTCGTTCA
* * * *
29915134 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
29915173 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
29915212 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
29915252 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
29915292 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
29915332 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
29915373 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
29915397 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:29915356 original size:120 final size:119
Alignment explanation
Indices: 29915134--29915396 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
29915124 TCCTCGTTCA
* * *
29915134 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
29915199 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
29915252 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
29915317 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
29915373 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
29915397 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:29915405 original size:41 final size:41
Alignment explanation
Indices: 29915328--29915405 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
29915318 TTTGTATCTC
* * *
29915328 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
29915369 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
29915406 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:29923081 original size:39 final size:40
Alignment explanation
Indices: 29923038--29923285 Score: 172
Period size: 40 Copynumber: 6.2 Consensus size: 40
29923028 CTCGTTTAAG
* * * *
29923038 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
29923077 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
29923117 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
29923157 GGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
29923197 GGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
29923237 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
29923277 TGCCTTCGG
1 TGCCTTCGG
29923286 ATCTTAGTCC
Statistics
Matches: 191, Mismatches: 12, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
39 26 0.14
40 161 0.84
41 3 0.02
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:29923127 original size:40 final size:40
Alignment explanation
Indices: 29923078--29923338 Score: 334
Period size: 40 Copynumber: 6.5 Consensus size: 40
29923068 CTCATACAAT
* * * * *
29923078 GCCTTCGGGACTTAACCCGGATTTTA-AAACTCGCACGAAT
1 GCCTTCGGGACTTAACCCGGA-ATTAGTATCTCGCACAAAG
29923118 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
1 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
29923158 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
1 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
29923198 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
1 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
* * *
29923238 GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAAT
1 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
** *
29923278 GCCTTC-GGATCTTAGTCCGG-ATATAGTCA-CTTAGCACAAA-
1 GCCTTCGGGA-CTTAACCCGGAAT-TAGT-ATC-TCGCACAAAG
*
29923318 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
29923339 CAGCATTCAA
Statistics
Matches: 201, Mismatches: 13, Indels: 13
0.89 0.06 0.06
Matches are distributed among these distances:
39 8 0.04
40 181 0.90
41 12 0.06
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
Found at i:29925396 original size:43 final size:42
Alignment explanation
Indices: 29925272--29925450 Score: 146
Period size: 43 Copynumber: 4.2 Consensus size: 42
29925262 AAAAAAAGCA
* * * * * *
29925272 GCTATAGAACGTGACCTTTAGCGGCGCTTCTCATAAAAATGCC
1 GCTAAAGAACATGACCTTTAGCGACGCTTTTC-TACAAACGCC
* * *
29925315 GCTATAGAACATGGCCTTTAGC-AGCGGTTTTCTCACAAACGCC
1 GCTAAAGAACATGACCTTTAGCGA-CGCTTTTCT-ACAAACGCC
* *
29925358 GTTAAAGAACATGACCTTTAGCGACGCTTTTACTACAAACGCA
1 GCTAAAGAACATGACCTTTAGCGACGCTTTT-CTACAAACGCC
* * * * *
29925401 ACTAAAGAACATGACATTTAGCTG-CACTTTTCCCACAAACTCC
1 GCTAAAGAACATGACCTTTAGC-GACGCTTTT-CTACAAACGCC
29925444 GCTAAAG
1 GCTAAAG
29925451 GTCATGTTCT
Statistics
Matches: 110, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
42 1 0.01
43 105 0.95
44 4 0.04
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (42 bp):
GCTAAAGAACATGACCTTTAGCGACGCTTTTCTACAAACGCC
Found at i:29925464 original size:43 final size:43
Alignment explanation
Indices: 29925417--29925507 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
29925407 GAACATGACA
* * *
29925417 TTTAGCTGCACTTTTCCCACAAA-CTCCGCTAAAGGTCATGTTC
1 TTTAGCGGCACTTTTACCA-AAAGCCCCGCTAAAGGTCATGTTC
* **
29925460 TTTAGCGGCATTTTTAGTAAAAGCCCCGCTAAAGGTCATGTTC
1 TTTAGCGGCACTTTTACCAAAAGCCCCGCTAAAGGTCATGTTC
29925503 TTTAG
1 TTTAG
29925508 TGGTGTTTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 3 0.07
43 38 0.93
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (43 bp):
TTTAGCGGCACTTTTACCAAAAGCCCCGCTAAAGGTCATGTTC
Found at i:29929582 original size:56 final size:57
Alignment explanation
Indices: 29929480--29929592 Score: 183
Period size: 56 Copynumber: 2.0 Consensus size: 57
29929470 ATGCTCCCAA
* *
29929480 TAAGGAAAATTAAAAAAATACTTCTTTTTTTCCACAAGTCCGCCTCATTAGGATCAT
1 TAAGGAAAATTAAAAAAATAATTCTTTTTTTCCACAAGTCCACCTCATTAGGATCAT
* *
29929537 TAAGGAAAATTAAAAAAATAATTC-TTTTTTCCACTATTCCACCTCATTAGGATCAT
1 TAAGGAAAATTAAAAAAATAATTCTTTTTTTCCACAAGTCCACCTCATTAGGATCAT
29929593 CCTCTTCATC
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
56 29 0.56
57 23 0.44
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.35
Consensus pattern (57 bp):
TAAGGAAAATTAAAAAAATAATTCTTTTTTTCCACAAGTCCACCTCATTAGGATCAT
Found at i:29931235 original size:15 final size:15
Alignment explanation
Indices: 29931223--29931251 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
29931213 TTTTGAAATG
29931223 CAAAATTTAGAAAAA
1 CAAAATTTAGAAAAA
29931238 CAAAATTTAGAAAA
1 CAAAATTTAGAAAA
29931252 GTTTGTACTC
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:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (15 bp):
CAAAATTTAGAAAAA
Found at i:29935223 original size:48 final size:48
Alignment explanation
Indices: 29935171--29935298 Score: 132
Period size: 48 Copynumber: 2.7 Consensus size: 48
29935161 GTATATTTTT
* * ***
29935171 TTTCAAGCAACGAAAAGACTGAGAAAGAAAATGGATGGGAGTTTGGGA
1 TTTCAAGCAAAGAAAAGTCTGAGAAAGAAAATGGACAAGAGTTTGGGA
* * * * * *
29935219 TTTCAAGTAAAGAGAAGTCT-AGGAAAAAAAAGGGACAAGATTTTGGGG
1 TTTCAAGCAAAGAAAAGTCTGA-GAAAGAAAATGGACAAGAGTTTGGGA
*
29935267 TTTCAGGCAAAGAAAAGTCTGAGAAAGAAAAT
1 TTTCAAGCAAAGAAAAGTCTGAGAAAGAAAAT
29935299 AATTTGTGCG
Statistics
Matches: 62, Mismatches: 16, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
47 1 0.02
48 60 0.97
49 1 0.02
ACGTcount: A:0.45, C:0.08, G:0.28, T:0.20
Consensus pattern (48 bp):
TTTCAAGCAAAGAAAAGTCTGAGAAAGAAAATGGACAAGAGTTTGGGA
Found at i:29946988 original size:20 final size:20
Alignment explanation
Indices: 29946963--29947002 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
29946953 TACTGCTGAG
29946963 CAGAGGAACC-GTGGTGCAAA
1 CAGAGGAACCAGT-GTGCAAA
*
29946983 CAGAGGCACCAGTGTGCAAA
1 CAGAGGAACCAGTGTGCAAA
29947003 AAGGGGCACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.35, C:0.23, G:0.33, T:0.10
Consensus pattern (20 bp):
CAGAGGAACCAGTGTGCAAA
Found at i:29947019 original size:20 final size:20
Alignment explanation
Indices: 29946976--29947061 Score: 75
Period size: 20 Copynumber: 4.3 Consensus size: 20
29946966 AGGAACCGTG
* **
29946976 GTGCAAACAGAGGCACCAGT
1 GTGCAAAAAGAGGCACCAAA
*
29946996 GTGCAAAAAGGGGCACCAAA
1 GTGCAAAAAGAGGCACCAAA
** **
29947016 GTGCAATGAG-GGACACTGAA
1 GTGCAAAAAGAGG-CACCAAA
*
29947036 GTGCAAATAGAGGCACCAAA
1 GTGCAAAAAGAGGCACCAAA
29947056 GTGCAA
1 GTGCAA
29947062 TCTCGTACAA
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
19 2 0.04
20 48 0.92
21 2 0.04
ACGTcount: A:0.40, C:0.20, G:0.30, T:0.10
Consensus pattern (20 bp):
GTGCAAAAAGAGGCACCAAA
Found at i:29948791 original size:79 final size:78
Alignment explanation
Indices: 29948689--29948911 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
29948679 GCTCCTCGTT
* *
29948689 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
29948754 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
29948769 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
29948833 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
29948847 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
29948910 GA
63 GA
29948912 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 45 0.36
79 60 0.48
80 20 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:29948806 original size:39 final size:40
Alignment explanation
Indices: 29948689--29948911 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
29948679 GCTCCTCGTT
* *
29948689 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
29948729 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
29948769 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
29948808 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
29948847 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
29948888 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29948912 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 67 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:29956781 original size:79 final size:78
Alignment explanation
Indices: 29956679--29956901 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
29956669 GCTCCTCGTT
* *
29956679 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
29956744 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
29956759 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
29956822 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
29956837 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
29956900 GA
63 GA
29956902 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:29956796 original size:39 final size:40
Alignment explanation
Indices: 29956679--29956901 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
29956669 GCTCCTCGTT
* *
29956679 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
29956719 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
29956759 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
29956798 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
29956837 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
29956878 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29956902 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:29969785 original size:19 final size:19
Alignment explanation
Indices: 29969761--29969852 Score: 148
Period size: 19 Copynumber: 4.8 Consensus size: 19
29969751 AATCATATCT
29969761 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
29969780 TCTAAGATTACATATGATA
1 TCTAAGATTGCATATCATA
29969799 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
29969818 TCTAAGAGTACATATCATA
1 TCTAAGATTGCATATCATA
29969837 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
29969853 CTTGAAGATT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 65 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:29969804 original size:38 final size:38
Alignment explanation
Indices: 29969754--29969852 Score: 166
Period size: 38 Copynumber: 2.7 Consensus size: 38
29969744 ATTTCAAAAT
*
29969754 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTA
1 CATATCATATCTAAGATTGCATATCATATCTAAGAGTA
*
29969790 CATATGATATCTAAGATTGCATATCATATCTAAGAGTA
1 CATATCATATCTAAGATTGCATATCATATCTAAGAGTA
29969828 CATATCATATCTAAGATTGCATATC
1 CATATCATATCTAAGATTGCATATC
29969853 CTTGAAGATT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 5 0.09
37 1 0.02
38 52 0.90
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.36
Consensus pattern (38 bp):
CATATCATATCTAAGATTGCATATCATATCTAAGAGTA
Found at i:29971258 original size:16 final size:16
Alignment explanation
Indices: 29971239--29971292 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
29971229 TTTGGTTCGT
*
29971239 TGTAATGGAATAGAGT
1 TGTAATGGAATAGAGC
*
29971255 TGTAATTGAATAGAGC
1 TGTAATGGAATAGAGC
* *
29971271 TGTAATGAAATAAAGC
1 TGTAATGGAATAGAGC
29971287 TGTAAT
1 TGTAAT
29971293 AAGTAATTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.41, C:0.04, G:0.24, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAGC
Found at i:29973258 original size:15 final size:15
Alignment explanation
Indices: 29973238--29973269 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
29973228 ATTGCACAAC
29973238 TTAATAGTAAAGCAT
1 TTAATAGTAAAGCAT
29973253 TTAATAGTAAAGCAT
1 TTAATAGTAAAGCAT
29973268 TT
1 TT
29973270 TCCTCCATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (15 bp):
TTAATAGTAAAGCAT
Found at i:29977960 original size:40 final size:40
Alignment explanation
Indices: 29977901--29978264 Score: 602
Period size: 40 Copynumber: 9.1 Consensus size: 40
29977891 GAGCATTGGA
*
29977901 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
29977941 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
29977981 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
29978021 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
29978061 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
29978101 ATATATCCGGGCTAAGACCCGAAAGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
29978141 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
29978181 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
29978221 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
29978261 ATAT
1 ATAT
29978265 NNNNNNNNNN
Statistics
Matches: 310, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 310 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:29988714 original size:15 final size:15
Alignment explanation
Indices: 29988694--29988724 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
29988684 TATTGAGGAG
29988694 CCAATTAATAATTAA
1 CCAATTAATAATTAA
29988709 CCAATTAATAATTAA
1 CCAATTAATAATTAA
29988724 C
1 C
29988725 AAATGGACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (15 bp):
CCAATTAATAATTAA
Found at i:29989260 original size:59 final size:59
Alignment explanation
Indices: 29989194--29989363 Score: 313
Period size: 59 Copynumber: 2.9 Consensus size: 59
29989184 TCAAGTTTGT
*
29989194 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
29989253 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
* *
29989312 TTTACTAATCAAATGGTAGATTTTATTACAACAATTAATACAATTAACAATT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATT
29989364 AATAATTTGA
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 108 1.00
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
Found at i:29989395 original size:16 final size:16
Alignment explanation
Indices: 29989374--29989415 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
29989364 AATAATTTGA
*
29989374 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
29989390 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
29989406 TAGTTTTAAT
1 TAATTTTAAT
29989416 TTTAATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:29992412 original size:19 final size:19
Alignment explanation
Indices: 29992380--29992421 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
29992370 AAAGCAACAT
* *
29992380 AACATTAGTTCAAGTAAAC
1 AACATGAGTCCAAGTAAAC
*
29992399 AACATGAGTCCAAGTGAAC
1 AACATGAGTCCAAGTAAAC
29992418 AACA
1 AACA
29992422 ACACAATAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.48, C:0.19, G:0.14, T:0.19
Consensus pattern (19 bp):
AACATGAGTCCAAGTAAAC
Found at i:30000712 original size:16 final size:16
Alignment explanation
Indices: 30000691--30000724 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
30000681 TTGAGGAGTG
30000691 TTGAGAATCTTTGATA
1 TTGAGAATCTTTGATA
30000707 TTGAGAATCTTTGATA
1 TTGAGAATCTTTGATA
30000723 TT
1 TT
30000725 ATTAAATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.18, T:0.47
Consensus pattern (16 bp):
TTGAGAATCTTTGATA
Found at i:30003880 original size:311 final size:311
Alignment explanation
Indices: 30003310--30003931 Score: 1190
Period size: 311 Copynumber: 2.0 Consensus size: 311
30003300 AAATTGAAGT
*
30003310 AACAAATGAAAAAGACGAGGAAAGGGTAGTGAGGAATGTTTCCACTAACCAAGATAAGAATTTTT
1 AACAAAAGAAAAAGACGAGGAAAGGGTAGTGAGGAATGTTTCCACTAACCAAGATAAGAATTTTT
30003375 CTTCTGTTGCTGCTTTTCAGGTTCCCAAAATACCGAAAGATAACTTTCAACTTCAATACCTTTCC
66 CTTCTGTTGCTGCTTTTCAGGTTCCCAAAATACCGAAAGATAACTTTCAACTTCAATACCTTTCC
*
30003440 GATGAAAGACGCTTTCATACGATCAACATAGGCAAGGTTGAAGATGAAATCACACTACATGAGCC
131 GATGAAAGACGCTTTCATACGATCAACATAGGCAAGGTTAAAGATGAAATCACACTACATGAGCC
*
30003505 CGAAGGTAAGCGAGGTAAGGAAATTTTAGCCACTGAGTCCCGTGCAGATTTGAAAAGAGATTCCT
196 CGAAGGTAAGCGAGGTAAGGAAATTTTAGCCACTAAGTCCCGTGCAGATTTGAAAAGAGATTCCT
*
30003570 ATGACTCCCATTCAATGAGGAATTCAAGGCGATGCAAAGCAAGTTTCGAGA
261 ATAACTCCCATTCAATGAGGAATTCAAGGCGATGCAAAGCAAGTTTCGAGA
*
30003621 AACAAAAGAAAAAGACGTGGAAAGGGTAGTGAGGAATGTTTCCACTAACCAAGATAAGAATTTTT
1 AACAAAAGAAAAAGACGAGGAAAGGGTAGTGAGGAATGTTTCCACTAACCAAGATAAGAATTTTT
30003686 CTTCTGTTGCTGCTTTTCAGGTTCCCAAAATACCGAAAGATAACTTTCAACTTCAATACCTTTCC
66 CTTCTGTTGCTGCTTTTCAGGTTCCCAAAATACCGAAAGATAACTTTCAACTTCAATACCTTTCC
*
30003751 GATGAAAGACGCTTTCATACGATCAACATAGGCAAGGTTAAAGATGAAATCACACTACATGATCC
131 GATGAAAGACGCTTTCATACGATCAACATAGGCAAGGTTAAAGATGAAATCACACTACATGAGCC
30003816 CGAAGGTAAGCGAGGTAAGGAAATTTTAGCCACTAAGTCCCGTGCAGATTTGAAAAGAGATTCCT
196 CGAAGGTAAGCGAGGTAAGGAAATTTTAGCCACTAAGTCCCGTGCAGATTTGAAAAGAGATTCCT
30003881 ATAACTCCCATTCAATGAGGAATTCAAGGCGATGCAAAGCAAGTTTCGAGA
261 ATAACTCCCATTCAATGAGGAATTCAAGGCGATGCAAAGCAAGTTTCGAGA
30003932 GTGAAGTTTT
Statistics
Matches: 305, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
311 305 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.25
Consensus pattern (311 bp):
AACAAAAGAAAAAGACGAGGAAAGGGTAGTGAGGAATGTTTCCACTAACCAAGATAAGAATTTTT
CTTCTGTTGCTGCTTTTCAGGTTCCCAAAATACCGAAAGATAACTTTCAACTTCAATACCTTTCC
GATGAAAGACGCTTTCATACGATCAACATAGGCAAGGTTAAAGATGAAATCACACTACATGAGCC
CGAAGGTAAGCGAGGTAAGGAAATTTTAGCCACTAAGTCCCGTGCAGATTTGAAAAGAGATTCCT
ATAACTCCCATTCAATGAGGAATTCAAGGCGATGCAAAGCAAGTTTCGAGA
Found at i:30004621 original size:531 final size:531
Alignment explanation
Indices: 30003618--30004808 Score: 2229
Period size: 531 Copynumber: 2.2 Consensus size: 531
30003608 GCAAGTTTCG
* *
30003618 AGAAACAAAAGAAAAAGACGTGGAAAGGGTAGTGAGGAATGTTTCCACTAACCAAGATAAGAATT
1 AGAAACAAATGAAAAAGACGAGGAAAGGGTAGTGAGGAATGTTTCCACTAACCAAGATAAGAATT
*
30003683 TTTCTTCTGTTGCTGCTTTTCAGGTTCCCAAAATACCGAAAGATAACTTTCAACTTCAATACCTT
66 TTTCTTCTGTTGCTACTTTTCAGGTTCCCAAAATACCGAAAGATAACTTTCAACTTCAATACCTT
30003748 TCCGATGAAAGACGCTTTCATACGATCAACATAGGCAAGGTTAAAGATGAAATCACACTACATGA
131 TCCGATGAAAGACGCTTTCATACGATCAACATAGGCAAGGTTAAAGATGAAATCACACTACATGA
*
30003813 TCCCGAAGGTAAGCGAGGTAAGGAAATTTTAGCCACTAAGTCCCGTGCAGATTTGAAAAGAGATT
196 GCCCGAAGGTAAGCGAGGTAAGGAAATTTTAGCCACTAAGTCCCGTGCAGATTTGAAAAGAGATT
30003878 CCTATAACTCCCATTCAATGAGGAATTCAAGGCGATGCAAAGCAAGTTTCGAGAGTGAAGTTTTC
261 CCTATAACTCCCATTCAATGAGGAATTCAAGGCGATGCAAAGCAAGTTTCGAGAGTGAAGTTTTC
* *
30003943 CAAGGGGATCATTGTTCATATACAAGTCATTCCGTACATACCCAACGATAGCTTTTCCGTTCTAA
326 CAAGGGGATCATTGTTCATATACAAGTCATTCCGTACATACCCAACGAGAGCCTTTCCGTTCTAA
30004008 TTCATTTGTAACATCTCTATCTTGTAATGAAAGGAAGACACAAAAAGAAATCAAAAAAGAAAAAG
391 TTCATTTGTAACATCTCTATCTTGTAATGAAAGGAAGACACAAAAAGAAATCAAAAAAGAAAAAG
*
30004073 AGAAGGAAAAAGAGCAAAAAGAGATTGAGAGTGGAAAGGAATGTGAAACAAACAATAAAATTGAA
456 AGAAGGAAAAAGAGCAAAAAGAGATTGAAAGTGGAAAGGAATGTGAAACAAACAATAAAATTGAA
30004138 AAAAAAATTGA
521 AAAAAAATTGA
30004149 AGAAACAAATGAAAAAGACGAGGAAAGGGTAGTGAGGAATGTTTCCACTAACCAAGATAAGAATT
1 AGAAACAAATGAAAAAGACGAGGAAAGGGTAGTGAGGAATGTTTCCACTAACCAAGATAAGAATT
*
30004214 TTTCTTCTGTTGCTACTTTTCAGGTTCCCAAAATATCGAAAGATAACTTTCAACTTCAATACCTT
66 TTTCTTCTGTTGCTACTTTTCAGGTTCCCAAAATACCGAAAGATAACTTTCAACTTCAATACCTT
*
30004279 TCCGATGAAAGACGCTTTCATACGATCAACATAGGCAAGGTTGAAGATGAAATCACACTACATGA
131 TCCGATGAAAGACGCTTTCATACGATCAACATAGGCAAGGTTAAAGATGAAATCACACTACATGA
*
30004344 GCCCGAAGGTAAGCGAGGTAAGGAAATTTTAGCCACTGAGTCCCGTGCAGATTTGAAAAGAGATT
196 GCCCGAAGGTAAGCGAGGTAAGGAAATTTTAGCCACTAAGTCCCGTGCAGATTTGAAAAGAGATT
*
30004409 CCTATGACTCCCATTCAATGAGGAATTCAAGGCGATGCAAAGCAAGTTTCGAGAGTGAAGTTTTC
261 CCTATAACTCCCATTCAATGAGGAATTCAAGGCGATGCAAAGCAAGTTTCGAGAGTGAAGTTTTC
*
30004474 CAAGGGGATCATTGTTCGTATACAAGTCATTCCGTACATACCCAACGAGAGCCTTTCCGTTCTAA
326 CAAGGGGATCATTGTTCATATACAAGTCATTCCGTACATACCCAACGAGAGCCTTTCCGTTCTAA
30004539 TTCATTTGTAACATCTCTATCTTGTAATGAAAGGAAGACACAAAAAGAAATCAAAAAAGAAAAAG
391 TTCATTTGTAACATCTCTATCTTGTAATGAAAGGAAGACACAAAAAGAAATCAAAAAAGAAAAAG
30004604 AGAAGGAAAAAGAGCAAAAAGAGATTGAAAGTGGAAAGGAATGTGAAACAAACAATAAAATTGAA
456 AGAAGGAAAAAGAGCAAAAAGAGATTGAAAGTGGAAAGGAATGTGAAACAAACAATAAAATTGAA
30004669 AAAAAAATTGA
521 AAAAAAATTGA
* * * *
30004680 AGAAACAAATGAAAAAGACGAGGAAAGAGTAGTGAGAAATGTTTCCACTAACCAAGATAGGAACT
1 AGAAACAAATGAAAAAGACGAGGAAAGGGTAGTGAGGAATGTTTCCACTAACCAAGATAAGAATT
*
30004745 TTTCTTCTGTTGCTACTTTTCAGGTTCCCAAAATACCGAAAGATAACTTTCAACTTTAATACCT
66 TTTCTTCTGTTGCTACTTTTCAGGTTCCCAAAATACCGAAAGATAACTTTCAACTTCAATACCT
30004809 AATTCATTTG
Statistics
Matches: 642, Mismatches: 18, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
531 642 1.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (531 bp):
AGAAACAAATGAAAAAGACGAGGAAAGGGTAGTGAGGAATGTTTCCACTAACCAAGATAAGAATT
TTTCTTCTGTTGCTACTTTTCAGGTTCCCAAAATACCGAAAGATAACTTTCAACTTCAATACCTT
TCCGATGAAAGACGCTTTCATACGATCAACATAGGCAAGGTTAAAGATGAAATCACACTACATGA
GCCCGAAGGTAAGCGAGGTAAGGAAATTTTAGCCACTAAGTCCCGTGCAGATTTGAAAAGAGATT
CCTATAACTCCCATTCAATGAGGAATTCAAGGCGATGCAAAGCAAGTTTCGAGAGTGAAGTTTTC
CAAGGGGATCATTGTTCATATACAAGTCATTCCGTACATACCCAACGAGAGCCTTTCCGTTCTAA
TTCATTTGTAACATCTCTATCTTGTAATGAAAGGAAGACACAAAAAGAAATCAAAAAAGAAAAAG
AGAAGGAAAAAGAGCAAAAAGAGATTGAAAGTGGAAAGGAATGTGAAACAAACAATAAAATTGAA
AAAAAAATTGA
Found at i:30005022 original size:272 final size:272
Alignment explanation
Indices: 30004535--30005046 Score: 970
Period size: 272 Copynumber: 1.9 Consensus size: 272
30004525 CCTTTCCGTT
30004535 CTAATTCATTTGTAACATCTCTATCTTGTAATGAAAGGAAGACACAAAAAGAAATCAAAAAAGAA
1 CTAATTCATTTGTAACATCTCTATCTTGTAATGAAAGGAAGACACAAAAAGAAATCAAAAAAGAA
*
30004600 AAAGAGAAGGAAAAAGAGCAAAAAGAGATTGAAAGTGGAAAGGAATGTGAAACAAACAATAAAAT
66 AAAGAGAAGGAAAAAGAGCAAAAAGAGATTGAAAGTGGAAAGGAATGTGAAACAAACAAGAAAAT
30004665 TGAAAAAAAAATTGAAGAAACAAATGAAAAAGACGAGGAAAGAGTAGTGAGAAATGTTTCCACTA
131 TGAAAAAAAAATTGAAGAAACAAATGAAAAAGACGAGGAAAGAGTAGTGAGAAATGTTTCCACTA
*
30004730 ACCAAGATAGGAACTTTTCTTCTGTTGCTACTTTTCAGGTTCCCAAAATACCGAAAGATAACTTT
196 ACCAAGATAAGAACTTTTCTTCTGTTGCTACTTTTCAGGTTCCCAAAATACCGAAAGATAACTTT
30004795 CAACTTTAATAC
261 CAACTTTAATAC
30004807 CTAATTCATTTGTAACATCTCTATCTTGTAATGAAAGGAAGACACAAAAAGAAATCAAAAAAGAA
1 CTAATTCATTTGTAACATCTCTATCTTGTAATGAAAGGAAGACACAAAAAGAAATCAAAAAAGAA
*
30004872 AAAGAGAAGGAAAAAGAGCAAAAAGAGATTGAGAGTGGAAAGGAATGTGAAACAAACAAGAAAAT
66 AAAGAGAAGGAAAAAGAGCAAAAAGAGATTGAAAGTGGAAAGGAATGTGAAACAAACAAGAAAAT
* *
30004937 TGAAAAAAAAATTGAAGAAACAAATGAAAAAGACGAGGAAAGGGTAGTGAGGAATGTTTCCACTA
131 TGAAAAAAAAATTGAAGAAACAAATGAAAAAGACGAGGAAAGAGTAGTGAGAAATGTTTCCACTA
*
30005002 ACCAAGATAAGAATTTTTCTTCTGTTGCTACTTTTCAGGTTCCCA
196 ACCAAGATAAGAACTTTTCTTCTGTTGCTACTTTTCAGGTTCCCA
30005047 TAATTTGCCT
Statistics
Matches: 234, Mismatches: 6, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
272 234 1.00
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.22
Consensus pattern (272 bp):
CTAATTCATTTGTAACATCTCTATCTTGTAATGAAAGGAAGACACAAAAAGAAATCAAAAAAGAA
AAAGAGAAGGAAAAAGAGCAAAAAGAGATTGAAAGTGGAAAGGAATGTGAAACAAACAAGAAAAT
TGAAAAAAAAATTGAAGAAACAAATGAAAAAGACGAGGAAAGAGTAGTGAGAAATGTTTCCACTA
ACCAAGATAAGAACTTTTCTTCTGTTGCTACTTTTCAGGTTCCCAAAATACCGAAAGATAACTTT
CAACTTTAATAC
Found at i:30008330 original size:82 final size:82
Alignment explanation
Indices: 30008188--30008343 Score: 258
Period size: 82 Copynumber: 1.9 Consensus size: 82
30008178 CTCCGCCAAT
* * *
30008188 GATCACGAAGCAACTCAATTGTCTATTTATTACACCATTGGACATATTATTACCGAAAAATACAC
1 GATCACGAAGCAACTCAACTGTCTATTTATTACACCATTGGAAATATCATTACCGAAAAATACAC
30008253 AAAAAGAAACCACTAGC
66 AAAAAGAAACCACTAGC
* * *
30008270 GATCACGAAGCAACTCAACTGTCTATTTATTCCACCATTGGAAATATCATTACCGGAAAATGCAC
1 GATCACGAAGCAACTCAACTGTCTATTTATTACACCATTGGAAATATCATTACCGAAAAATACAC
30008335 AAAAAGAAA
66 AAAAAGAAA
30008344 ACATTCAAAT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 68 1.00
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.24
Consensus pattern (82 bp):
GATCACGAAGCAACTCAACTGTCTATTTATTACACCATTGGAAATATCATTACCGAAAAATACAC
AAAAAGAAACCACTAGC
Found at i:30010713 original size:30 final size:30
Alignment explanation
Indices: 30010677--30010736 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
30010667 CACATGCGGA
30010677 TACTATTAATATTAAACATAAAATCTTTTT
1 TACTATTAATATTAAACATAAAATCTTTTT
30010707 TACTATTAATATTAAACATAAAATCTTTTT
1 TACTATTAATATTAAACATAAAATCTTTTT
30010737 AAAAGAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (30 bp):
TACTATTAATATTAAACATAAAATCTTTTT
Found at i:30016983 original size:26 final size:28
Alignment explanation
Indices: 30016949--30017004 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 28
30016939 GGTTTGCGAG
*
30016949 AAGTAAAAAT-TTTGGAG-GTAAAGTAA
1 AAGTAAAAATGTTTGGAGAGAAAAGTAA
*
30016975 AAGTAAAAATGTTTTGAGAGAAAAGTAA
1 AAGTAAAAATGTTTGGAGAGAAAAGTAA
30017003 AA
1 AA
30017005 AGGTCGGGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 10 0.38
27 6 0.23
28 10 0.38
ACGTcount: A:0.54, C:0.00, G:0.21, T:0.25
Consensus pattern (28 bp):
AAGTAAAAATGTTTGGAGAGAAAAGTAA
Found at i:30018968 original size:42 final size:42
Alignment explanation
Indices: 30018917--30019006 Score: 162
Period size: 42 Copynumber: 2.1 Consensus size: 42
30018907 TTTTCATATT
*
30018917 TTTTTACTTCAAGTAAGTTTATTTCTTGTCATTTTCTTGAAA
1 TTTTTACTTCAAGTAAGTTTAGTTCTTGTCATTTTCTTGAAA
*
30018959 TTTTTACTTCAAGTGAGTTTAGTTCTTGTCATTTTCTTGAAA
1 TTTTTACTTCAAGTAAGTTTAGTTCTTGTCATTTTCTTGAAA
30019001 TTTTTA
1 TTTTTA
30019007 TGTTTTTAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.56
Consensus pattern (42 bp):
TTTTTACTTCAAGTAAGTTTAGTTCTTGTCATTTTCTTGAAA
Found at i:30019725 original size:23 final size:24
Alignment explanation
Indices: 30019695--30019802 Score: 141
Period size: 24 Copynumber: 4.6 Consensus size: 24
30019685 CATTATTGGG
* *
30019695 AAAGGATGAATTGACGG-AAATTT
1 AAAGGATGAATTGAAGGAAAATGT
30019718 AAAGGATGAATTGAAGGAAAATGT
1 AAAGGATGAATTGAAGGAAAATGT
* *
30019742 AAAGGA-GAAACTGACGGAAAATGT
1 AAAGGATG-AATTGAAGGAAAATGT
*
30019766 AAAGGATGAATTGAAGG-TAATGT
1 AAAGGATGAATTGAAGGAAAATGT
30019789 AAAGGATGAATTGA
1 AAAGGATGAATTGA
30019803 TGACAAATTG
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
23 36 0.48
24 38 0.51
25 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.29, T:0.21
Consensus pattern (24 bp):
AAAGGATGAATTGAAGGAAAATGT
Found at i:30025111 original size:13 final size:14
Alignment explanation
Indices: 30025095--30025124 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
30025085 ATAATGAAGT
30025095 AATAAAT-AATAAA
1 AATAAATAAATAAA
30025108 AATAAATAAATAAA
1 AATAAATAAATAAA
30025122 AAT
1 AAT
30025125 TAGATTACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AATAAATAAATAAA
Found at i:30028733 original size:21 final size:19
Alignment explanation
Indices: 30028708--30028754 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 19
30028698 TCATTTTTAG
30028708 CAACTTCCTCTTCTTCGGCAA
1 CAACTT-CTC-TCTTCGGCAA
*
30028729 CAACTT-TCTCTTCTGCAA
1 CAACTTCTCTCTTCGGCAA
30028747 CAACTTCT
1 CAACTTCT
30028755 GCTTTTGGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 15 0.62
19 3 0.12
21 6 0.25
ACGTcount: A:0.21, C:0.36, G:0.06, T:0.36
Consensus pattern (19 bp):
CAACTTCTCTCTTCGGCAA
Found at i:30041853 original size:41 final size:41
Alignment explanation
Indices: 30041790--30042140 Score: 486
Period size: 41 Copynumber: 8.6 Consensus size: 41
30041780 TATTTGAGTT
* * *
30041790 CTCGGGTCTTTAGCAGCATTTTTGAAAAAGCGCCGCTAATT
1 CTCGGGTCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATG
* * *
30041831 CTCGGGTCTTTAGCGACGTTTTTGAAGAAGAGCCGCTAATG
1 CTCGGGTCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATG
* **
30041872 CTTGGGTCTTTAGCGGTGTTTTTGAAGAAGCGCCGCTAATG
1 CTCGGGTCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATG
* *
30041913 CTCGGGTCTTTAGCGGCATTTTTGGAGAAGCGCCACTAATG
1 CTCGGGTCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATG
30041954 CTCGGGTCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATG
1 CTCGGGTCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATG
* * * *
30041995 CTCGGGTCTTTAGCGGTATTTTTGAAGACGCACTGCTAATG
1 CTCGGGTCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATG
* * *
30042036 CTCAGGTCTTTAGAGGCATTTTTGAAGAAGCGCTGCTAATG
1 CTCGGGTCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATG
* * * * *
30042077 CTCAGGTATTTAGCGGCGTTTTTGAAGAAGCACCGCTAATT
1 CTCGGGTCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATG
*
30042118 CTCGGGTCTTTAGCGGCGTTTTT
1 CTCGGGTCTTTAGCGGCATTTTT
30042141 AAAAAATCGC
Statistics
Matches: 276, Mismatches: 34, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 276 1.00
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.32
Consensus pattern (41 bp):
CTCGGGTCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATG
Found at i:30047983 original size:42 final size:42
Alignment explanation
Indices: 30047853--30048036 Score: 190
Period size: 42 Copynumber: 4.3 Consensus size: 42
30047843 AGCTCATGAC
* ** * *
30047853 CTTTAGCGACGTTTGGGGGAAAAGCGTTGCTGAAGGTCTTGTT
1 CTTTAGCGGCGTTT-GGGGAAAAGCGCCGCTAAAGGTCTTGGT
* * * *
30047896 CTTTAGCAGCGTTTTTGGGAAAAGCGCCACTAAAAGTCTTGGT
1 CTTTAGCGGCG-TTTGGGGAAAAGCGCCGCTAAAGGTCTTGGT
* * *
30047939 CTTTAGTGGCGTTTGCGGGAGAA-CGCCGCTAAAGGTCTTAGT
1 CTTTAGCGGCGTTTG-GGGAAAAGCGCCGCTAAAGGTCTTGGT
* * *
30047981 CTTTAGCGACGTTTGTGGAAAAGTGCCGCTAAAGGTCTTGGT
1 CTTTAGCGGCGTTTGGGGAAAAGCGCCGCTAAAGGTCTTGGT
*
30048023 CTTTAACGGCGTTT
1 CTTTAGCGGCGTTT
30048037 TTTCTGGCGC
Statistics
Matches: 114, Mismatches: 24, Indels: 7
0.79 0.17 0.05
Matches are distributed among these distances:
41 5 0.04
42 61 0.54
43 45 0.39
44 3 0.03
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (42 bp):
CTTTAGCGGCGTTTGGGGAAAAGCGCCGCTAAAGGTCTTGGT
Found at i:30049179 original size:10 final size:10
Alignment explanation
Indices: 30049164--30049279 Score: 52
Period size: 10 Copynumber: 12.3 Consensus size: 10
30049154 CATATGGTAA
30049164 AAAAAATTAT
1 AAAAAATTAT
30049174 -AAAAA--AT
1 AAAAAATTAT
*
30049181 AAAAAACT-T
1 AAAAAATTAT
30049190 -AAAAATTAT
1 AAAAAATTAT
* **
30049199 TAAATTTTAAT
1 AAAAAATT-AT
30049210 AAAAAA--AT
1 AAAAAATTAT
*
30049218 TAAAAATTA-
1 AAAAAATTAT
* *
30049227 CAAAAATCAT
1 AAAAAATTAT
*
30049237 AAAAAAACTAT
1 -AAAAAATTAT
**
30049248 AAAATTTTAT
1 AAAAAATTAT
*
30049258 -AAAAATCAT
1 AAAAAATTAT
30049267 AAAAAATTAT
1 AAAAAATTAT
30049277 AAA
1 AAA
30049280 CTTCACCAAA
Statistics
Matches: 76, Mismatches: 19, Indels: 22
0.65 0.16 0.19
Matches are distributed among these distances:
7 2 0.03
8 18 0.24
9 20 0.26
10 24 0.32
11 12 0.16
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:30049264 original size:30 final size:27
Alignment explanation
Indices: 30049165--30049272 Score: 85
Period size: 29 Copynumber: 3.9 Consensus size: 27
30049155 ATATGGTAAA
* *
30049165 AAAAATTATAAAAA--ATAAAAAACTT
1 AAAAATTACAAAAATCATAAAAAAATT
* ** *
30049190 AAAAATTATTAAATTTTAATAAAAAAATT
1 AAAAATTA-CAAA-AATCATAAAAAAATT
30049219 AAAAATTACAAAAATCATAAAAAAACTAT
1 AAAAATTACAAAAATCATAAAAAAA-T-T
* *
30049248 AAAATTTTATAAAAATCATAAAAAA
1 AAAA-ATTACAAAAATCATAAAAAA
30049273 TTATAAACTT
Statistics
Matches: 67, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
25 8 0.12
26 4 0.06
27 10 0.15
28 4 0.06
29 23 0.34
30 18 0.27
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (27 bp):
AAAAATTACAAAAATCATAAAAAAATT
Found at i:30049291 original size:29 final size:28
Alignment explanation
Indices: 30049208--30049279 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 28
30049198 TTAAATTTTA
30049208 ATAAAAAAATTA-AAAATTACAAAAATC
1 ATAAAAAAATTATAAAATTACAAAAATC
* *
30049235 ATAAAAAAACTATAAAATTTTATAAAAATC
1 ATAAAAAAATTATAAAA--TTACAAAAATC
30049265 AT-AAAAAATTATAAA
1 ATAAAAAAATTATAAA
30049280 CTTCACCAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
27 11 0.28
28 4 0.10
29 12 0.31
30 12 0.31
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (28 bp):
ATAAAAAAATTATAAAATTACAAAAATC
Found at i:30049519 original size:21 final size:22
Alignment explanation
Indices: 30049462--30049519 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 22
30049452 TTGGTACGAT
30049462 AATTTTTATAATTTAT-TTTACG
1 AATTTTTATAATTT-TCTTTACG
*
30049484 AA-TCTTAT-A-TTTCTTTAC-
1 AATTTTTATAATTTTCTTTACG
30049502 AATTTTTATAATTTTCTT
1 AATTTTTATAATTTTCTT
30049520 ATGACTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
18 3 0.10
19 12 0.40
20 2 0.07
21 11 0.37
22 2 0.07
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.60
Consensus pattern (22 bp):
AATTTTTATAATTTTCTTTACG
Found at i:30049588 original size:96 final size:97
Alignment explanation
Indices: 30049466--30049642 Score: 220
Period size: 96 Copynumber: 1.8 Consensus size: 97
30049456 TACGATAATT
*
30049466 TTTATAATTTATTTTACGAATCTTATATTTCTTTACAATTTTTATA-ATTTTCT-TATGACTTTA
1 TTTATAATTTATTTTACGAATCTTATATTT-TTTACAATTCTTA-AGATTTT-TATAT-ACTTTA
30049529 -TAAAATTTAATAATTTTTTTCTATATTTCTATATA
62 TTAAAATTTAATAATTTTTTTCTATATTTCTATATA
* * * **
30049564 TTTATAA-TT-TTTTACGATTTTTATATTTTTTCCAATTCTTAAGTATTTTTATATTTTTTATTA
1 TTTATAATTTATTTTACGAATCTTATATTTTTTACAATTCTTAAG-ATTTTTATATACTTTATTA
30049627 AAATTTAATAATTTTT
65 AAATTTAATAATTTTT
30049643 ATAACTTTTA
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
94 1 0.01
95 16 0.23
96 43 0.62
97 2 0.03
98 7 0.10
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (97 bp):
TTTATAATTTATTTTACGAATCTTATATTTTTTACAATTCTTAAGATTTTTATATACTTTATTAA
AATTTAATAATTTTTTTCTATATTTCTATATA
Found at i:30052257 original size:140 final size:138
Alignment explanation
Indices: 30052041--30052737 Score: 1058
Period size: 138 Copynumber: 5.0 Consensus size: 138
30052031 TAGAAAAATA
* *
30052041 AATTATATTCTTTCCAAAA-ACTATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
**
30052105 TATAATTGTTTATATTAATAAATTTGGCAAAATATATACAATTAATATTTTAAATGAATCAAATT
66 TATAATTGTTTATATTAATAAATTTGGCAAAATATATACAATTAATATTTTGTATGAATCAAA-T
*
30052170 TATATATATT
130 T-CATATATT
* * *
30052180 AATTATATTCTTTCCAAATGAATATTAATTTCTATATCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
30052245 TATAATTGTTTATATTAATAAATTTGGCAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAATTGTTTATATTAATAAATTTGGCAAAATATATACAATTAATATTTTGTATGAATCAAATT
30052310 CATATATT
131 CATATATT
* * *
30052318 AATTATATTCTTTCCAAAAGAACATTAATTTCCATGTCTTTTATATTTTCAACGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * * *
30052383 TATAACTATTTATATTAATAAATTCGGTAAAATATATATACATTTAATATTTTGTATGAATCAAA
66 TATAATTGTTTATATTAATAAATTTGG-CAAA-ATATATACAATTAATATTTTGTATGAATCAAA
30052448 TTCATATATT
129 TTCATATATT
* * *
30052458 AATTATATTCTTTCCAAAAAAAATATTAGTTTCCATGTCTTTTATATTTTGACTGAAATTAATTA
1 AATTATATTCTTTCC-AAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTA
* *
30052523 ATATAATT-TTTATATTAATAAATTTGGTAAAATGTATACAATTAATATTTTGTATGAATCAAAT
65 ATATAATTGTTTATATTAATAAATTTGGCAAAATATATACAATTAATATTTTGTATGAATCAAAT
30052587 TCATATATT
130 TCATATATT
* * * *
30052596 AATTATATTATTTCAAAAAGAATATTAATTTCCATGCCTTTTATATTTTGACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * *
30052661 TAT-ATCTGTTTATATTAATAAATTTGGTAAAATATATATAATTAATATTTTGTATGAACCACAT
66 TATAAT-TGTTTATATTAATAAATTTGGCAAAATATATACAATTAATATTTTGTATGAATCAAAT
30052725 TCATATATT
130 TCATATATT
30052734 AATT
1 AATT
30052738 TTATCTATGT
Statistics
Matches: 513, Mismatches: 39, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
136 2 0.00
137 51 0.10
138 208 0.41
139 26 0.05
140 176 0.34
141 50 0.10
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAATTGTTTATATTAATAAATTTGGCAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:30052537 original size:278 final size:276
Alignment explanation
Indices: 30052041--30052737 Score: 1053
Period size: 278 Copynumber: 2.5 Consensus size: 276
30052031 TAGAAAAATA
* *
30052041 AATTATATTCTTTCC-AAA-AACTATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTA
1 AATTATATTCTTTCCAAAAGAAC-ATTAATTTCCATGTCTTTTATATTTT-AACGAAATTAATTA
* * * **
30052104 ATATAATTGTTTATATTAATAAATTTGGCAAAATATATACA-ATTAATATTTTAAATGAATCAAA
64 ATATAACTGTTTATATTAATAAATTTGGTAAAATATATATACATTAATATTTTGTATGAATCAAA
* ** *
30052168 TTTATATATATTAATTATATTCTTTCCAAATGAATATTAATTTCTATATCTTTTATATTTTGACC
129 -TT-CATATATTAATTATATTCTTTCCAAAAAAATATTAATTTCCATATCTTTTATATTTTGACC
30052233 GAAATTAATTAATATAATTGTTTATATTAATAAATTTGGCAAAATATATACAATTAATATTTTGT
192 GAAATTAATTAATATAATTGTTTATATTAATAAATTTGGCAAAATATATACAATTAATATTTTGT
30052298 ATGAATCAAATTCATATATT
257 ATGAATCAAATTCATATATT
30052318 AATTATATTCTTTCCAAAAGAACATTAATTTCCATGTCTTTTATATTTTCAACGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAACATTAATTTCCATGTCTTTTATATTTT-AACGAAATTAATTAA
* *
30052383 TATAACTATTTATATTAATAAATTCGGTAAAATATATATACATTTAATATTTTGTATGAATCAAA
65 TATAACTGTTTATATTAATAAATTTGGTAAAATATATATACA-TTAATATTTTGTATGAATCAAA
* * *
30052448 TTCATATATTAATTATATTCTTTCCAAAAAAAATATTAGTTTCCATGTCTTTTATATTTTGACTG
129 TTCATATATTAATTATATTCTTTCC-AAAAAAATATTAATTTCCATATCTTTTATATTTTGACCG
* *
30052513 AAATTAATTAATATAATT-TTTATATTAATAAATTTGGTAAAATGTATACAATTAATATTTTGTA
193 AAATTAATTAATATAATTGTTTATATTAATAAATTTGGCAAAATATATACAATTAATATTTTGTA
30052577 TGAATCAAATTCATATATT
258 TGAATCAAATTCATATATT
* * * * *
30052596 AATTATATTATTTCAAAAAGAATATTAATTTCCATGCCTTTTATATTTTGACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAACATTAATTTCCATGTCTTTTATATTTTAAC-GAAATTAATTAA
* * *
30052661 TATATCTGTTTATATTAATAAATTTGGTAAAATATATATA-ATTAATATTTTGTATGAACCACAT
65 TATAACTGTTTATATTAATAAATTTGGTAAAATATATATACATTAATATTTTGTATGAATCAAAT
30052725 TCATATATTAATT
130 TCATATATTAATT
30052738 TTATCTATGT
Statistics
Matches: 385, Mismatches: 29, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
276 34 0.09
277 18 0.05
278 256 0.66
279 57 0.15
280 20 0.05
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (276 bp):
AATTATATTCTTTCCAAAAGAACATTAATTTCCATGTCTTTTATATTTTAACGAAATTAATTAAT
ATAACTGTTTATATTAATAAATTTGGTAAAATATATATACATTAATATTTTGTATGAATCAAATT
CATATATTAATTATATTCTTTCCAAAAAAATATTAATTTCCATATCTTTTATATTTTGACCGAAA
TTAATTAATATAATTGTTTATATTAATAAATTTGGCAAAATATATACAATTAATATTTTGTATGA
ATCAAATTCATATATT
Found at i:30060159 original size:27 final size:26
Alignment explanation
Indices: 30060105--30060169 Score: 85
Period size: 27 Copynumber: 2.5 Consensus size: 26
30060095 TTTTATCCCA
*
30060105 GTAAAATTTTGACCATTTTACCAGTG
1 GTAAAATTTTGACCATTTTACCACTG
** *
30060131 GTAAAATTTTAGATGATTTTACCTCTG
1 GTAAAATTTT-GACCATTTTACCACTG
30060158 GTAAAATTTTGA
1 GTAAAATTTTGA
30060170 GAGAACATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 12 0.35
27 22 0.65
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (26 bp):
GTAAAATTTTGACCATTTTACCACTG
Found at i:30064187 original size:23 final size:23
Alignment explanation
Indices: 30064157--30064205 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
30064147 TACGGAAGGA
30064157 AAACTTGTATTAGTAAATAAACT
1 AAACTTGTATTAGTAAATAAACT
*
30064180 AAACTTGTATTAGTAGATAAACT
1 AAACTTGTATTAGTAAATAAACT
30064203 AAA
1 AAA
30064206 TAAGATCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (23 bp):
AAACTTGTATTAGTAAATAAACT
Found at i:30066143 original size:24 final size:24
Alignment explanation
Indices: 30066108--30066155 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
30066098 AATTGATGTG
30066108 CAAATCAATGAGTTAAAGGGAGCT
1 CAAATCAATGAGTTAAAGGGAGCT
*
30066132 CAAATCAGTGAGTTAAAGGGAGCT
1 CAAATCAATGAGTTAAAGGGAGCT
30066156 GAGGTGGTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.12, G:0.27, T:0.21
Consensus pattern (24 bp):
CAAATCAATGAGTTAAAGGGAGCT
Found at i:30067238 original size:33 final size:33
Alignment explanation
Indices: 30067201--30067290 Score: 117
Period size: 33 Copynumber: 2.7 Consensus size: 33
30067191 ACGTTCATAG
* * *
30067201 TGCCATAACTCGGTTATGGTCTTATCATCAGAA
1 TGCCATAACCCAGCTATGGTCTTATCATCAGAA
* *
30067234 TGCCATAGCCCAGCTATGGTCTTATCATCAGTA
1 TGCCATAACCCAGCTATGGTCTTATCATCAGAA
* *
30067267 TGCCATAGCCCAACTATGGTCTTA
1 TGCCATAACCCAGCTATGGTCTTA
30067291 CATATATACA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (33 bp):
TGCCATAACCCAGCTATGGTCTTATCATCAGAA
Found at i:30070836 original size:42 final size:43
Alignment explanation
Indices: 30070725--30070836 Score: 109
Period size: 43 Copynumber: 2.6 Consensus size: 43
30070715 CTCATACAAT
* * ** * *
30070725 GCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATAATGAT
1 GCCAATGTCCCAGACATGGTCTTACACATAATCAAATAACGAC
* * * * *
30070768 GCCATTGTCCCAGATAGGGTTTTACACATAATCATAT-ACGAC
1 GCCAATGTCCCAGACATGGTCTTACACATAATCAAATAACGAC
*
30070810 GCCAATGTCTCAGACATGGTCTTACAC
1 GCCAATGTCCCAGACATGGTCTTACAC
30070837 GTAAATTTCA
Statistics
Matches: 53, Mismatches: 16, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
42 25 0.47
43 28 0.53
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
GCCAATGTCCCAGACATGGTCTTACACATAATCAAATAACGAC
Found at i:30078732 original size:41 final size:41
Alignment explanation
Indices: 30078591--30078732 Score: 178
Period size: 41 Copynumber: 3.5 Consensus size: 41
30078581 TTTAAAATGA
* * * *
30078591 TTCACTGGCATTAAGCCT-ACTAGACGTAAAGTCTAAAATAT
1 TTCACTAGCATTAAGCCTGA-TAGAAGTAAAGTCTGAATTAT
* * *
30078632 TACACCAGCATTAAGCCTGCTAGAAGTAAAGTCTGAATTAT
1 TTCACTAGCATTAAGCCTGATAGAAGTAAAGTCTGAATTAT
* **
30078673 TTCACTGGCATTAAGCCTGATAGGTGTAAAGTCTGAATTAT
1 TTCACTAGCATTAAGCCTGATAGAAGTAAAGTCTGAATTAT
30078714 TTCACTAGCATTAAGCCTG
1 TTCACTAGCATTAAGCCTG
30078733 CTAAGTACAG
Statistics
Matches: 86, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
41 86 1.00
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (41 bp):
TTCACTAGCATTAAGCCTGATAGAAGTAAAGTCTGAATTAT
Found at i:30078750 original size:82 final size:81
Alignment explanation
Indices: 30078591--30078751 Score: 209
Period size: 82 Copynumber: 2.0 Consensus size: 81
30078581 TTTAAAATGA
30078591 TTCACTGGCATTAAGCCTACTAGACGTAAAGTCTAAAATATTACACCAGCATTAAGCCTGCTAGA
1 TTCACTGGCATTAAGCCTACTAGACGTAAAGTCTAAAATATTACACCAGCATTAAGCCTGCTA-A
*
30078656 AGTAAAGTCTGAATTAT
65 AGTAAAGCCTGAATTAT
** * * * *
30078673 TTCACTGGCATTAAGCCTGA-TAGGTGTAAAGTCTGAATTATTTCACTAGCATTAAGCCTGCT-A
1 TTCACTGGCATTAAGCCT-ACTAGACGTAAAGTCTAAAATATTACACCAGCATTAAGCCTGCTAA
30078736 AGTACAGAGCCTGAAT
65 AGTA-A-AGCCTGAAT
30078752 AACTCAGATA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
80 5 0.07
81 1 0.01
82 62 0.90
83 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (81 bp):
TTCACTGGCATTAAGCCTACTAGACGTAAAGTCTAAAATATTACACCAGCATTAAGCCTGCTAAA
GTAAAGCCTGAATTAT
Found at i:30080921 original size:29 final size:29
Alignment explanation
Indices: 30080879--30080947 Score: 122
Period size: 29 Copynumber: 2.4 Consensus size: 29
30080869 CACAAATAAA
30080879 TTGTACA-AGTAGACCGAATTCTACTAATC
1 TTGTACACA-TAGACCGAATTCTACTAATC
30080908 TTGTACACATAGACCGAATTCTACTAATC
1 TTGTACACATAGACCGAATTCTACTAATC
30080937 TTGTACACATA
1 TTGTACACATA
30080948 CATATACTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 38 0.97
30 1 0.03
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.32
Consensus pattern (29 bp):
TTGTACACATAGACCGAATTCTACTAATC
Found at i:30084428 original size:24 final size:24
Alignment explanation
Indices: 30084394--30084442 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
30084384 GCCGCTATAG
30084394 AACATGACCTTTAGCGGCACTTTT
1 AACATGACCTTTAGCGGCACTTTT
* * *
30084418 AACATGGCCTTTAGTGGCATTTTT
1 AACATGACCTTTAGCGGCACTTTT
30084442 A
1 A
30084443 TCACAAACGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (24 bp):
AACATGACCTTTAGCGGCACTTTT
Found at i:30084485 original size:43 final size:43
Alignment explanation
Indices: 30084418--30084597 Score: 236
Period size: 43 Copynumber: 4.2 Consensus size: 43
30084408 CGGCACTTTT
* * ** *
30084418 AACATGGCCTTTAGTGGCATTTTTATCACAAACGCCGTTAAAG
1 AACATGACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAG
** *
30084461 AACATGATATTTAGCGGCGCTTTTATCACAAACGCCGCTAAAT
1 AACATGACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAG
* * *
30084504 AACATGCCCTTTAGCGGCACTTTTATCACAAATGCCGCTAAAG
1 AACATGACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAG
*
30084547 AACATGACCTTTAGCGGCGCTTCTT-TCACAAATGCCGCTAAAG
1 AACATGACCTTTAGCGGCGCTT-TTATCACAAACGCCGCTAAAG
30084590 AACATGAC
1 AACATGAC
30084598 TTGACTCTCC
Statistics
Matches: 120, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
43 118 0.98
44 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (43 bp):
AACATGACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAG
Found at i:30084562 original size:86 final size:86
Alignment explanation
Indices: 30084417--30084595 Score: 261
Period size: 86 Copynumber: 2.1 Consensus size: 86
30084407 GCGGCACTTT
* * * * *
30084417 TAACATGGCCTTTAGTGGCATTTTTATCACAAACGCCGTTAAAGAACATGATATTTAGCGGCGCT
1 TAACATGCCCTTTAGCGGCACTTTTATCACAAACGCCGCTAAAGAACATGACATTTAGCGGCGCT
30084482 T-TTATCACAAACGCCGCTAAA
66 TCTT-TCACAAACGCCGCTAAA
* *
30084503 TAACATGCCCTTTAGCGGCACTTTTATCACAAATGCCGCTAAAGAACATGACCTTTAGCGGCGCT
1 TAACATGCCCTTTAGCGGCACTTTTATCACAAACGCCGCTAAAGAACATGACATTTAGCGGCGCT
*
30084568 TCTTTCACAAATGCCGCTAAA
66 TCTTTCACAAACGCCGCTAAA
*
30084589 GAACATG
1 TAACATG
30084596 ACTTGACTCT
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
86 81 0.98
87 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (86 bp):
TAACATGCCCTTTAGCGGCACTTTTATCACAAACGCCGCTAAAGAACATGACATTTAGCGGCGCT
TCTTTCACAAACGCCGCTAAA
Found at i:30089073 original size:21 final size:21
Alignment explanation
Indices: 30089049--30089096 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
30089039 AATTGAAGTA
*
30089049 ACAAATGATGTAGAGGCAGAG
1 ACAAATGATGCAGAGGCAGAG
*
30089070 ACAAATGATGCAGAGGTAGAG
1 ACAAATGATGCAGAGGCAGAG
30089091 ACAAAT
1 ACAAAT
30089097 TTGATGATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.46, C:0.10, G:0.29, T:0.15
Consensus pattern (21 bp):
ACAAATGATGCAGAGGCAGAG
Found at i:30089207 original size:19 final size:19
Alignment explanation
Indices: 30089179--30089216 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
30089169 CCGAAAACTA
30089179 GAAGGCAGGAGACAACTTG
1 GAAGGCAGGAGACAACTTG
*
30089198 GAAGGTAGGAGACAACTTG
1 GAAGGCAGGAGACAACTTG
30089217 CAACAGTCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.13, G:0.37, T:0.13
Consensus pattern (19 bp):
GAAGGCAGGAGACAACTTG
Found at i:30090885 original size:7 final size:7
Alignment explanation
Indices: 30090875--30090987 Score: 52
Period size: 7 Copynumber: 15.7 Consensus size: 7
30090865 TAATAAAACA
30090875 TAAACCC
1 TAAACCC
30090882 TAAACCCC
1 TAAA-CCC
30090890 T-AACCC
1 TAAACCC
*
30090896 TTAACCC
1 TAAACCC
*
30090903 ATAAACCA
1 -TAAACCC
*
30090911 TAATCCC
1 TAAACCC
30090918 TAAACCC
1 TAAACCC
* *
30090925 ATAATCCA
1 -TAAACCC
*
30090933 TAAACCT
1 TAAACCC
*
30090940 TAAA--A
1 TAAACCC
*
30090945 TAGGAACTCT
1 TA--AAC-CC
*
30090955 TAAACCT
1 TAAACCC
30090962 TAAACCC
1 TAAACCC
*
30090969 TAAACCA
1 TAAACCC
*
30090976 TAAACCT
1 TAAACCC
30090983 TAAAC
1 TAAAC
30090988 TATATGGATA
Statistics
Matches: 83, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
5 2 0.02
6 4 0.05
7 58 0.70
8 17 0.20
10 2 0.02
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:30090923 original size:29 final size:29
Alignment explanation
Indices: 30090873--30090943 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
30090863 AATAATAAAA
* *
30090873 CATAAACCCTAAACCCCTAACCCTTAACC
1 CATAAACCATAAACCCCTAACCCATAACC
* *
30090902 CATAAACCAT-AATCCCTAAACCCATAATC
1 CATAAACCATAAACCCCT-AACCCATAACC
*
30090931 CATAAACCTTAAA
1 CATAAACCATAAA
30090944 ATAGGAACTC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
28 6 0.17
29 27 0.77
30 2 0.06
ACGTcount: A:0.44, C:0.37, G:0.00, T:0.20
Consensus pattern (29 bp):
CATAAACCATAAACCCCTAACCCATAACC
Found at i:30090926 original size:15 final size:15
Alignment explanation
Indices: 30090887--30090938 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
30090877 AACCCTAAAC
*
30090887 CCCT-AACCCTTAA-
1 CCCTAAACCCATAAT
30090900 CCCATAAA-CCATAAT
1 CCC-TAAACCCATAAT
30090915 CCCTAAACCCATAAT
1 CCCTAAACCCATAAT
*
30090930 CCATAAACC
1 CCCTAAACC
30090939 TTAAAATAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 3 0.09
14 10 0.30
15 20 0.61
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.19
Consensus pattern (15 bp):
CCCTAAACCCATAAT
Found at i:30090943 original size:22 final size:22
Alignment explanation
Indices: 30090875--30090987 Score: 94
Period size: 22 Copynumber: 5.2 Consensus size: 22
30090865 TAATAAAACA
* *
30090875 TAAACCC-TAAACCCCTAACCCT
1 TAAACCCATAAA-CCATAAACCT
* *
30090897 T-AACCCATAAACCATAATCCC
1 TAAACCCATAAACCATAAACCT
*
30090918 TAAACCCATAATCCATAAACCT
1 TAAACCCATAAACCATAAACCT
*
30090940 TAAA---ATAGGAACTCTTAAACCT
1 TAAACCCATA--AAC-CATAAACCT
30090962 TAAACCC-TAAACCATAAACCT
1 TAAACCCATAAACCATAAACCT
30090983 TAAAC
1 TAAAC
30090988 TATATGGATA
Statistics
Matches: 74, Mismatches: 9, Indels: 17
0.74 0.09 0.17
Matches are distributed among these distances:
19 3 0.04
21 28 0.38
22 41 0.55
24 2 0.03
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.21
Consensus pattern (22 bp):
TAAACCCATAAACCATAAACCT
Found at i:30090974 original size:14 final size:14
Alignment explanation
Indices: 30090868--30090987 Score: 66
Period size: 14 Copynumber: 8.4 Consensus size: 14
30090858 CCTTGAATAA
*
30090868 TAAAACATAAACCC
1 TAAACCATAAACCC
*
30090882 TAAACCCCT-AACCC
1 TAAA-CCATAAACCC
* *
30090896 TTAACCCATAAACCA
1 -TAAACCATAAACCC
* *
30090911 TAATCCCTAAACCC
1 TAAACCATAAACCC
* *
30090925 ATAATCCATAAACCT
1 -TAAACCATAAACCC
*
30090940 TAAA--ATAGGAACTCT
1 TAAACCATA--AAC-CC
*
30090955 TAAACCTTAAACCC
1 TAAACCATAAACCC
*
30090969 TAAACCATAAACCT
1 TAAACCATAAACCC
30090983 TAAAC
1 TAAAC
30090988 TATATGGATA
Statistics
Matches: 82, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
12 3 0.04
14 47 0.57
15 30 0.37
17 2 0.02
ACGTcount: A:0.46, C:0.32, G:0.02, T:0.21
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:30091127 original size:7 final size:7
Alignment explanation
Indices: 30091107--30091183 Score: 84
Period size: 7 Copynumber: 11.0 Consensus size: 7
30091097 AACCCCTATC
30091107 CCATAAA
1 CCATAAA
*
30091114 CCCTAAA
1 CCATAAA
*
30091121 TCATAAA
1 CCATAAA
*
30091128 ACATAAA
1 CCATAAA
*
30091135 CCCTAAA
1 CCATAAA
30091142 CCATAAA
1 CCATAAA
*
30091149 CC-TCAAC
1 CCAT-AAA
*
30091156 CCTTAAA
1 CCATAAA
30091163 CCATAAA
1 CCATAAA
30091170 CCATAAA
1 CCATAAA
30091177 CCATAAA
1 CCATAAA
30091184 GCTCGATCTA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
6 1 0.02
7 56 0.97
8 1 0.02
ACGTcount: A:0.52, C:0.31, G:0.00, T:0.17
Consensus pattern (7 bp):
CCATAAA
Found at i:30091396 original size:40 final size:40
Alignment explanation
Indices: 30091294--30091836 Score: 175
Period size: 40 Copynumber: 13.8 Consensus size: 40
30091284 TTTTGCGACG
* * * * *
30091294 TTTTTCAAAAAGCGCCACTAATGGTTGACCTATAGTGGCG
1 TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGTGGCA
* * * *
30091334 TTTTGCAAAACGCACCGGTAATGCTCGATCTATAGTGGCA
1 TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGTGGCA
* **
30091374 TTTTTCAAAAGGCGCCGCTAATGCTCGATCTATAGCAGCA
1 TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGTGGCA
* * *
30091414 TTTTTCAAAAAGTGCTGCTAATGC-C-A-CTAAAGCT--CA
1 TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAG-TGGCA
*** * ** ** ** * * * *
30091450 -ACAT-AAAATGACGGTG-TTGTGCTTAATTTTTTGCGGCA
1 TTTTTCAAAAAG-CGCCGCTAATGCTCGATCTATAGTGGCA
** * * * * * * *
30091488 TTTTTTGAAAAGTGCTGCTAATGGTCAACCTATAGCGGCG
1 TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGTGGCA
* * * *
30091528 TTTTTCAAGAAGCGCCGCTAGTGCTCTATCTATAGCGGCA
1 TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGTGGCA
** * * ** *
30091568 TTTTTCATGAAGCGCCGCTAATTCTCGATTTATAACGGCG
1 TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGTGGCA
* * *
30091608 TTTTCCAAAAAACGCCGCTAATGC-C-A-CTAAAGCT--CA
1 TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAG-TGGCA
*** * * ** ** * * * * **
30091644 -ACAT-AAAATAGGGGCG-TTGTGCTTAATTTTTTTGCGGTG
1 TTTTTCAAAA-AGCGCCGCTAATGCTCGA-TCTATAGTGGCA
* * * * *
30091683 TTTTTCAAAAAGAGCCGCTAATGGTCGACCTATAGCGGCG
1 TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGTGGCA
* * **
30091723 TTTTTCAAGAAGCGCCG-TGAATGCTCGATCTATAGAGGTG
1 TTTTTCAAAAAGCGCCGCT-AATGCTCGATCTATAGTGGCA
* * * *
30091763 TTTTTCAAAAGGCGCCACTAATGCTCGATCTATAGCGGTA
1 TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGTGGCA
* *
30091803 TTTTTTAAAAAGCGTCGCTAATGCTCGATCTATA
1 TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATA
30091837 ACGGCGTTTT
Statistics
Matches: 356, Mismatches: 124, Indels: 46
0.68 0.24 0.09
Matches are distributed among these distances:
34 17 0.05
35 8 0.02
36 5 0.01
37 10 0.03
38 6 0.02
39 7 0.02
40 293 0.82
41 10 0.03
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (40 bp):
TTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGTGGCA
Found at i:30091573 original size:194 final size:194
Alignment explanation
Indices: 30091212--30091826 Score: 772
Period size: 195 Copynumber: 3.2 Consensus size: 194
30091202 TTTTTCGAAA
* * * *
30091212 AGCGGCA-TTTTCTGAAAAGCGACGCTAATGCCACTAAAGCTCAACATAAAATGATGGTGTTATG
1 AGCGGCATTTTTC-AAAAAGCGCCGCTAATGCCACTAAAGCTCAACATAAAATGACGGTGTTGTG
* * * * * *
30091276 CTTAATTTTTTTGCGACGTTTTTCAAAAAGCGCCACTAATGGTTGACCTATAGTGGCGTTTTGCA
65 CTTAATTTTTTTGCGGCGTTTTTCAAAAAGAGCCGCTAATGGTCGACCTATAGCGGCGTTTTTCA
* *
30091341 A-AACGCACCGGTAATGCTCGATCTATAGTGGCATTTTTCAAAAGGCGCCGCTAATGCTCGATCT
130 AGAA-GCGCC-GTAATGCTCGATCTATAGAGGCATTTTTCAAAAGGCGCCGCTAATGCTCGATCT
30091405 AT
193 AT
* * *
30091407 AGCAGCATTTTTCAAAAAGTGCTGCTAATGCCACTAAAGCTCAACATAAAATGACGGTGTTGTGC
1 AGCGGCATTTTTCAAAAAGCGCCGCTAATGCCACTAAAGCTCAACATAAAATGACGGTGTTGTGC
* ** * * *
30091472 TTAA-TTTTTTGCGGCATTTTTTGAAAAGTGCTGCTAATGGTCAACCTATAGCGGCGTTTTTCAA
66 TTAATTTTTTTGCGGCGTTTTTCAAAAAGAGCCGCTAATGGTCGACCTATAGCGGCGTTTTTCAA
* * * * * *
30091536 GAAGCGCCGCTAGTGCTCTATCTATAGCGGCATTTTTCATGAA-GCGCCGCTAATTCTCGATTTA
131 GAAGCGCCG-TAATGCTCGATCTATAGAGGCATTTTTCA-AAAGGCGCCGCTAATGCTCGATCTA
30091600 T
194 T
* * * * * *
30091601 AACGGCGTTTTCCAAAAAACGCCGCTAATGCCACTAAAGCTCAACATAAAAT-AGGGGCGTTGTG
1 AGCGGCATTTTTCAAAAAGCGCCGCTAATGCCACTAAAGCTCAACATAAAATGA-CGGTGTTGTG
*
30091665 CTTAATTTTTTTGCGGTGTTTTTCAAAAAGAGCCGCTAATGGTCGACCTATAGCGGCGTTTTTCA
65 CTTAATTTTTTTGCGGCGTTTTTCAAAAAGAGCCGCTAATGGTCGACCTATAGCGGCGTTTTTCA
** *
30091730 AGAAGCGCCGTGAATGCTCGATCTATAGAGGTGTTTTTCAAAAGGCGCCACTAATGCTCGATCTA
130 AGAAGCGCCGT-AATGCTCGATCTATAGAGGCATTTTTCAAAAGGCGCCGCTAATGCTCGATCTA
30091795 T
194 T
* * *
30091796 AGCGGTATTTTTTAAAAAGCGTCGCTAATGC
1 AGCGGCATTTTTCAAAAAGCGCCGCTAATGC
30091827 TCGATCTATA
Statistics
Matches: 355, Mismatches: 57, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
193 2 0.01
194 160 0.45
195 188 0.53
196 5 0.01
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (194 bp):
AGCGGCATTTTTCAAAAAGCGCCGCTAATGCCACTAAAGCTCAACATAAAATGACGGTGTTGTGC
TTAATTTTTTTGCGGCGTTTTTCAAAAAGAGCCGCTAATGGTCGACCTATAGCGGCGTTTTTCAA
GAAGCGCCGTAATGCTCGATCTATAGAGGCATTTTTCAAAAGGCGCCGCTAATGCTCGATCTAT
Found at i:30091816 original size:80 final size:80
Alignment explanation
Indices: 30091679--30091836 Score: 210
Period size: 80 Copynumber: 2.0 Consensus size: 80
30091669 ATTTTTTTGC
* * * *
30091679 GGTGTTTTTCAAAAAGAGCCGCTAATGGTCGACCTATAGCGGCGTTTTTCAAGAAGCGCCG-TGA
1 GGTGTTTTTCAAAAAGAGCCACTAATGCTCGACCTATAGCGGCATTTTTCAAAAAGCGCCGCT-A
30091743 ATGCTCGATCTATAGA
65 ATGCTCGATCTATAGA
* * * * * *
30091759 GGTGTTTTTCAAAAGGCGCCACTAATGCTCGATCTATAGCGGTATTTTTTAAAAAGCGTCGCTAA
1 GGTGTTTTTCAAAAAGAGCCACTAATGCTCGACCTATAGCGGCATTTTTCAAAAAGCGCCGCTAA
30091824 TGCTCGATCTATA
66 TGCTCGATCTATA
30091837 ACGGCGTTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
80 66 0.99
81 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (80 bp):
GGTGTTTTTCAAAAAGAGCCACTAATGCTCGACCTATAGCGGCATTTTTCAAAAAGCGCCGCTAA
TGCTCGATCTATAGA
Found at i:30091849 original size:40 final size:40
Alignment explanation
Indices: 30091682--30091847 Score: 183
Period size: 40 Copynumber: 4.2 Consensus size: 40
30091672 TTTTTGCGGT
* * * *
30091682 GTTTTTCAAAAAGAGCCGCTAATGGTCGACCTATAGCGGC
1 GTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAACGGC
* *
30091722 GTTTTTCAAGAAGCGCCG-TGAATGCTCGATCTATAGA-GGT
1 GTTTTTCAAAAAGCGCCGCT-AATGCTCGATCTATA-ACGGC
* * * *
30091762 GTTTTTCAAAAGGCGCCACTAATGCTCGATCTATAGCGGT
1 GTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAACGGC
* * *
30091802 ATTTTTTAAAAAGCGTCGCTAATGCTCGATCTATAACGGC
1 GTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAACGGC
30091842 GTTTTT
1 GTTTTT
30091848 TATCCAAACA
Statistics
Matches: 104, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 1 0.01
40 102 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (40 bp):
GTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAACGGC
Found at i:30094445 original size:11 final size:11
Alignment explanation
Indices: 30094431--30094469 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
30094421 CCACCCTATC
30094431 ACCACCATACA
1 ACCACCATACA
* *
30094442 ACCACCACACC
1 ACCACCATACA
*
30094453 ACCACCATTCA
1 ACCACCATACA
30094464 ACCACC
1 ACCACC
30094470 GTAGCACAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.38, C:0.54, G:0.00, T:0.08
Consensus pattern (11 bp):
ACCACCATACA
Found at i:30096913 original size:13 final size:14
Alignment explanation
Indices: 30096897--30096925 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
30096887 CATGTTAGCC
30096897 AAATAAACA-TATA
1 AAATAAACATTATA
30096910 AAATAAACATTATA
1 AAATAAACATTATA
30096924 AA
1 AA
30096926 CATGGATGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATAAACATTATA
Found at i:30097876 original size:11 final size:11
Alignment explanation
Indices: 30097862--30097895 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
30097852 GGTAAATTCA
30097862 TAAAAAATACT
1 TAAAAAATACT
30097873 TAAAAAATACT
1 TAAAAAATACT
30097884 TAAAAAATACT
1 TAAAAAATACT
30097895 T
1 T
30097896 TTAATTCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (11 bp):
TAAAAAATACT
Found at i:30106951 original size:33 final size:31
Alignment explanation
Indices: 30106897--30106965 Score: 95
Period size: 33 Copynumber: 2.2 Consensus size: 31
30106887 CAATTCAATA
30106897 ACAGTTCAGTTCAGTTGGGCCTTAGCCCATT
1 ACAGTTCAGTTCAGTTGGGCCTTAGCCCATT
*
30106928 ACAGTCTCAGTGTCAG-TGTGGCCTTATCCCATT
1 ACAGT-TCAGT-TCAGTTG-GGCCTTAGCCCATT
30106961 ACAGT
1 ACAGT
30106966 GACAGTAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
31 5 0.15
32 7 0.21
33 22 0.65
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (31 bp):
ACAGTTCAGTTCAGTTGGGCCTTAGCCCATT
Found at i:30110159 original size:24 final size:24
Alignment explanation
Indices: 30110123--30110168 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
30110113 GTAATTTTAA
*
30110123 AAAATATATAATTATA-CCAATATT
1 AAAATATAAAATT-TACCCAATATT
*
30110147 AAAATTTAAAATTTACCCAATA
1 AAAATATAAAATTTACCCAATA
30110169 GTCAAAGGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.11
24 17 0.89
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (24 bp):
AAAATATAAAATTTACCCAATATT
Found at i:30116299 original size:37 final size:37
Alignment explanation
Indices: 30116258--30116334 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
30116248 TCCGAACATG
30116258 AATGCCAAATTGAGGAATGATATTACGTCCTTTGGGC
1 AATGCCAAATTGAGGAATGATATTACGTCCTTTGGGC
30116295 AATGCCAAATTGAGGAATGATATTACGTCCTTTGGGC
1 AATGCCAAATTGAGGAATGATATTACGTCCTTTGGGC
30116332 AAT
1 AAT
30116335 CTGAGAGTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (37 bp):
AATGCCAAATTGAGGAATGATATTACGTCCTTTGGGC
Found at i:30125361 original size:25 final size:24
Alignment explanation
Indices: 30125323--30125389 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 24
30125313 CTATGATCGA
*
30125323 TAAGCTCATTTCGAGCTGAAGAACGG
1 TAAGCTCATATCGAGCTG-A-AACGG
*
30125349 TAAGCTC-TATCGAGTTGAAACGG
1 TAAGCTCATATCGAGCTGAAACGG
*
30125372 TAAGCTCATA-AGAGCTGA
1 TAAGCTCATATCGAGCTGA
30125390 TATATTGGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 18 0.50
24 3 0.08
25 8 0.22
26 7 0.19
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (24 bp):
TAAGCTCATATCGAGCTGAAACGG
Found at i:30143550 original size:176 final size:176
Alignment explanation
Indices: 30143256--30143610 Score: 710
Period size: 176 Copynumber: 2.0 Consensus size: 176
30143246 TTACATTTCT
30143256 TAACTTAGAATTACTAAACTCATGTTCATGTTGTTACGAATAAATTTACGGCAACTTCGTAATTT
1 TAACTTAGAATTACTAAACTCATGTTCATGTTGTTACGAATAAATTTACGGCAACTTCGTAATTT
30143321 GCTAACTACTGCTCATACATACTTATTAAATTAACTAATCTCTTGAACATTTTCCAATGTCAATT
66 GCTAACTACTGCTCATACATACTTATTAAATTAACTAATCTCTTGAACATTTTCCAATGTCAATT
30143386 CAAAGAATTAATCAATCTTTATAAGCACATAAAAGAATAAGTGAGG
131 CAAAGAATTAATCAATCTTTATAAGCACATAAAAGAATAAGTGAGG
30143432 TAACTTAGAATTACTAAACTCATGTTCATGTTGTTACGAATAAATTTACGGCAACTTCGTAATTT
1 TAACTTAGAATTACTAAACTCATGTTCATGTTGTTACGAATAAATTTACGGCAACTTCGTAATTT
30143497 GCTAACTACTGCTCATACATACTTATTAAATTAACTAATCTCTTGAACATTTTCCAATGTCAATT
66 GCTAACTACTGCTCATACATACTTATTAAATTAACTAATCTCTTGAACATTTTCCAATGTCAATT
30143562 CAAAGAATTAATCAATCTTTATAAGCACATAAAAGAATAAGTGAGG
131 CAAAGAATTAATCAATCTTTATAAGCACATAAAAGAATAAGTGAGG
30143608 TAA
1 TAA
30143611 TAATGTATTC
Statistics
Matches: 179, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
176 179 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (176 bp):
TAACTTAGAATTACTAAACTCATGTTCATGTTGTTACGAATAAATTTACGGCAACTTCGTAATTT
GCTAACTACTGCTCATACATACTTATTAAATTAACTAATCTCTTGAACATTTTCCAATGTCAATT
CAAAGAATTAATCAATCTTTATAAGCACATAAAAGAATAAGTGAGG
Found at i:30148099 original size:16 final size:15
Alignment explanation
Indices: 30148074--30148107 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
30148064 AACGTTGATA
*
30148074 ATAATTAATATATATT
1 ATAATAAATATA-ATT
30148090 ATAATAAATATAATT
1 ATAATAAATATAATT
30148105 ATA
1 ATA
30148108 TACTAGGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:30166356 original size:42 final size:41
Alignment explanation
Indices: 30166297--30166433 Score: 141
Period size: 42 Copynumber: 3.5 Consensus size: 41
30166287 TGATTCCCCC
30166297 AAGGGGTTGCTAAGTGCTGATCCCACCGTATTTTAAATGTGA
1 AAGGGGTTGCTAAGTGCTGATCCCACCGTA-TTTAAATGTGA
*
30166339 AAGGGGTTGCTAAGTGCTGATTCC-CC------AAAT-T-A
1 AAGGGGTTGCTAAGTGCTGATCCCACCGTATTTAAATGTGA
** *
30166371 CTGGTGGTTGCTAAGTGCTGATCCCATCGTATCTTAAATGTG-
1 AAGG-GGTTGCTAAGTGCTGATCCCACCGTAT-TTAAATGTGA
30166413 AAGGGGTTGCTAAGTGCTGAT
1 AAGGGGTTGCTAAGTGCTGAT
30166434 TCCCCGAATC
Statistics
Matches: 77, Mismatches: 7, Indels: 23
0.72 0.07 0.21
Matches are distributed among these distances:
32 3 0.04
33 20 0.26
34 5 0.06
41 23 0.30
42 26 0.34
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCTGATCCCACCGTATTTAAATGTGA
Found at i:30166385 original size:33 final size:33
Alignment explanation
Indices: 30166343--30166465 Score: 106
Period size: 33 Copynumber: 3.5 Consensus size: 33
30166333 ATGTGAAAGG
30166343 GGTTGCTAAGTGCTGATTCCCCAAATTACTGGT
1 GGTTGCTAAGTGCTGATTCCCCAAATTACTGGT
* *
30166376 GGTTGCTAAGTGCTGATCCCATCGTATCTTAAATGTGA-AGG-
1 GGTTGCTAAGTGCTGATTCC--C----C--AAAT-T-ACTGGT
* *
30166417 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCAAATTACTGGT
30166450 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
30166466 ATCCACCGAT
Statistics
Matches: 72, Mismatches: 6, Indels: 24
0.71 0.06 0.24
Matches are distributed among these distances:
31 1 0.01
32 2 0.03
33 38 0.53
35 2 0.03
39 2 0.03
41 23 0.32
42 3 0.04
43 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCAAATTACTGGT
Found at i:30166454 original size:74 final size:73
Alignment explanation
Indices: 30166195--30166473 Score: 345
Period size: 74 Copynumber: 3.8 Consensus size: 73
30166185 GAATACGAAG
* * *
30166195 GGGGTTGCTAAGTGCTGATTCCCCAACTCATTGGTGGGTGCTAAGTGCTGATTCCACCGTATCCT
1 GGGGTTGCTAAGTGCTGATTCCCCAA-TCACTGGTGGTTGCTAAGTGCTGATCCCACCGTAT-CT
* * *
30166260 TGAATATAAAA
64 TAAATGT-GAA
* * *
30166271 GGGGTTTGCTAAGTGTTGATTCCCC---CA-AGG-GGTTGCTAAGTGCTGATCCCACCGTATTTT
1 GGGG-TTGCTAAGTGCTGATTCCCCAATCACTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTT
30166331 AAATGTGAAA
65 AAATGTG-AA
* *
30166341 GGGGTTGCTAAGTGCTGATTCCCCAAATTACTGGTGGTTGCTAAGTGCTGATCCCATCGTATCTT
1 GGGGTTGCTAAGTGCTGATTCCCC-AATCACTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTT
30166406 AAATGTGAA
65 AAATGTGAA
30166415 GGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGAAT-CCACCG
1 GGGGTTGCTAAGTGCTGATTCCCC-AATCACTGGTGGTTGCTAAGTGCTG-ATCCCACCG
30166474 ATAACGGATA
Statistics
Matches: 178, Mismatches: 16, Indels: 20
0.83 0.07 0.09
Matches are distributed among these distances:
69 19 0.11
70 12 0.07
71 25 0.14
72 2 0.01
73 3 0.02
74 57 0.32
75 37 0.21
76 4 0.02
77 19 0.11
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (73 bp):
GGGGTTGCTAAGTGCTGATTCCCCAATCACTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTA
AATGTGAA
Found at i:30172934 original size:33 final size:33
Alignment explanation
Indices: 30172892--30173111 Score: 191
Period size: 33 Copynumber: 6.5 Consensus size: 33
30172882 ATACGAAGGG
30172892 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
* * *
30172925 GGTTGCTAAGTGTTGATTCCACCGTATCCTTGAATATAAATGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--C-T---CAT---TGGT
* *
30172969 GGATGCTAAGTGCTGATT-CCC--C-CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
30172996 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
* * * *
30173029 GGTTGCTAAGTGCTGATTCCTCGAATTACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
* * *
30173062 GGTTGCTAAGTGCTGATTCCCCGAATTACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
30173095 GGTTGCTAAGTGCTGAT
1 GGTTGCTAAGTGCTGAT
30173112 CCCACCGTAT
Statistics
Matches: 156, Mismatches: 14, Indels: 34
0.76 0.07 0.17
Matches are distributed among these distances:
27 17 0.11
28 5 0.03
30 1 0.01
31 2 0.01
32 3 0.02
33 97 0.62
34 3 0.02
35 1 0.01
37 2 0.01
38 1 0.01
41 2 0.01
42 2 0.01
43 1 0.01
44 19 0.12
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
Found at i:30181016 original size:21 final size:22
Alignment explanation
Indices: 30180984--30181044 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 22
30180974 TATGAAATAT
30180984 GAAAATAAATATATAAAAAT-TCA
1 GAAAA-AAATATATAAAAATCT-A
* *
30181007 G-AAAACATATGTATAAAATCTA
1 GAAAAAAATATATA-AAAATCTA
30181029 GAAAAAAATATATAAA
1 GAAAAAAATATATAAA
30181045 TTATAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
21 7 0.23
22 12 0.39
23 12 0.39
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.25
Consensus pattern (22 bp):
GAAAAAAATATATAAAAATCTA
Found at i:30181441 original size:15 final size:15
Alignment explanation
Indices: 30181421--30181449 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30181411 GTCAATGATC
30181421 AGTCAACAACTAGTT
1 AGTCAACAACTAGTT
30181436 AGTCAACAACTAGT
1 AGTCAACAACTAGT
30181450 CAAAGTCAAT
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:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (15 bp):
AGTCAACAACTAGTT
Found at i:30181490 original size:21 final size:21
Alignment explanation
Indices: 30181466--30181518 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
30181456 CAATAGTATT
30181466 TTTTAATATTTAAATATTTAA
1 TTTTAATATTTAAATATTTAA
***
30181487 TTTT-ATAATTTTTTTATTTAA
1 TTTTAAT-ATTTAAATATTTAA
*
30181508 ATTTAATATTT
1 TTTTAATATTT
30181519 TTATTTTAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 2 0.08
21 22 0.85
22 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTAATATTTAAATATTTAA
Found at i:30181519 original size:21 final size:21
Alignment explanation
Indices: 30181480--30181520 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
30181470 AATATTTAAA
*
30181480 TATTTAATTTTATAATTTTTT
1 TATTTAATTTAATAATTTTTT
30181501 TATTTAAATTTAAT-ATTTTT
1 TATTT-AATTTAATAATTTTT
30181521 ATTTTAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TATTTAATTTAATAATTTTTT
Found at i:30201545 original size:61 final size:61
Alignment explanation
Indices: 30201471--30201610 Score: 147
Period size: 61 Copynumber: 2.3 Consensus size: 61
30201461 ATCAGTTTGA
* * * * ** * *
30201471 TCCTAAATATAAAAAGTTCAACAAATTTAGCTCTTAA-AGTTTACAAAATTTTTCATTTTAG
1 TCCTAACTCTAAAAAGTTCAACAAATTTAGCCCTCAATA-TTTACAAAATTAATAAATTTAG
* * * * *
30201532 TTCTAATTCTAAAAAATTCAATAAATTTGGCCCTCAATATTTACAAAATTAATAAATTTAG
1 TCCTAACTCTAAAAAGTTCAACAAATTTAGCCCTCAATATTTACAAAATTAATAAATTTAG
30201593 TCCTAACTCTAAAAAGTT
1 TCCTAACTCTAAAAAGTT
30201611 AAAAATATTT
Statistics
Matches: 63, Mismatches: 15, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
61 62 0.98
62 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.38
Consensus pattern (61 bp):
TCCTAACTCTAAAAAGTTCAACAAATTTAGCCCTCAATATTTACAAAATTAATAAATTTAG
Found at i:30205206 original size:45 final size:45
Alignment explanation
Indices: 30205142--30205234 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 45
30205132 ACAGATACTT
* * * *
30205142 GGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCC
1 GGTGGAATCAACACATAGCAACCACCTTACTAATCAATCATGTCC
*
30205187 GGTGGAATCAACACATAGCAACCACCTTACTAATCAATCATGTTC
1 GGTGGAATCAACACATAGCAACCACCTTACTAATCAATCATGTCC
30205232 GGT
1 GGT
30205235 TCACATAGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (45 bp):
GGTGGAATCAACACATAGCAACCACCTTACTAATCAATCATGTCC
Found at i:30205301 original size:51 final size:51
Alignment explanation
Indices: 30205231--30205366 Score: 166
Period size: 51 Copynumber: 2.7 Consensus size: 51
30205221 CAATCATGTT
* * * *
30205231 CGGTTCACATAGTAGCCTGCACATAGTACTAGACATGTGA-CCATTACCATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGATCCA-AACCATC
* * * *
30205282 CGGTACACGTAGTAACCTGCACATAGTACTACACACGTGATCGAAACTATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGATCCAAACCATC
**
30205333 CGGTATGCATAGTAGCCTGCACATAGTACTACAC
1 CGGTACACATAGTAGCCTGCACATAGTACTACAC
30205367 TTGCGACCTC
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
51 70 0.97
52 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (51 bp):
CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGATCCAAACCATC
Found at i:30205421 original size:101 final size:101
Alignment explanation
Indices: 30205238--30205422 Score: 257
Period size: 101 Copynumber: 1.8 Consensus size: 101
30205228 GTTCGGTTCA
* * * *
30205238 CATAGTAGCCTGCACATAGTACTAGACATGTGACCATTACCATCCGGTACACGTAGTAACCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATTA-CATCCGCTACACGCAGTAACCTGCA
30205303 CATAGTACTACACACGTGATCGAAACTATCCGGTATG
65 CATAGTACTACACACGTGATCGAAACTATCCGGTATG
* * * *
30205340 CATAGTAGCCTGCACATAGTACTACACTTGCGACC-TCT-CATTCTGCTACATGCAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCAT-TACA-TCCGCTACACGCAGTAACCTGC
30205403 ACATAGTACTACACACGTGA
64 ACATAGTACTACACACGTGA
30205423 CCATCACTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
100 2 0.03
101 38 0.52
102 33 0.45
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATTACATCCGCTACACGCAGTAACCTGCAC
ATAGTACTACACACGTGATCGAAACTATCCGGTATG
Found at i:30214377 original size:9 final size:9
Alignment explanation
Indices: 30214363--30214400 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
30214353 TGAGTTTCAA
30214363 AAAAAAATC
1 AAAAAAATC
30214372 AAAAAAATC
1 AAAAAAATC
30214381 --AAAAATC
1 AAAAAAATC
*
30214388 AAAAAAATG
1 AAAAAAATC
30214397 AAAA
1 AAAA
30214401 TGAAAATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
7 7 0.27
9 19 0.73
ACGTcount: A:0.79, C:0.08, G:0.03, T:0.11
Consensus pattern (9 bp):
AAAAAAATC
Found at i:30214386 original size:16 final size:16
Alignment explanation
Indices: 30214365--30214400 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
30214355 AGTTTCAAAA
30214365 AAAAATCAAAAAAATC
1 AAAAATCAAAAAAATC
*
30214381 AAAAATCAAAAAAATG
1 AAAAATCAAAAAAATC
30214397 AAAA
1 AAAA
30214401 TGAAAATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.78, C:0.08, G:0.03, T:0.11
Consensus pattern (16 bp):
AAAAATCAAAAAAATC
Found at i:30215341 original size:47 final size:46
Alignment explanation
Indices: 30215271--30215360 Score: 108
Period size: 47 Copynumber: 1.9 Consensus size: 46
30215261 AAGGAGAGGG
** *
30215271 GACCAAGGTGAAAACCCGTAAAGGACGCTTTGATTCCTAAAAAAAAA
1 GACCAAGGTGAAAACCCACAAAGGACGCTTTGAGTCC-AAAAAAAAA
* * * *
30215318 GACCAATGTGAAAACTCACAAAGGGCGTTTTGAGTCCAAAAAA
1 GACCAAGGTGAAAACCCACAAAGGACGCTTTGAGTCCAAAAAA
30215361 TAATAATAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
46 6 0.17
47 30 0.83
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.18
Consensus pattern (46 bp):
GACCAAGGTGAAAACCCACAAAGGACGCTTTGAGTCCAAAAAAAAA
Found at i:30217675 original size:45 final size:45
Alignment explanation
Indices: 30216678--30217653 Score: 1396
Period size: 45 Copynumber: 21.7 Consensus size: 45
30216668 TTGAAAACAA
* * ** *
30216678 CAGATCTTGTCTTCTTGTATTGGTAATGAAGTAGATCAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* *
30216723 CAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* *
30216768 CAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATTGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * *
30216813 AAGATCTTGTCTTCCTGTATTGGCAACGAAGTAGATTGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
*
30216858 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * *
30216903 CAGACCTTGTCTTCCTGTATTGGCAGCGAAGAAGATCGAAGCTAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
*
30216948 CAGATCTTGTCTTCCTGTATTGGCAGCGAAATAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* ** *
30216993 CAGATCTTGTCTTCCTATATTGGCAATGAAGTAGATTGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
**
30217038 CAGATCTTGTCTT-CTAGTATTGGCAGTAAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCT-GTATTGGCAGCGAAGTAGATCGAAGATAG
*
30217083 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * * *
30217128 CAAATCTTGCCTTCCTGTATTGGCAGCAAAGTAGATTGAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * *
30217173 CAGATCTTGTCTTCCTGTATTGGCAGTGAAGAAGATCGTAGTTAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* *
30217218 CAAATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
**
30217263 CAGATCTTGTCTTCCTGTATTGATAGCGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* ** * *
30217308 CAGATCTTGTCTTCCTGTACTGTTAGCGAAGTAGATCAAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * *
30217353 CATATCTTGTCTTCCTGTACTAGCAGCGAAGTAGATCGAAAATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* *
30217398 CAGATCTTGTATTCCTATATTGGCAGCGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* *
30217443 CAGATCTTGTCTTTCTGTATTAGCAGCGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* *
30217488 CAGATCTTGTCTTCCTGTATTGGCAACGAAGGAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* **
30217533 CAGATCTTGTCTTCCTGTATTGGCAACGAAGTAGATTAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * * *
30217578 TAGATTTTGTCTTCTTGTATTGGCAGTGAAGTAGATCGAATATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
30217623 CAGATCTTGTCTTCCTGTATTGGCAGCGAAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAG
30217654 CAAATTGAAT
Statistics
Matches: 830, Mismatches: 99, Indels: 4
0.89 0.11 0.00
Matches are distributed among these distances:
44 2 0.00
45 826 1.00
46 2 0.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (45 bp):
CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
Found at i:30226864 original size:138 final size:138
Alignment explanation
Indices: 30226611--30226892 Score: 537
Period size: 138 Copynumber: 2.0 Consensus size: 138
30226601 AAATTTCTCT
*
30226611 AAACATTCATTTGTTAAAACATACTTATGAAAGAAATGATTGAAACATACTAGAAAATTTTAAAA
1 AAAC-TTCATTTATTAAAACATACTTATGAAAGAAATGATTGAAACATACTAGAAAATTTTAAAA
*
30226676 TTTGAGCAATTTATTTGCCTTACCCCCTTTAAAAAGAAGCAATGTTCTCATTGCAAGAACAAAGT
65 TTTGAGCAATTTATTTGCCTTACCCCCTTTAAAAAGAAGCAATGTTCTCATTGCAAGAAAAAAGT
30226741 ATTGAATGA
130 ATTGAATGA
30226750 AAACTTCATTTATTAAAACATACTTATGAAAGAAATGATTGAAACATACTAGAAAATTTTAAAAT
1 AAACTTCATTTATTAAAACATACTTATGAAAGAAATGATTGAAACATACTAGAAAATTTTAAAAT
30226815 TTGAGCAATTTATTTGCCTTACCCCCTTTAAAAAGAAGCAATGTTCTCATTGCAAGAAAAAAGTA
66 TTGAGCAATTTATTTGCCTTACCCCCTTTAAAAAGAAGCAATGTTCTCATTGCAAGAAAAAAGTA
30226880 TTGAATGA
131 TTGAATGA
30226888 AAACT
1 AAACT
30226893 GAACACCAGG
Statistics
Matches: 141, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
138 137 0.97
139 4 0.03
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (138 bp):
AAACTTCATTTATTAAAACATACTTATGAAAGAAATGATTGAAACATACTAGAAAATTTTAAAAT
TTGAGCAATTTATTTGCCTTACCCCCTTTAAAAAGAAGCAATGTTCTCATTGCAAGAAAAAAGTA
TTGAATGA
Found at i:30228929 original size:20 final size:20
Alignment explanation
Indices: 30228904--30228941 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
30228894 ACCCCCTTTA
30228904 TTAACATAAA-AATTTAAAAT
1 TTAACA-AAATAATTTAAAAT
30228924 TTAACAAAATAATTTAAA
1 TTAACAAAATAATTTAAA
30228942 CTAGAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
TTAACAAAATAATTTAAAAT
Found at i:30233481 original size:20 final size:20
Alignment explanation
Indices: 30233456--30233495 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
30233446 CAAGAAACGT
30233456 TAGGATGATTACGCCATGAA
1 TAGGATGATTACGCCATGAA
30233476 TAGGATGATTACGCCATGAA
1 TAGGATGATTACGCCATGAA
30233496 GGATTGTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (20 bp):
TAGGATGATTACGCCATGAA
Found at i:30235316 original size:19 final size:19
Alignment explanation
Indices: 30235288--30235336 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
30235278 TAAGAGCTAA
*
30235288 GAGAGTTGAGAGAGAGGAT
1 GAGAGATGAGAGAGAGGAT
* *
30235307 GAGAGATGAGAGGGATGAT
1 GAGAGATGAGAGAGAGGAT
30235326 G-GATGATGAGA
1 GAGA-GATGAGA
30235337 AATGAGCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 2 0.08
19 24 0.92
ACGTcount: A:0.37, C:0.00, G:0.47, T:0.16
Consensus pattern (19 bp):
GAGAGATGAGAGAGAGGAT
Found at i:30237162 original size:16 final size:16
Alignment explanation
Indices: 30237138--30237172 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
30237128 CAAGCCATAA
*
30237138 GGTTGAATAAAATGCT
1 GGTTAAATAAAATGCT
*
30237154 GGTTAAATAAAATGTT
1 GGTTAAATAAAATGCT
30237170 GGT
1 GGT
30237173 GTTGCGACGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (16 bp):
GGTTAAATAAAATGCT
Found at i:30239295 original size:37 final size:38
Alignment explanation
Indices: 30239239--30239325 Score: 99
Period size: 37 Copynumber: 2.3 Consensus size: 38
30239229 TTAAATTTAA
30239239 TATTAAGATAATCAATTTAATATTAAA-TTAATA-AAATAC
1 TATTAAGATAA-CAATTTAA-ATTAAATTTAATATAAA-AC
* *
30239278 TATTAAGATAA-ATTTTAAATTAAATTTAATATTAAAC
1 TATTAAGATAACAATTTAAATTAAATTTAATATAAAAC
*
30239315 TATTAAAATAA
1 TATTAAGATAA
30239326 TATTATTTCT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
36 6 0.14
37 24 0.56
38 2 0.05
39 11 0.26
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.40
Consensus pattern (38 bp):
TATTAAGATAACAATTTAAATTAAATTTAATATAAAAC
Found at i:30239302 original size:68 final size:69
Alignment explanation
Indices: 30239185--30239312 Score: 204
Period size: 68 Copynumber: 1.9 Consensus size: 69
30239175 ACTTAACCAC
* *
30239185 TTTAATATTAAATTAATATAATATTTATCAAGATAAATATCAAATTAAATTTAATATTAAGATAA
1 TTTAATATTAAATTAATAAAATATCTATCAAGATAAATATCAAATTAAATTTAATATTAAGATAA
30239250 TCAA
66 TCAA
* * *
30239254 TTTAATATTAAATTAATAAAATA-CTATTAAGATAAATTTTAAATTAAATTTAATATTAA
1 TTTAATATTAAATTAATAAAATATCTATCAAGATAAATATCAAATTAAATTTAATATTAA
30239313 ACTATTAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
68 32 0.59
69 22 0.41
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.42
Consensus pattern (69 bp):
TTTAATATTAAATTAATAAAATATCTATCAAGATAAATATCAAATTAAATTTAATATTAAGATAA
TCAA
Found at i:30248880 original size:20 final size:22
Alignment explanation
Indices: 30248853--30248908 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
30248843 CCTAATCAGT
*
30248853 ATACGACACATAAGTGCCT-GA
1 ATACGACACATAAGTGCCTAAA
*
30248874 A-ACGACACACAAAGTGCCTAAA
1 ATACGACACA-TAAGTGCCTAAA
30248896 ATACGACACATAA
1 ATACGACACATAA
30248909 AGTGTCTGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 8 0.28
21 9 0.31
22 4 0.14
23 8 0.28
ACGTcount: A:0.46, C:0.25, G:0.14, T:0.14
Consensus pattern (22 bp):
ATACGACACATAAGTGCCTAAA
Found at i:30248890 original size:21 final size:22
Alignment explanation
Indices: 30248853--30248917 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
30248843 CCTAATCAGT
*
30248853 ATACGACACA-TAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
*
30248874 A-ACGACACACAAAGTGCCTAAA
1 ATACGACACACAAAGTGCCT-GA
* *
30248896 ATACGACACATAAAGTGTCTGA
1 ATACGACACACAAAGTGCCTGA
30248918 TTGGCAAAGC
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
20 8 0.22
21 9 0.25
22 3 0.08
23 16 0.44
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.17
Consensus pattern (22 bp):
ATACGACACACAAAGTGCCTGA
Found at i:30249271 original size:26 final size:25
Alignment explanation
Indices: 30249240--30249289 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
30249230 TAGTTCAATA
30249240 ATTCAATTCAAAC-CATTTCAATTTCT
1 ATTCAA-T-AAACACATTTCAATTTCT
*
30249266 ATTCAATAATCACATTTCAATTTC
1 ATTCAATAAACACATTTCAATTTC
30249290 ACTTTCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 13 0.59
26 6 0.27
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTCAATAAACACATTTCAATTTCT
Found at i:30249563 original size:22 final size:22
Alignment explanation
Indices: 30249535--30249579 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
30249525 CTCGTGTCTA
30249535 CTCCTCGTCCACTTTTTCTTTT
1 CTCCTCGTCCACTTTTTCTTTT
30249557 CTCCTCGTCCACTTTTTCTTTT
1 CTCCTCGTCCACTTTTTCTTTT
30249579 C
1 C
30249580 CTTTCTTCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.04, C:0.38, G:0.04, T:0.53
Consensus pattern (22 bp):
CTCCTCGTCCACTTTTTCTTTT
Found at i:30265186 original size:16 final size:16
Alignment explanation
Indices: 30265161--30265197 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
30265151 ATCACGATCT
*
30265161 TTACTTTCTTCTTTAC
1 TTACTCTCTTCTTTAC
*
30265177 TTACTCTCTTGTTTAC
1 TTACTCTCTTCTTTAC
30265193 TTACT
1 TTACT
30265198 TGCTTACTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.24, G:0.03, T:0.59
Consensus pattern (16 bp):
TTACTCTCTTCTTTAC
Found at i:30267256 original size:11 final size:11
Alignment explanation
Indices: 30267233--30267261 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
30267223 TGAAGATGGT
30267233 TGTTTTG-GCA
1 TGTTTTGAGCA
30267243 TGTTTTGAGCA
1 TGTTTTGAGCA
30267254 TGTTTTGA
1 TGTTTTGA
30267262 ATAGGTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.14, C:0.07, G:0.28, T:0.52
Consensus pattern (11 bp):
TGTTTTGAGCA
Found at i:30267571 original size:21 final size:21
Alignment explanation
Indices: 30267535--30267577 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
30267525 GGTGTGTGAA
30267535 ATAGCACACAAGCATGT-AAG
1 ATAGCACACAAGCATGTCAAG
30267555 ATAGTCACAC-AGCCATGTCAAG
1 ATAG-CACACAAG-CATGTCAAG
30267577 A
1 A
30267578 ACCACACGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 6 0.30
21 10 0.50
22 4 0.20
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.16
Consensus pattern (21 bp):
ATAGCACACAAGCATGTCAAG
Found at i:30273865 original size:12 final size:12
Alignment explanation
Indices: 30273850--30273876 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
30273840 TATTCATCAA
30273850 TTAATTCCACTC
1 TTAATTCCACTC
30273862 TTAATTCCACTC
1 TTAATTCCACTC
30273874 TTA
1 TTA
30273877 CTATTTTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.30, G:0.00, T:0.44
Consensus pattern (12 bp):
TTAATTCCACTC
Done.