Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 263 of 373
Found at i:89340744 original size:40 final size:40
Alignment explanation
Indices: 89340692--89340783 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
89340682 CTCAATATTT
* *
89340692 CACACTTAGTGCTACATATAGCCAAAACTAT-TCCAATTCG
1 CACACTAAGTGCTACATATAGCCAAAACTATCTCCAA-ACG
* * * *
89340732 CACACTAAGTGCTATATATAGCCGAAGCTATCTCGAAACG
1 CACACTAAGTGCTACATATAGCCAAAACTATCTCCAAACG
89340772 CACACTAAGTGC
1 CACACTAAGTGC
89340784 CAACATAGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 41 0.91
41 4 0.09
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (40 bp):
CACACTAAGTGCTACATATAGCCAAAACTATCTCCAAACG
Found at i:89341253 original size:29 final size:29
Alignment explanation
Indices: 89341189--89341254 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
89341179 TTTTCATTTA
* *
89341189 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAATTTAACCCCTCAATATACACT
* * *
89341218 TTTCTCAATTTAATCCCT-AATATGCATT
1 TTTCTCAATTTAACCCCTCAATATACACT
89341246 TTTACTCAA
1 TTT-CTCAA
89341255 ATCACTCTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.30, C:0.26, G:0.02, T:0.42
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATATACACT
Found at i:89344397 original size:28 final size:28
Alignment explanation
Indices: 89344337--89344393 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 28
89344327 ACATAAGTAA
* *
89344337 GGTTCACACATACAGGGTTCAGATCTAG
1 GGTTCACACATACAGGGTTCAAACCTAG
* *
89344365 GGTTCACATATA-TGGGTTCAAACCTAG
1 GGTTCACACATACAGGGTTCAAACCTAG
89344392 GG
1 GG
89344394 GTTCGTACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (28 bp):
GGTTCACACATACAGGGTTCAAACCTAG
Found at i:89347801 original size:12 final size:12
Alignment explanation
Indices: 89347786--89347810 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89347776 TGGCTTTGTC
89347786 TACAGGTTTGCA
1 TACAGGTTTGCA
89347798 TACAGGTTTGCA
1 TACAGGTTTGCA
89347810 T
1 T
89347811 TCCTGGGGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (12 bp):
TACAGGTTTGCA
Found at i:89350286 original size:16 final size:16
Alignment explanation
Indices: 89350267--89350297 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
89350257 TGCCAGTCTA
*
89350267 CAAGCTCATTAGTTTG
1 CAAGCTCATCAGTTTG
89350283 CAAGCTCATCAGTTT
1 CAAGCTCATCAGTTT
89350298 AGCTCAACAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (16 bp):
CAAGCTCATCAGTTTG
Found at i:89353939 original size:18 final size:18
Alignment explanation
Indices: 89353916--89353960 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
89353906 ATGGCCCACT
89353916 TGGCCCATCTCATTCATA
1 TGGCCCATCTCATTCATA
89353934 TGGCCCATCTCATTCATA
1 TGGCCCATCTCATTCATA
89353952 TGGCCCATC
1 TGGCCCATC
89353961 AAGCCCAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.20, C:0.36, G:0.13, T:0.31
Consensus pattern (18 bp):
TGGCCCATCTCATTCATA
Found at i:89354010 original size:29 final size:29
Alignment explanation
Indices: 89353944--89354015 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
89353934 TGGCCCATCT
**
89353944 CATTCATATGGCCCATCAAGCCCAATTCA
1 CATTCATATGGCCCATCAAGCCCAATAAA
*
89353973 CATTCATATGGCCCATCAGGCCCAAATAAA
1 CATTCATATGGCCCATCAAGCCC-AATAAA
*
89354003 C-TTTATATGGCCC
1 CATTCATATGGCCC
89354016 GTTAGTCCCA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 33 0.87
30 5 0.13
ACGTcount: A:0.31, C:0.32, G:0.12, T:0.25
Consensus pattern (29 bp):
CATTCATATGGCCCATCAAGCCCAATAAA
Found at i:89354264 original size:16 final size:16
Alignment explanation
Indices: 89354243--89354285 Score: 70
Period size: 16 Copynumber: 2.7 Consensus size: 16
89354233 CCAAACTTTC
89354243 GGCTTTTCGACATTTT
1 GGCTTTTCGACATTTT
89354259 GGCTTTTCTG-CATTTT
1 GGCTTTTC-GACATTTT
89354275 GGCTTTTCGAC
1 GGCTTTTCGAC
89354286 TTTGCCGATC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 1 0.04
16 23 0.92
17 1 0.04
ACGTcount: A:0.09, C:0.21, G:0.21, T:0.49
Consensus pattern (16 bp):
GGCTTTTCGACATTTT
Found at i:89358282 original size:16 final size:16
Alignment explanation
Indices: 89358261--89358294 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
89358251 AATATATTAG
89358261 TAAAGTTTTATGTGGT
1 TAAAGTTTTATGTGGT
89358277 TAAAGTTTTATGTGGT
1 TAAAGTTTTATGTGGT
89358293 TA
1 TA
89358295 TCATATACTA
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:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (16 bp):
TAAAGTTTTATGTGGT
Found at i:89358393 original size:20 final size:19
Alignment explanation
Indices: 89358368--89358411 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
89358358 ATGGCCATCA
89358368 GGCCCAATTCACATTCATAT
1 GGCCCAA-TCACATTCATAT
*
89358388 GGCCC-ATCTCATTCATAT
1 GGCCCAATCACATTCATAT
89358406 GGCCCA
1 GGCCCA
89358412 TCAGGCCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 16 0.73
19 1 0.05
20 5 0.23
ACGTcount: A:0.25, C:0.34, G:0.14, T:0.27
Consensus pattern (19 bp):
GGCCCAATCACATTCATAT
Found at i:89358402 original size:18 final size:18
Alignment explanation
Indices: 89358379--89358413 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
89358369 GCCCAATTCA
89358379 CATTCATATGGCCCATCT
1 CATTCATATGGCCCATCT
89358397 CATTCATATGGCCCATC
1 CATTCATATGGCCCATC
89358414 AGGCCCAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.34, G:0.11, T:0.31
Consensus pattern (18 bp):
CATTCATATGGCCCATCT
Found at i:89358408 original size:46 final size:47
Alignment explanation
Indices: 89358341--89358438 Score: 171
Period size: 47 Copynumber: 2.1 Consensus size: 47
89358331 ATGACCCGCT
*
89358341 TGGCCCATCTTATTCATATGG-CCATCAGGCCCAATTCACATTCATA
1 TGGCCCATCTCATTCATATGGCCCATCAGGCCCAATTCACATTCATA
*
89358387 TGGCCCATCTCATTCATATGGCCCATCAGGCCCAATTCATATTCATA
1 TGGCCCATCTCATTCATATGGCCCATCAGGCCCAATTCACATTCATA
89358434 TGGCC
1 TGGCC
89358439 TATTAGGCCC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 20 0.41
47 29 0.59
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.30
Consensus pattern (47 bp):
TGGCCCATCTCATTCATATGGCCCATCAGGCCCAATTCACATTCATA
Found at i:89358419 original size:27 final size:27
Alignment explanation
Indices: 89358388--89358449 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 27
89358378 ACATTCATAT
89358388 GGCCCATCTC-ATTCATATGGCCCATCA
1 GGCCCAT-TCAATTCATATGGCCCATCA
* *
89358415 GGCCCAATTCATATTCATATGGCCTATTA
1 GGCCC-ATTCA-ATTCATATGGCCCATCA
89358444 GGCCCA
1 GGCCCA
89358450 AATCACCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
27 7 0.23
28 3 0.10
29 20 0.67
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.27
Consensus pattern (27 bp):
GGCCCATTCAATTCATATGGCCCATCA
Found at i:89358463 original size:29 final size:29
Alignment explanation
Indices: 89358399--89358487 Score: 106
Period size: 29 Copynumber: 3.1 Consensus size: 29
89358389 GCCCATCTCA
* * * **
89358399 TTCATATGGCCCATCAGGCCCAATTCATA
1 TTCATATGGCCTATTAGGCCCAAATCACC
89358428 TTCATATGGCCTATTAGGCCCAAATCACC
1 TTCATATGGCCTATTAGGCCCAAATCACC
* * *
89358457 TTTATATGGCCTGTTAAGCCCAAATCACC
1 TTCATATGGCCTATTAGGCCCAAATCACC
89358486 TT
1 TT
89358488 ATCACACAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.30
Consensus pattern (29 bp):
TTCATATGGCCTATTAGGCCCAAATCACC
Found at i:89358721 original size:8 final size:8
Alignment explanation
Indices: 89358689--89358724 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
89358679 CACAGTTAAA
89358689 CTTTT-GG
1 CTTTTCGG
89358696 CTTTTCGG
1 CTTTTCGG
*
89358704 CCTTTCGG
1 CTTTTCGG
89358712 CTTTTCGG
1 CTTTTCGG
89358720 CTTTT
1 CTTTT
89358725 GCCGATCTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 5 0.19
8 21 0.81
ACGTcount: A:0.00, C:0.25, G:0.22, T:0.53
Consensus pattern (8 bp):
CTTTTCGG
Found at i:89362207 original size:21 final size:21
Alignment explanation
Indices: 89362183--89362265 Score: 53
Period size: 21 Copynumber: 3.8 Consensus size: 21
89362173 CTAGGAATTA
89362183 TTGTGATCTGAACTCATTGAG
1 TTGTGATCTGAACTCATTGAG
* ** *
89362204 TTGTG-GCTTGAGTTCA-TGATAT
1 TTGTGATC-TGAACTCATTG--AG
89362226 TTGTGACATCTGAACTCATTGAG
1 TTGTG--ATCTGAACTCATTGAG
* *
89362249 TTGTGGTCTGAATTCAT
1 TTGTGATCTGAACTCAT
89362266 GATGCATGGG
Statistics
Matches: 45, Mismatches: 10, Indels: 14
0.65 0.14 0.20
Matches are distributed among these distances:
20 3 0.07
21 21 0.47
22 6 0.13
23 6 0.13
24 6 0.13
25 3 0.07
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.41
Consensus pattern (21 bp):
TTGTGATCTGAACTCATTGAG
Found at i:89362279 original size:45 final size:45
Alignment explanation
Indices: 89362188--89362279 Score: 123
Period size: 45 Copynumber: 2.0 Consensus size: 45
89362178 AATTATTGTG
* ** *
89362188 ATCTGAACTCATTGAGTTGTGGCTTGAGTTCATGATATTTGTGAC
1 ATCTGAACTCATTGAGTTGTGGCTTGAATTCATGATACATGGGAC
*
89362233 ATCTGAACTCATTGAGTTGTGG-TCTGAATTCATGATGCATGGGAC
1 ATCTGAACTCATTGAGTTGTGGCT-TGAATTCATGATACATGGGAC
89362278 AT
1 AT
89362280 ATGTTTTGGC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
44 1 0.02
45 40 0.98
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.37
Consensus pattern (45 bp):
ATCTGAACTCATTGAGTTGTGGCTTGAATTCATGATACATGGGAC
Found at i:89368229 original size:28 final size:28
Alignment explanation
Indices: 89368197--89368252 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
89368187 TATATGGGCG
89368197 TAAGTGTCGAATGCCATTGTATTAGACC
1 TAAGTGTCGAATGCCATTGTATTAGACC
89368225 TAAGTGTCGAATGCCATTGTATTAGACC
1 TAAGTGTCGAATGCCATTGTATTAGACC
89368253 GAGCTCAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (28 bp):
TAAGTGTCGAATGCCATTGTATTAGACC
Found at i:89371799 original size:46 final size:45
Alignment explanation
Indices: 89371726--89371854 Score: 172
Period size: 46 Copynumber: 2.8 Consensus size: 45
89371716 AGGTTATTTG
*
89371726 TGTGCCAGCGTAAGACATGTCTAGGACATACATCGGCCT-CGAGA
1 TGTGCCAGCGTAAGACATGTCTAGGACATGCATCGGCCTACGAGA
*
89371770 TGTAAGCCAGCGTAAGACATGTCTGGGACATGCATCGG-CTACGAGA
1 TGT--GCCAGCGTAAGACATGTCTAGGACATGCATCGGCCTACGAGA
* *
89371816 TGTGTCAGTGTAAGACCATGTCTAGGACATCGCATCGGC
1 TGTGCCAGCGTAAGA-CATGTCTAGGACAT-GCATCGGC
89371855 ACGGATATGT
Statistics
Matches: 74, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
44 13 0.18
45 15 0.20
46 46 0.62
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (45 bp):
TGTGCCAGCGTAAGACATGTCTAGGACATGCATCGGCCTACGAGA
Found at i:89376030 original size:17 final size:19
Alignment explanation
Indices: 89375993--89376030 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
89375983 AAACCCTAAA
*
89375993 TTTTCTCCTTTCTTTTTCT
1 TTTTCTCCTTTCTTCTTCT
89376012 TTTTC-CCTTT-TTCTTCT
1 TTTTCTCCTTTCTTCTTCT
89376029 TT
1 TT
89376031 CTTTCCCCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 8 0.44
18 5 0.28
19 5 0.28
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTCTCCTTTCTTCTTCT
Found at i:89376039 original size:20 final size:20
Alignment explanation
Indices: 89376001--89376044 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
89375991 AATTTTCTCC
* *
89376001 TTTCTTTTTCTTTTTCCCTT
1 TTTCTTTTTCTTTTCCCCTG
89376021 TTTCTTCTTTC-TTTCCCCTG
1 TTTCTT-TTTCTTTTCCCCTG
89376041 TTTC
1 TTTC
89376045 GTTCCCCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.00, C:0.30, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTCTTTTTCTTTTCCCCTG
Found at i:89389288 original size:7 final size:6
Alignment explanation
Indices: 89389272--89389306 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
89389262 ACTTTAGTTG
* *
89389272 TTTTTC TTTTTC TTTTTC TTTTTC CTTTTA TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
89389307 ATTTCTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:89401642 original size:15 final size:15
Alignment explanation
Indices: 89401624--89401667 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
89401614 GAAGCCCAGA
89401624 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
89401639 ATAAACAAATCCATG
1 ATAAAGAAATCCAAG
*
89401654 ATAAGGAAATCCAA
1 ATAAAGAAATCCAA
89401668 TTTACAATAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.57, C:0.16, G:0.11, T:0.16
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:89413963 original size:20 final size:20
Alignment explanation
Indices: 89413940--89413983 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
89413930 GTTTTGATTC
89413940 TTTAAATAAAATTTTAAGGT
1 TTTAAATAAAATTTTAAGGT
*
89413960 TTTAAATAAAGTTTTAAGGT
1 TTTAAATAAAATTTTAAGGT
89413980 TTTA
1 TTTA
89413984 TTTTTTGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (20 bp):
TTTAAATAAAATTTTAAGGT
Found at i:89414193 original size:2 final size:2
Alignment explanation
Indices: 89414186--89414212 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
89414176 GTTTTAAGGT
89414186 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
89414213 TGTTTTGGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:89417316 original size:15 final size:15
Alignment explanation
Indices: 89417298--89417349 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
89417288 ATGTAAGGAC
*
89417298 AATATATATATAATT
1 AATAAATATATAATT
*
89417313 AATAAATATATAATAC
1 AATAAATATATAAT-T
*
89417329 AAGTAAAATATATAAAT
1 AA-T-AAATATATAATT
89417346 AATA
1 AATA
89417350 TATAAAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
15 14 0.47
16 3 0.10
17 3 0.10
18 10 0.33
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (15 bp):
AATAAATATATAATT
Found at i:89417411 original size:20 final size:19
Alignment explanation
Indices: 89417388--89417429 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
89417378 ATTTGTGAAA
89417388 AATAATATACGATAAATAAT
1 AATAATATACGATAAA-AAT
* *
89417408 AATAATGTATGATAAAAAT
1 AATAATATACGATAAAAAT
89417427 AAT
1 AAT
89417430 CTTATAGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (19 bp):
AATAATATACGATAAAAAT
Found at i:89419513 original size:210 final size:210
Alignment explanation
Indices: 89419054--89419613 Score: 686
Period size: 210 Copynumber: 2.7 Consensus size: 210
89419044 AAAACTGCTT
* ** * * * *
89419054 CTTCGATTTATTCTCTGACAATACAGAGGTGCCAAATTATCTTAGATTTGTTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * * * ** * * * **
89419119 GTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTG--TAA-GCATAAG-GAT--GACAAAT
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCACGCCGAATACA-AAGAGATAAGATATGT
* *
89419178 CATCTTGGATCTTGCTTCAGTCTAATCGTCTGAAGATCAGATCTGCCATGTATCTGTTCCCCATT
130 CATCTTGGATC-TGCTTCAGTCTAAACATCTGAAGATCAGATCTGCCATGTATCTGTT-CCCATT
* * * *
89419243 GAATGTGGAGATGCCAGA
193 CAAAGTGGAAATGCCACA
89419261 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
* *
89419326 GTGAATGCCAAATCAGCTATATCTTCGATCTGCTCCCCGCCGAATACAAAGAGATAAGATATGTC
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCACGCCGAATACAAAGAGATAAGATATGTC
* * * * * *
89419391 ATCTTGGATCTGCTTTAGTGTAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCCTT-CCA-TC
131 ATCTTGGATCTGCTTCAGTCTAAACATCTGAAGATCAGATCTGCCATGTATCTG--TTCCCATTC
89419454 AAAGTGGAAATGCCACA
194 AAAGTGGAAATGCCACA
89419471 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * * *
89419536 GTGAAAGCCAAATCAACTATATCTTCGATCTGCTCCACACCGAATACAGAGAGATAAGATCTGTC
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCACGCCGAATACAAAGAGATAAGATATGTC
*
89419601 ATCTTGAATCTGC
131 ATCTTGGATCTGC
89419614 CATGATAATG
Statistics
Matches: 307, Mismatches: 38, Indels: 13
0.86 0.11 0.04
Matches are distributed among these distances:
207 90 0.29
209 5 0.02
210 156 0.51
211 39 0.13
212 15 0.05
213 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (210 bp):
CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCACGCCGAATACAAAGAGATAAGATATGTC
ATCTTGGATCTGCTTCAGTCTAAACATCTGAAGATCAGATCTGCCATGTATCTGTTCCCATTCAA
AGTGGAAATGCCACA
Found at i:89427745 original size:14 final size:14
Alignment explanation
Indices: 89427722--89427751 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
89427712 ATTCTGGTTC
89427722 AATTTCATTTAGAA
1 AATTTCATTTAGAA
*
89427736 AATTTTATTTAGAA
1 AATTTCATTTAGAA
89427750 AA
1 AA
89427752 AGAATATCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (14 bp):
AATTTCATTTAGAA
Found at i:89431869 original size:22 final size:20
Alignment explanation
Indices: 89431835--89431877 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
89431825 TAATACAAGT
*
89431835 AAAATATGTTAATAATATATA
1 AAAATATGATAATAATA-ATA
89431856 AAAATAATGATAATAATAATA
1 AAAAT-ATGATAATAATAATA
89431877 A
1 A
89431878 TAATTTGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
AAAATATGATAATAATAATA
Found at i:89435404 original size:29 final size:29
Alignment explanation
Indices: 89435362--89435424 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
89435352 AAACTGTGAA
*
89435362 AACAAATTGCAATCTTTTATTCCAATAGC
1 AACAGATTGCAATCTTTTATTCCAATAGC
89435391 AACAGATTGCAATCTTTTATTCCAATAGC
1 AACAGATTGCAATCTTTTATTCCAATAGC
89435420 AACAG
1 AACAG
89435425 TAGCACATCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.32
Consensus pattern (29 bp):
AACAGATTGCAATCTTTTATTCCAATAGC
Found at i:89436543 original size:21 final size:21
Alignment explanation
Indices: 89436517--89436564 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
89436507 TGATAGATTT
89436517 TGATTTGTTAAGTTTTAATTC
1 TGATTTGTTAAGTTTTAATTC
*
89436538 TGATTTGTTAAGTTTTATTTC
1 TGATTTGTTAAGTTTTAATTC
*
89436559 AGATTT
1 TGATTT
89436565 ATTTTACAAA
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:0.23, C:0.04, G:0.15, T:0.58
Consensus pattern (21 bp):
TGATTTGTTAAGTTTTAATTC
Found at i:89447911 original size:22 final size:22
Alignment explanation
Indices: 89447862--89447911 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
89447852 ATTTCAGTGA
*
89447862 AAAAATATAATTTAAATTAGAC
1 AAAAATATAATTTAAATCAGAC
*
89447884 AAAAATATAATTTAAATCATAC
1 AAAAATATAATTTAAATCAGAC
*
89447906 ATAAAT
1 AAAAAT
89447912 GACTAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (22 bp):
AAAAATATAATTTAAATCAGAC
Found at i:89448279 original size:56 final size:54
Alignment explanation
Indices: 89448212--89448361 Score: 205
Period size: 53 Copynumber: 2.7 Consensus size: 54
89448202 AATAGTTACA
89448212 TAGGAATCAAATTGCTAAAATATAATATCCCATAATAATATCTTATAATATCCCAT
1 TAGGAATCAAATTGCTAAAA-ATAATATCCCATAATAATATC-TATAATATCCCAT
* * * *
89448268 TAGGAATCAAATTGCTAAGAAATAATATCTCAAAAT-AT-TCTGTAATATCTCAT
1 TAGGAATCAAATTGCTAA-AAATAATATCCCATAATAATATCTATAATATCCCAT
*
89448321 TAAGAATCAAATTGCTAAAAGATAATATCCCATAATAATAT
1 TAGGAATCAAATTGCTAAAA-ATAATATCCCATAATAATAT
89448362 ATTAACACCC
Statistics
Matches: 83, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
52 2 0.02
53 41 0.49
54 4 0.05
55 3 0.04
56 31 0.37
57 2 0.02
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.33
Consensus pattern (54 bp):
TAGGAATCAAATTGCTAAAAATAATATCCCATAATAATATCTATAATATCCCAT
Found at i:89451443 original size:39 final size:40
Alignment explanation
Indices: 89451344--89451518 Score: 162
Period size: 39 Copynumber: 4.5 Consensus size: 40
89451334 ACTTGAAACC
** * *
89451344 AATTACCAGCACA-AGCCTGCGGGAATTTAAACCCGG-TAT
1 AATT-CCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
* * * *
89451383 AATACCAGCTCAAAGCCTGCGGGA-CTTTAGCCCGGACAT
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
* * * * *
89451422 ATTTCCAGCACGTAGCTTGC-GGACCTTAAGTCCGGATAT
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
* * *
89451461 AATTCCAGCACATAGCCTGC-GGACCCTAAGTCCGGATAT
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
89451500 AATTCCAGCACATAGCCTG
1 AATTCCAGCACATAGCCTG
89451519 TGGACCCTAA
Statistics
Matches: 114, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
38 18 0.16
39 96 0.84
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (40 bp):
AATTCCAGCACATAGCCTGCGGGACCTTAAGCCCGGACAT
Found at i:89451469 original size:78 final size:78
Alignment explanation
Indices: 89451376--89451539 Score: 188
Period size: 78 Copynumber: 2.1 Consensus size: 78
89451366 GAATTTAAAC
* * * * * *
89451376 CCGG-TATAATACCAGCTCAAAGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGTAGCT
1 CCGGATATAATACCAGCACAAAGCCTGC-GGACCCTAAGCCCGGACATAATTCCAGCACATAGCC
*
89451439 TGCGGACCTTAAGT
65 TGCGGACCCTAAGT
* * * *
89451453 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACATAGCCT
1 CCGGATATAATACCAGCACAAAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCT
*
89451518 GTGGACCCTAAGT
66 GCGGACCCTAAGT
*
89451531 TCGGATATA
1 CCGGATATA
89451540 CATCACTGAA
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
77 7 0.10
78 65 0.90
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (78 bp):
CCGGATATAATACCAGCACAAAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCT
GCGGACCCTAAGT
Found at i:89451524 original size:39 final size:39
Alignment explanation
Indices: 89451414--89451539 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
89451404 GGACTTTAGC
* * * * *
89451414 CCGGACATATTTCCAGCACGTAGCTTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
89451453 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
89451492 CCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
89451531 TCGGATATA
1 CCGGATATA
89451540 CATCACTGAA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:89455393 original size:23 final size:23
Alignment explanation
Indices: 89455367--89455439 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
89455357 TTTTATCATG
89455367 AAGGCATCACAAATTTCACCATA
1 AAGGCATCACAAATTTCACCATA
* * *
89455390 AAGGTATCACAAAATAT-GCCATA
1 AAGGCATCAC-AAATTTCACCATA
* * * *
89455413 AATGCATCACAAAATACACCACA
1 AAGGCATCACAAATTTCACCATA
89455436 AAGG
1 AAGG
89455440 TTTTACAAAA
Statistics
Matches: 37, Mismatches: 11, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
22 3 0.08
23 29 0.78
24 5 0.14
ACGTcount: A:0.48, C:0.23, G:0.11, T:0.18
Consensus pattern (23 bp):
AAGGCATCACAAATTTCACCATA
Found at i:89455439 original size:46 final size:46
Alignment explanation
Indices: 89455370--89455460 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
89455360 TATCATGAAG
* * * *
89455370 GCATCACAAATTTCACCATAAAGGTATCACAAAATATGCCATAAAT
1 GCATCACAAAATACACCACAAAGGTATCACAAAATACGCCATAAAT
* *
89455416 GCATCACAAAATACACCACAAAGGTTTTACAAAATACGCCATAAA
1 GCATCACAAAATACACCACAAAGGTATCACAAAATACGCCATAAA
89455461 GGCTTTGTAG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.47, C:0.23, G:0.09, T:0.21
Consensus pattern (46 bp):
GCATCACAAAATACACCACAAAGGTATCACAAAATACGCCATAAAT
Found at i:89457638 original size:94 final size:91
Alignment explanation
Indices: 89457346--89457658 Score: 244
Period size: 94 Copynumber: 3.3 Consensus size: 91
89457336 GTAAAGTACC
* * * *
89457346 GATGCCATGTCCTAGACATGGTCTTACACTGGATATCATCTTCGA-GGCTGATGCCATGTCCCAG
1 GATG-CATGTCCCAGACAT-GTCTTACACT-GA-AACATC-TC-ATAGCCGATGCCATGTCCCAG
* *
89457410 ATATGGTCTTACACTAGCTCTCACATAACCGT-GTT
60 ACATGGTCTTACACTGGCTCT--CATAA--GTGGTT
* *
89457445 GATGCCATGTCCCAAACATGGTCTTACACTGAAACATCTCGTAGCCGATG-CATGTCCCAGACAT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGAAACATCTCATAGCCGATGCCATGTCCCAGACAT
* **
89457509 -GTCTTATACTGGCTTACGTCCCAA--GGTT
64 GGTCTTACACTGGC-T-C-TCATAAGTGGTT
* * ** *
89457537 GACGCATGTCCCAGACATGTCTTACAGTAGCACTCGTCTCA-ATGCCGATGCCATGTCCCAGACA
1 GATGCATGTCCCAGACATGTCTTACACT-G-AAACATCTCATA-GCCGATGCCATGTCCCAGACA
*
89457601 TGGTCTTACACTGGCTCTCATAATGTGGTC
63 TGGTCTTACACTGGCTCTCATAA-GTGGTT
*
89457631 GATGCATGTCCCAGACATGTTTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
89457659 CGCTCACACA
Statistics
Matches: 176, Mismatches: 25, Indels: 31
0.76 0.11 0.13
Matches are distributed among these distances:
90 9 0.05
91 19 0.11
92 20 0.11
93 15 0.09
94 51 0.29
95 17 0.10
96 9 0.05
97 6 0.03
98 2 0.01
99 28 0.16
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (91 bp):
GATGCATGTCCCAGACATGTCTTACACTGAAACATCTCATAGCCGATGCCATGTCCCAGACATGG
TCTTACACTGGCTCTCATAAGTGGTT
Found at i:89462204 original size:21 final size:21
Alignment explanation
Indices: 89462179--89462233 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
89462169 GTGGGGGTCT
89462179 ACACGCCCATGTGGAGGCCAC
1 ACACGCCCATGTGGAGGCCAC
* * **
89462200 ACACGCTCGTGTGGAGGGGAC
1 ACACGCCCATGTGGAGGCCAC
*
89462221 ATACGCCCATGTG
1 ACACGCCCATGTG
89462234 AGCAGCTCGT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.22, C:0.31, G:0.33, T:0.15
Consensus pattern (21 bp):
ACACGCCCATGTGGAGGCCAC
Found at i:89462917 original size:7 final size:6
Alignment explanation
Indices: 89462896--89462926 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
89462886 GACTTCTTTC
89462896 AAAATA AAAATA AAAATA AAAATA ATAAATA
1 AAAATA AAAATA AAAATA AAAATA A-AAATA
89462927 TTTAAACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.79
7 5 0.21
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:89466721 original size:40 final size:40
Alignment explanation
Indices: 89466607--89466751 Score: 157
Period size: 40 Copynumber: 3.6 Consensus size: 40
89466597 TACTCGAATG
*
89466607 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * ** * *
89466648 ACATTCGAACTAAGGT-CCGAAGGTATTTGTGCTAGCCACT
1 ATATCCGGGCTAA-GTCCCGAAGGCATTTGTGCTAGCGACT
* * *
89466688 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
89466728 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
89466752 CTTGTGCGAG
Statistics
Matches: 84, Mismatches: 18, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 56 0.67
41 24 0.29
42 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:89474606 original size:36 final size:35
Alignment explanation
Indices: 89474543--89474672 Score: 95
Period size: 36 Copynumber: 3.6 Consensus size: 35
89474533 ACTCGAATGA
*
89474543 TATCCGGCTAAGTCCCG-AGGCTTTGTGCTAG-GAC
1 TATCCGGCTAAGT-CCGAAGGATTTGTGCTAGCGAC
** *
89474577 TATCCGGACTAAGATCCGAAGGATTTGTGCGCGCTA-
1 TATCCGG-CTAAG-TCCGAAGGATTTGTGCTAGCGAC
* *
89474613 TATCCGGGCTAAGTCCGAAGGCATTTATGCTAGTGACC
1 TATCC-GGCTAAGTCCGAAGG-ATTTGTGCTAGCGA-C
* *
89474651 ATATCCGGTTAAGACCCGAAGG
1 -TATCCGGCTAAG-TCCGAAGG
89474673 CCTTGTGCGA
Statistics
Matches: 75, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
34 7 0.09
35 16 0.21
36 31 0.41
37 3 0.04
38 6 0.08
39 12 0.16
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (35 bp):
TATCCGGCTAAGTCCGAAGGATTTGTGCTAGCGAC
Found at i:89474670 original size:74 final size:70
Alignment explanation
Indices: 89474542--89474681 Score: 167
Period size: 74 Copynumber: 1.9 Consensus size: 70
89474532 TACTCGAATG
* * *
89474542 ATATCCGGCTAAGTCCCGAGGCTTTGTGCTAGGACTATCCGGACTAAGATCCGAAGGATTTGTGC
1 ATATCCGGCTAAGTCCCGAGGCTTTATGCTAGGACTATCCGGACTAAGACCCGAAGGACTTGTGC
89474607 GCGCT
66 GCGCT
* *
89474612 ATATCCGGGCTAAGT-CCGAAGGCATTTATGCTAGTGACCATATCCGG-TTAAGACCCGAAGGCC
1 ATATCC-GGCTAAGTCCCG-AGGC-TTTATGCTAG-GA-C-TATCCGGACTAAGACCCGAAGGAC
89474675 TTGTGCG
60 TTGTGCG
89474682 AGTGGTTATA
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
70 9 0.15
71 12 0.20
72 9 0.15
73 2 0.03
74 20 0.34
75 7 0.12
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (70 bp):
ATATCCGGCTAAGTCCCGAGGCTTTATGCTAGGACTATCCGGACTAAGACCCGAAGGACTTGTGC
GCGCT
Found at i:89492338 original size:40 final size:40
Alignment explanation
Indices: 89492283--89492460 Score: 250
Period size: 40 Copynumber: 4.5 Consensus size: 40
89492273 ATACTCTCTT
*
89492283 TTTGGTGTGTTTCGGTTGGATCAGCTCTTACGAGCTTCTG
1 TTTGGTGTGTTTCGGTTGGATCAACTCTTACGAGCTTCTG
* *
89492323 TTTGGCGTGTTTCGGTTGGATCAACTCTTAAGAGCTTCTG
1 TTTGGTGTGTTTCGGTTGGATCAACTCTTACGAGCTTCTG
* *
89492363 TTTGGTGTGTTTAGGTTGGATCAACTCTT-CTGAGCTTTTG
1 TTTGGTGTGTTTCGGTTGGATCAACTCTTAC-GAGCTTCTG
* * * * *
89492403 TTTGGCGTGTTTTGGTTGGATTAGCTCTTATGAGCTTCTG
1 TTTGGTGTGTTTCGGTTGGATCAACTCTTACGAGCTTCTG
89492443 TTTGGTGTGTTTCGGTTG
1 TTTGGTGTGTTTCGGTTG
89492461 ATCTGATGAT
Statistics
Matches: 121, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
40 121 1.00
ACGTcount: A:0.11, C:0.14, G:0.30, T:0.46
Consensus pattern (40 bp):
TTTGGTGTGTTTCGGTTGGATCAACTCTTACGAGCTTCTG
Found at i:89492420 original size:80 final size:80
Alignment explanation
Indices: 89492283--89492460 Score: 277
Period size: 80 Copynumber: 2.2 Consensus size: 80
89492273 ATACTCTCTT
*
89492283 TTTGGTGTGTTTCGGTTGGATCAGCTCTTACGAGCTTCTGTTTGGCGTGTTTCGGTTGGATCAAC
1 TTTGGTGTGTTTCGGTTGGATCAACTCTTACGAGCTTCTGTTTGGCGTGTTTCGGTTGGATCAAC
89492348 TCTTAAGAGCTTCTG
66 TCTTAAGAGCTTCTG
* * * * *
89492363 TTTGGTGTGTTTAGGTTGGATCAACTCTT-CTGAGCTTTTGTTTGGCGTGTTTTGGTTGGATTAG
1 TTTGGTGTGTTTCGGTTGGATCAACTCTTAC-GAGCTTCTGTTTGGCGTGTTTCGGTTGGATCAA
*
89492427 CTCTTATGAGCTTCTG
65 CTCTTAAGAGCTTCTG
89492443 TTTGGTGTGTTTCGGTTG
1 TTTGGTGTGTTTCGGTTG
89492461 ATCTGATGAT
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
79 1 0.01
80 88 0.99
ACGTcount: A:0.11, C:0.14, G:0.30, T:0.46
Consensus pattern (80 bp):
TTTGGTGTGTTTCGGTTGGATCAACTCTTACGAGCTTCTGTTTGGCGTGTTTCGGTTGGATCAAC
TCTTAAGAGCTTCTG
Found at i:89495733 original size:35 final size:35
Alignment explanation
Indices: 89495692--89495822 Score: 163
Period size: 35 Copynumber: 3.7 Consensus size: 35
89495682 AAAGATTCTA
* *
89495692 ATAAGAGCTAATCCATTCGAAACACACGAATGCTC
1 ATAAGAGCTAATCCATCCGAAACACACAAATGCTC
* *
89495727 ATAAGAGCTAATCCATCCGAAACACACCAGTGCTC
1 ATAAGAGCTAATCCATCCGAAACACACAAATGCTC
* * * *
89495762 ATAAGAGCTAATCCCTTCAAAACACACAAATACTC
1 ATAAGAGCTAATCCATCCGAAACACACAAATGCTC
* * *
89495797 ATAAAAGCTAGTCCAACCGAAACACA
1 ATAAGAGCTAATCCATCCGAAACACA
89495823 TTGAAACATA
Statistics
Matches: 81, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 81 1.00
ACGTcount: A:0.43, C:0.28, G:0.11, T:0.18
Consensus pattern (35 bp):
ATAAGAGCTAATCCATCCGAAACACACAAATGCTC
Found at i:89495772 original size:70 final size:70
Alignment explanation
Indices: 89495692--89495822 Score: 199
Period size: 70 Copynumber: 1.9 Consensus size: 70
89495682 AAAGATTCTA
* * * * *
89495692 ATAAGAGCTAATCCATTCGAAACACACGAATGCTCATAAGAGCTAATCCATCCGAAACACACCAG
1 ATAAGAGCTAATCCATTCAAAACACACAAATACTCATAAAAGCTAATCCAACCGAAACACACCAG
89495757 TGCTC
66 TGCTC
* *
89495762 ATAAGAGCTAATCCCTTCAAAACACACAAATACTCATAAAAGCTAGTCCAACCGAAACACA
1 ATAAGAGCTAATCCATTCAAAACACACAAATACTCATAAAAGCTAATCCAACCGAAACACA
89495823 TTGAAACATA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
70 54 1.00
ACGTcount: A:0.43, C:0.28, G:0.11, T:0.18
Consensus pattern (70 bp):
ATAAGAGCTAATCCATTCAAAACACACAAATACTCATAAAAGCTAATCCAACCGAAACACACCAG
TGCTC
Found at i:89500453 original size:80 final size:80
Alignment explanation
Indices: 89500320--89500497 Score: 288
Period size: 80 Copynumber: 2.2 Consensus size: 80
89500310 CGGATGATAA
*
89500320 CCGGGCTGAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
* *
89500385 TGCGAGTTA-CTATAT
66 AGCAAG-TAGCTATAT
89500400 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
89500465 AGCAAGTAGCTATAT
66 AGCAAGTAGCTATAT
* *
89500480 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
89500498 TACTTGGTTT
Statistics
Matches: 92, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
79 16 0.17
80 76 0.83
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
AGCAAGTAGCTATAT
Found at i:89500478 original size:40 final size:40
Alignment explanation
Indices: 89500316--89500464 Score: 280
Period size: 40 Copynumber: 3.7 Consensus size: 40
89500306 TATTCGGATG
*
89500316 ATAACCGGGCTGAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
89500356 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
89500396 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
89500436 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
89500465 AGCAAGTAGC
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 106 1.00
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:89501559 original size:37 final size:37
Alignment explanation
Indices: 89501517--89501645 Score: 240
Period size: 37 Copynumber: 3.5 Consensus size: 37
89501507 CACCTGTCCC
*
89501517 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
89501554 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
*
89501591 TGATCAGATAAGTGTAGCCACTTATCACTTTGTCTCT
1 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
89501628 TGATCAGATAAGTGTAGC
1 TGATCAGATAAGTGTAGC
89501646 TAAAGCTATC
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 90 1.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
Found at i:89501662 original size:46 final size:46
Alignment explanation
Indices: 89501609--89501877 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
89501599 TAAGTGTAGC
* **
89501609 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
89501655 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
89501701 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
89501753 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
89501799 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
89501851 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
89501878 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:89501728 original size:52 final size:52
Alignment explanation
Indices: 89501652--89501871 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
89501642 TAGCTAAAGC
* *
89501652 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
89501705 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
89501757 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
89501803 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
89501855 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
89501872 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:89501774 original size:98 final size:98
Alignment explanation
Indices: 89501609--89501877 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
89501599 TAAGTGTAGC
* * *
89501609 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
89501674 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
89501708 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
89501773 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
89501806 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
89501871 GATCAGA
66 GATCAGA
89501878 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:89517557 original size:39 final size:40
Alignment explanation
Indices: 89517512--89517679 Score: 97
Period size: 40 Copynumber: 4.2 Consensus size: 40
89517502 CGGGGTTTAG
* * *
89517512 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
89517551 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * ** **
89517591 CCGGATATAGTCGCTAGCACAAATACCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
89517631 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
89517672 CCGGATAT
1 CCGGATAT
89517680 CATTCGAGTA
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 18 0.17
40 60 0.56
41 26 0.24
42 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:89517582 original size:40 final size:40
Alignment explanation
Indices: 89517535--89517679 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
89517525 CTCGCACAAG
* * * * *
89517535 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
89517575 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
89517615 ACCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
89517656 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
89517680 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 26 0.29
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:89525579 original size:39 final size:40
Alignment explanation
Indices: 89525534--89525621 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 40
89525524 CGGGGTTTAG
* * *
89525534 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
89525573 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
89525613 CCGGATATA
1 CCGGATATA
89525622 TGTAGTCGCT
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
39 15 0.38
40 24 0.62
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:89525604 original size:40 final size:42
Alignment explanation
Indices: 89525557--89525665 Score: 132
Period size: 45 Copynumber: 2.6 Consensus size: 42
89525547 CTCGCACAAG
* * * *
89525557 GCCTTCGGGTCTTAACCCGGATATG-GTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATGAGTCACTTAGCACAAAA
*
89525597 GCCTTCGGGACTTAGCCCGGATATATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGG--ATATG-AGTCACTTAGCACAAAA
89525642 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
89525666 CATTCGAGTA
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
40 18 0.31
42 5 0.08
43 4 0.07
44 4 0.07
45 28 0.47
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.26
Consensus pattern (42 bp):
GCCTTCGGGACTTAGCCCGGATATGAGTCACTTAGCACAAAA
Found at i:89539618 original size:40 final size:40
Alignment explanation
Indices: 89539535--89539797 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
89539525 TTGAATGCTG
* * * * * *
89539535 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
89539575 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
89539615 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
89539655 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
89539695 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
89539735 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
89539774 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
89539798 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:89539817 original size:79 final size:80
Alignment explanation
Indices: 89539574--89539832 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
89539564 AAGTGAATAT
* * * * * *
89539574 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
89539638 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
89539654 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
89539719 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
89539734 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
89539798 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
89539813 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
89539833 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:89547562 original size:40 final size:40
Alignment explanation
Indices: 89547479--89547741 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
89547469 TTGAATGCTG
* * * * * *
89547479 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
89547519 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
89547559 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
89547599 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
89547639 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
89547679 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
89547718 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
89547742 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:89547761 original size:79 final size:80
Alignment explanation
Indices: 89547518--89547775 Score: 247
Period size: 80 Copynumber: 3.3 Consensus size: 80
89547508 AAGTGAATAT
* * * * * *
89547518 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
89547582 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
89547598 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
89547663 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
89547678 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
89547742 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
89547757 ATCC-GGTTAAATCCC-AAGG
1 ATCCGGGTTAAGTCCCGAAGG
89547776 TACGTGATTT
Statistics
Matches: 155, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
77 4 0.03
78 9 0.06
79 48 0.31
80 94 0.61
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:89558646 original size:18 final size:19
Alignment explanation
Indices: 89558609--89558648 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
89558599 TGTTTTACAA
89558609 TTTTAATTAATTACTTTTAT
1 TTTTAATT-ATTACTTTTAT
*
89558629 TTTTAATT-TTATTTTTAT
1 TTTTAATTATTACTTTTAT
89558647 TT
1 TT
89558649 AAAAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
20 8 0.42
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTAATTATTACTTTTAT
Found at i:89563013 original size:21 final size:21
Alignment explanation
Indices: 89562989--89563050 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
89562979 GGCAATGCAA
* *
89562989 CTCCGTCACACAGGCATGTAT
1 CTCCGTCACACAGCCATGTAC
* *
89563010 CTCCGCCACACTGCCATGTAC
1 CTCCGTCACACAGCCATGTAC
** *
89563031 CTCTTTCACACAGCTATGTA
1 CTCCGTCACACAGCCATGTA
89563051 GATCTCCACA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.23, C:0.37, G:0.15, T:0.26
Consensus pattern (21 bp):
CTCCGTCACACAGCCATGTAC
Found at i:89566145 original size:32 final size:32
Alignment explanation
Indices: 89565971--89566137 Score: 289
Period size: 32 Copynumber: 5.2 Consensus size: 32
89565961 TTTTAGAAAA
* *
89565971 CCATCTCAGAATCAATATCAGTTGGGGCTAGC
1 CCATTTCAGAATCAATATCAGTTGGGCCTAGC
*
89566003 CCATTTTAGAATCAATATCAGTTGGGCCTAGC
1 CCATTTCAGAATCAATATCAGTTGGGCCTAGC
89566035 CCATTTCAGAATCAATATCAGTTGGGCCTAGC
1 CCATTTCAGAATCAATATCAGTTGGGCCTAGC
* *
89566067 CCATTTTAGAATCAATATCAGTTAGGCCTAGC
1 CCATTTCAGAATCAATATCAGTTGGGCCTAGC
89566099 CCATTTCAGAATCAATATCAGTTGGGCCTAGC
1 CCATTTCAGAATCAATATCAGTTGGGCCTAGC
89566131 CCATTTC
1 CCATTTC
89566138 CATATCAAAC
Statistics
Matches: 127, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 127 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (32 bp):
CCATTTCAGAATCAATATCAGTTGGGCCTAGC
Found at i:89574983 original size:37 final size:37
Alignment explanation
Indices: 89574933--89575006 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
89574923 GTCAAGGAAG
89574933 TCCGTCACACTATCAATCGTTATTTTGGTATTTTATA
1 TCCGTCACACTATCAATCGTTATTTTGGTATTTTATA
89574970 TCCGTCACACTATCAATCGTTATTTTGGTATTTTATA
1 TCCGTCACACTATCAATCGTTATTTTGGTATTTTATA
89575007 AGTTTGAAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.11, T:0.46
Consensus pattern (37 bp):
TCCGTCACACTATCAATCGTTATTTTGGTATTTTATA
Found at i:89577771 original size:22 final size:20
Alignment explanation
Indices: 89577737--89577785 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
89577727 TGCAGGGCTC
*
89577737 ACACGCCCTTGTGGCCCAAGGG
1 ACACG-CCTTGTGACCC-AGGG
*
89577759 ACACGCCTGTGTGACCCTGGG
1 ACACGCCT-TGTGACCCAGGG
89577780 ACACGC
1 ACACGC
89577786 TCATGCTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.14
Consensus pattern (20 bp):
ACACGCCTTGTGACCCAGGG
Found at i:89583986 original size:3 final size:3
Alignment explanation
Indices: 89583970--89584026 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
89583960 TTTCTGACAA
* *
89583970 TTC TT- TTC -TC TTC TTC TT- TTC TCC TCTC TTC ATC TAT- TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T-TC TTC TTC T-TC TTC TTC
89584013 TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TT
89584027 TTCCTCTATA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
2 7 0.16
3 34 0.77
4 3 0.07
ACGTcount: A:0.04, C:0.32, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:89585281 original size:28 final size:28
Alignment explanation
Indices: 89585241--89585356 Score: 155
Period size: 28 Copynumber: 4.2 Consensus size: 28
89585231 GGAGGAAGCG
*
89585241 TTCTGGTGGCTCTGCCACAAATATCGGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
*
89585269 TTCTGGTGGCTCTGCCACAAATATCTAT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* *
89585297 TTCTGGTGGCCCTGCCACAATTATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * *
89585325 ATCTGGTGACTCTGTCAC-AATATCTG-
1 TTCTGGTGGCTCTGCCACAAATATCTGT
89585351 TTCTGG
1 TTCTGG
89585357 CAGCCATACT
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 5 0.06
27 7 0.09
28 65 0.84
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:89591199 original size:18 final size:18
Alignment explanation
Indices: 89591176--89591213 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
89591166 TGGCCGAATG
89591176 TACATATACATATTTTGA
1 TACATATACATATTTTGA
89591194 TACATATACATATTTTGA
1 TACATATACATATTTTGA
89591212 TA
1 TA
89591214 AACCATCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (18 bp):
TACATATACATATTTTGA
Found at i:89599313 original size:44 final size:44
Alignment explanation
Indices: 89599197--89599321 Score: 112
Period size: 44 Copynumber: 2.8 Consensus size: 44
89599187 AGGGTACAAT
* **
89599197 GCCGATGCCATGTTCTAAACATGGTCTTACACTGGCTCACATAAATAA
1 GCCGATGCCATGTTCCAAACA-GGTCTTACACT--AACACAT-AATAA
* *
89599245 GTCGATGCCATG-TCCTAGAA-AGGTCTTACACTAACACAT-GTCAA
1 GCCGATGCCATGTTCC-A-AACAGGTCTTACACTAACACATAAT-AA
*
89599289 GCCGATGCCATGTTCCAAACAGGTCTTATACTA
1 GCCGATGCCATGTTCCAAACAGGTCTTACACTA
89599322 GCTTGCATAT
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
43 3 0.05
44 26 0.40
45 8 0.12
47 13 0.20
48 13 0.20
49 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (44 bp):
GCCGATGCCATGTTCCAAACAGGTCTTACACTAACACATAATAA
Found at i:89599397 original size:46 final size:45
Alignment explanation
Indices: 89599337--89599460 Score: 144
Period size: 46 Copynumber: 2.7 Consensus size: 45
89599327 CATATCTCGA
*
89599337 GGCCGATGCATGTCCTAGACATGTCTTACACTGGCTCTCGTCTCAA-T
1 GGCCGATGCATGTCCTAGACATGTCTTACACTGGCTCTC--AT-AAGT
* * * *
89599384 -GCTGATGCATGTCCCAGACATATCTTACAATGGCTCTCATAATGT
1 GGCCGATGCATGTCCTAGACATGTCTTACACTGGCTCTCATAA-GT
*
89599429 GGCCGATGCATGTCCTAGATATGTCTTACACT
1 GGCCGATGCATGTCCTAGACATGTCTTACACT
89599461 AGCAGACATA
Statistics
Matches: 64, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
43 2 0.03
44 1 0.02
45 1 0.02
46 60 0.94
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.31
Consensus pattern (45 bp):
GGCCGATGCATGTCCTAGACATGTCTTACACTGGCTCTCATAAGT
Found at i:89600150 original size:20 final size:21
Alignment explanation
Indices: 89600125--89600164 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
89600115 ATAATTTCAA
*
89600125 TTATTTCACACA-TTTACAAC
1 TTATTTCACAAACTTTACAAC
*
89600145 TTATTTTACAAACTTTACAA
1 TTATTTCACAAACTTTACAA
89600165 AGTAGCCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (21 bp):
TTATTTCACAAACTTTACAAC
Found at i:89605084 original size:79 final size:81
Alignment explanation
Indices: 89604948--89605130 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
89604938 TCGAATGATG
* *
89604948 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
89605012 TGTGCAAGTTACTA-A
66 TGTGCAAGTTACTATA
* * * **
89605027 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
89605089 TTTGTGCGAGTTACTATA
64 TTTGTGCAAGTTACTATA
* * *
89605107 ACTGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
89605131 TGAACGAGTA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCAAGTTACTATA
Found at i:89605139 original size:40 final size:40
Alignment explanation
Indices: 89604948--89605132 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
89604938 TCGAATGATG
* * * *
89604948 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
89604988 TCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
89605028 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
89605067 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
89605108 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
89605133 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 34 0.27
40 82 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:89605154 original size:79 final size:79
Alignment explanation
Indices: 89605001--89605155 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
89604991 GGACTAAGAT
* **
89605001 CCGAAGGCATTTGTGCAAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCAAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
89605066 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * * *
89605080 CCGAAGGCATTTGTGCGAGTTACT-ATAACTGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCAAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
89605143 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
89605156 ATTCTGAAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.60
80 24 0.37
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCAAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:89608245 original size:68 final size:65
Alignment explanation
Indices: 89608180--89608388 Score: 194
Period size: 67 Copynumber: 3.2 Consensus size: 65
89608170 CATCATGTGT
* *
89608180 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC-AGAGA-TAT-ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATG
89608245 TAG
63 TAG
* * * * * * *
89608248 ACAAGAGAGCTA-TGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATG
1 ACAAGAGAGCTACAGAGATATATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATG
89608312 TAG
63 TAG
* * * *
89608315 ACAAGAGAGCTAC-GAGATAAAT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-
1 ACAAGAGAGCTACAGAGATATATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTA
89608376 G
65 G
89608377 TACAAGAGAGCT
1 -ACAAGAGAGCT
89608389 GAACTATATG
Statistics
Matches: 116, Mismatches: 19, Indels: 17
0.76 0.12 0.11
Matches are distributed among these distances:
62 1 0.01
63 20 0.17
64 25 0.22
65 3 0.03
66 23 0.20
67 32 0.28
68 12 0.10
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (65 bp):
ACAAGAGAGCTACAGAGATATATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
Found at i:89608283 original size:64 final size:64
Alignment explanation
Indices: 89608204--89608388 Score: 196
Period size: 67 Copynumber: 2.9 Consensus size: 64
89608194 AGACATTATG
* * * *
89608204 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTATGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
89608268 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
89608333 AA
63 AA
* * *
89608335 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGCT
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCT
89608389 GAACTATATG
Statistics
Matches: 99, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 20 0.20
64 25 0.25
66 21 0.21
67 32 0.32
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:89611779 original size:48 final size:48
Alignment explanation
Indices: 89611704--89611934 Score: 206
Period size: 48 Copynumber: 4.9 Consensus size: 48
89611694 ACTTTAGTAG
* * *
89611704 GATGCCAATGCCATATCCCAAATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * *
89611752 GATGCCAATGTCATGTCCCAGACATGGTCTTATATGTGATCATACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC--ACATATC
* * * * * *
89611802 GAAGCCGAT---A-G-CCCA-ACTATGGTCTTACACGATG-TCTCATATT
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATG-GGATCACATATC
* * * * *
89611845 AATGCCACTGCCATGTCCTAGACATGGTCTTACATGGGATCATATTTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* *
89611893 GATGCCTATGCCATGTCCCGGACATGGTCTTACATGGGATCA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA
89611935 TGCATATCCC
Statistics
Matches: 144, Mismatches: 28, Indels: 22
0.74 0.14 0.11
Matches are distributed among these distances:
43 10 0.07
44 2 0.01
45 17 0.12
46 4 0.03
47 3 0.02
48 92 0.64
49 2 0.01
50 14 0.10
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:89616921 original size:47 final size:47
Alignment explanation
Indices: 89616773--89617033 Score: 182
Period size: 47 Copynumber: 5.6 Consensus size: 47
89616763 TTGCCAATGC
* * * ** * * *
89616773 CATGTCCCAAACATGGTCTTACACTGGCTCTCATATACGCGTGCTGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTATC-TCTGTGAG-GCCGAAG
* * * * *
89616822 CATGTCCCAAACAT-GTCTTACACTAGCACAACTCT-T-A-GCCAAAG
1 CATGTCCCAGACATGGTCTTACACTGGC-TATCTCTGTGAGGCCGAAG
* *
89616866 CATGTCCCAGACA-CGTCTTACACTGGCTATCTCTGTCGAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTATCTCTGT-GAGGCCGAAG
* * * * *
89616913 CATGTCCCAGACATGGTCTTACACTGGTTATCAT-AGT-ATAGCTGACG
1 CATGTCCCAGACATGGTCTTACACTGGCTATC-TCTGTGA-GGCCGAAG
* *
89616960 CATGTCCCAGACATGGTCTTACACTGGC--TCTCATAATGTGGCCGAAG
1 CATGTCCCAGACATGGTCTTACACTGGCTATCTC-T-GTGAGGCCGAAG
89617007 CATGTCCCAGACAT-GTCTTACACTGGC
1 CATGTCCCAGACATGGTCTTACACTGGC
89617034 GCACAAATTG
Statistics
Matches: 170, Mismatches: 29, Indels: 29
0.75 0.13 0.13
Matches are distributed among these distances:
43 5 0.03
44 30 0.18
45 2 0.01
46 15 0.09
47 70 0.41
48 32 0.19
49 16 0.09
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGGCTATCTCTGTGAGGCCGAAG
Found at i:89617003 original size:94 final size:91
Alignment explanation
Indices: 89616773--89617033 Score: 269
Period size: 94 Copynumber: 2.8 Consensus size: 91
89616763 TTGCCAATGC
* * * * *
89616773 CATGTCCCAAACATGGTCTTACACTGGCTCTCATATACGCGTGCTGATGCATGTCCCAAACATGT
1 CATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGAG-GCCGATGCATGTCCCAGACATGT
* *
89616838 CTTACACTAGCACAACTCTTAGCCAAAG
64 CTTACACTGGCACAACTCATAGCCAAAG
* *
89616866 CATGTCCCAGACA-CGTCTTACACTGGCTATCTC-T-GTCGAGGCCGATGCATGTCCCAGACATG
1 CATGTCCCAGACATGGTCTTACACTGGC--TCTCATAAT-GAGGCCGATGCATGTCCCAGACAT-
* * ** *
89616928 GTCTTACACTGGTTATCATAGT-ATAGCTGACG
62 GTCTTACACTGG-CA-CA-ACTCATAGCCAAAG
* *
89616960 CATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGAAGCATGTCCCAGACATGTCT
1 CATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCAGACATGTCT
89617025 TACACTGGC
66 TACACTGGC
89617034 GCACAAATTG
Statistics
Matches: 139, Mismatches: 19, Indels: 21
0.78 0.11 0.12
Matches are distributed among these distances:
91 19 0.14
92 26 0.19
93 30 0.22
94 48 0.35
95 16 0.12
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (91 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCAGACATGTCT
TACACTGGCACAACTCATAGCCAAAG
Found at i:89625453 original size:31 final size:31
Alignment explanation
Indices: 89625415--89625563 Score: 235
Period size: 31 Copynumber: 4.8 Consensus size: 31
89625405 ACAAATGACA
* * *
89625415 AGTGAAAAGTGGTAGCTTCAGCTACGTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
89625446 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
89625477 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
89625508 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
** *
89625539 AGTGAGTAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTCCGGCTAC
89625564 AAGTGACAAG
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 110 1.00
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:89625658 original size:47 final size:46
Alignment explanation
Indices: 89625588--89625711 Score: 158
Period size: 47 Copynumber: 2.7 Consensus size: 46
89625578 AAGTGATTTC
* * *
89625588 CGTATAAGACCATATCTAGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
89625634 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
89625681 CGTGTAAGACCATAGCTGGGCTATGGCATCG
1 CGTATAAGACCATATCTGGGATATGGCATCG
89625712 ATATATGAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
46 27 0.40
47 40 0.60
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:89625745 original size:42 final size:43
Alignment explanation
Indices: 89625682--89625796 Score: 155
Period size: 42 Copynumber: 2.7 Consensus size: 43
89625672 TATGTGATTC
* *
89625682 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTAGGCTATGGCATCGATTATATGAAGAT
*
89625724 GTGTAAGACCATAGCTAGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTAGGCTATGGCATCGATTATATGAAGAT
* *
89625766 GTGTAAGACCATAG-TTGTACTATGGCATCGA
1 GTGTAAGACCATAGCTAG-GCTATGGCATCGA
89625797 GAAAATGAAG
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
41 3 0.05
42 61 0.94
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGCTAGGCTATGGCATCGATTATATGAAGAT
Found at i:89626004 original size:26 final size:26
Alignment explanation
Indices: 89625968--89626020 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
89625958 GAATGTACTG
*
89625968 TCCATATGTATTGATAATTCAAATGT
1 TCCATACGTATTGATAATTCAAATGT
89625994 TCCATACGTATTGATAATTCAAATGT
1 TCCATACGTATTGATAATTCAAATGT
89626020 T
1 T
89626021 TTAATGAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (26 bp):
TCCATACGTATTGATAATTCAAATGT
Found at i:89627341 original size:47 final size:45
Alignment explanation
Indices: 89627236--89627544 Score: 195
Period size: 47 Copynumber: 6.7 Consensus size: 45
89627226 TACGCGTGCT
* * *
89627236 GATGCATGTCCCAGACATGTCTTACACTAGCACAACTCT-TA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-TATCTCTGTAGGCC
* *
89627280 GAAGC-TGTCCCAGACACGTCTTACACTGGCTATCTCTGTCAAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGT--AGGCC
* * *
89627326 GATGCATGTCCCAGACATGTCTTACACAGGC-A-CTCATGTCTGTGTC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCTC-TGT-AG-GCC
* * *
89627372 GATGCCATGTCCCAGATATGGTCTTACACTGGCTATCAT-AGTATGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATC-TCTGTA-GGCC
* * * * * * **
89627420 GACGCATGTCCCAAACATGTCTTACACTAGCCCT-TGTTTGGATACC
1 GATGCATGTCCCAGACATGTCTTACACT-G-GCTATCTCTGTAGGCC
* *
89627466 GATGTCATGTCCCAGACATGGTCTTACACAT-GCTCTCATAATGT-GGCC
1 GATG-CATGTCCCAGACAT-GTCTTACAC-TGGCTATC-T-CTGTAGGCC
* *
89627514 AAAGCATGTCCCAGACATGTCTTACACTGGC
1 GATGCATGTCCCAGACATGTCTTACACTGGC
89627545 GTAAAAATCG
Statistics
Matches: 205, Mismatches: 37, Indels: 44
0.72 0.13 0.15
Matches are distributed among these distances:
42 5 0.02
43 24 0.12
44 4 0.02
45 6 0.03
46 45 0.22
47 80 0.39
48 32 0.16
49 7 0.03
50 1 0.00
51 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGTAGGCC
Found at i:89627441 original size:94 final size:93
Alignment explanation
Indices: 89627186--89627541 Score: 320
Period size: 94 Copynumber: 3.8 Consensus size: 93
89627176 ATATATTGCT
* * * *
89627186 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATA-TACGCGTGCTGATGCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTA--TG-GCCGATGCATGTCCCAG
** *
89627250 ACATGTCTTACACTAGCA-CAACTCT-TAGCC
63 ACATGTCTTACACTAGCACCATGTCTGT-GTC
* * * *
89627280 GAAG-C-TGTCCCAGACA-CGTCTTACACTGGCTATC-TCTGTCAAGGCCGATGCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGT-ATGGCCGATGCATGTCCCAGA
89627341 CATGTCTTACAC-AGGCACTCATGTCTGTGTC
64 CATGTCTTACACTA-GCAC-CATGTCTGTGTC
* * * *
89627372 GATGCCATGTCCCAGATATGGTCTTACACTGGCTATCATAGTATGGCTGACGCATGTCCCAAACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCAGACA
* *
89627437 TGTCTTACACTAGC-CCTTGTTTG-GATACC
66 TGTCTTACACTAGCACCATGTCTGTG-T--C
* * * * * *
89627466 GATGTCATGTCCCAGACATGGTCTTACACAT-GCTCTCATAATGTGGCCAAAGCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACAC-TGGCTATCATAGTATGGCCGATGCATGTCCCAGAC
89627530 ATGTCTTACACT
65 ATGTCTTACACT
89627542 GGCGTAAAAA
Statistics
Matches: 217, Mismatches: 29, Indels: 32
0.78 0.10 0.12
Matches are distributed among these distances:
89 1 0.00
90 33 0.15
91 18 0.08
92 28 0.13
93 5 0.02
94 110 0.51
95 21 0.10
96 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (93 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCAGACA
TGTCTTACACTAGCACCATGTCTGTGTC
Found at i:89627925 original size:30 final size:30
Alignment explanation
Indices: 89627891--89628001 Score: 206
Period size: 30 Copynumber: 3.7 Consensus size: 30
89627881 CATCTTTGGT
89627891 AAAATGACCATTTTGCCCC-AAGACTTTGAC
1 AAAATGACCATTTTGCCCCTAA-ACTTTGAC
89627921 AAAATGACCATTTTGCCCCTAAACTTTGAC
1 AAAATGACCATTTTGCCCCTAAACTTTGAC
89627951 AAAATGACCATTTTGCCCCTAAACTTTGAC
1 AAAATGACCATTTTGCCCCTAAACTTTGAC
89627981 AAAATGACCATTTTGCCCCTA
1 AAAATGACCATTTTGCCCCTA
89628002 TGCTCGAAAA
Statistics
Matches: 80, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
30 78 0.98
31 2 0.03
ACGTcount: A:0.33, C:0.27, G:0.11, T:0.29
Consensus pattern (30 bp):
AAAATGACCATTTTGCCCCTAAACTTTGAC
Found at i:89642789 original size:19 final size:18
Alignment explanation
Indices: 89642748--89642782 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
89642738 TTCTTGTCAA
* *
89642748 AAAATAATTAATTTTTAT
1 AAAATAATTAAATTGTAT
89642766 AAAATAATTAAATTGTA
1 AAAATAATTAAATTGTA
89642783 CTTAAATTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
AAAATAATTAAATTGTAT
Found at i:89642825 original size:12 final size:11
Alignment explanation
Indices: 89642801--89642841 Score: 59
Period size: 10 Copynumber: 3.8 Consensus size: 11
89642791 ATGAAAATTT
89642801 TTAA-TTTTAA
1 TTAATTTTTAA
89642811 TTAATTTTATAA
1 TTAATTTT-TAA
89642823 TTAATTTTT-A
1 TTAATTTTTAA
89642833 TTAATTTTT
1 TTAATTTTT
89642842 GTTATTTTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 14 0.48
11 4 0.14
12 11 0.38
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TTAATTTTTAA
Found at i:89643413 original size:19 final size:19
Alignment explanation
Indices: 89643385--89643428 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
89643375 CTCATTTACA
*
89643385 TCTCTTCTCTCACAATTCT
1 TCTCTCCTCTCACAATTCT
** *
89643404 TCTCTCCTCTTTCAATTTT
1 TCTCTCCTCTCACAATTCT
89643423 TCTCTC
1 TCTCTC
89643429 ATCTTTTGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.11, C:0.36, G:0.00, T:0.52
Consensus pattern (19 bp):
TCTCTCCTCTCACAATTCT
Found at i:89643433 original size:19 final size:19
Alignment explanation
Indices: 89643397--89643434 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
89643387 TCTTCTCTCA
*
89643397 CAATTCTTCTCTCCTCTTT
1 CAATTCTTCTCTCATCTTT
*
89643416 CAATTTTTCTCTCATCTTT
1 CAATTCTTCTCTCATCTTT
89643435 TGCATTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.13, C:0.32, G:0.00, T:0.55
Consensus pattern (19 bp):
CAATTCTTCTCTCATCTTT
Found at i:89647487 original size:13 final size:13
Alignment explanation
Indices: 89647469--89647497 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
89647459 GGTTGTTTAT
89647469 TAAACTAATTAAC
1 TAAACTAATTAAC
89647482 TAAACTAATTAAC
1 TAAACTAATTAAC
89647495 TAA
1 TAA
89647498 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:89655541 original size:19 final size:18
Alignment explanation
Indices: 89655500--89655534 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
89655490 TTCTTGTCAA
* *
89655500 AAAATAATTAATTTTTAT
1 AAAATAATTAAATTGTAT
89655518 AAAATAATTAAATTGTA
1 AAAATAATTAAATTGTA
89655535 CTTAAATTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
AAAATAATTAAATTGTAT
Found at i:89662759 original size:19 final size:19
Alignment explanation
Indices: 89662731--89662767 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
89662721 TTAAAGGTTA
* *
89662731 AAATGCTAAAATAGTTAAT
1 AAATGATAAAATAATTAAT
89662750 AAATGATAAAATAATTAA
1 AAATGATAAAATAATTAA
89662768 AACAAAGCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (19 bp):
AAATGATAAAATAATTAAT
Found at i:89663707 original size:24 final size:23
Alignment explanation
Indices: 89663648--89663753 Score: 79
Period size: 24 Copynumber: 4.3 Consensus size: 23
89663638 GCGGACTCAC
* *
89663648 CTCAACTCGTATGAGCTTACCGATAT
1 CTCAGCTCGTA-GAGCTTACTG-T-T
*
89663674 ATCAGCTCGTACGAGCTTACTGTT
1 CTCAGCTCGTA-GAGCTTACTGTT
*
89663698 CTCAGCTCGTTGGAGCTTACTGTT
1 CTCAGCTCG-TAGAGCTTACTGTT
* * *
89663722 -TTAGCTCAATAGAGCTTACTGTC
1 CTCAGCTC-GTAGAGCTTACTGTT
89663745 CATCAGCTC
1 C-TCAGCTC
89663754 AGGAGGAGCT
Statistics
Matches: 65, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
23 18 0.28
24 21 0.32
25 8 0.12
26 18 0.28
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (23 bp):
CTCAGCTCGTAGAGCTTACTGTT
Found at i:89663736 original size:23 final size:24
Alignment explanation
Indices: 89663686--89663754 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 24
89663676 CAGCTCGTAC
** *
89663686 GAGCTTACTGTTCTCAGCTCGTTG
1 GAGCTTACTGTTCTCAGCTCAATA
*
89663710 GAGCTTACTGTT-TTAGCTCAATA
1 GAGCTTACTGTTCTCAGCTCAATA
*
89663733 GAGCTTACTGTCCATCAGCTCA
1 GAGCTTACTGTTC-TCAGCTCA
89663755 GGAGGAGCTT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
23 18 0.49
24 12 0.32
25 7 0.19
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (24 bp):
GAGCTTACTGTTCTCAGCTCAATA
Found at i:89672716 original size:16 final size:16
Alignment explanation
Indices: 89672695--89672768 Score: 51
Period size: 16 Copynumber: 4.4 Consensus size: 16
89672685 ACAATCTGAC
89672695 GAAAAAACACAAAAAAG
1 GAAAAAA-ACAAAAAAG
*
89672712 GAAAAAAATAAAAAAG
1 GAAAAAAACAAAAAAG
*
89672728 AATCAACAAAACAAAAAAG
1 GA--AA-AAAACAAAAAAG
* * **
89672747 TAGAAAAAGGAAAAA-
1 GAAAAAAACAAAAAAG
89672762 GAAAAAA
1 GAAAAAA
89672769 GAAAAAGAGA
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
15 5 0.11
16 18 0.40
17 8 0.18
18 2 0.04
19 12 0.27
ACGTcount: A:0.77, C:0.07, G:0.12, T:0.04
Consensus pattern (16 bp):
GAAAAAAACAAAAAAG
Found at i:89675237 original size:23 final size:23
Alignment explanation
Indices: 89675211--89675257 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
89675201 TCTAGATAGA
89675211 ATAACTGATTAATCATATAATCC
1 ATAACTGATTAATCATATAATCC
*
89675234 ATAACTGATTACTCATATAATCC
1 ATAACTGATTAATCATATAATCC
89675257 A
1 A
89675258 ACCTAAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.19, G:0.04, T:0.34
Consensus pattern (23 bp):
ATAACTGATTAATCATATAATCC
Found at i:89677484 original size:21 final size:20
Alignment explanation
Indices: 89677458--89677496 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
89677448 ATGTAATAAT
89677458 ATATATTAAAACTATTAATAC
1 ATATATT-AAACTATTAATAC
*
89677479 ATATATTTAACTATTAAT
1 ATATATTAAACTATTAAT
89677497 TGGTCATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (20 bp):
ATATATTAAACTATTAATAC
Found at i:89685378 original size:7 final size:7
Alignment explanation
Indices: 89685368--89685401 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
89685358 ATCCAATATC
89685368 CACATTT
1 CACATTT
89685375 CACATTT
1 CACATTT
89685382 CACATTT
1 CACATTT
89685389 CACATTT
1 CACATTT
89685396 CACATT
1 CACATT
89685402 AATCACAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.41
Consensus pattern (7 bp):
CACATTT
Found at i:89689660 original size:51 final size:51
Alignment explanation
Indices: 89689589--89689756 Score: 228
Period size: 51 Copynumber: 3.2 Consensus size: 51
89689579 CTGATCACAT
89689589 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
89689640 TTATCACTTGTCACTGATCAGATACGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* * *
89689691 TTGTCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 -T-T-A----TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
89689749 TTGTCACT
1 TTATCACT
89689757 GATCAGAAGT
Statistics
Matches: 104, Mismatches: 6, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
51 55 0.53
52 1 0.01
53 1 0.01
54 1 0.01
56 1 0.01
57 1 0.01
58 44 0.42
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:89689692 original size:58 final size:58
Alignment explanation
Indices: 89689630--89689761 Score: 201
Period size: 58 Copynumber: 2.3 Consensus size: 58
89689620 CTAAAGCTAC
* * *
89689630 CACTTATCACTTATCACTTGTCACTGATCAGATACGTGTAGCTAAAGCTACCACTTAT
1 CACTTGTCACTTATCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
* * *
89689688 CACTTGTCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTAT
1 CACTTGTCACTTATCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
*
89689746 CACTTGTCACTGATCA
1 CACTTGTCACTTATCA
89689762 GAAGTACTCA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
58 66 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (58 bp):
CACTTGTCACTTATCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
Found at i:89697500 original size:15 final size:15
Alignment explanation
Indices: 89697480--89697511 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
89697470 TCACACACGG
*
89697480 GCGTGTCCCTGTCGA
1 GCGTGTCCCTGGCGA
89697495 GCGTGTCCCTGGCGA
1 GCGTGTCCCTGGCGA
89697510 GC
1 GC
89697512 CCAAGTTGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.34, G:0.38, T:0.22
Consensus pattern (15 bp):
GCGTGTCCCTGGCGA
Found at i:89709191 original size:16 final size:16
Alignment explanation
Indices: 89709170--89709208 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
89709160 TACTTTCTCC
89709170 TTCTTTCCTTCCCTTT
1 TTCTTTCCTTCCCTTT
* *
89709186 TTCTTTTCTTTCCTTT
1 TTCTTTCCTTCCCTTT
*
89709202 TTGTTTC
1 TTCTTTC
89709209 TTTCTTTTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.00, C:0.28, G:0.03, T:0.69
Consensus pattern (16 bp):
TTCTTTCCTTCCCTTT
Found at i:89721220 original size:19 final size:19
Alignment explanation
Indices: 89721185--89721222 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
89721175 AATCACAACA
*
89721185 TATCTCATTTTTCATTCAC
1 TATCTCATTTTACATTCAC
89721204 TATCTCA-TTTACAATTCAC
1 TATCTCATTTTAC-ATTCAC
89721223 ATACAATACC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.47
Consensus pattern (19 bp):
TATCTCATTTTACATTCAC
Found at i:89722395 original size:32 final size:32
Alignment explanation
Indices: 89722359--89722421 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
89722349 GTTTCTACAT
* *
89722359 ACTA-TACTATTAATATAATTATTATCATTATA
1 ACTATTACTATT-AGATAACTATTATCATTATA
*
89722391 ACTATTATTATTAGATAACTATTATCATTAT
1 ACTATTACTATTAGATAACTATTATCATTAT
89722422 TATATAACAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 21 0.78
33 6 0.22
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.48
Consensus pattern (32 bp):
ACTATTACTATTAGATAACTATTATCATTATA
Found at i:89722410 original size:17 final size:17
Alignment explanation
Indices: 89722373--89722420 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
89722363 TACTATTAAT
*
89722373 ATAATTATTATCATT--
1 ATAACTATTATCATTAG
*
89722388 ATAACTATTATTATTAG
1 ATAACTATTATCATTAG
89722405 ATAACTATTATCATTA
1 ATAACTATTATCATTA
89722421 TTATATAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 13 0.46
17 15 0.54
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (17 bp):
ATAACTATTATCATTAG
Found at i:89722961 original size:24 final size:23
Alignment explanation
Indices: 89722925--89722974 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
89722915 ATTTTTTTTG
89722925 AAACTAAAAAAATAGAACAATAAA
1 AAACTAAAAAAAT-GAACAATAAA
* * *
89722949 AAACTTAATAAATTAACAATAAA
1 AAACTAAAAAAATGAACAATAAA
89722972 AAA
1 AAA
89722975 ATTTTAAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.72, C:0.08, G:0.02, T:0.18
Consensus pattern (23 bp):
AAACTAAAAAAATGAACAATAAA
Found at i:89739588 original size:32 final size:32
Alignment explanation
Indices: 89739547--89739637 Score: 114
Period size: 30 Copynumber: 2.9 Consensus size: 32
89739537 TTTTTCATTC
*
89739547 AAGTTGGTATTTGTTATCATTTCACATAATTA
1 AAGTTGGTATTTGTTATCATTTCACAAAATTA
* *
89739579 AAGTTGGTATTTG--CTCATTTTACAAAATTA
1 AAGTTGGTATTTGTTATCATTTCACAAAATTA
* * *
89739609 AAGTTGATATCTGTTATAATTTCACAAAA
1 AAGTTGGTATTTGTTATCATTTCACAAAA
89739638 CCACACATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
30 25 0.51
32 24 0.49
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (32 bp):
AAGTTGGTATTTGTTATCATTTCACAAAATTA
Found at i:89748633 original size:77 final size:77
Alignment explanation
Indices: 89748551--89748715 Score: 183
Period size: 77 Copynumber: 2.1 Consensus size: 77
89748541 GAGTTATACC
* * * * ** *
89748551 GATTTGGCTTCAAG-CCA-TGAATATCGACTGATTTGGCTTTGG-GTCATGATATCAGTTTTTCG
1 GATTTGGCTTC-AGTCCACT-AATATCAACTGATTTGGCTTCGGACT-ATGATATCAATACTTCA
*
89748613 GGTATAAGTTACCTT
63 GATATAAGTTACCTT
* * *
89748628 GATTTGGCTTCGGTCCACTACTATCAATTGATTTGGCTTCGGACTATGATATCAATACTTCAGAT
1 GATTTGGCTTCAGTCCACTAATATCAACTGATTTGGCTTCGGACTATGATATCAATACTTCAGAT
89748693 ATAAGTTACCTT
66 ATAAGTTACCTT
89748705 GATTTGGCTTC
1 GATTTGGCTTC
89748716 GGGCTATGGT
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
76 1 0.01
77 71 0.96
78 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.39
Consensus pattern (77 bp):
GATTTGGCTTCAGTCCACTAATATCAACTGATTTGGCTTCGGACTATGATATCAATACTTCAGAT
ATAAGTTACCTT
Found at i:89749192 original size:46 final size:46
Alignment explanation
Indices: 89749125--89749226 Score: 204
Period size: 46 Copynumber: 2.2 Consensus size: 46
89749115 ACCTTTAAGC
89749125 TTATGTTTTGAGTATATGGCATGTATAGGGACTTTGATCATGTTGG
1 TTATGTTTTGAGTATATGGCATGTATAGGGACTTTGATCATGTTGG
89749171 TTATGTTTTGAGTATATGGCATGTATAGGGACTTTGATCATGTTGG
1 TTATGTTTTGAGTATATGGCATGTATAGGGACTTTGATCATGTTGG
89749217 TTATGTTTTG
1 TTATGTTTTG
89749227 GTAATGATTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.21, C:0.06, G:0.27, T:0.46
Consensus pattern (46 bp):
TTATGTTTTGAGTATATGGCATGTATAGGGACTTTGATCATGTTGG
Found at i:89750655 original size:73 final size:73
Alignment explanation
Indices: 89750536--89750681 Score: 274
Period size: 73 Copynumber: 2.0 Consensus size: 73
89750526 TAATTTGCCG
*
89750536 CTCACTTTGCGAAAAGTTCTTCCAAACAGAAGTATGTCTCTCTCACAATCGATGTTATCAGCAAA
1 CTCACTTTGCGAAAAGTTCTGCCAAACAGAAGTATGTCTCTCTCACAATCGATGTTATCAGCAAA
89750601 TGACGCAT
66 TGACGCAT
*
89750609 CTCACTTTGGGAAAAGTTCTGCCAAACAGAAGTATGTCTCTCTCACAATCGATGTTATCAGCAAA
1 CTCACTTTGCGAAAAGTTCTGCCAAACAGAAGTATGTCTCTCTCACAATCGATGTTATCAGCAAA
89750674 TGACGCAT
66 TGACGCAT
89750682 TCTCTTTAAA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (73 bp):
CTCACTTTGCGAAAAGTTCTGCCAAACAGAAGTATGTCTCTCTCACAATCGATGTTATCAGCAAA
TGACGCAT
Found at i:89752886 original size:13 final size:13
Alignment explanation
Indices: 89752868--89752894 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
89752858 GTTTTATTAC
89752868 TATACTATACTCA
1 TATACTATACTCA
89752881 TATACTATACTCA
1 TATACTATACTCA
89752894 T
1 T
89752895 GTTTAAGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (13 bp):
TATACTATACTCA
Found at i:89758888 original size:13 final size:13
Alignment explanation
Indices: 89758870--89758895 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89758860 ATATTATAAT
89758870 TATTTTATGTTAA
1 TATTTTATGTTAA
89758883 TATTTTATGTTAA
1 TATTTTATGTTAA
89758896 AAAAATAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:89760324 original size:40 final size:40
Alignment explanation
Indices: 89760278--89760521 Score: 393
Period size: 40 Copynumber: 6.1 Consensus size: 40
89760268 ACTAAGATCT
89760278 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
*
89760318 GAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
* * * *
89760358 AAAGGAATTTGTGTTAGTTACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
89760398 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
*
89760438 GAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
* *
89760478 GAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCC
1 GAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCC
89760517 GAAGG
1 GAAGG
89760522 TACTTGGGTT
Statistics
Matches: 191, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 15 0.08
40 174 0.91
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
Found at i:89770861 original size:42 final size:43
Alignment explanation
Indices: 89770769--89770882 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 43
89770759 CAATGCCAAC
* * ***
89770769 GTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCTCT
1 GTCCCAGACGTGGCCTTACATGAAATCAAATATCGATGCAAAT
*
89770812 GTCCCAGACAG-GGCCTTACATGAAATCAGATA-CGATGCAAAT
1 GTCCCAGAC-GTGGCCTTACATGAAATCAAATATCGATGCAAAT
* *
89770854 GTCCCAGACGTGGTCTTACACGTAAATCA
1 GTCCCAGACGTGGCCTTACATG-AAATCA
89770883 TAAGTCAATG
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
41 1 0.02
42 25 0.42
43 33 0.55
44 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (43 bp):
GTCCCAGACGTGGCCTTACATGAAATCAAATATCGATGCAAAT
Found at i:89777996 original size:42 final size:43
Alignment explanation
Indices: 89777894--89778005 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 43
89777884 ATGTCATATA
* * **
89777894 CCAGATATGGTCTTACATGGGATCTCATATCGATGCCAATAGC
1 CCAGATATGGCCTTACACGTAATCTCATATCGATGCCAATAGC
* * * *
89777937 CCAGCTATGGTCTTACACG-AAGTCTCATATCGATTCC-ATATC
1 CCAGATATGGCCTTACACGTAA-TCTCATATCGATGCCAATAGC
*
89777979 CTAGATATGGCCTTACACGTAATCTCA
1 CCAGATATGGCCTTACACGTAATCTCA
89778006 AATAAACCAA
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
42 26 0.44
43 33 0.56
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (43 bp):
CCAGATATGGCCTTACACGTAATCTCATATCGATGCCAATAGC
Found at i:89783023 original size:13 final size:13
Alignment explanation
Indices: 89783005--89783029 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89782995 TGCTTGTTTA
89783005 TTAAACTAATTAT
1 TTAAACTAATTAT
89783018 TTAAACTAATTA
1 TTAAACTAATTA
89783030 ACTGATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Done.