Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008750.1 Hibiscus syriacus cultivar Beakdansim tig00111841_pilon, whole genome shotgun sequence
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: 3719443
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 18
Found at i:3103250 original size:13 final size:14
Alignment explanation
Indices: 3103220--3103252 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3103210 TTTCAAAAAT
3103220 ACCCGACCCGATTG
1 ACCCGACCCGATTG
*
3103234 ACCCGACTCGA-TG
1 ACCCGACCCGATTG
3103247 ACCCGA
1 ACCCGA
3103253 TGACTCGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.24, C:0.42, G:0.21, T:0.12
Consensus pattern (14 bp):
ACCCGACCCGATTG
Found at i:3103501 original size:23 final size:23
Alignment explanation
Indices: 3103475--3103518 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
3103465 AATATAATAC
*
3103475 TTTTTTAATAAT-ATAAGTTTATT
1 TTTTTTAAAAATAATAA-TTTATT
3103498 TTTTTTAAAAATAATAATTTA
1 TTTTTTAAAAATAATAATTTA
3103519 AAAAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTTTTAAAAATAATAATTTATT
Found at i:3105495 original size:29 final size:29
Alignment explanation
Indices: 3105463--3105527 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
3105453 GGAATATATG
*
3105463 AATAGTTGAGTGACTA-TTTTGTA-ATTTTT
1 AATAGTTGAGAGAC-AGTTTTGTAGA-TTTT
*
3105492 AATAGTCGAGAGACAGTTTTGTAGATTTT
1 AATAGTTGAGAGACAGTTTTGTAGATTTT
3105521 AATAGTT
1 AATAGTT
3105528 AAGGAACTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 1 0.03
29 29 0.94
30 1 0.03
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.45
Consensus pattern (29 bp):
AATAGTTGAGAGACAGTTTTGTAGATTTT
Found at i:3109984 original size:18 final size:19
Alignment explanation
Indices: 3109945--3109985 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
3109935 TTTGATCATG
3109945 ATATTTCAATATGCATGGAT
1 ATATTTCAATATGCAT-GAT
3109965 ATATTTC-ATATGACAT-AT
1 ATATTTCAATATG-CATGAT
3109983 ATA
1 ATA
3109986 ATCAAGTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
18 5 0.25
19 5 0.25
20 10 0.50
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (19 bp):
ATATTTCAATATGCATGAT
Found at i:3117121 original size:15 final size:15
Alignment explanation
Indices: 3117101--3117134 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
3117091 CCGTAGGACC
3117101 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
3117116 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
3117131 ACTA
1 ACTA
3117135 TAATACCCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.32, G:0.24, T:0.15
Consensus pattern (15 bp):
ACTACGTCCCGAAGG
Found at i:3118432 original size:13 final size:13
Alignment explanation
Indices: 3118414--3118441 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3118404 TTTGATAATT
3118414 AGTAATTATTTTC
1 AGTAATTATTTTC
3118427 AGTAATTATTTTC
1 AGTAATTATTTTC
3118440 AG
1 AG
3118442 GAAATATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.07, G:0.11, T:0.50
Consensus pattern (13 bp):
AGTAATTATTTTC
Found at i:3120942 original size:167 final size:169
Alignment explanation
Indices: 3120756--3121109 Score: 604
Period size: 167 Copynumber: 2.1 Consensus size: 169
3120746 CATCAAATAT
* * *
3120756 AAAACGATTCCTAATTACTATTTTGTTCTCAACATTTTCAAACTTTGTAATTTAATCCCTAAATT
1 AAAACGATCCCTAATTACTATTTGGTTCTCAACATTTTCAAACTTTGCAATTTAATCCCTAAATT
3120821 TATAAATTCTTTCAAATTTAACCAATTAAGCATAC-AATACTAAATTCCAGC-ATACCAACTTTT
66 TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCCAGCAATACCAACTTTT
* *
3120884 AATAATTTACTCTTATTCCTTAAATTCCTCAAATTTTAC
131 AATAATTTACACTTATTACTTAAATTCCTCAAATTTTAC
3120923 AAAACGATCCCTAATTACTATTTGGTTCTCAACATTTTCAAACTTTGCAATTTAATCCCTAAATT
1 AAAACGATCCCTAATTACTATTTGGTTCTCAACATTTTCAAACTTTGCAATTTAATCCCTAAATT
3120988 TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCCAGCATAGTATACCAAC
66 TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCCAGC--A--ATACCAAC
3121053 TTTTAATAATTTACACTTATTACTTAAATTCCTCAAATTTTAC
127 TTTTAATAATTTACACTTATTACTTAAATTCCTCAAATTTTAC
*
3121096 AAAACGGTCCCTAA
1 AAAACGATCCCTAA
3121110 AACTTTACAA
Statistics
Matches: 175, Mismatches: 6, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
167 97 0.55
168 16 0.09
173 62 0.35
ACGTcount: A:0.37, C:0.20, G:0.04, T:0.39
Consensus pattern (169 bp):
AAAACGATCCCTAATTACTATTTGGTTCTCAACATTTTCAAACTTTGCAATTTAATCCCTAAATT
TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCCAGCAATACCAACTTTT
AATAATTTACACTTATTACTTAAATTCCTCAAATTTTAC
Found at i:3121614 original size:26 final size:26
Alignment explanation
Indices: 3121567--3121617 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
3121557 CCAACAATTT
*
3121567 CATGATACAGACGTGCAGGCCCCCCA
1 CATGATACAGACGTACAGGCCCCCCA
3121593 CATGCATACAGACGTACA-GCCCCCC
1 CATG-ATACAGACGTACAGGCCCCCC
3121618 TACTCAACCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.27, C:0.41, G:0.20, T:0.12
Consensus pattern (26 bp):
CATGATACAGACGTACAGGCCCCCCA
Found at i:3123083 original size:60 final size:60
Alignment explanation
Indices: 3122990--3123110 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
3122980 TGTTTTTCAT
3122990 TAAAAATTATATAAATTGTATAAGTATGATGATTGCAATCTAAAAGTTATCATTAAAATA
1 TAAAAATTATATAAATTGTATAAGTATGATGATTGCAATCTAAAAGTTATCATTAAAATA
3123050 TAAAAATTATATAAATTGTATAAGTATGATGATTGCAATCTAAAAGTTATCATTAAAATA
1 TAAAAATTATATAAATTGTATAAGTATGATGATTGCAATCTAAAAGTTATCATTAAAATA
3123110 T
1 T
3123111 TTTTAATTAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.37
Consensus pattern (60 bp):
TAAAAATTATATAAATTGTATAAGTATGATGATTGCAATCTAAAAGTTATCATTAAAATA
Found at i:3129337 original size:20 final size:20
Alignment explanation
Indices: 3129293--3129335 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
3129283 TTATTTTTAA
*
3129293 TAAATTTTTATCTATGAAAT
1 TAAATTTTTATCTATCAAAT
*
3129313 TAAATTTTTAT-TTTCAAAT
1 TAAATTTTTATCTATCAAAT
3129332 TAAA
1 TAAA
3129336 ATATTAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (20 bp):
TAAATTTTTATCTATCAAAT
Found at i:3131247 original size:31 final size:31
Alignment explanation
Indices: 3131209--3131269 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
3131199 ATGTACATGA
*
3131209 ATCATCATATATCTAATCAATAAGAACATAC
1 ATCATCATATATCTAACCAATAAGAACATAC
* * *
3131240 ATCATCATGTATTTAACCAATAATAACATA
1 ATCATCATATATCTAACCAATAAGAACATA
3131270 TCCCATTATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.31
Consensus pattern (31 bp):
ATCATCATATATCTAACCAATAAGAACATAC
Found at i:3131437 original size:24 final size:24
Alignment explanation
Indices: 3131384--3131438 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
3131374 CACCACAGCT
* * *
3131384 CATATAAATTACACCGAAGTGCTA
1 CATAGAAATTACACCGAAATGCCA
* *
3131408 CGTAGAAATTGCACCGAAATGCCA
1 CATAGAAATTACACCGAAATGCCA
3131432 CATAGAA
1 CATAGAA
3131439 TATCCCGAAG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.20
Consensus pattern (24 bp):
CATAGAAATTACACCGAAATGCCA
Found at i:3131469 original size:23 final size:22
Alignment explanation
Indices: 3131429--3131529 Score: 85
Period size: 23 Copynumber: 4.5 Consensus size: 22
3131419 CACCGAAATG
3131429 CCACATAGAATATCCCGAAGGA
1 CCACATAGAATATCCCGAAGGA
*
3131451 CCACATAGTATTATCCCGAAGGA
1 CCACATAG-AATATCCCGAAGGA
* * * * *
3131474 CCGCGTAGAAATGTCTCGAAAGA
1 CCACATAG-AATATCCCGAAGGA
* * *
3131497 TCACGTAGAATTGTCCCGAAGGA
1 CCACATAGAA-TATCCCGAAGGA
*
3131520 CCACGTAGAA
1 CCACATAGAA
3131530 CCCTCGACTC
Statistics
Matches: 64, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
22 10 0.16
23 54 0.84
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.18
Consensus pattern (22 bp):
CCACATAGAATATCCCGAAGGA
Found at i:3131792 original size:3 final size:3
Alignment explanation
Indices: 3131784--3131822 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
3131774 GTCCATTCTT
* *
3131784 TTA TTA TTA TTG TTA TTA TTA TTA TTA TTT TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3131823 ATTGATAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:3133219 original size:5 final size:5
Alignment explanation
Indices: 3133209--3133234 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
3133199 TTTTGGTCAC
3133209 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
3133235 TATTATTACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:3138395 original size:90 final size:90
Alignment explanation
Indices: 3138247--3138416 Score: 236
Period size: 90 Copynumber: 1.9 Consensus size: 90
3138237 TATAATATTA
* * * *
3138247 TATATGCAATAAAGCTTGAGTTGTCCCTATAGAGCAATTTGTTAATAGACCCGAATTTATGGATA
1 TATATGCAATAAAGATTGAGTTATCCCTATAGAGCAATTGGTTAATAGACCCGAATTTATGAATA
*
3138312 A-TATTCAGCTAGCCTATTATACTAT
66 AGT-TTCAACTAGCCTATTATACTAT
* * *
3138337 TATATGCAATAAAGATTGAGTTATCCCTCTAGAGCAATTGGTTAATAG-CCTTGGATTTATGAAT
1 TATATGCAATAAAGATTGAGTTATCCCTATAGAGCAATTGGTTAATAGACC-CGAATTTATGAAT
3138401 AAGTTTCAACTAGCCT
65 AAGTTTCAACTAGCCT
3138417 GATAAAGGTA
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
89 2 0.03
90 67 0.96
91 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.35
Consensus pattern (90 bp):
TATATGCAATAAAGATTGAGTTATCCCTATAGAGCAATTGGTTAATAGACCCGAATTTATGAATA
AGTTTCAACTAGCCTATTATACTAT
Found at i:3140803 original size:102 final size:102
Alignment explanation
Indices: 3140627--3140815 Score: 333
Period size: 102 Copynumber: 1.9 Consensus size: 102
3140617 ATTGTTTTTT
*
3140627 TACGAAGGGAGTCAGACCATCACACCTACCATCCCACACTCTAGATGAAAGGGAGCATACCTTTC
1 TACGAAGGGAGTCAGACCATCACACCTACCATCCCACACTCTAGATGAAAGGGAGCATACCTTCC
*
3140692 ATCCCCAAGCTAGTCAGGTAGATTTTTTTTATTCTGC
66 ACCCCCAAGCTAGTCAGGTAGATTTTTTTTATTCTGC
* * *
3140729 TACGAAGGGAGTCAGCCCATCACACCTACCATCCCATACTCTAGGTGAAAGGGAGCATACCTTCC
1 TACGAAGGGAGTCAGACCATCACACCTACCATCCCACACTCTAGATGAAAGGGAGCATACCTTCC
3140794 ACCCCCAAGCTAGTCAGGTAGA
66 ACCCCCAAGCTAGTCAGGTAGA
3140816 GTCATCCCGT
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 82 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (102 bp):
TACGAAGGGAGTCAGACCATCACACCTACCATCCCACACTCTAGATGAAAGGGAGCATACCTTCC
ACCCCCAAGCTAGTCAGGTAGATTTTTTTTATTCTGC
Found at i:3150873 original size:42 final size:42
Alignment explanation
Indices: 3150812--3150931 Score: 161
Period size: 42 Copynumber: 2.9 Consensus size: 42
3150802 GATTTGTATG
* * *
3150812 TCCTTCGGGCCATCTGTAAGTCTTTCGAGCATGATGTTTAAA
1 TCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
* *
3150854 TTCTTCGGGTCATCAGTAAGTCTTTCGAGTATGATGCTTAAA
1 TCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
* *
3150896 TCCTTCGGGTCAT-ATGTAAGCCTTTCGAGCAAGATG
1 TCCTTCGGGTCATCA-GTAAGTCTTTCGAGCATGATG
3150932 ATAAGACCTT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 1 0.01
42 67 0.99
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.35
Consensus pattern (42 bp):
TCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
Found at i:3151135 original size:42 final size:42
Alignment explanation
Indices: 3151076--3151157 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
3151066 AAGATTAAAG
* *
3151076 TAAATCCTTCAGGTCATCAATAAGTCTTTCGAGCATGATGCT
1 TAAATCCTTCAGGTCATCAATAAGCCTTTCGAGCAAGATGCT
**
3151118 TAAATCCTTCAGGTCATCTGTAAGCCTTTCGAGCAAGATG
1 TAAATCCTTCAGGTCATCAATAAGCCTTTCGAGCAAGATG
3151158 ATAAGATCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (42 bp):
TAAATCCTTCAGGTCATCAATAAGCCTTTCGAGCAAGATGCT
Found at i:3152027 original size:119 final size:119
Alignment explanation
Indices: 3151852--3152156 Score: 407
Period size: 119 Copynumber: 2.6 Consensus size: 119
3151842 TTCCAGAAAA
* *
3151852 AGTTCATAATAATAAGAACTCGTCTGAAGAGGAAGAATAAA-TTAATAATAAGAAGAGTTTGTTC
1 AGTTCATAATAATAAGAACTCGTCTGAAGAGGAAGAA-AAAGTTCATAATAAGAAGAGCTTGTTC
* * * *
3151916 AACCTTTTGATAGATTCCATCACAGAAGGAGATGAATCGTCATT-CCAGTGGAAG
65 AACCTTTTGATAAATTCCATCACAGAAGGAGATGAATCATCATTCCCAATAGAAG
* * * * * *
3151970 AGTTCATAATAAGAAGAATTCATCTAGAAGAGAAAGAAAAAGTTCATAATAATAAGAGCTTGCTC
1 AGTTCATAATAATAAGAACTCGTCT-GAAGAGGAAGAAAAAGTTCATAATAAGAAGAGCTTGTTC
* *
3152035 AACCTTTTGCTAAATTCCATCACAGAAGGAGATGGATCATCATTCCCAATAGAAG
65 AACCTTTTGATAAATTCCATCACAGAAGGAGATGAATCATCATTCCCAATAGAAG
* * * * *
3152090 AGTTCATAATAATAAAAACTCGTCCGAAGAGGAAGAATAAGTTCATAATGAGAAGAACTTGTTCA
1 AGTTCATAATAATAAGAACTCGTCTGAAGAGGAAGAAAAAGTTCATAATAAGAAGAGCTTGTTCA
3152155 AC
66 AC
3152157 ATTTCCGTCT
Statistics
Matches: 159, Mismatches: 25, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
118 25 0.16
119 106 0.67
120 28 0.18
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (119 bp):
AGTTCATAATAATAAGAACTCGTCTGAAGAGGAAGAAAAAGTTCATAATAAGAAGAGCTTGTTCA
ACCTTTTGATAAATTCCATCACAGAAGGAGATGAATCATCATTCCCAATAGAAG
Found at i:3152297 original size:6 final size:6
Alignment explanation
Indices: 3152286--3152348 Score: 81
Period size: 6 Copynumber: 10.5 Consensus size: 6
3152276 GTCTATTCTT
* * * *
3152286 TTATTA TTATTA TTAATA TTAATA TTATTA TTAATA TTATTA TTAATA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
*
3152334 TTATTA ATATTA TTA
1 TTATTA TTATTA TTA
3152349 AATGATAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (6 bp):
TTATTA
Found at i:3152300 original size:9 final size:9
Alignment explanation
Indices: 3152286--3152348 Score: 81
Period size: 9 Copynumber: 7.0 Consensus size: 9
3152276 GTCTATTCTT
3152286 TTATTATTA
1 TTATTATTA
*
3152295 TTATTAATA
1 TTATTATTA
*
3152304 TTAATATTA
1 TTATTATTA
*
3152313 TTATTAATA
1 TTATTATTA
3152322 TTATTATTA
1 TTATTATTA
*
3152331 ATATTATTA
1 TTATTATTA
*
3152340 ATATTATTA
1 TTATTATTA
3152349 AATGATAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 47 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TTATTATTA
Found at i:3152348 original size:12 final size:12
Alignment explanation
Indices: 3152286--3152339 Score: 90
Period size: 12 Copynumber: 4.5 Consensus size: 12
3152276 GTCTATTCTT
*
3152286 TTATTATTATTA
1 TTATTATTAATA
*
3152298 TTAATATTAATA
1 TTATTATTAATA
3152310 TTATTATTAATA
1 TTATTATTAATA
3152322 TTATTATTAATA
1 TTATTATTAATA
3152334 TTATTA
1 TTATTA
3152340 ATATTATTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTATTATTAATA
Found at i:3152363 original size:18 final size:18
Alignment explanation
Indices: 3152323--3152364 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
3152313 TTATTAATAT
* *
3152323 TATTATTAATATTATTAA
1 TATTATTAATATGATAAA
3152341 TATTATTAA-ATGATAAA
1 TATTATTAATATGATAAA
3152358 TAATTAT
1 T-ATTAT
3152365 GCGATTGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
TATTATTAATATGATAAA
Found at i:3157652 original size:23 final size:23
Alignment explanation
Indices: 3157621--3157665 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
3157611 AACGAGGTGC
* *
3157621 TAGGGTTAGAGTAGATCTAATGT
1 TAGGATTAGAATAGATCTAATGT
*
3157644 TAGGATTAGAATAGCTCTAATG
1 TAGGATTAGAATAGATCTAATG
3157666 GTTTTCTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (23 bp):
TAGGATTAGAATAGATCTAATGT
Found at i:3159224 original size:2 final size:2
Alignment explanation
Indices: 3159217--3159277 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
3159207 AGTTATTTAA
3159217 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3159259 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
3159278 ACATTACCCT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3159911 original size:34 final size:35
Alignment explanation
Indices: 3159873--3159939 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
3159863 TTTAATTTAA
3159873 GGTTTAGAATATAATT-AAGTATTTTGGAATTTGG
1 GGTTTAGAATATAATTGAAGTATTTTGGAATTTGG
* *
3159907 GGTTTAGAATGTAATTGAAGTGTTTTGGAATTT
1 GGTTTAGAATATAATTGAAGTATTTTGGAATTT
3159940 TGAACATGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 15 0.50
35 15 0.50
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (35 bp):
GGTTTAGAATATAATTGAAGTATTTTGGAATTTGG
Found at i:3175972 original size:131 final size:132
Alignment explanation
Indices: 3175729--3175999 Score: 517
Period size: 131 Copynumber: 2.1 Consensus size: 132
3175719 TAAACAAAGG
*
3175729 AGTTGCTAGGAACCCTTGTTCCATGTTCAATTGAGGTATTGTGTTCCTATTTTTAGAGTTCTGGA
1 AGTTGCTAGGAACCCTTGTTCCATGTTCAATTGAGGTATTGTGTTCCTATTTTTAGAGTTCTGAA
*
3175794 AAATAGAGTTGGCATGTAACGAATATCTTCTTGTGTCACTTTCACCTGAAACTGATTGTCATTTG
66 AAATAGAGTTGGCATGTAACGAATATCTTCTTGTGTCACTTTCACCTGAAACTGATTATCATTTG
3175859 TC
131 TC
3175861 AGTTGCTA-GAACCCTTGTTCCATGTTCAATTGAGGTATTGTGTTCCTATTTTTAGAGTTCTGAA
1 AGTTGCTAGGAACCCTTGTTCCATGTTCAATTGAGGTATTGTGTTCCTATTTTTAGAGTTCTGAA
3175925 AAATAGAGTTGGCATGTAACGAATATCTTCTTGTGTCACTTTCACCTGAAACTGATTATCATTTG
66 AAATAGAGTTGGCATGTAACGAATATCTTCTTGTGTCACTTTCACCTGAAACTGATTATCATTTG
3175990 TC
131 TC
3175992 AGTTGCTA
1 AGTTGCTA
3176000 TTTATGTTGA
Statistics
Matches: 137, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
131 129 0.94
132 8 0.06
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (132 bp):
AGTTGCTAGGAACCCTTGTTCCATGTTCAATTGAGGTATTGTGTTCCTATTTTTAGAGTTCTGAA
AAATAGAGTTGGCATGTAACGAATATCTTCTTGTGTCACTTTCACCTGAAACTGATTATCATTTG
TC
Found at i:3189415 original size:59 final size:59
Alignment explanation
Indices: 3189295--3189416 Score: 145
Period size: 59 Copynumber: 2.1 Consensus size: 59
3189285 TTAACCTGAG
* * ** * *
3189295 TATGACACATAAGGTCGTGCCCACCATTTGTACTATGTATACTTAAGTACAGTCCCAAA
1 TATGAAACATAAGGTCGTGCCCACCATATACACTAAGTATACTTAAGTACAATCCCAAA
* * ** *
3189354 TATGAAACATAAGGTCGTGCCCACCATATACACTAAGTATCCTTTAGTGTAATCCCGAA
1 TATGAAACATAAGGTCGTGCCCACCATATACACTAAGTATACTTAAGTACAATCCCAAA
3189413 TATG
1 TATG
3189417 CAACCCTGCG
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.29
Consensus pattern (59 bp):
TATGAAACATAAGGTCGTGCCCACCATATACACTAAGTATACTTAAGTACAATCCCAAA
Found at i:3193922 original size:19 final size:19
Alignment explanation
Indices: 3193898--3193943 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
3193888 ACAATCATTG
3193898 AATAAGTGATGGGGAATTT
1 AATAAGTGATGGGGAATTT
3193917 AATAAGTGATGGGGAATTT
1 AATAAGTGATGGGGAATTT
3193936 AATAAGTG
1 AATAAGTG
3193944 CTTTATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.39, C:0.00, G:0.30, T:0.30
Consensus pattern (19 bp):
AATAAGTGATGGGGAATTT
Found at i:3194738 original size:56 final size:57
Alignment explanation
Indices: 3194675--3194783 Score: 166
Period size: 56 Copynumber: 1.9 Consensus size: 57
3194665 TTTGTTAGCC
* *
3194675 ATATTATCGAGTTTGTCTTTTCATTGC-GAGGAGGGTTTGATAGGACACTTAGAGCA
1 ATATTATCGAGTTTGCCTTTTCATTGCAGAGGAGGGTTCGATAGGACACTTAGAGCA
*
3194731 ATATTATCGAGTTTGCCTTTTCATTGCAATTAGGAGGGTTCGATAGGACACTT
1 ATATTATCGAGTTTGCCTTTTCATTGC-A-GAGGAGGGTTCGATAGGACACTT
3194784 CCATCTATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
56 26 0.55
59 21 0.45
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.37
Consensus pattern (57 bp):
ATATTATCGAGTTTGCCTTTTCATTGCAGAGGAGGGTTCGATAGGACACTTAGAGCA
Found at i:3195938 original size:58 final size:59
Alignment explanation
Indices: 3195843--3195962 Score: 154
Period size: 58 Copynumber: 2.1 Consensus size: 59
3195833 AATAGATGGA
* * ** *
3195843 TAAGTGTCCTATCGAATCATCCTAGTTGCAATAAAAAGGAAAACTTGATAATA-GGCTC
1 TAAGTGTCCTATCAAATCATCATAGTCACAATAAAAAGGAAAACTCGATAATATGGCTC
* *
3195901 TAAGTGTCCTATCAAACTC-TCATAGTCACAATGAAAAGGCAAACTCGATAATATGGCTC
1 TAAGTGTCCTATCAAA-TCATCATAGTCACAATAAAAAGGAAAACTCGATAATATGGCTC
3195960 TAA
1 TAA
3195963 CCAACCTCTA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
58 43 0.81
59 10 0.19
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (59 bp):
TAAGTGTCCTATCAAATCATCATAGTCACAATAAAAAGGAAAACTCGATAATATGGCTC
Found at i:3197126 original size:154 final size:149
Alignment explanation
Indices: 3196834--3197137 Score: 563
Period size: 154 Copynumber: 2.0 Consensus size: 149
3196824 TCCAAACAAG
3196834 TATGTATTAGGGAATCTATTGCATGTATCAATTTTTCTTTTAAATTCCTCGTAATCATTGGTTTT
1 TATGTATTAGGGAATCTATTGCATGTATCAATTTTTCTTTTAAATTCCTCGTAATCATTGGTTTT
3196899 TGTGGTTATTGTTTGTTTGATTCATTTCTGTGTAGGACGCTAGATTCTGAAAATTGTACTAAAGG
66 TGTGGTTATTGTTTGTTTGATTCATTTCTGTGTAGGACGCTAGATTCTGAAAATTGTACTAAAGG
3196964 ATAGAATTCTACAGTTTTT
131 ATAGAATTCTACAGTTTTT
3196983 TATGTATTAGGGAATCTATTGCATGTATCAATTTTTCTTTTAAATTCCTCCGTAATCATTGGTTT
1 TATGTATTAGGGAATCTATTGCATGTATCAATTTTTCTTTTAAATTCCT-CGTAATCATTGGTTT
3197048 TTGTGGCTTATTTGTTTGTTTTGATTCATTTTCTGTGTAGGACGCTAGATTCTGAAAATTGTACT
65 TTGTGG-TTA-TTGTTTG-TTTGATTCA-TTTCTGTGTAGGACGCTAGATTCTGAAAATTGTACT
3197113 AAAGGATAGAATTCTACAGTTTTT
126 AAAGGATAGAATTCTACAGTTTTT
3197137 T
1 T
3197138 TTTAAATCAA
Statistics
Matches: 150, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
149 49 0.33
150 21 0.14
151 3 0.02
152 7 0.05
153 9 0.06
154 61 0.41
ACGTcount: A:0.24, C:0.11, G:0.18, T:0.47
Consensus pattern (149 bp):
TATGTATTAGGGAATCTATTGCATGTATCAATTTTTCTTTTAAATTCCTCGTAATCATTGGTTTT
TGTGGTTATTGTTTGTTTGATTCATTTCTGTGTAGGACGCTAGATTCTGAAAATTGTACTAAAGG
ATAGAATTCTACAGTTTTT
Found at i:3198299 original size:17 final size:18
Alignment explanation
Indices: 3198277--3198313 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
3198267 TTATAAATGA
3198277 ATTTAT-TTATTTAT-TTT
1 ATTTATCTT-TTTATCTTT
3198294 ATTTATCTTTTTATCTTT
1 ATTTATCTTTTTATCTTT
3198312 AT
1 AT
3198314 CTGAAATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (18 bp):
ATTTATCTTTTTATCTTT
Found at i:3199208 original size:23 final size:22
Alignment explanation
Indices: 3199160--3199230 Score: 74
Period size: 23 Copynumber: 3.1 Consensus size: 22
3199150 AACACTTTAG
3199160 ATTTT-ATTATT-TTATTTAGGA
1 ATTTTAATTATTATTA-TTAGGA
*
3199181 TTTTTAATTATTTATTATTAGGA
1 ATTTTAATTA-TTATTATTAGGA
*
3199204 ATTTTAACTTACTATTAATTAGGA
1 ATTTTAA-TTATTATT-ATTAGGA
3199228 ATT
1 ATT
3199231 AAAAGTTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
21 4 0.10
22 4 0.10
23 18 0.43
24 16 0.38
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.56
Consensus pattern (22 bp):
ATTTTAATTATTATTATTAGGA
Found at i:3199850 original size:30 final size:31
Alignment explanation
Indices: 3199814--3199871 Score: 109
Period size: 30 Copynumber: 1.9 Consensus size: 31
3199804 ATCCAAACAA
3199814 GGGCTAAATTCCAAGG-TTGACTTTGGATTT
1 GGGCTAAATTCCAAGGATTGACTTTGGATTT
3199844 GGGCTAAATTCCAAGGATTGACTTTGGA
1 GGGCTAAATTCCAAGGATTGACTTTGGA
3199872 AAATTAGTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
30 16 0.59
31 11 0.41
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.33
Consensus pattern (31 bp):
GGGCTAAATTCCAAGGATTGACTTTGGATTT
Found at i:3201748 original size:3 final size:3
Alignment explanation
Indices: 3201740--3201803 Score: 76
Period size: 3 Copynumber: 21.3 Consensus size: 3
3201730 TTTTTTACTC
* * * *
3201740 ATT ATT ATT ATT ATT ATA ATT ATA ATT ATT ATT ATA ATT ATT A-T ATAC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
3201788 ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT A
3201804 AATAAATAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
2 2 0.04
3 47 0.92
4 2 0.04
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:3201755 original size:12 final size:12
Alignment explanation
Indices: 3201740--3201803 Score: 85
Period size: 12 Copynumber: 5.3 Consensus size: 12
3201730 TTTTTTACTC
*
3201740 ATTATTATTATT
1 ATTATTATTATA
*
3201752 ATTATAATTATA
1 ATTATTATTATA
3201764 ATTATTATTATA
1 ATTATTATTATA
3201776 ATTATTA-TATA
1 ATTATTATTATA
*
3201787 CATTATTATTATT
1 -ATTATTATTATA
3201800 ATTA
1 ATTA
3201804 AATAAATAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
11 4 0.09
12 39 0.85
13 3 0.07
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTATTATTATA
Found at i:3203332 original size:23 final size:22
Alignment explanation
Indices: 3203286--3203330 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
3203276 ATATTATAAA
3203286 AAATTATAATTTAATTTTATTT
1 AAATTATAATTTAATTTTATTT
*
3203308 AAATTATTATATTAATATTTATT
1 AAATTATAAT-TTAAT-TTTATT
3203331 AATATCGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
AAATTATAATTTAATTTTATTT
Found at i:3207261 original size:15 final size:15
Alignment explanation
Indices: 3207238--3207274 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
3207228 TTTGGGATCA
*
3207238 ATACCTTTTGCATAC
1 ATACATTTTGCATAC
3207253 ATACATTTTGCATAC
1 ATACATTTTGCATAC
*
3207268 ATTCATT
1 ATACATT
3207275 ATTCATTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.30, C:0.22, G:0.05, T:0.43
Consensus pattern (15 bp):
ATACATTTTGCATAC
Found at i:3214604 original size:8 final size:8
Alignment explanation
Indices: 3214591--3214649 Score: 57
Period size: 9 Copynumber: 6.9 Consensus size: 8
3214581 TGCTTGAAGA
3214591 AAAAAAAG
1 AAAAAAAG
3214599 -AAAAAAG
1 AAAAAAAG
3214606 AAAAAAAG
1 AAAAAAAG
*
3214614 AAAGAAAAA
1 AAA-AAAAG
3214623 AAGAGAAAAG
1 AA-A-AAAAG
3214633 AAAAAAAAG
1 -AAAAAAAG
3214642 AAAGAAAA
1 AAA-AAAA
3214650 AGGGGGTCAA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
7 7 0.16
8 13 0.30
9 15 0.34
10 7 0.16
11 2 0.05
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:3214611 original size:14 final size:13
Alignment explanation
Indices: 3214590--3214650 Score: 68
Period size: 14 Copynumber: 4.3 Consensus size: 13
3214580 ATGCTTGAAG
3214590 AAAAAAAAGAAAAA
1 AAAAAAAAG-AAAA
3214604 AGAAAAAAAGAAAGA
1 A-AAAAAAAGAAA-A
*
3214619 AAAAAAGAGAAAA
1 AAAAAAAAGAAAA
3214632 GAAAAAAAAGAAAGA
1 -AAAAAAAAGAAA-A
3214647 AAAA
1 AAAA
3214651 GGGGGTCAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
13 1 0.02
14 29 0.71
15 11 0.27
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAA
Found at i:3214611 original size:15 final size:15
Alignment explanation
Indices: 3214591--3214644 Score: 69
Period size: 12 Copynumber: 3.7 Consensus size: 15
3214581 TGCTTGAAGA
3214591 AAAAAAAGAAAAAAG
1 AAAAAAAGAAAAAAG
3214606 AAAAAAAG---AAAG
1 AAAAAAAGAAAAAAG
*
3214618 AAAAAAAGAGAAAAG
1 AAAAAAAGAAAAAAG
3214633 AAAAAAAAGAAA
1 -AAAAAAAGAAA
3214645 GAAAAAGGGG
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
12 12 0.35
15 12 0.35
16 10 0.29
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAAAAG
Found at i:3214620 original size:28 final size:29
Alignment explanation
Indices: 3214587--3214650 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 29
3214577 ATTATGCTTG
3214587 AAGAAAAAAAAGAAAAAAG-AAAAAAAGA
1 AAGAAAAAAAAGAAAAAAGAAAAAAAAGA
*
3214615 AAG-AAAAAAAGAGAAAAGAAAAAAAAGA
1 AAGAAAAAAAAGAAAAAAGAAAAAAAAGA
3214643 AAGAAAAA
1 AAGAAAAA
3214651 GGGGGTCAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 14 0.42
28 15 0.45
29 4 0.12
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (29 bp):
AAGAAAAAAAAGAAAAAAGAAAAAAAAGA
Found at i:3214650 original size:19 final size:19
Alignment explanation
Indices: 3214587--3214651 Score: 73
Period size: 19 Copynumber: 3.5 Consensus size: 19
3214577 ATTATGCTTG
*
3214587 AAGAAAAAAAAGAAAAAAG-
1 AAGAAAAAGAA-AAAAAAGA
*
3214606 AA-AAAAAGAAAGAAAA-A
1 AAGAAAAAGAAAAAAAAGA
3214623 AAGAGAAAAGAAAAAAAAGA
1 AAGA-AAAAGAAAAAAAAGA
3214643 AAGAAAAAG
1 AAGAAAAAG
3214652 GGGGTCAAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
17 7 0.18
18 8 0.21
19 19 0.49
20 5 0.13
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (19 bp):
AAGAAAAAGAAAAAAAAGA
Found at i:3215807 original size:93 final size:93
Alignment explanation
Indices: 3215648--3216217 Score: 955
Period size: 93 Copynumber: 6.1 Consensus size: 93
3215638 AACAAGTGCC
3215648 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCCG
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCCG
3215713 AAAACCAATCATTGGATTTGAAATATGA
66 AAAACCAATCATTGGATTTGAAATATGA
3215741 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCCG
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCCG
3215806 AAAACCAATCATTGGATTTGAAATATGA
66 AAAACCAATCATTGGATTTGAAATATGA
* *
3215834 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGATATAAACCCCG
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCCG
3215899 AAAACCAATCATTGGATTTGAAATATGA
66 AAAACCAATCATTGGATTTGAAATATGA
*
3215927 ATGTGCTCATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCCG
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCCG
3215992 AAAACCAATCATTGGATTTGAAATATGA
66 AAAACCAATCATTGGATTTGAAATATGA
* * * * *
3216020 ATGTGCTCATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTAGCTTGGTATGAAACCAC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATG-AACCCC
* * *
3216085 -AGAACCAATCATTGAATTTGAAAGATGA
65 GAAAACCAATCATTGGATTTGAAATATGA
* *
3216113 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCAC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATG-AACCCC
* * *
3216178 -AGAACCAATCATTGAATTTGAAAGATGA
65 GAAAACCAATCATTGGATTTGAAATATGA
*
3216206 ATGTGATCATAG
1 ATGTGCTCATAG
3216218 TAGAAATAAG
Statistics
Matches: 458, Mismatches: 18, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
93 453 0.99
94 5 0.01
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (93 bp):
ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCCG
AAAACCAATCATTGGATTTGAAATATGA
Found at i:3216148 original size:279 final size:284
Alignment explanation
Indices: 3215648--3216425 Score: 1106
Period size: 279 Copynumber: 2.7 Consensus size: 284
3215638 AACAAGTGCC
3215648 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCCG
1 ATGTGCTCATAGCATCTTCT-GAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCCG
3215713 AAAACCAATCATTGGATTTGAAATATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
65 AAAACCAATCATTGGATTTGAAATATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
* * * * *
3215778 TATCTGATCTGGTTTGATATG-AACCCCGAAAACCAATCATTGGATTTGAAATATGAATGTGCTC
130 TATCTGATCTGGTTTGGTATGAAACCAC-AGAACCAATCATTGAATTTGAAAGATGAATGTGCTC
*
3215842 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGATAT-AAACCCCGAAAACCA
194 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGATATGAAACCAC-AAAACCA
*
3215906 ATCATTGGATTTG-AA-AT-A-TG-A-
258 ATCATTGAATTTGAAAGATAAGTGAAT
3215927 ATGTGCTCATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCCG
1 ATGTGCTCATAGCATCTTCT-GAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCCG
*
3215992 AAAACCAATCATTGGATTTGAAATATGAATGTGCTCATAACATCTTCTGGAAGTGTTCTTTGAGT
65 AAAACCAATCATTGGATTTGAAATATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
* *
3216057 TATCTGATCTAGCTTGGTATGAAACCACAGAACCAATCATTGAATTTGAAAGATGAATGTGCTCA
130 TATCTGATCTGGTTTGGTATGAAACCACAGAACCAATCATTGAATTTGAAAGATGAATGTGCTCA
* * *
3216122 TAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAAT
195 TAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGATATGAAACCACAAAACCAAT
3216187 CATTGAATTTGAAAGATGAATGTGATCAT
260 CATTGAATTTGAAAGAT-AA-GTGA--AT
*
3216216 AGTAGAAATAAGAAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
1 A-T-G---T-----G-CTC-ATAGCATCTTCTG-AAGTGTTCTTTGAGTTATCTGATCTGGTTTG
* * * * * *
3216281 GTATGAAACCAC-AGAACCAATCATTGAATTTGAAAGATGAATGTGGTCATAGCATCTTCTGGAA
53 ATATG-AACCCCGAAAACCAATCATTGGATTTGAAATATGAATGTGCTCATAGCATCTTCTGGAA
3216345 GTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAATCATTGAATTTGAAAG
117 GTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAATCATTGAATTTGAAAG
*
3216410 ATGAATGTGATCATAG
182 ATGAATGTGCTCATAG
3216426 TAGAAATAAG
Statistics
Matches: 448, Mismatches: 25, Indels: 30
0.89 0.05 0.06
Matches are distributed among these distances:
279 244 0.54
280 13 0.03
281 2 0.00
283 1 0.00
285 2 0.00
288 1 0.00
289 1 0.00
290 1 0.00
291 1 0.00
294 1 0.00
299 1 0.00
300 3 0.01
301 172 0.38
302 5 0.01
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.34
Consensus pattern (284 bp):
ATGTGCTCATAGCATCTTCTGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATGAACCCCGA
AAACCAATCATTGGATTTGAAATATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTT
ATCTGATCTGGTTTGGTATGAAACCACAGAACCAATCATTGAATTTGAAAGATGAATGTGCTCAT
AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGATATGAAACCACAAAACCAATC
ATTGAATTTGAAAGATAAGTGAAT
Found at i:3216267 original size:115 final size:115
Alignment explanation
Indices: 3216121--3216332 Score: 406
Period size: 115 Copynumber: 1.8 Consensus size: 115
3216111 GAATGTGCTC
*
3216121 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
1 ATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
3216186 TCATTGAATTTGAAAGATGAATGTGATCATAGTAGAAATAAGAAGACCCA
66 TCATTGAATTTGAAAGATGAATGTGATCATAGTAGAAATAAGAAGACCCA
3216236 ATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
1 ATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
*
3216301 TCATTGAATTTGAAAGATGAATGTGGTCATAG
66 TCATTGAATTTGAAAGATGAATGTGATCATAG
3216333 CATCTTCTGG
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
115 95 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (115 bp):
ATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
TCATTGAATTTGAAAGATGAATGTGATCATAGTAGAAATAAGAAGACCCA
Found at i:3216390 original size:208 final size:208
Alignment explanation
Indices: 3216032--3216540 Score: 973
Period size: 208 Copynumber: 2.4 Consensus size: 208
3216022 GTGCTCATAA
* *
3216032 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTAGCTTGGTATGAAACCACAGAACCAATCAT
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAATCAT
*
3216097 TGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
66 TGAATTTGAAAGATGAATGTGATCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
3216162 TTTGGTATGAAACCACAGAACCAATCATTGAATTTGAAAGATGAATGTGATCATAGTAGAAATAA
131 TTTGGTATGAAACCACAGAACCAATCATTGAATTTGAAAGATGAATGTGATCATAGTAGAAATAA
3216227 GAAGACCCAATAG
196 GAAGACCCAATAG
*
3216240 CATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAATCAT
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAATCAT
*
3216305 TGAATTTGAAAGATGAATGTGGTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
66 TGAATTTGAAAGATGAATGTGATCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
3216370 TTTGGTATGAAACCACAGAACCAATCATTGAATTTGAAAGATGAATGTGATCATAGTAGAAATAA
131 TTTGGTATGAAACCACAGAACCAATCATTGAATTTGAAAGATGAATGTGATCATAGTAGAAATAA
3216435 GAAGACCCAATAG
196 GAAGACCCAATAG
3216448 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAATCAT
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAATCAT
3216513 TGAATTTGAAAGATGAATGTGATCATAG
66 TGAATTTGAAAGATGAATGTGATCATAG
3216541 TAGAAATAAG
Statistics
Matches: 295, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
208 295 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (208 bp):
CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAATCAT
TGAATTTGAAAGATGAATGTGATCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
TTTGGTATGAAACCACAGAACCAATCATTGAATTTGAAAGATGAATGTGATCATAGTAGAAATAA
GAAGACCCAATAG
Found at i:3216395 original size:93 final size:93
Alignment explanation
Indices: 3216236--3216425 Score: 362
Period size: 93 Copynumber: 2.0 Consensus size: 93
3216226 AGAAGACCCA
3216236 ATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
1 ATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
*
3216301 TCATTGAATTTGAAAGATGAATGTGGTC
66 TCATTGAATTTGAAAGATGAATGTGATC
*
3216329 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
1 ATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
3216394 TCATTGAATTTGAAAGATGAATGTGATC
66 TCATTGAATTTGAAAGATGAATGTGATC
3216422 ATAG
1 ATAG
3216426 TAGAAATAAG
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 95 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.34
Consensus pattern (93 bp):
ATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
TCATTGAATTTGAAAGATGAATGTGATC
Found at i:3216668 original size:115 final size:115
Alignment explanation
Indices: 3216329--3216643 Score: 580
Period size: 115 Copynumber: 2.7 Consensus size: 115
3216319 GAATGTGGTC
3216329 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
3216394 TCATTGAATTTGAAAGATGAATGTGATCATAGTAGAAATAAGAAGACCCA
66 TCATTGAATTTGAAAGATGAATGTGATCATAGTAGAAATAAGAAGACCCA
3216444 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
3216509 TCATTGAATTTGAAAGATGAATGTGATCATAGTAGAAATAAGAAGACCCA
66 TCATTGAATTTGAAAGATGAATGTGATCATAGTAGAAATAAGAAGACCCA
* *
3216559 ATAGCATATTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA-GGAACCACAGAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
*
3216623 TCATTGGAA-TTAAAAGATGAA
66 TCATT-GAATTTGAAAGATGAA
3216644 CTGCATGATC
Statistics
Matches: 196, Mismatches: 3, Indels: 3
0.97 0.01 0.01
Matches are distributed among these distances:
114 31 0.16
115 165 0.84
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (115 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
TCATTGAATTTGAAAGATGAATGTGATCATAGTAGAAATAAGAAGACCCA
Found at i:3217527 original size:113 final size:112
Alignment explanation
Indices: 3217343--3218219 Score: 979
Period size: 112 Copynumber: 7.7 Consensus size: 112
3217333 AATCCATAAC
* *
3217343 TTGATGGATTAGCTTTTCCAGAGAAAGTTCATAATAAGAAAAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATTAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGA
* * * * * *
3217408 AATTCATAATGAGAAGAATTTGTTCAACCTTTCGCTCAAATCCATCAT
65 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATTAT
*
3217456 TTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATTAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGA
*
3217521 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCAT
65 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATTAT
*
3217569 TTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATTAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGA
3217634 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATTAT
65 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATTAT
* * * * * * **
3217682 TTGATGGATTAACATTGCCAG-GTAGAGTTCATAATGAGAAGTACTCGTCAT-CTGAAGAAGAAG
1 TTGATGGATTAGCTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATC-TGAAGAAGAAGAAG
3217745 AAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATTAT
64 AAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATTAT
* * * * **
3217794 TTGATGGATTAACATTGT-CAG-GTAGAGTTCATAATGAGAAGAACTCGTCAT-CTGAAGAAGAA
1 TTGATGGATTAGC-TTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATC-TGAAGAAGAAGAA
3217856 GAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATTAT
63 GAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATTAT
* * * * * *
3217906 TTGATGGATTAACATTACCAG-GTAGAGTTCATAATGACAAGAACTCGTCATCTGAATAAGAAG-
1 TTGATGGATTAGCTTTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGAAGA
* * * * *
3217969 A-AA-TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATAAC
62 AGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATTAT
*
3218018 TTGATGAATTAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT---GAAGAAGAAGAA
1 TTGATGGATTAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAA
* ** * ** *
3218080 GTTCACAATGAGAAGAGCTTATTCAACCTTTTGCAT-AATTCTATTACAGAAA
66 GTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTC-ATT-----AT
** * * **
3218132 GAGATAGATTAGCATCAACCTTTCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGGGGAA
1 TTGATGGATTAGC-T-----TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG-A
*
3218197 AAAAGAAGTTCATAATGAGAAGA
59 AGAAGAAGTTCATAATGAGAAGA
3218220 GCTTATTCAA
Statistics
Matches: 676, Mismatches: 60, Indels: 45
0.87 0.08 0.06
Matches are distributed among these distances:
106 6 0.01
107 1 0.00
108 6 0.01
109 37 0.05
110 1 0.00
111 1 0.00
112 276 0.41
113 264 0.39
114 14 0.02
115 11 0.02
120 35 0.05
123 2 0.00
124 22 0.03
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (112 bp):
TTGATGGATTAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAA
GTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATTAT
Found at i:3217883 original size:20 final size:20
Alignment explanation
Indices: 3217819--3217875 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 20
3217809 TGTCAGGTAG
3217819 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
* * **
3217839 CG-TCAT-CTGAAGAAGAAGA
1 AGTTCATAATG-AGAAGAACT
3217858 AGTTCATAATGAGAAGAA
1 AGTTCATAATGAGAAGAA
3217876 TTTGTTCAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
18 2 0.07
19 12 0.43
20 12 0.43
21 2 0.07
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.21
Consensus pattern (20 bp):
AGTTCATAATGAGAAGAACT
Found at i:3218272 original size:124 final size:121
Alignment explanation
Indices: 3218032--3218322 Score: 349
Period size: 124 Copynumber: 2.4 Consensus size: 121
3218022 TGAATTAGCT
* *
3218032 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA-GAAGAAGAAGTTCACAATGAGAAGA
1 TTTCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGGAAAAAGAAGTTCACAATGAGAAGA
* * * * * *
3218096 GCTTATTCAACCTTTTGCATAATTCTATTACAGAAAGAGATAGATTAGCATCAACC
66 GCTTATTCAACCTTTTGAATAACTCTATCACAGAAAGAAATAGATCAACATCAACC
*
3218152 TTTCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGGGGAAAAAAGAAGTTCATAATGAGA
1 TTTCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAA--GG-AAAAAGAAGTTCACAATGAGA
* * * * * *
3218217 AGAGCTTATTCAATCTTTTGAATGACTCTATCACATAAGGAAATAGGTCAACATCATCC
63 AGAGCTTATTCAACCTTTTGAATAACTCTATCACAGAAAGAAATAGATCAACATCAACC
** *
3218276 ---CCATCGAAAAGTTCATAATGAGAAGAACTCATCTGAA-GAAAGAGAAG
1 TTTCCAAAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGGAAAAAGAAG
3218323 AATTTATTCA
Statistics
Matches: 148, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
118 8 0.05
119 1 0.01
120 38 0.26
121 4 0.03
122 30 0.20
123 1 0.01
124 66 0.45
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.24
Consensus pattern (121 bp):
TTTCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGGAAAAAGAAGTTCACAATGAGAAGA
GCTTATTCAACCTTTTGAATAACTCTATCACAGAAAGAAATAGATCAACATCAACC
Found at i:3218469 original size:3 final size:3
Alignment explanation
Indices: 3218461--3218520 Score: 68
Period size: 3 Copynumber: 20.0 Consensus size: 3
3218451 TTACCCATTT
* * * *
3218461 TTA TTA TTA TTA TAA TTA TAA TTA TTA TTA TAA TTA TTA -TA TACA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
3218506 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
3218521 AATAAATAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
2 2 0.04
3 43 0.91
4 2 0.04
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:3218478 original size:12 final size:12
Alignment explanation
Indices: 3218461--3218520 Score: 77
Period size: 12 Copynumber: 5.0 Consensus size: 12
3218451 TTACCCATTT
*
3218461 TTATTATTATTA
1 TTATTATAATTA
*
3218473 TAATTATAATTA
1 TTATTATAATTA
3218485 TTATTATAATTA
1 TTATTATAATTA
3218497 TTA-TATACATTA
1 TTATTATA-ATTA
*
3218509 TTATTATTATTA
1 TTATTATAATTA
3218521 AATAAATAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
11 4 0.10
12 35 0.83
13 3 0.07
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (12 bp):
TTATTATAATTA
Found at i:3220055 original size:23 final size:22
Alignment explanation
Indices: 3220009--3220053 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
3219999 ATATTATAAA
3220009 AAATTATAATTTAATTTTATTT
1 AAATTATAATTTAATTTTATTT
*
3220031 AAATTATTATATTAATATTTATT
1 AAATTATAAT-TTAAT-TTTATT
3220054 AATATCGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
AAATTATAATTTAATTTTATTT
Found at i:3220135 original size:23 final size:26
Alignment explanation
Indices: 3220103--3220152 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 26
3220093 CCTTTTCTGA
*
3220103 TATTTCTAAATA-A-ATAAA-TATTT
1 TATTTATAAATATATATAAATTATTT
3220126 TATTTATAAATATATATAAATTATTT
1 TATTTATAAATATATATAAATTATTT
3220152 T
1 T
3220153 TTTTCTCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 11 0.48
24 1 0.04
25 5 0.22
26 6 0.26
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
TATTTATAAATATATATAAATTATTT
Found at i:3221373 original size:22 final size:22
Alignment explanation
Indices: 3221348--3221410 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
3221338 TGACCCGTTA
*
3221348 ACTGGTATGACCGTTGAGTTTG
1 ACTGGTATGACCGTTGACTTTG
*
3221370 ACTGGTTTGACCGTTGACTTTG
1 ACTGGTATGACCGTTGACTTTG
* * *
3221392 ACCGGTCTGGCCGTTGACT
1 ACTGGTATGACCGTTGACT
3221411 CCGACTTTGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.14, C:0.21, G:0.30, T:0.35
Consensus pattern (22 bp):
ACTGGTATGACCGTTGACTTTG
Found at i:3224375 original size:14 final size:14
Alignment explanation
Indices: 3224356--3224387 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
3224346 TAAAAATATT
3224356 AAATTTATAATTGA
1 AAATTTATAATTGA
3224370 AAATTTATAATTGA
1 AAATTTATAATTGA
3224384 AAAT
1 AAAT
3224388 ATTTTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (14 bp):
AAATTTATAATTGA
Found at i:3225787 original size:372 final size:359
Alignment explanation
Indices: 3225113--3225925 Score: 1049
Period size: 372 Copynumber: 2.2 Consensus size: 359
3225103 GATTATATAT
* * * * *
3225113 ATCGGGGCGAATTTGTTTCTAAGACAGTGGTTTTCATCACGACACGGTTTCGGATGTTTATTTGT
1 ATCGGGGCGAATTTGTTTCTAAGACAGTGATTTTCACCACGACACGATTTCAGTTGTTTATTTGT
* * * *
3225178 CCAATATTTTTATTTGTGCCAGTTTCAGACAAAGTTTTAATTCGAAAATTAATCAGGTTTATATT
66 TCAATATTTTTATTTGTGCAAGTTTCAAACAAAATTTTAATTCGAAAATTAATCAGGTTTATATT
* * * *
3225243 TGGTTTTTTACCCCTGAACGAAGCCTATAAATAAGAGGTTTTTCAAGCTTCTCAGCACACTCTCA
131 TGGTCTTTTACCCCTGAACGAAGCCTATAAATAAGACGCTTTTCAAGCTTCTCAACACACTCTCA
** *
3225308 ACTCTCACAAATCCTCTCATTCTAAAGCATTCCAAGTTTCTTTTCTCTGATGCTATCAGAAGAGC
196 ACTCTCACAAATCCTCTCATTCTAAAGCATTCCAAAATTCTTTTCTCTGATCCTATCAGAAGAGC
* * * * * *
3225373 AGTACCATCGATAATCCACTCTAGTTTTGGGTTTATGAATTCTCAGAGCGACCTTGTTAACCTC-
261 AGTACCATCGACAATCCACTCTAGTTTTGGGTGTACGAATTCTCAGAGCAACCATGTTAACATCG
*
3225437 GGGGGACGATTCATCAATTGCAGCGATTACACAC
326 GGGGGACGATCCATCAATTGCAGCGATTACACAC
* * *
3225471 TTCGGGGCGAATTTGTTTCTAAGGCAGTGATTTTCACCATGACACGATTTCAGTTGTTTATTTGT
1 ATCGGGGCGAATTTGTTTCTAAGACAGTGATTTTCACCACGACACGATTTCAGTTGTTTATTTGT
* *
3225536 TTAATATTTTTATTTGTGCAAGTTTCAAACAAAATTTTAATTC-AGAAATTAATCATGTTTATAT
66 TCAATATTTTTATTTGTGCAAGTTTCAAACAAAATTTTAATTCGA-AAATTAATCA-GGTT-TAT
*
3225600 ATGGTTTTGTTGTGGACACTTTTACCCCTGAATGAAGCCTATAAATAGAGACGCTTTTCAAGCTT
128 A----TTTG--GT-----CTTTTACCCCTGAACGAAGCCTATAAATA-AGACGCTTTTCAAGCTT
* *
3225665 CTCAATACACTCTCAACTCTCACAAATCCTCTCATTCTAAAGCATTCCAAAATTCTTTTCTCTGC
181 CTCAACACACTCTCAACTCTCACAAATCCTCTCATTCTAAAGCATTCCAAAATTCTTTTCTCTGA
* * *
3225730 TCCTATCAGAAGAGCAGTACCA-CTGGCAATCCACT-TCGGTTTTGGGTGTACGAATTCTCGGAG
246 TCCTATCAGAAGAGCAGTACCATC-GACAATCCACTCT-AGTTTTGGGTGTACGAATTCTCAGAG
* * *
3225793 TAACCATGTTAACATCGGGGGGACGATCCATCAATTGCAGCGATTATACTC
309 CAACCATGTTAACATCGGGGGGACGATCCATCAATTGCAGCGATTACACAC
* * * * * *
3225844 ATCAGGACGGATTTGTTTCTAAGACCGTGATTTTTACCACGACACAATTTCAGTTGTTTATTTGT
1 ATCGGGGCGAATTTGTTTCTAAGACAGTGATTTTCACCACGACACGATTTCAGTTGTTTATTTGT
*
3225909 TCAATGTTTTTATTTGT
66 TCAATATTTTTATTTGT
3225926 CCTGTTAGTG
Statistics
Matches: 389, Mismatches: 48, Indels: 21
0.85 0.10 0.05
Matches are distributed among these distances:
357 1 0.00
358 105 0.27
359 3 0.01
360 4 0.01
364 4 0.01
366 2 0.01
371 29 0.07
372 139 0.36
373 102 0.26
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (359 bp):
ATCGGGGCGAATTTGTTTCTAAGACAGTGATTTTCACCACGACACGATTTCAGTTGTTTATTTGT
TCAATATTTTTATTTGTGCAAGTTTCAAACAAAATTTTAATTCGAAAATTAATCAGGTTTATATT
TGGTCTTTTACCCCTGAACGAAGCCTATAAATAAGACGCTTTTCAAGCTTCTCAACACACTCTCA
ACTCTCACAAATCCTCTCATTCTAAAGCATTCCAAAATTCTTTTCTCTGATCCTATCAGAAGAGC
AGTACCATCGACAATCCACTCTAGTTTTGGGTGTACGAATTCTCAGAGCAACCATGTTAACATCG
GGGGGACGATCCATCAATTGCAGCGATTACACAC
Found at i:3231244 original size:12 final size:12
Alignment explanation
Indices: 3231227--3231251 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3231217 GTTCTTAAGA
3231227 GAAGATAATGAG
1 GAAGATAATGAG
3231239 GAAGATAATGAG
1 GAAGATAATGAG
3231251 G
1 G
3231252 GTGACGGTGG
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:0.48, C:0.00, G:0.36, T:0.16
Consensus pattern (12 bp):
GAAGATAATGAG
Found at i:3232771 original size:38 final size:38
Alignment explanation
Indices: 3232728--3232823 Score: 156
Period size: 38 Copynumber: 2.5 Consensus size: 38
3232718 CTCGTATAAA
* *
3232728 TGTCCCGAAGGACATATCATCCCGAAGGATGTCATCTG
1 TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTG
*
3232766 TGTCCCGAAGGACCTGTCATCCCGAAGGATGTAATCTG
1 TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTG
*
3232804 TGTCCCGTAGGACCTATCAT
1 TGTCCCGAAGGACCTATCAT
3232824 ATGTCCTATA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (38 bp):
TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTG
Found at i:3232773 original size:21 final size:21
Alignment explanation
Indices: 3232747--3232815 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
3232737 GGACATATCA
3232747 TCCCGAAGGATGTCATCTGTG
1 TCCCGAAGGATGTCATCTGTG
*
3232768 TCCCGAAGGA---C--CTGTCA
1 TCCCGAAGGATGTCATCTGT-G
*
3232785 TCCCGAAGGATGTAATCTGTG
1 TCCCGAAGGATGTCATCTGTG
*
3232806 TCCCGTAGGA
1 TCCCGAAGGA
3232816 CCTATCATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
16 4 0.11
17 10 0.26
18 1 0.03
21 19 0.50
22 4 0.11
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.25
Consensus pattern (21 bp):
TCCCGAAGGATGTCATCTGTG
Found at i:3233029 original size:46 final size:46
Alignment explanation
Indices: 3232972--3233122 Score: 277
Period size: 46 Copynumber: 3.3 Consensus size: 46
3232962 ATGTGTAACC
3232972 ATGT-ATTTCATATCATATCACATGTATCACGTATTACATATTCAT
1 ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
3233017 ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
1 ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
*
3233063 ATGTCATTTCATATCATATCACATGTATCACGTATTGCATATTCAT
1 ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
*
3233109 ATATCATTTCATAT
1 ATGTCATTTCATAT
3233123 AGTCATATAG
Statistics
Matches: 103, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
45 4 0.04
46 99 0.96
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.42
Consensus pattern (46 bp):
ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
Found at i:3233550 original size:21 final size:21
Alignment explanation
Indices: 3233526--3233565 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3233516 TTTTTCCTTT
*
3233526 AGGGGGAATCGATTCCCCCCC
1 AGGGGGAATCGATACCCCCCC
3233547 AGGGGGAATCGATACCCCC
1 AGGGGGAATCGATACCCCC
3233566 TGAACATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.35, G:0.30, T:0.12
Consensus pattern (21 bp):
AGGGGGAATCGATACCCCCCC
Found at i:3237116 original size:21 final size:21
Alignment explanation
Indices: 3237092--3237137 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
3237082 CACTTCTCTG
3237092 TCTGGAGGCAGACCTGGTAAC
1 TCTGGAGGCAGACCTGGTAAC
*
3237113 TCTGTAGGCAGACCTGGTAAC
1 TCTGGAGGCAGACCTGGTAAC
3237134 TCTG
1 TCTG
3237138 CAGGAAATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (21 bp):
TCTGGAGGCAGACCTGGTAAC
Found at i:3237578 original size:29 final size:29
Alignment explanation
Indices: 3237513--3237580 Score: 127
Period size: 29 Copynumber: 2.3 Consensus size: 29
3237503 CACTGTGCCC
*
3237513 CTAATGGATTTGTTACTATCACATCATTA
1 CTAATGGCTTTGTTACTATCACATCATTA
3237542 CTAATGGCTTTGTTACTATCACATCATTA
1 CTAATGGCTTTGTTACTATCACATCATTA
3237571 CTAATGGCTT
1 CTAATGGCTT
3237581 CTAATTGAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (29 bp):
CTAATGGCTTTGTTACTATCACATCATTA
Found at i:3239705 original size:38 final size:38
Alignment explanation
Indices: 3239653--3239748 Score: 147
Period size: 38 Copynumber: 2.5 Consensus size: 38
3239643 CTCGTATAAA
*
3239653 TGTCCCGAATGACCTATCATCCCAAAGGATGTCATCTG
1 TGTCCCGAATGACCTATCATCCCAAAGGATGTAATCTG
* * *
3239691 TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTT
1 TGTCCCGAATGACCTATCATCCCAAAGGATGTAATCTG
*
3239729 TGTCCCGTATGACCTATCAT
1 TGTCCCGAATGACCTATCAT
3239749 ATATCCTATA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (38 bp):
TGTCCCGAATGACCTATCATCCCAAAGGATGTAATCTG
Found at i:3239961 original size:46 final size:46
Alignment explanation
Indices: 3239897--3240001 Score: 176
Period size: 46 Copynumber: 2.3 Consensus size: 46
3239887 ATGTGTAACC
*
3239897 ATGT-ATTTCATATCATATCACATGTATCATGTATTACATATTCAT
1 ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
*
3239942 ATGTCATTTCATATCATATCACATGTATCACGTATTGCATATTCAT
1 ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
*
3239988 ATATCATTTCATAT
1 ATGTCATTTCATAT
3240002 AGTCATATAG
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 4 0.07
46 52 0.93
ACGTcount: A:0.32, C:0.17, G:0.07, T:0.44
Consensus pattern (46 bp):
ATGTCATTTCATATCATATCACATGTATCACGTATTACATATTCAT
Found at i:3240430 original size:20 final size:20
Alignment explanation
Indices: 3240405--3240443 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
3240395 TTTTTCCTTT
*
3240405 AGGGGGAATCGATTCCCCCC
1 AGGGGGAATCGATACCCCCC
3240425 AGGGGGAATCGATACCCCC
1 AGGGGGAATCGATACCCCC
3240444 TGAACATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.33, G:0.31, T:0.13
Consensus pattern (20 bp):
AGGGGGAATCGATACCCCCC
Found at i:3242427 original size:51 final size:51
Alignment explanation
Indices: 3242363--3242467 Score: 210
Period size: 51 Copynumber: 2.1 Consensus size: 51
3242353 TTCCTTATCA
3242363 TAATGAATTAATTAAGTAAAAAGATAAAAGATCTAAAAATAAACTAATCGT
1 TAATGAATTAATTAAGTAAAAAGATAAAAGATCTAAAAATAAACTAATCGT
3242414 TAATGAATTAATTAAGTAAAAAGATAAAAGATCTAAAAATAAACTAATCGT
1 TAATGAATTAATTAAGTAAAAAGATAAAAGATCTAAAAATAAACTAATCGT
3242465 TAA
1 TAA
3242468 AGAAATCAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.57, C:0.06, G:0.10, T:0.28
Consensus pattern (51 bp):
TAATGAATTAATTAAGTAAAAAGATAAAAGATCTAAAAATAAACTAATCGT
Found at i:3244270 original size:34 final size:33
Alignment explanation
Indices: 3244232--3244417 Score: 122
Period size: 34 Copynumber: 5.4 Consensus size: 33
3244222 TCAGAAAACC
*
3244232 ATCTCAAGTGAGATAAAAATTTTCAAGACAAAAT
1 ATCTCAAGTGAGAT-AAAATTTTCAAGAGAAAAT
* * ** *
3244266 ATCTCAAGAGAGATGATTTTTTCTAA-AGAAATT
1 ATCTCAAGTGAGATAAAATTTTC-AAGAGAAAAT
* *
3244299 GTCTCAAGTGAGACAAAAATTTTCAAGAGAAAAT
1 ATCTCAAGTGAGA-TAAAATTTTCAAGAGAAAAT
* * * **
3244333 ATTTCAAGTGAGATGAAATTTTGTTTCAAGTGAAGTT
1 ATCTCAAGTGAGAT-AAA--AT-TTTCAAGAGAAAAT
* * * ** *
3244370 GTCTCGAGTGAGACAAAAAAGTTCAAGGGAAAAT
1 ATCTCAAGTGAGA-TAAAATTTTCAAGAGAAAAT
3244404 ATCTCAAGTGAGAT
1 ATCTCAAGTGAGAT
3244418 GCAATTTTTG
Statistics
Matches: 111, Mismatches: 33, Indels: 17
0.69 0.20 0.11
Matches are distributed among these distances:
33 24 0.22
34 62 0.56
36 1 0.01
37 24 0.22
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (33 bp):
ATCTCAAGTGAGATAAAATTTTCAAGAGAAAAT
Found at i:3244345 original size:17 final size:19
Alignment explanation
Indices: 3244302--3244345 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
3244292 AGAAATTGTC
3244302 TCAAGTGAGACAAAAATTT
1 TCAAGTGAGACAAAAATTT
*
3244321 TCAA--GAGA-AAATA-TT
1 TCAAGTGAGACAAAAATTT
3244336 TCAAGTGAGA
1 TCAAGTGAGA
3244346 TGAAATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
15 6 0.27
16 4 0.18
17 8 0.36
19 4 0.18
ACGTcount: A:0.48, C:0.09, G:0.18, T:0.25
Consensus pattern (19 bp):
TCAAGTGAGACAAAAATTT
Found at i:3244395 original size:71 final size:70
Alignment explanation
Indices: 3244233--3244462 Score: 274
Period size: 71 Copynumber: 3.3 Consensus size: 70
3244223 CAGAAAACCA
* * * *
3244233 TCTCAAGTGAGATAAAAATTTTCAAGACAAAATATCTCAAGAGAGATG--A-TTT-TTTCTAAAG
1 TCTCAAGTGAGACAAAAATTTTCAAGAGAAAATATCTCAAGTGAGATGAAATTTTGTTTC-AAGG
*
3244294 AAATTG
65 AAGTTG
*
3244300 TCTCAAGTGAGACAAAAATTTTCAAGAGAAAATATTTCAAGTGAGATGAAATTTTGTTTCAAGTG
1 TCTCAAGTGAGACAAAAATTTTCAAGAGAAAATATCTCAAGTGAGATGAAATTTTGTTTCAAG-G
3244365 AAGTTG
65 AAGTTG
* ** * *
3244371 TCTCGAGTGAGACAAAAAAGTTCAAGGGAAAATATCTCAAGTGAGATGCAATTTTTGTTTCAAGG
1 TCTCAAGTGAGACAAAAATTTTCAAGAGAAAATATCTCAAGTGAGATG-AAATTTTGTTTCAAGG
3244436 -AGATTG
65 AAG-TTG
*
3244442 TCTCAAGTGAGA-TAAAATTTT
1 TCTCAAGTGAGACAAAAATTTT
3244463 GTTTCGAGTG
Statistics
Matches: 140, Mismatches: 16, Indels: 11
0.84 0.10 0.07
Matches are distributed among these distances:
67 44 0.31
69 1 0.01
70 13 0.09
71 68 0.49
72 14 0.10
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (70 bp):
TCTCAAGTGAGACAAAAATTTTCAAGAGAAAATATCTCAAGTGAGATGAAATTTTGTTTCAAGGA
AGTTG
Found at i:3244481 original size:37 final size:37
Alignment explanation
Indices: 3244293--3244495 Score: 143
Period size: 37 Copynumber: 5.6 Consensus size: 37
3244283 TTTTTCTAAA
* * *
3244293 GAAATTGTCTCAAGTGAGACAAAA--AT-TTTCAAGA
1 GAAATTGTCTCAAGTGAGATAAAATTTTGTTTCAAGT
* * * *
3244327 GAAAATATTTCAAGTGAGATGAAATTTTGTTTCAAGT
1 GAAATTGTCTCAAGTGAGATAAAATTTTGTTTCAAGT
* * * ** *
3244364 GAAGTTGTCTCGAGTGAGACAAAA--AAG-TTCAAGG
1 GAAATTGTCTCAAGTGAGATAAAATTTTGTTTCAAGT
* * * *
3244398 GAAAATATCTCAAGTGAGATGCAATTTTTGTTTCAAG-
1 GAAATTGTCTCAAGTGAGAT-AAAATTTTGTTTCAAGT
* *
3244435 GAGATTGTCTCAAGTGAGATAAAATTTTGTTTCGAGT
1 GAAATTGTCTCAAGTGAGATAAAATTTTGTTTCAAGT
* *
3244472 GAAACTGTCTCGAA-TGAGACAAAA
1 GAAATTGTCTC-AAGTGAGATAAAA
3244496 ATTGTTTTTT
Statistics
Matches: 125, Mismatches: 35, Indels: 15
0.71 0.20 0.09
Matches are distributed among these distances:
34 40 0.32
35 3 0.02
36 14 0.11
37 60 0.48
38 8 0.06
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (37 bp):
GAAATTGTCTCAAGTGAGATAAAATTTTGTTTCAAGT
Found at i:3248944 original size:3 final size:3
Alignment explanation
Indices: 3248936--3249010 Score: 114
Period size: 3 Copynumber: 24.0 Consensus size: 3
3248926 ATTTTAAAAT
3248936 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
3248984 TATA TTA TATA TTA TTTA TTA ATA TTA
1 T-TA TTA T-TA TTA -TTA TTA TTA TTA
3249011 CAAAACCCAA
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
3 58 0.87
4 9 0.13
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:3251510 original size:9 final size:9
Alignment explanation
Indices: 3251496--3251520 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
3251486 TTACATGTGA
3251496 ATTTAAATT
1 ATTTAAATT
3251505 ATTTAAATT
1 ATTTAAATT
3251514 ATTTAAA
1 ATTTAAA
3251521 AGCATGTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
ATTTAAATT
Found at i:3254310 original size:15 final size:15
Alignment explanation
Indices: 3254290--3254321 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3254280 ATCAATAACT
3254290 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
3254305 TTTTGCATACATTCA
1 TTTTGCATACATGCA
3254320 TT
1 TT
3254322 ATTCATTTCA
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:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:3261615 original size:10 final size:10
Alignment explanation
Indices: 3261600--3261650 Score: 68
Period size: 10 Copynumber: 5.1 Consensus size: 10
3261590 GCTTGAAGAG
3261600 AAAAAGAAAA
1 AAAAAGAAAA
*
3261610 AAAAAGAAAG
1 AAAAAGAAAA
3261620 AAAAA-AAAA
1 AAAAAGAAAA
*
3261629 GAAAAGAAAA
1 AAAAAGAAAA
3261639 AAGAAAGAAAA
1 AA-AAAGAAAA
3261650 A
1 A
3261651 GGAAAAAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
9 7 0.20
10 19 0.54
11 9 0.26
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:3261619 original size:4 final size:4
Alignment explanation
Indices: 3261602--3261648 Score: 50
Period size: 4 Copynumber: 12.8 Consensus size: 4
3261592 TTGAAGAGAA
3261602 AAAG AAA- AAA- AAAG AAAG AAA- AAA- AAAG AAAAG AAA- AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG -AAAG AAAG AAAG AAAG
3261646 AAA
1 AAA
3261649 AAGGAAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
3 15 0.38
4 20 0.51
5 4 0.10
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:3261621 original size:14 final size:14
Alignment explanation
Indices: 3261602--3261648 Score: 76
Period size: 14 Copynumber: 3.2 Consensus size: 14
3261592 TTGAAGAGAA
3261602 AAAGAAAAAAAAAG
1 AAAGAAAAAAAAAG
3261616 AAAGAAAAAAAAAG
1 AAAGAAAAAAAAAG
3261630 AAAAGAAAAAAGAAAG
1 -AAAGAAAAAA-AAAG
3261646 AAA
1 AAA
3261649 AAGGAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
14 14 0.45
15 13 0.42
16 4 0.13
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAAAAG
Found at i:3261645 original size:26 final size:24
Alignment explanation
Indices: 3261600--3261650 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 24
3261590 GCTTGAAGAG
3261600 AAAAAGAAAAAAAAAGAAAGAAAA
1 AAAAAGAAAAAAAAAGAAAGAAAA
3261624 AAAAAGAAAAGAAAAAAGAAAGAAAA
1 AAAAAG-AAA-AAAAAAGAAAGAAAA
3261650 A
1 A
3261651 GGAAAAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 6 0.24
25 3 0.12
26 16 0.64
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (24 bp):
AAAAAGAAAAAAAAAGAAAGAAAA
Found at i:3261651 original size:10 final size:10
Alignment explanation
Indices: 3261598--3261660 Score: 64
Period size: 10 Copynumber: 6.8 Consensus size: 10
3261588 ATGCTTGAAG
3261598 AGAAAAAGAA
1 AGAAAAAGAA
*
3261608 AAAAAAAGAA
1 AGAAAAAGAA
*
3261618 AGAAAAAAAA
1 AGAAAAAGAA
3261628 AG-AAAAG--
1 AGAAAAAGAA
3261635 A-AAAAAGAA
1 AGAAAAAGAA
*
3261644 AGAAAAAGGA
1 AGAAAAAGAA
3261654 A-AAAAAG
1 AGAAAAAG
3261661 GGGGGTCAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
7 6 0.14
9 11 0.25
10 27 0.61
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AGAAAAAGAA
Found at i:3261659 original size:26 final size:25
Alignment explanation
Indices: 3261598--3261660 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 25
3261588 ATGCTTGAAG
*
3261598 AGAAAAAGAAAAAAAAAGAAAGAAAA
1 AGAAAAA-AAGAAAAAAGAAAGAAAA
*
3261624 AAAAAGAAAAGAAAAAAGAAAGAAAA
1 AGAAA-AAAAGAAAAAAGAAAGAAAA
3261650 AGGAAAAAAAG
1 A-GAAAAAAAG
3261661 GGGGGTCAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 27 0.84
27 5 0.16
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (25 bp):
AGAAAAAAAGAAAAAAGAAAGAAAA
Found at i:3263104 original size:92 final size:92
Alignment explanation
Indices: 3262944--3263124 Score: 292
Period size: 92 Copynumber: 2.0 Consensus size: 92
3262934 AAAATCAATC
* *
3262944 ATTGAATTTGGAAGAGGAATGTGCTCATTGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
1 ATTGAATTTGGAAGAGGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
* *
3263009 GGTTTGGTAT-GAACCACAGAACCAGTT
66 GGTTTGATATAAAACC-CAGAACCAGTT
* *
3263036 ATTGAATTTGGAAGAGGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTCTCTGATTT
1 ATTGAATTTGGAAGAGGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
3263101 GGTTTGATATAAAACCCAGAACCA
66 GGTTTGATATAAAACCCAGAACCA
3263125 ATATTTGAAT
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
92 78 0.95
93 4 0.05
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (92 bp):
ATTGAATTTGGAAGAGGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
GGTTTGATATAAAACCCAGAACCAGTT
Found at i:3263603 original size:95 final size:94
Alignment explanation
Indices: 3263430--3263626 Score: 349
Period size: 95 Copynumber: 2.1 Consensus size: 94
3263420 TATTCTCCTC
* *
3263430 ATCAAAATCAAATTCAAGATTTCTCGGTATTAAAAGAACTATCGATATCTGTGAAATCATCTTGA
1 ATCAGAATCAAATTCAAGATTTCTCGGTATTAAAAGAACTATCGATATCTATGAAATCATCTTGA
*
3263495 AAGATCACTTCATAATCAGATGAGTTGTT
66 AAGATCACTTCATAATCAGATAAGTTGTT
3263524 ATCAGAATCAGAATTCAAGATTTCTCGGTATTAAAAGAACTATCGATATCTATGAAATCATCTTG
1 ATCAGAATCA-AATTCAAGATTTCTCGGTATTAAAAGAACTATCGATATCTATGAAATCATCTTG
3263589 AAAGATCACTTCATAATCAGATAAGTTGTT
65 AAAGATCACTTCATAATCAGATAAGTTGTT
*
3263619 ACCAGAAT
1 ATCAGAAT
3263627 TAACATGTTG
Statistics
Matches: 98, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
94 9 0.09
95 89 0.91
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (94 bp):
ATCAGAATCAAATTCAAGATTTCTCGGTATTAAAAGAACTATCGATATCTATGAAATCATCTTGA
AAGATCACTTCATAATCAGATAAGTTGTT
Found at i:3264497 original size:117 final size:113
Alignment explanation
Indices: 3263964--3264832 Score: 1189
Period size: 113 Copynumber: 7.7 Consensus size: 113
3263954 TGTCAGTTAG
* * *
3263964 AGTTCATAATGAGAAGAACTCATCTGAAG-AGAGAAGAAGAAGTTCATAATAAGAAGAACTTGTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAG-GAAGAAGAAATTCATAATGAGAAGAATTTGTT
* * *
3264028 CAA-CTTTTTCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAA
65 CAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAA
*
3264076 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
* *
3264141 AA-CTTTTGCTCAAATCCATCACTTGATGGATTAGC--TTGCAGAGAA
66 AACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAA
*
3264186 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
* *
3264251 AACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAA
66 AACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAA
3264299 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
* * * *
3264364 AACCTTTTGCTTAAATCCATCATTTGATGAATCAGCTTTTTCCAG-GTAG
66 AACCTTTTGCTCAAATCCATCACTTGATGGATCAGC-TTTTCCAGAG-AA
* *
3264413 AGTTCATAATGAGAAGAACTCATTACTTGAAGGAGGAAGAAGAAATTCATAATGAAAAGAATTTG
1 AGTTCATAATGAGAAGAACTCA-T-C-TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTG
* * * *
3264478 TTCAACCTTATGCTCAAATCCATCATTTGATGGATCAGATTTTTCCAG-GTAG
63 TTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAG-CTTTTCCAGAG-AA
*
3264530 AGTTCATAATGAGAAGAACTCATTACTTGAAGGAGGAAGAAGAAATTCATAATGAGAAGAATTTG
1 AGTTCATAATGAGAAGAACTCA-T-C-TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTG
* * ** *
3264595 TTCAACCTTATGCTCAAATCCATCACTTGATGGATCAGCTTTTTCAGTTAG
63 TTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAA
* *
3264646 AGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAA-AAAGTTCATAATGAGAAGAACTTGTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA-TTCATAATGAGAAGAATTTGTT
* * * * *
3264710 TAACCTTTTGTTCAAATTCATCACTTGATGGATCAACATTTCCAGAGAA
65 CAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAA
* * * * * **
3264759 AGTTCATAATAAGAAGAACTTATTTGAAG-AGGAAGAAGAAGTTCACAATGAGAAGACCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
3264823 AACCTTTTGC
66 AACCTTTTGC
3264833 ATAATTCTAT
Statistics
Matches: 695, Mismatches: 49, Indels: 26
0.90 0.06 0.03
Matches are distributed among these distances:
110 75 0.11
111 33 0.05
112 132 0.19
113 207 0.30
114 31 0.04
115 2 0.00
116 31 0.04
117 184 0.26
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
AACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAA
Found at i:3264619 original size:347 final size:340
Alignment explanation
Indices: 3263964--3264828 Score: 1182
Period size: 347 Copynumber: 2.5 Consensus size: 340
3263954 TGTCAGTTAG
* *
3263964 AGTTCATAATGAGAAGAACTCATCTGAAG-AGAGAAGAAGAAGTTCATAATAAGAAGAACTTGTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAG-GAAGAAGAAATTCATAATGAGAAGAACTTGTT
* * * *
3264028 CAA-CTTTTTCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATAAGAAG
65 CAACCTTTTGCTTAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATAAGAAG
* *
3264092 AACTCA-T-C-TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAA-CTTTTGCTCA
130 AACTCATTACTTGAAGGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTCA
* *
3264153 AATCCATCACTTGATGGATTAGCTTGCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAG
195 AATCCATCACTTGATGGATCAGCTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAG
*
3264218 GAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGAT
260 GAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCACTTGATGGAT
*
3264283 TAGCTTTGCCAGAGAA
325 CAGCTTTGCCAGAGAA
*
3264299 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTC
* * * *
3264364 AACCTTTTGCTTAAATCCATCATTTGATGAATCAGCTTTTTCCAG-GTAGAGTTCATAATGAGAA
66 AACCTTTTGCTTAAATCCATCACTTGATGGATCAGC-TTTTCCAGAG-AAAGTTCATAATAAGAA
*
3264428 GAACTCATTACTTGAAGGAGGAAGAAGAAATTCATAATGAAAAGAATTTGTTCAACCTTATGCTC
129 GAACTCATTACTTGAAGGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
* * * *
3264493 AAATCCATCATTTGATGGATCAGATTTTTCCAG-GTAGAGTTCATAATGAGAAGAACTCATTACT
194 AAATCCATCACTTGATGGATCAG---CTTCCAGAG-AAAGTTCATAATAAGAAGAACTCA-T-C-
*
3264557 TGAAGGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCACT
252 TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCACT
** ** *
3264622 TGATGGATCAGCTTTTTCAGTTAG
317 TGATGGATCAGCTTTGCCAGAGAA
*
3264646 AGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAA-AAAGTTCATAATGAGAAGAACTTGTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA-TTCATAATGAGAAGAACTTGTT
* * * *
3264710 TAACCTTTTG-TTCAAATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAA
65 CAACCTTTTGCTT-AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATAAGAA
* * * **
3264774 GAA--C-TTATTTGAA-GAGGAAGAAGAAGTTCACAATGAGAAGACCTTGTTCAACCTT
129 GAACTCATTACTTGAAGGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTT
3264829 TTGCATAATT
Statistics
Matches: 468, Mismatches: 44, Indels: 29
0.87 0.08 0.05
Matches are distributed among these distances:
335 61 0.13
336 31 0.07
337 29 0.06
338 1 0.00
339 1 0.00
340 41 0.09
341 29 0.06
342 37 0.08
343 9 0.02
344 28 0.06
345 1 0.00
346 31 0.07
347 169 0.36
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (340 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTC
AACCTTTTGCTTAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATAAGAAGA
ACTCATTACTTGAAGGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTCAA
ATCCATCACTTGATGGATCAGCTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGG
AAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCACTTGATGGATC
AGCTTTGCCAGAGAA
Found at i:3264965 original size:123 final size:123
Alignment explanation
Indices: 3264744--3264973 Score: 336
Period size: 123 Copynumber: 1.9 Consensus size: 123
3264734 TTGATGGATC
* * * * * * *
3264744 AACATTTCCAGAGAAAGTTCATAATAAGAAGAACTTATTTGAAGAGGAAGAAGAAGTTCACAATG
1 AACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAAAGAAAGAAAAAGTTCAAAATA
* * * *
3264809 AGAAGACCTTGTTCAACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCATA
66 AGAAGAACTTATTCAACCTTTTGAATAACTCTATCACAGAAGCAGATAGATTAGCATA
3264867 AACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAAAAGAAAGAAAAAGTTCAAAAT
1 AACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTG-AAAAGAAAGAAAAAGTTCAAAAT
*
3264932 AAGAAGAACTTATTCAACC-TTTGAATGACTCTATCACAGAAG
65 AAGAAGAACTTATTCAACCTTTTGAATAACTCTATCACAGAAG
3264974 GAAATAGGTC
Statistics
Matches: 94, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
123 59 0.63
124 35 0.37
ACGTcount: A:0.45, C:0.15, G:0.16, T:0.24
Consensus pattern (123 bp):
AACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAAAGAAAGAAAAAGTTCAAAATA
AGAAGAACTTATTCAACCTTTTGAATAACTCTATCACAGAAGCAGATAGATTAGCATA
Found at i:3265191 original size:3 final size:3
Alignment explanation
Indices: 3265185--3265244 Score: 84
Period size: 3 Copynumber: 19.0 Consensus size: 3
3265175 ATTTTAAAAT
3265185 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA T-TA TTA
*
3265232 TTTA TTA ATA TTA
1 -TTA TTA TTA TTA
3265245 CAAAACCCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
3 43 0.83
4 9 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:3267729 original size:30 final size:30
Alignment explanation
Indices: 3267695--3267755 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
3267685 CTTTGATATT
3267695 AAAAATAAATAAATAT-TAAAATTTATCAAA
1 AAAAATAAATAAATATATAAAATTTAT-AAA
* * *
3267725 AAAAATAGATTAATATATACAATTTATAAA
1 AAAAATAAATAAATATATAAAATTTATAAA
3267755 A
1 A
3267756 GTAGGACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 18 0.67
31 9 0.33
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (30 bp):
AAAAATAAATAAATATATAAAATTTATAAA
Found at i:3268976 original size:18 final size:17
Alignment explanation
Indices: 3268944--3268986 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
3268934 TTCTGTTTCC
*
3268944 TGTTCTCGTTTCTCTCG
1 TGTTCTCGTTGCTCTCG
3268961 TGTTCTCCGTTGCTCTC-
1 TGTTCT-CGTTGCTCTCG
*
3268978 TGTCCTCGT
1 TGTTCTCGT
3268987 CTTTCTTGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 3 0.13
17 11 0.48
18 9 0.39
ACGTcount: A:0.00, C:0.33, G:0.19, T:0.49
Consensus pattern (17 bp):
TGTTCTCGTTGCTCTCG
Found at i:3269349 original size:3 final size:3
Alignment explanation
Indices: 3269343--3269396 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
3269333 TATTTTATTT
* *
3269343 ATA ATA ATA AT- ATA ATA ATTA AT- ATA ATA ATA ATA ATA AAA ACA
1 ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA
*
3269387 AAA ATA ATA A
1 ATA ATA ATA A
3269397 AAAAAATTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
2 4 0.09
3 37 0.84
4 3 0.07
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:3269786 original size:150 final size:152
Alignment explanation
Indices: 3269540--3270986 Score: 2412
Period size: 150 Copynumber: 9.5 Consensus size: 152
3269530 GGTCTTATGA
* *
3269540 ATGACCCTG-AGGGTTTGAAAACATCAAAAAACTCCCGAAGGCTTTTTTGGAAACATCATGCACT
1 ATGACCC-GAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC-TTTTTGGAAACATCATGCACT
*
3269604 GAAGGACTTACAGATGACCCTG-AGGATTTGAAAACATCAAAAAGCT-CCGAAGGCTTTTTGGAA
64 GAAGGACTTACAGATGACCC-GAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAA
*
3269667 ACACCATGCACTGAAGGACTTACAG
128 ACATCATGCACTGAAGGACTTACAG
*
3269692 ATG-CCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
*
3269756 AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTT-GAAACA
66 AGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
*
3269820 TCATGTACTGAAGGACTTACAG
131 TCATGCACTGAAGGACTTACAG
3269842 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCT--CGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
3269905 AGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
66 AGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
3269970 TCATGCACTGAAGGACTTACAG
131 TCATGCACTGAAGGACTTACAG
3269992 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
3270057 AGGACTTACAG-TGACCCGAAGGCTTTGAAAACATC-AAAAGCTCCCGAAGGCTTTTTGGAAACA
66 AGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
3270120 TCATGCACTGAAGGACTTACAG
131 TCATGCACTGAAGGACTTACAG
*
3270142 ATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG-
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
3270206 AGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
66 AGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
*
3270271 TCATGCACTGAAGGACTT--AT
131 TCATGCACTGAAGGACTTACAG
3270291 ATGA-CCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTTGGAAACATCATGCACTG
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC-TTTTTGGAAACATCATGCACTG
* *
3270355 AAAGACTTACAGATGA-CCGAAAGCTTTGAAAACATCAAAAAGCTCCCGAA-GCTTTTTGGAAAC
65 AAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAAC
3270418 ATCATGCACTGAAGGAC-TACAG
130 ATCATGCACTGAAGGACTTACAG
3270440 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
* *
3270505 AGGACTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGATCCCGAAGGCTTTTTGGAAACA
66 AGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
3270570 TCATGCACTGAAGGACTTACAG
131 TCATGCACTGAAGGACTTACAG
*
3270592 ATGACCCGAAGGCTTTGAAAACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
*
3270657 AGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCC-AA-GCCTTTTGGAAACA
66 AGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
3270720 TCATGCACTGAAGGACTTACAG
131 TCATGCACTGAAGGACTTACAG
*
3270742 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCC-AA-GCCTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
*
3270805 AGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCACATCAAAAAGCTCCCGA
66 AGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT--C-C--C--GAA------G-
*
3270870 AGCCTTTTGGAAACATCATGCACTGAAGGACTTACAG
117 -GCTTTTTGGAAACATCATGCACTGAAGGACTTACAG
3270907 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
*
3270972 AGGAATTACAGATGA
66 AGGACTTACAGATGA
3270987 GGGAAATAGT
Statistics
Matches: 1231, Mismatches: 28, Indels: 57
0.94 0.02 0.04
Matches are distributed among these distances:
147 1 0.00
148 134 0.11
149 202 0.16
150 443 0.36
151 178 0.14
152 158 0.13
153 1 0.00
156 2 0.00
165 72 0.06
166 2 0.00
167 38 0.03
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (152 bp):
ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
AGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
TCATGCACTGAAGGACTTACAG
Found at i:3269814 original size:76 final size:76
Alignment explanation
Indices: 3269540--3270851 Score: 2304
Period size: 76 Copynumber: 17.5 Consensus size: 76
3269530 GGTCTTATGA
* *
3269540 ATGACCCTG-AGGGTTTGAAAACATCAAAAAACTCCCGAAGGCTTTTTTGGAAACATCATGCACT
1 ATGACCC-GAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC-TTTTTGGAAACATCATGCACT
3269604 GAAGGACTTACAG
64 GAAGGACTTACAG
* *
3269617 ATGACCCTG-AGGATTTGAAAACATCAAAAAGCT-CCGAAGGCTTTTTGGAAACACCATGCACTG
1 ATGACCC-GAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
3269680 AAGGACTTACAG
65 AAGGACTTACAG
*
3269692 ATG-CCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
3269756 AGGACTTACAG
66 AGGACTTACAG
* *
3269767 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTT-GAAACATCATGTACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
3269831 AGGACTTACAG
66 AGGACTTACAG
3269842 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCT--CGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
3269905 AGGACTTACAG
66 AGGACTTACAG
3269916 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
3269981 AGGACTTACAG
66 AGGACTTACAG
3269992 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
3270057 AGGACTTACAG
66 AGGACTTACAG
3270068 -TGACCCGAAGGCTTTGAAAACATC-AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
3270131 AGGACTTACAG
66 AGGACTTACAG
*
3270142 ATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG-
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
3270206 AGGACTTACAG
66 AGGACTTACAG
3270217 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
*
3270282 AGGACTT--AT
66 AGGACTTACAG
3270291 ATGA-CCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTTGGAAACATCATGCACTG
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC-TTTTTGGAAACATCATGCACTG
*
3270355 AAAGACTTACAG
65 AAGGACTTACAG
*
3270367 ATGA-CCGAAAGCTTTGAAAACATCAAAAAGCTCCCGAA-GCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
3270430 AGGAC-TACAG
66 AGGACTTACAG
3270440 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
3270505 AGGACTTACAG
66 AGGACTTACAG
* *
3270516 ATGACCCGAAGGCTTTGAAAATATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
3270581 AGGACTTACAG
66 AGGACTTACAG
*
3270592 ATGACCCGAAGGCTTTGAAAACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
3270657 AGGACTTACAG
66 AGGACTTACAG
*
3270668 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCC-AA-GCCTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
3270731 AGGACTTACAG
66 AGGACTTACAG
*
3270742 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCC-AA-GCCTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
3270805 AGGACTTACAG
66 AGGACTTACAG
3270816 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCC
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCC
3270852 ACATCAAAAA
Statistics
Matches: 1196, Mismatches: 24, Indels: 33
0.95 0.02 0.03
Matches are distributed among these distances:
73 58 0.05
74 375 0.31
75 294 0.25
76 438 0.37
77 31 0.03
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (76 bp):
ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
AGGACTTACAG
Found at i:3270231 original size:375 final size:379
Alignment explanation
Indices: 3269540--3270986 Score: 2401
Period size: 375 Copynumber: 3.8 Consensus size: 379
3269530 GGTCTTATGA
* *
3269540 ATGACCCTG-AGGGTTTGAAAACATCAAAAAACTCCCGAAGGCTTTTTTGGAAACATCATGCACT
1 ATGACCC-GAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTTGGAAACATCATGCACT
*
3269604 GAAGGACTTACAGATGACCCTG-AGGATTTGAAAACATCAAAAAGCT-CCGAAGGCTTTTTGGAA
65 GAAGGACTTACAGATGACCC-GAAGGCTTTGAAAACATCAAAAAGCTCCCGAA-GCTTTTTGGAA
* *
3269667 ACACCATGCACTGAAGGACTTACAGATG-CCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
128 ACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAG
*
3269731 GCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAA
193 GCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAA
*
3269796 AGCTCCCGAAGGCTTTTT-GAAACATCATGTACTGAAGGACTTACAGATGACCCGAAGGCTTTGA
258 AGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGA
3269860 AAACATCAAAAAGCT-CGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAG
323 AAACATCAAAAAGCTCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAG
3269916 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC-TTTTTGGAAACATCATGCACTG
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTTGGAAACATCATGCACTG
3269980 AAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAAC
66 AAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAA-GCTTTTTGGAAAC
3270045 ATCATGCACTGAAGGACTTACAG-TGACCCGAAGGCTTTGAAAACATC-AAAAGCTCCCGAAGGC
130 ATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC
*
3270108 TTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAG
195 TTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAG
3270173 CTCCCGAAGGCTTTTTGGAAACATCATGCACTG-AGGACTTACAGATGACCCGAAGGCTTTGAAA
260 CTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAA
*
3270237 ACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTT--AT
325 ACATCAAAAAGCT-CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAG
3270291 ATGA-CCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTTGGAAACATCATGCACTG
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTTGGAAACATCATGCACTG
* *
3270355 AAAGACTTACAGATGA-CCGAAAGCTTTGAAAACATCAAAAAGCTCCCGAAGCTTTTTGGAAACA
66 AAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGCTTTTTGGAAACA
3270419 TCATGCACTGAAGGAC-TACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
131 TCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
* *
3270483 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGA
196 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
3270548 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAA
261 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAA
*
3270613 CATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAG
326 CATCAAAAAGCT-CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAG
*
3270668 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCC-AA-GC-CTTTTGGAAACATCATGCACTG
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTTGGAAACATCATGCACTG
*
3270730 AAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCC-AAGCCTTTTGGAAACA
66 AAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGCTTTTTGGAAACA
3270794 TCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCACATCAA
131 TCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT--C-C--C--
* *
3270859 AAAGCTCCCGAAGCCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG
189 GAA------G--GCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG
*
3270924 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGAATTACAGATGA
246 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
3270987 GGGAAATAGT
Statistics
Matches: 1017, Mismatches: 23, Indels: 47
0.94 0.02 0.04
Matches are distributed among these distances:
372 5 0.00
373 54 0.05
374 184 0.18
375 397 0.39
376 184 0.18
377 44 0.04
378 32 0.03
379 1 0.00
381 1 0.00
383 2 0.00
389 1 0.00
391 112 0.11
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (379 bp):
ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTTGGAAACATCATGCACTG
AAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGCTTTTTGGAAACA
TCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCT
TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAA
CATCAAAAAGCTCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAG
Found at i:3270857 original size:16 final size:16
Alignment explanation
Indices: 3270836--3270867 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
3270826 GGCTTTGAAA
3270836 ACATCAAAAAGCTCCC
1 ACATCAAAAAGCTCCC
3270852 ACATCAAAAAGCTCCC
1 ACATCAAAAAGCTCCC
3270868 GAAGCCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.38, G:0.06, T:0.12
Consensus pattern (16 bp):
ACATCAAAAAGCTCCC
Found at i:3270916 original size:91 final size:90
Alignment explanation
Indices: 3270762--3270942 Score: 353
Period size: 91 Copynumber: 2.0 Consensus size: 90
3270752 GGCTTTGAAA
3270762 ACATCAAAAAGCTCCCAAGCCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAG
1 ACATCAAAAAGCTCCCAAGCCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAG
3270827 GCTTTGAAAACATCAAAAAGCTCCC
66 GCTTTGAAAACATCAAAAAGCTCCC
3270852 ACATCAAAAAGCTCCCGAAGCCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAA
1 ACATCAAAAAGCTCCC-AAGCCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAA
3270917 GGCTTTGAAAACATCAAAAAGCTCCC
65 GGCTTTGAAAACATCAAAAAGCTCCC
3270943 GAAGGCTTTT
Statistics
Matches: 90, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
90 16 0.18
91 74 0.82
ACGTcount: A:0.38, C:0.27, G:0.17, T:0.19
Consensus pattern (90 bp):
ACATCAAAAAGCTCCCAAGCCTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAG
GCTTTGAAAACATCAAAAAGCTCCC
Found at i:3274277 original size:110 final size:114
Alignment explanation
Indices: 3274105--3274425 Score: 497
Period size: 114 Copynumber: 2.8 Consensus size: 114
3274095 ATCATGTAGT
* * *
3274105 TTCACCTTTCAATTCCAATGATTGGTTATGGGGATTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTATGGGG-TTTATACCAAACCAGATCAGATAACTCAAAG
*
3274170 AACACTTCCAG-A-A-GCTA-TGGGTCTCCTTATTTTTACTATGAGCAAA
65 AACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTTTACTATGAACAAA
*
3274216 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTTATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTATGGGGTTTATACCAAACCAGATCAGATAACTCAAAGA
*
3274281 ATACTTCCAGAAGATGCTATTGGGTCTCCTTATTTTTACTATGAACAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTTTACTATGAACAAA
* *
3274330 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTATGGGGTTT-ATACCAAACCAGATCAGATAACTCAAAG
* * *
3274395 AACACTTTCAGGAGATGCTATTGAGTCTCCT
65 AACACTTCCAGAAGATGCTATTGGGTCTCCT
3274426 CTTCCAAATT
Statistics
Matches: 193, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
110 40 0.21
111 31 0.16
112 1 0.01
113 4 0.02
114 62 0.32
115 55 0.28
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTATGGGGTTTATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTTTACTATGAACAAA
Found at i:3276476 original size:9 final size:9
Alignment explanation
Indices: 3276462--3276514 Score: 67
Period size: 9 Copynumber: 6.0 Consensus size: 9
3276452 TCTTGATTAA
3276462 TTTTTTCTT
1 TTTTTTCTT
3276471 TTTTTTC--
1 TTTTTTCTT
3276478 -TTTTTCTT
1 TTTTTTCTT
3276486 TTTTTTCCTTT
1 TTTTTT-C-TT
3276497 TTTTTTCTT
1 TTTTTTCTT
3276506 TTTTTTCTT
1 TTTTTTCTT
3276515 CTTTCTTTGC
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
6 6 0.15
9 23 0.59
10 2 0.05
11 8 0.21
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:3276481 original size:15 final size:15
Alignment explanation
Indices: 3276463--3276514 Score: 72
Period size: 15 Copynumber: 3.5 Consensus size: 15
3276453 CTTGATTAAT
3276463 TTTTTCTTTTTTTTC
1 TTTTTCTTTTTTTTC
3276478 TTTTTCTTTTTTTTCC
1 TTTTTCTTTTTTTT-C
*
3276494 TTTTT-TTTTCTTT-
1 TTTTTCTTTTTTTTC
3276507 TTTTTCTT
1 TTTTTCTT
3276515 CTTTCTTTGC
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
13 5 0.15
14 2 0.06
15 21 0.62
16 6 0.18
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTTCTTTTTTTTC
Found at i:3276482 original size:10 final size:10
Alignment explanation
Indices: 3276462--3276511 Score: 64
Period size: 10 Copynumber: 4.8 Consensus size: 10
3276452 TCTTGATTAA
*
3276462 TTTTTTCTTTT
1 TTTTTT-TTTC
3276473 TTTTCTTTTTC
1 TTTT-TTTTTC
*
3276484 TTTTTTTTCC
1 TTTTTTTTTC
3276494 TTTTTTTTTC
1 TTTTTTTTTC
3276504 TTTTTTTT
1 TTTTTTTT
3276512 CTTCTTTCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
10 22 0.63
11 11 0.31
12 2 0.06
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:3276501 original size:20 final size:21
Alignment explanation
Indices: 3276473--3276522 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
3276463 TTTTTCTTTT
3276473 TTTTCTTTTTCTTTTTTTTCC
1 TTTTCTTTTTCTTTTTTTTCC
*
3276494 TTTT-TTTTTCTTTTTTTTCT
1 TTTTCTTTTTCTTTTTTTTCC
3276514 TCTTTCTTT
1 T-TTTCTTT
3276523 GCTGGATGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 16 0.62
21 7 0.27
22 3 0.12
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (21 bp):
TTTTCTTTTTCTTTTTTTTCC
Found at i:3276820 original size:2 final size:2
Alignment explanation
Indices: 3276813--3276847 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3276803 ACAACAAAGG
3276813 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3276848 AAGGATAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3279087 original size:15 final size:13
Alignment explanation
Indices: 3279056--3279095 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
3279046 ATAAAGTATG
*
3279056 AATGAAAATGAAA
1 AATGAAAATGCAA
3279069 AATGCAAAGATGCAA
1 AATG-AAA-ATGCAA
3279084 AATGAAAATGCA
1 AATGAAAATGCA
3279096 TGTATGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 9 0.38
14 6 0.25
15 9 0.38
ACGTcount: A:0.60, C:0.07, G:0.17, T:0.15
Consensus pattern (13 bp):
AATGAAAATGCAA
Found at i:3281081 original size:25 final size:24
Alignment explanation
Indices: 3281037--3281101 Score: 64
Period size: 25 Copynumber: 2.8 Consensus size: 24
3281027 TCTAACAGAA
*
3281037 AAATAAATAATAAAATAAAACTAT
1 AAATAAATAATAAAATAAAAATAT
*
3281061 AAATAAATGAATATTAA-AAAAATAT
1 AAATAAAT-AATA-AAATAAAAATAT
*
3281086 AAA-AACT-ATAAAATAA
1 AAATAAATAATAAAATAA
3281102 TAAGTATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
21 2 0.06
22 5 0.15
24 11 0.32
25 14 0.41
26 2 0.06
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.25
Consensus pattern (24 bp):
AAATAAATAATAAAATAAAAATAT
Found at i:3281762 original size:128 final size:125
Alignment explanation
Indices: 3281568--3281825 Score: 283
Period size: 128 Copynumber: 2.0 Consensus size: 125
3281558 AATTTAAGTA
* * * *
3281568 AATTATTAATTTATATAATAAATATTTATTTATTTGAAATATCGAAAGAGCTTCTAGGGTTTTAA
1 AATTATTAATTTATAAAATAAACATTTATTTATTTAAAATATCGAAAGAGCTTCTAGGGTATTAA
* * *
3281633 GACAGTTCCTTCCTT-TATATTAAAAAATAAATAAATATTAAAACATTATCAAA-AAAAAAAAT
66 G--AGCT-CTTCCTTAGATATTAAAAAATAAAT-AATATCAAAACATTATCAAAGAAAAAAAAT
* *
3281695 AATTAATTATTTTATAAAATAGACATTTATTT-TTTAAAATATCAGAAA-AGGACTTCTA-GGTA
1 AATT-ATTAATTTATAAAATAAACATTTATTTATTTAAAATATC-GAAAGA-G-CTTCTAGGGTA
* * * *
3281757 TTAAGAGCTCTTTCTTAGATATTAAAAAATAAATAATATCAAAATATTATTAAAGTAAATAAAAT
62 TTAAGAGCTCTTCCTTAGATATTAAAAAATAAATAATATCAAAACATTATCAAAG-AAAAAAAAT
3281822 AATT
1 AATT
3281826 TATAATATTA
Statistics
Matches: 111, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
125 23 0.21
126 19 0.17
127 27 0.24
128 36 0.32
129 6 0.05
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (125 bp):
AATTATTAATTTATAAAATAAACATTTATTTATTTAAAATATCGAAAGAGCTTCTAGGGTATTAA
GAGCTCTTCCTTAGATATTAAAAAATAAATAATATCAAAACATTATCAAAGAAAAAAAAT
Found at i:3281819 original size:30 final size:28
Alignment explanation
Indices: 3281776--3281837 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 28
3281766 CTTTCTTAGA
3281776 TATTAAAAAAT-AAATAATATCAAAATAT
1 TATTAAAAAATAAAATAAT-TCAAAATAT
* *
3281804 TATTAAAGTAAATAAAATAATTTATAATAT
1 TATTAAA--AAATAAAATAATTCAAAATAT
3281834 TATT
1 TATT
3281838 TTTATTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 7 0.24
30 15 0.52
31 7 0.24
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (28 bp):
TATTAAAAAATAAAATAATTCAAAATAT
Found at i:3281903 original size:40 final size:43
Alignment explanation
Indices: 3281812--3281904 Score: 102
Period size: 43 Copynumber: 2.2 Consensus size: 43
3281802 ATTATTAAAG
* * * *
3281812 TAAATAAAATAATTTATAATATTATTTTTATTTAATAACAATAA
1 TAAAT-AAATAAATTATAATATTATATATACTTAATAACAATAA
* *
3281856 TACATAAATAAATTATAATATT-TATATACTTAA-AATAATAA
1 TAAATAAATAAATTATAATATTATATATACTTAATAACAATAA
3281897 -AAATAAAT
1 TAAATAAAT
3281905 GAAAAATAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
40 7 0.17
41 7 0.17
42 8 0.19
43 16 0.38
44 4 0.10
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (43 bp):
TAAATAAATAAATTATAATATTATATATACTTAATAACAATAA
Found at i:3281910 original size:20 final size:19
Alignment explanation
Indices: 3281887--3281939 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 19
3281877 TTATATACTT
3281887 AAAATAATAAAAATAAATGA
1 AAAATAATAAAAATAAAT-A
* *
3281907 AAAATAATTTAAACATATATA
1 AAAATAA--TAAAAATAAATA
3281928 AAAATAATAAAA
1 AAAATAATAAAA
3281940 TAATAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 4 0.14
20 7 0.25
21 8 0.29
22 9 0.32
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAATAATAAAAATAAATA
Found at i:3281945 original size:32 final size:30
Alignment explanation
Indices: 3281885--3281947 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 30
3281875 ATTTATATAC
*
3281885 TTAAAATAATAAAAATAAATGAAAAATAAT
1 TTAAAATAATAAAAATAAATAAAAAATAAT
3281915 TTAAACATATATAAAAAT-AATAAAATAATAAT
1 TTAAA-ATA-ATAAAAATAAATAAAA-AATAAT
3281947 T
1 T
3281948 AATGAAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 5 0.17
31 9 0.31
32 15 0.52
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (30 bp):
TTAAAATAATAAAAATAAATAAAAAATAAT
Found at i:3283220 original size:25 final size:28
Alignment explanation
Indices: 3283169--3283222 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
3283159 TTTATTTAAT
* *
3283169 ATAATAATATAATACTAAATTATATAAA
1 ATAATAATATAAAACTAAAATATATAAA
3283197 ATAATAAT-TAAAAC-AAAATA-ATAAA
1 ATAATAATATAAAACTAAAATATATAAA
3283222 A
1 A
3283223 AAATTAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.25
26 5 0.21
27 5 0.21
28 8 0.33
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (28 bp):
ATAATAATATAAAACTAAAATATATAAA
Found at i:3284581 original size:242 final size:241
Alignment explanation
Indices: 3284098--3284582 Score: 872
Period size: 242 Copynumber: 2.0 Consensus size: 241
3284088 CATATTATTT
3284098 TTTCATTAATAGGATATCGCACTAAATAGACACAAGATTCCTCCGAATATTCTGATAATGTCACT
1 TTTCATTAATAGGATATCGCACTAAATAGA-ACAAGATTCCTCCGAATATTCTGATAATGTCACT
3284163 TTTCTTCTTACTATGATCAGTATGAACGAGCTCTCTTGTATTCAGATAAATTTGGAGTCCAGACA
65 TTTCTTCTTACTATGATCAGTATGAACGAGCTCTCTTGTATTCAGATAAATTTGGAGTCCAGACA
3284228 AAATTTGAATATTACAAAAATGTGTTATTATCATAATATTTTAAATTTATTTAAAAAATAATATA
130 AAATTTGAATATTACAAAAATGTGTTATTATCATAATATTTTAAATTTATTTAAAAAATAATATA
3284293 TAATATTAAATATAATTTTAGAAAAATAAATAGCGGAGTAACTAAGA
195 TAATATTAAATATAATTTTAGAAAAATAAATAGCGGAGTAACTAAGA
3284340 TTTCATTAATAGGATATCGCACTAAATACG-ACAAGATTCCTCCGAATATTCTCTGATATAATGT
1 TTTCATTAATAGGATATCGCACTAAATA-GAACAAGATTCCTCCGAATA-T-TCTG--ATAATGT
3284404 CAC-TTTCTTCTTACTATGATCAGTATGAACGAGCTCTCTTGTATTCAGATAAATTTGGAGTCCA
61 CACTTTTCTTCTTACTATGATCAGTATGAACGAGCTCTCTTGTATTCAGATAAATTTGGAGTCCA
3284468 GACAAAA-TTGAATATTACAAAAA-GTGTTATTATCATAATATTTTTAAATTTATTTAAAAAATA
126 GACAAAATTTGAATATTACAAAAATGTGTTATTATCATAATA-TTTTAAATTTATTTAAAAAATA
3284531 ATATATAATATTAAATATAATTTTAG-AAAATAAATAGCGGAGTAACTAAGA
190 ATATATAATATTAAATATAATTTTAGAAAAATAAATAGCGGAGTAACTAAGA
3284582 T
1 T
3284583 AAATACAAAC
Statistics
Matches: 237, Mismatches: 0, Indels: 12
0.95 0.00 0.05
Matches are distributed among these distances:
241 18 0.08
242 72 0.30
243 69 0.29
244 68 0.29
245 10 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (241 bp):
TTTCATTAATAGGATATCGCACTAAATAGAACAAGATTCCTCCGAATATTCTGATAATGTCACTT
TTCTTCTTACTATGATCAGTATGAACGAGCTCTCTTGTATTCAGATAAATTTGGAGTCCAGACAA
AATTTGAATATTACAAAAATGTGTTATTATCATAATATTTTAAATTTATTTAAAAAATAATATAT
AATATTAAATATAATTTTAGAAAAATAAATAGCGGAGTAACTAAGA
Found at i:3286978 original size:75 final size:75
Alignment explanation
Indices: 3286855--3287005 Score: 302
Period size: 75 Copynumber: 2.0 Consensus size: 75
3286845 AGTATTAACA
3286855 GTATTTGTGTTGCATTGCTTATTTACTATTGGTGACTGCATATAAAAACTCAAGAGATGCTTGTT
1 GTATTTGTGTTGCATTGCTTATTTACTATTGGTGACTGCATATAAAAACTCAAGAGATGCTTGTT
3286920 ATTAGGAACT
66 ATTAGGAACT
3286930 GTATTTGTGTTGCATTGCTTATTTACTATTGGTGACTGCATATAAAAACTCAAGAGATGCTTGTT
1 GTATTTGTGTTGCATTGCTTATTTACTATTGGTGACTGCATATAAAAACTCAAGAGATGCTTGTT
3286995 ATTAGGAACT
66 ATTAGGAACT
3287005 G
1 G
3287006 GGGAAAGTAG
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.40
Consensus pattern (75 bp):
GTATTTGTGTTGCATTGCTTATTTACTATTGGTGACTGCATATAAAAACTCAAGAGATGCTTGTT
ATTAGGAACT
Found at i:3287618 original size:4 final size:4
Alignment explanation
Indices: 3287609--3287633 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
3287599 GTTTTACCTT
3287609 ATAG ATAG ATAG ATAG ATAG ATAG A
1 ATAG ATAG ATAG ATAG ATAG ATAG A
3287634 CATATACTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
ATAG
Found at i:3288944 original size:23 final size:22
Alignment explanation
Indices: 3288918--3288975 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
3288908 TCAACAAATA
* *
3288918 CAAAACATGACACCAAGCAAACT
1 CAAAACATAACACCAA-AAAACT
* *
3288941 CAAATCATAACATCAAAAAACT
1 CAAAACATAACACCAAAAAACT
3288963 CAAAACATAACAC
1 CAAAACATAACAC
3288976 TTATAATAGC
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
22 16 0.55
23 13 0.45
ACGTcount: A:0.57, C:0.28, G:0.03, T:0.12
Consensus pattern (22 bp):
CAAAACATAACACCAAAAAACT
Found at i:3289853 original size:38 final size:38
Alignment explanation
Indices: 3289802--3289878 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
3289792 ACTATATCAC
3289802 TAATCCTAAACGATAATCCATATGAAGTGTAAAAACTA
1 TAATCCTAAACGATAATCCATATGAAGTGTAAAAACTA
3289840 TAATCCTAAACGATAATCCATATGAAGTGTAAAAACTA
1 TAATCCTAAACGATAATCCATATGAAGTGTAAAAACTA
3289878 T
1 T
3289879 CTCAAGCGAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.47, C:0.16, G:0.10, T:0.27
Consensus pattern (38 bp):
TAATCCTAAACGATAATCCATATGAAGTGTAAAAACTA
Found at i:3291973 original size:27 final size:27
Alignment explanation
Indices: 3291921--3291973 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 27
3291911 CGACGGCAGG
* * *
3291921 TTAGGTTTTTTTGTAATTTTAGATAAA
1 TTAGGTTTTTTTATAAATATAGATAAA
3291948 TTAGAGTTTTTTTATAAATATA-ATAA
1 TTAG-GTTTTTTTATAAATATAGATAA
3291974 TATTTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 8 0.36
28 14 0.64
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (27 bp):
TTAGGTTTTTTTATAAATATAGATAAA
Found at i:3297945 original size:21 final size:22
Alignment explanation
Indices: 3297921--3297978 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
3297911 AGACCCTGTG
*
3297921 GGGGGTATCGATTCCCCT-AAA
1 GGGGGAATCGATTCCCCTCAAA
*
3297942 GGGGGAATCGGTTCCCCTGCAAA
1 GGGGGAATCGATTCCCCT-CAAA
*
3297965 -GGGGACTCGATTCC
1 GGGGGAATCGATTCC
3297979 TCTTTAAGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 16 0.52
22 12 0.39
23 3 0.10
ACGTcount: A:0.21, C:0.26, G:0.33, T:0.21
Consensus pattern (22 bp):
GGGGGAATCGATTCCCCTCAAA
Done.