Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 237 of 332
Found at i:78748824 original size:25 final size:25
Alignment explanation
Indices: 78748796--78748847 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
78748786 CCGAAAGAAA
78748796 GATTGAATCAGTACTAGTTGTGTGC
1 GATTGAATCAGTACTAGTTGTGTGC
78748821 GATTGAATCAGTACTAGTTGTGTGC
1 GATTGAATCAGTACTAGTTGTGTGC
78748846 GA
1 GA
78748848 GTATCCGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.35
Consensus pattern (25 bp):
GATTGAATCAGTACTAGTTGTGTGC
Found at i:78751245 original size:13 final size:13
Alignment explanation
Indices: 78751227--78751251 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78751217 TATATTATAT
78751227 GTGTGAAAATTTC
1 GTGTGAAAATTTC
78751240 GTGTGAAAATTT
1 GTGTGAAAATTT
78751252 TATAGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:78752459 original size:56 final size:56
Alignment explanation
Indices: 78752394--78752604 Score: 309
Period size: 56 Copynumber: 3.8 Consensus size: 56
78752384 ACCATGGCAT
* *
78752394 TGATATATGTGTGCGAGTAGGACCACGTTTAATACGTTGGCATCGATATGTGATTC
1 TGATATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
* *
78752450 TGATATATGTGTGCAAGCAAGACCAAGTTTAATACGTTGGCATCGATATGTGACTTC
1 TGATATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGA-TTC
* * * *
78752507 -GATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCAGCGATATGTGATTT
1 TGATATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
*
78752562 TGAGT-TATGTGTACAAGTAAGACCACGTTTAATACGTTGGCAT
1 TGA-TATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCAT
78752605 TAAAATGTGA
Statistics
Matches: 138, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
55 2 0.01
56 132 0.96
57 4 0.03
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (56 bp):
TGATATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
Found at i:78752592 original size:112 final size:112
Alignment explanation
Indices: 78752395--78752629 Score: 355
Period size: 112 Copynumber: 2.1 Consensus size: 112
78752385 CCATGGCATT
* * *
78752395 GATATATGTGTGCGAGTAGGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATATATGT
1 GATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCAGCGATATGTGATTCTGATATATGT
* * *
78752460 GTGCAAGCAAGACCAAGTTTAATACGTTGGCATCGATATGTGACTTC
66 GTACAAGCAAGACCAAGTTTAATACGTTGGCATCAAAATGTGACTTC
*
78752507 GATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCAGCGATATGTGATTTTGAGT-TATG
1 GATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCAGCGATATGTGATTCTGA-TATATG
* * *
78752571 TGTACAAGTAAGACCACGTTTAATACGTTGGCATTAAAATGTGACTTC
65 TGTACAAGCAAGACCAAGTTTAATACGTTGGCATCAAAATGTGACTTC
*
78752619 AATATATGTGT
1 GATATATGTGT
78752630 ATGAGTAATA
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
112 110 0.99
113 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (112 bp):
GATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCAGCGATATGTGATTCTGATATATGT
GTACAAGCAAGACCAAGTTTAATACGTTGGCATCAAAATGTGACTTC
Found at i:78752637 original size:56 final size:56
Alignment explanation
Indices: 78752396--78752629 Score: 292
Period size: 56 Copynumber: 4.2 Consensus size: 56
78752386 CATGGCATTG
* *
78752396 ATATATGTGTGCGAGTAGGACCACGTTTAATACGTTGGCATCGATATGTGA-TTCTG
1 ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTTC-A
* * * *
78752452 ATATATGTGTGCAAGCAAGACCAAGTTTAATACGTTGGCATCGATATGTGACTTCG
1 ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTTCA
* * * *
78752508 ATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCAGCGATATGTGATTTTGA
1 ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGA-CTTCA
* * * ** *
78752565 GT-TATGTGTACAAGTAAGACCACGTTTAATACGTTGGCATTAAAATGTGACTTCA
1 ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTTCA
78752620 ATATATGTGT
1 ATATATGTGT
78752630 ATGAGTAATA
Statistics
Matches: 152, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
55 4 0.03
56 142 0.93
57 6 0.04
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (56 bp):
ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTTCA
Found at i:78752659 original size:112 final size:112
Alignment explanation
Indices: 78752396--78752672 Score: 308
Period size: 112 Copynumber: 2.5 Consensus size: 112
78752386 CATGGCATTG
* * * *
78752396 ATATATGTGTGCGAGTAGGACCACGTTTAATAC-GTTGGCATCGATATGTGATTCTGATATATGT
1 ATATATGTGTACGAGTAAGACCACGTCTAAGACAG-TGGCATCGATATGTGATTCTGATATATGT
* * * *
78752460 GTGCAAGCAAGACCAAGTTTAATACGTTGGCATCGATATGTGACTTCG
65 GTACAAGCAAGACCAAGTTTAATACGTTGGCATCAAAATGTGACTTCA
* * * * * *
78752508 ATATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCAGCGATATGTGATTTTGAGT-TATGT
1 ATATATGTGTACGAGTAAGACCACGTCTAAGACAGTGGCATCGATATGTGATTCTGA-TATATGT
* * *
78752572 GTACAAGTAAGACCACGTTTAATACGTTGGCATTAAAATGTGACTTCA
65 GTACAAGCAAGACCAAGTTTAATACGTTGGCATCAAAATGTGACTTCA
* * * * *
78752620 ATATATGTGTATGAGTAATACC-CTGTCTAGGATAGTGGCATCGATATGGGATT
1 ATATATGTGTACGAGTAAGACCAC-GTCTAAGACAGTGGCATCGATATGTGATT
78752673 ACATGTAAGA
Statistics
Matches: 141, Mismatches: 21, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
111 1 0.01
112 139 0.99
113 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (112 bp):
ATATATGTGTACGAGTAAGACCACGTCTAAGACAGTGGCATCGATATGTGATTCTGATATATGTG
TACAAGCAAGACCAAGTTTAATACGTTGGCATCAAAATGTGACTTCA
Found at i:78757102 original size:34 final size:34
Alignment explanation
Indices: 78757059--78757187 Score: 143
Period size: 34 Copynumber: 3.8 Consensus size: 34
78757049 TCTGTTTGCA
78757059 TACTGTTACTGTAAAGGGCTCAGGCCCAGACTGC
1 TACTGTTACTGTAAAGGGCTCAGGCCCAGACTGC
** * *
78757093 TACTGTTACTGTAATTGGCTCAGGTCCAAACTGC
1 TACTGTTACTGTAAAGGGCTCAGGCCCAGACTGC
* * * * * *
78757127 TACTATTACTGCAACGGGCTCAGGCTCTGATTGC
1 TACTGTTACTGTAAAGGGCTCAGGCCCAGACTGC
*
78757161 TACTGTTACTG-AAATGGGCTAAGGCCC
1 TACTGTTACTGTAAA-GGGCTCAGGCCC
78757188 TAACTGTTAC
Statistics
Matches: 77, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
33 2 0.03
34 75 0.97
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (34 bp):
TACTGTTACTGTAAAGGGCTCAGGCCCAGACTGC
Found at i:78757193 original size:68 final size:68
Alignment explanation
Indices: 78757059--78757199 Score: 174
Period size: 68 Copynumber: 2.1 Consensus size: 68
78757049 TCTGTTTGCA
* * * * * *
78757059 TACTGTTACTGTAAAGGGCTCAGGCCCAGACTGCTACTGTTACTGTAATTGGCTCAGGTCCAAAC
1 TACTATTACTGCAAAGGGCTCAGGCCCAGACTGCTACTGTTACTGAAATGGGCTAAGGCCCAAAC
78757124 TGC
66 TGC
* * * * *
78757127 TACTATTACTGCAACGGGCTCAGGCTCTGATTGCTACTGTTACTGAAATGGGCTAAGGCCCTAAC
1 TACTATTACTGCAAAGGGCTCAGGCCCAGACTGCTACTGTTACTGAAATGGGCTAAGGCCCAAAC
*
78757192 TGT
66 TGC
78757195 TACTA
1 TACTA
78757200 AAAGGGCTTA
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (68 bp):
TACTATTACTGCAAAGGGCTCAGGCCCAGACTGCTACTGTTACTGAAATGGGCTAAGGCCCAAAC
TGC
Found at i:78758233 original size:4 final size:4
Alignment explanation
Indices: 78758217--78758261 Score: 72
Period size: 4 Copynumber: 11.0 Consensus size: 4
78758207 TTTAAATTAT
*
78758217 ATAC ATAAC ATAC ATAC GTAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC AT-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
78758262 TAACATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
4 34 0.89
5 4 0.11
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:78759073 original size:33 final size:33
Alignment explanation
Indices: 78759031--78759094 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
78759021 CATTACAACC
78759031 AATGTCTCAATTTCATATATATTATCAACTTGA
1 AATGTCTCAATTTCATATATATTATCAACTTGA
*
78759064 AATGTCTCAATTTCATATATATTTTCAACTT
1 AATGTCTCAATTTCATATATATTATCAACTT
78759095 TTGTGCATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.45
Consensus pattern (33 bp):
AATGTCTCAATTTCATATATATTATCAACTTGA
Found at i:78769031 original size:34 final size:33
Alignment explanation
Indices: 78768971--78769035 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 33
78768961 GTTCCAGTTG
*
78768971 GGGCCTTAGCCCATTACAGTATCAGTATCAGTGT
1 GGGCCTAAGCCCATTACAGTATCAGTA-CAGTGT
78769005 GGGCCTAAGCCCATCT-CAGTGA-CAGTACAGT
1 GGGCCTAAGCCCAT-TACAGT-ATCAGTACAGT
78769036 ACAGATATGC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
33 4 0.14
34 22 0.79
35 2 0.07
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.25
Consensus pattern (33 bp):
GGGCCTAAGCCCATTACAGTATCAGTACAGTGT
Found at i:78769375 original size:27 final size:27
Alignment explanation
Indices: 78769318--78769377 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
78769308 ATACATCTCC
*
78769318 TAGGGGCATAACAGTTATTTTACCATG
1 TAGGGGCATAACAGTTATTTTACAATG
**
78769345 TAGGGGCATTTCAGTTATTTTATCAAT-
1 TAGGGGCATAACAGTTATTTTA-CAATG
78769372 TAGGGG
1 TAGGGG
78769378 GTCTAGATAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 26 0.90
28 3 0.10
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.37
Consensus pattern (27 bp):
TAGGGGCATAACAGTTATTTTACAATG
Found at i:78772258 original size:22 final size:22
Alignment explanation
Indices: 78772230--78772303 Score: 89
Period size: 22 Copynumber: 3.4 Consensus size: 22
78772220 CCATACAACT
78772230 GTGTGCCTCCTTTCACACAGGC
1 GTGTGCCTCCTTTCACACAGGC
* *
78772252 GTGTGCCT--TAGTCACACAGCC
1 GTGTGCCTCCT-TTCACACAGGC
* *
78772273 GTGTGCATCCTTTCACACGGGC
1 GTGTGCCTCCTTTCACACAGGC
78772295 GTGTGCCTC
1 GTGTGCCTC
78772304 TCCATATGCA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
20 1 0.02
21 16 0.38
22 24 0.57
23 1 0.02
ACGTcount: A:0.14, C:0.34, G:0.26, T:0.27
Consensus pattern (22 bp):
GTGTGCCTCCTTTCACACAGGC
Found at i:78772260 original size:43 final size:43
Alignment explanation
Indices: 78772209--78772302 Score: 134
Period size: 43 Copynumber: 2.2 Consensus size: 43
78772199 TCACATGGGA
* * *
78772209 GTGTGCCTTAGCCATACAACTGTGTGCCTCCTTTCACACAGGC
1 GTGTGCCTTAGCCACACAACCGTGTGCATCCTTTCACACAGGC
* * *
78772252 GTGTGCCTTAGTCACACAGCCGTGTGCATCCTTTCACACGGGC
1 GTGTGCCTTAGCCACACAACCGTGTGCATCCTTTCACACAGGC
78772295 GTGTGCCT
1 GTGTGCCT
78772303 CTCCATATGC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.16, C:0.32, G:0.24, T:0.28
Consensus pattern (43 bp):
GTGTGCCTTAGCCACACAACCGTGTGCATCCTTTCACACAGGC
Found at i:78774060 original size:27 final size:26
Alignment explanation
Indices: 78774022--78774072 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
78774012 CTCGCTGCAA
78774022 TCTGGTGACTTCGCCACATATATCTGT
1 TCTGGTGACTTCGCCACA-ATATCTGT
*
78774049 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACTTCGCCACAATATCT
78774073 AGCAGCCTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (26 bp):
TCTGGTGACTTCGCCACAATATCTGT
Found at i:78774118 original size:27 final size:27
Alignment explanation
Indices: 78774088--78774140 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
78774078 CCTCGCTGCA
*
78774088 ATCTGGTGGCCTAGCCACAATATCTGT
1 ATCTGGTGACCTAGCCACAATATCTGT
* * *
78774115 ATCTGGTGACTTAGTCATAATATCTG
1 ATCTGGTGACCTAGCCACAATATCTG
78774141 GTAGCCTCGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (27 bp):
ATCTGGTGACCTAGCCACAATATCTGT
Found at i:78774120 original size:67 final size:67
Alignment explanation
Indices: 78774007--78774156 Score: 221
Period size: 67 Copynumber: 2.2 Consensus size: 67
78773997 AAGCGTTCTG
* * *
78774007 GCAGCCTCGCTGCAATCTGGTGACTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAATATC
1 GCAGCCTCGCTGCAATCTGGTGACCTAGCCACATATATCTGTTCTGGTGACTTAGTCACAATATC
78774072 TA
66 TA
* *
78774074 GCAGCCTCGCTGCAATCTGGTGGCCTAGCCACA-ATATCTGTATCTGGTGACTTAGTCATAATAT
1 GCAGCCTCGCTGCAATCTGGTGACCTAGCCACATATATCTGT-TCTGGTGACTTAGTCACAATAT
*
78774138 CTG
65 CTA
*
78774141 GTAGCCTCGCTGCAAT
1 GCAGCCTCGCTGCAAT
78774157 TTCTGTGGTG
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
66 8 0.11
67 67 0.89
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.30
Consensus pattern (67 bp):
GCAGCCTCGCTGCAATCTGGTGACCTAGCCACATATATCTGTTCTGGTGACTTAGTCACAATATC
TA
Found at i:78775329 original size:83 final size:83
Alignment explanation
Indices: 78775172--78775335 Score: 195
Period size: 83 Copynumber: 2.0 Consensus size: 83
78775162 TTCTGATATG
* * * *
78775172 ATCTGGAAGTTTAATTGCAACATATATGTACATCAGCTTACCATAATGCACTGTACTATATCTAT
1 ATCTGGAAGTTTAACTGCAACATATATGTACAGCAGCTTACCATAATGCACTGTACTATATATAC
*
78775237 GTCAACTTTGTTGCGTTT
66 ATCAACTTTGTTGCGTTT
* * * * * * *
78775255 ATCTGGTAGTTTAACTGCAACATATTTGTACAGCGGTTTACCGTAATGTATTGTACTGA-ATATA
1 ATCTGGAAGTTTAACTGCAACATATATGTACAGCAGCTTACCATAATGCACTGTACT-ATATATA
*
78775319 CATCAGCTTTGTTGCGT
65 CATCAACTTTGTTGCGT
78775336 ACGATTATCT
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
83 66 0.99
84 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38
Consensus pattern (83 bp):
ATCTGGAAGTTTAACTGCAACATATATGTACAGCAGCTTACCATAATGCACTGTACTATATATAC
ATCAACTTTGTTGCGTTT
Found at i:78779386 original size:15 final size:15
Alignment explanation
Indices: 78779366--78779396 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
78779356 TGAAACGCCT
78779366 TGTTTTTAAAATAAA
1 TGTTTTTAAAATAAA
*
78779381 TGTTTTTGAAATAAA
1 TGTTTTTAAAATAAA
78779396 T
1 T
78779397 ATTGCAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (15 bp):
TGTTTTTAAAATAAA
Found at i:78785044 original size:15 final size:15
Alignment explanation
Indices: 78785024--78785065 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
78785014 TCTTTAGGTT
78785024 TTTTTAGGGTTATG-G
1 TTTTTAGGGTT-TGAG
*
78785039 TTTTTAAGGTTTGAG
1 TTTTTAGGGTTTGAG
*
78785054 GTTTTAGGGTTT
1 TTTTTAGGGTTT
78785066 CTAAGAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 2 0.09
15 21 0.91
ACGTcount: A:0.14, C:0.00, G:0.31, T:0.55
Consensus pattern (15 bp):
TTTTTAGGGTTTGAG
Found at i:78788634 original size:93 final size:93
Alignment explanation
Indices: 78788522--78788692 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
78788512 GCCCATAAGT
* *
78788522 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
78788587 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
78788615 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
78788680 CGAGTTCGGATGC
66 CGAGCTCGGATGC
78788693 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:78788689 original size:46 final size:46
Alignment explanation
Indices: 78788514--78788689 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
78788504 TGTAACCCGC
* *
78788514 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
78788560 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * *
78788610 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
78788653 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
78788690 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 65 0.58
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:78796175 original size:93 final size:93
Alignment explanation
Indices: 78796063--78796234 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
78796053 CGCCCATAAG
* *
78796063 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
78796128 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
78796156 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
78796221 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
78796235 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:78796231 original size:46 final size:46
Alignment explanation
Indices: 78796056--78796231 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
78796046 TGTAACCCGC
* *
78796056 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
78796102 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* *
78796152 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
78796195 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
78796232 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.58
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:78814488 original size:15 final size:17
Alignment explanation
Indices: 78814470--78814503 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
78814460 TAGCATAATT
78814470 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
78814485 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
78814502 TA
1 TA
78814504 AGTATCAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 3 0.18
17 7 0.41
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.26
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:78816235 original size:5 final size:5
Alignment explanation
Indices: 78816227--78816266 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
78816217 TAAATCTTAT
*
78816227 TATTA TATTA TATTA TATTA TATTA CTAATA TATATA TAT
1 TATTA TATTA TATTA TATTA TATTA -TATTA TAT-TA TAT
78816267 ATGAAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
5 22 0.71
6 9 0.29
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (5 bp):
TATTA
Found at i:78816302 original size:13 final size:13
Alignment explanation
Indices: 78816267--78816312 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
78816257 ATATATATAT
*
78816267 ATGAAATAAAGAA
1 ATGAAACAAAGAA
*
78816280 A-GAAAAAAAGAA
1 ATGAAACAAAGAA
78816292 ATGAAACAAAGAA
1 ATGAAACAAAGAA
*
78816305 AAGAAACA
1 ATGAAACA
78816313 GAATAGGCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.74, C:0.04, G:0.15, T:0.07
Consensus pattern (13 bp):
ATGAAACAAAGAA
Found at i:78822192 original size:40 final size:40
Alignment explanation
Indices: 78822109--78822254 Score: 136
Period size: 40 Copynumber: 3.6 Consensus size: 40
78822099 TTGAATGATG
* * * * * *
78822109 TCCGGGCTAAGTCCCGAAGGC-TTTGTTCTAAGTGACCATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
78822149 TCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
**
78822189 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
78822230 -CCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
78822255 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 79 0.89
41 9 0.10
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:78822268 original size:40 final size:40
Alignment explanation
Indices: 78822165--78822254 Score: 137
Period size: 40 Copynumber: 2.2 Consensus size: 40
78822155 CTAAGATCTG
* *
78822165 AAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCG
1 AAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCA
*
78822205 AAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCA
1 AAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCA
78822245 AAGGCATTTG
1 AAGGCATTTG
78822255 AACGAGTAGC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 44 0.96
41 2 0.04
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
AAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCA
Found at i:78834827 original size:26 final size:26
Alignment explanation
Indices: 78834798--78834847 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
78834788 TTTCATCCCA
*
78834798 ATTTTACCATTAGTAAAATTTTGACG
1 ATTTTACCATTAGTAAAAGTTTGACG
* * *
78834824 ATTTTGCCCTTGGTAAAAGTTTGA
1 ATTTTACCATTAGTAAAAGTTTGA
78834848 GAAAATATGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (26 bp):
ATTTTACCATTAGTAAAAGTTTGACG
Found at i:78835009 original size:6 final size:6
Alignment explanation
Indices: 78834993--78835027 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
78834983 GCAAATGGAT
* *
78834993 CATTTC AATTTT CATTTC CATTTC CATTTC CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
78835028 TTGGAAATCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.20, C:0.26, G:0.00, T:0.54
Consensus pattern (6 bp):
CATTTC
Found at i:78839419 original size:37 final size:37
Alignment explanation
Indices: 78839357--78839465 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
78839347 AGCTCAGACG
* *
78839357 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
78839394 AAATCTCCACACGTAGTCATTGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
78839431 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
78839466 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:78839737 original size:48 final size:48
Alignment explanation
Indices: 78839611--78839795 Score: 282
Period size: 48 Copynumber: 3.8 Consensus size: 48
78839601 GCACATCGCC
*
78839611 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * * *
78839661 TATATATTTCATATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
78839709 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
78839757 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
78839796 TGCATGTTCA
Statistics
Matches: 123, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
48 81 0.66
49 2 0.02
50 40 0.33
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:78839800 original size:98 final size:97
Alignment explanation
Indices: 78839611--78839794 Score: 291
Period size: 98 Copynumber: 1.9 Consensus size: 97
78839601 GCACATCGCC
* *
78839611 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCATATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA-ATACATATTTCACATT
78839676 GACCATTCAGCTTTACCACATATGCATATCTCA
65 GACCATTCAGCTTTACCACATATGCATATCTCA
* *
78839709 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTC-ATACATATTTCACATT-
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
*
78839772 AGCCATTCGGCTTTACCACATAT
66 A-CCATTCAGCTTTACCACATAT
78839795 ATGCATGTTC
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
95 1 0.01
96 34 0.43
98 45 0.56
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (97 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
ACCATTCAGCTTTACCACATATGCATATCTCA
Found at i:78839844 original size:47 final size:47
Alignment explanation
Indices: 78839765--78839958 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
78839755 CATACATATT
* * * *
78839765 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
78839812 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
78839859 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
78839906 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
78839953 TCACAT
1 TCACAT
78839959 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:78839885 original size:22 final size:22
Alignment explanation
Indices: 78839858--78839929 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
78839848 GCTCACATTC
78839858 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
78839880 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
78839904 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
78839927 ATC
1 ATC
78839930 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:78843451 original size:47 final size:47
Alignment explanation
Indices: 78843400--78843811 Score: 675
Period size: 47 Copynumber: 8.7 Consensus size: 47
78843390 TTAGGATTCT
* * *
78843400 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
78843447 ATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATAT--ATGTGATAAGGCCTAATGGCCG
78843496 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
78843543 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
78843590 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
78843636 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
78843683 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * * *
78843730 ATGTGATGAATGTGAAAGTGTATATATATGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
78843777 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
78843812 TCCCGAAGGG
Statistics
Matches: 346, Mismatches: 15, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
46 47 0.14
47 253 0.73
49 46 0.13
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:78843697 original size:187 final size:189
Alignment explanation
Indices: 78843400--78843811 Score: 686
Period size: 187 Copynumber: 2.2 Consensus size: 189
78843390 TTAGGATTCT
* *
78843400 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGGATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
78843464 GTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
65 GTGTATATA-ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
* * * *
78843529 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
129 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGACAAGGCCGAATGGCCA
*
78843590 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAG
1 ATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
78843654 TGTATAT-ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
66 TGTATATAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
* *
78843718 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGACAGGGCCGAGTGGCCA
131 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGACAAGGCCGAATGGCCA
* *
78843777 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGGATGTGAAAGTGTATATATGTGATAAG
78843812 TCCCGAAGGG
Statistics
Matches: 209, Mismatches: 12, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
187 142 0.68
189 30 0.14
190 37 0.18
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (189 bp):
ATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGACAAGGCCGAATGGCCA
Found at i:78843980 original size:37 final size:37
Alignment explanation
Indices: 78843930--78844044 Score: 187
Period size: 37 Copynumber: 3.1 Consensus size: 37
78843920 CCGAGCTCTA
78843930 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
78843967 AAGACCCGATGACTACGTGT-GGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
* * * *
78844003 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
78844040 AAGAC
1 AAGAC
78844045 TTCGTAATAA
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 34 0.47
37 39 0.53
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
Found at i:78847377 original size:38 final size:38
Alignment explanation
Indices: 78847335--78847420 Score: 163
Period size: 38 Copynumber: 2.3 Consensus size: 38
78847325 ATAGACATGC
*
78847335 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
1 ATGTTCGGCCACATGAATGAGTACATAAGCTGATGTGT
78847373 ATGTTCGGCCACATGAATGAGTACATAAGCTGATGTGT
1 ATGTTCGGCCACATGAATGAGTACATAAGCTGATGTGT
78847411 ATGTTCGGCC
1 ATGTTCGGCC
78847421 GTAGGTAAGC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (38 bp):
ATGTTCGGCCACATGAATGAGTACATAAGCTGATGTGT
Found at i:78848111 original size:40 final size:40
Alignment explanation
Indices: 78848017--78848241 Score: 256
Period size: 40 Copynumber: 5.6 Consensus size: 40
78848007 TATTCGAATG
* * * * *
78848017 ATATCCGGGCTAAGTCCCGAAAGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCTA-GCGACT
* * * *
78848058 ATAACCGGGCTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCTAG-CGACT
* * *
78848098 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCTAGCGACT
*
78848138 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCTAGCGACT
* * * *
78848178 ATATCCGGGCTAAGTCCCGAAGG-AATCTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTC-GTGCTAGCGACT
78848218 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
78848242 CTTGTGCAAG
Statistics
Matches: 158, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.02
40 126 0.80
41 29 0.18
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCTAGCGACT
Found at i:78848182 original size:80 final size:80
Alignment explanation
Indices: 78848017--78848277 Score: 303
Period size: 80 Copynumber: 3.3 Consensus size: 80
78848007 TATTCGAATG
* * * *
78848017 ATATCCGGGCTAAGTCCCGAAAGCTTTTGTGCTAGGTGACTATAACCGGGCTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
78848082 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * *
78848098 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
78848163 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * *
78848178 ATATCCGGGCTAAGTCCCGAAGGAATCTGTGCTAGTGACCATATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
78848243 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
* *
78848257 ATATCC-GGCTAAATCCGGAAG
1 ATATCCGGGCTAAGTCCCGAAG
78848278 ATTACTTGAG
Statistics
Matches: 154, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
78 13 0.08
79 14 0.09
80 97 0.63
81 30 0.19
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:78848231 original size:120 final size:121
Alignment explanation
Indices: 78848017--78848241 Score: 314
Period size: 120 Copynumber: 1.9 Consensus size: 121
78848007 TATTCGAATG
* * * *
78848017 ATATCCGGGCTAAGTCCCGAAAGCTTTTGTGCTAGGTGACTATAACCGGGCTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAAGCATTTGTGCTAGGCGACTATAACCGGGCTAAGATCCGAAGGA
* *
78848082 ATTCGTGCGAGTTGCTATATCTGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
66 ATTCGTGCGAGTTGCCATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
* *
78848138 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAGACCCGAAAGCATTTGTGCTAGGCGACTATAACCGGGCTAAGAT-CCGAAGG
*
78848201 AA-TCTGTGCTAG-TGACCATATCCGGGCTAAGACCCGAAGGC
65 AATTC-GTGCGAGTTG-CCATATCCGGGCTAAGACCCGAAGGC
78848242 CTTGTGCAAG
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
119 5 0.05
120 56 0.61
121 31 0.34
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (121 bp):
ATATCCGGGCTAAGACCCGAAAGCATTTGTGCTAGGCGACTATAACCGGGCTAAGATCCGAAGGA
ATTCGTGCGAGTTGCCATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
Found at i:78852108 original size:20 final size:20
Alignment explanation
Indices: 78852083--78852122 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
78852073 ATTAGGGCTT
*
78852083 GAAACGTACCTGGTTCGACC
1 GAAACGTACCTAGTTCGACC
78852103 GAAACGTACCTAGTTCGACC
1 GAAACGTACCTAGTTCGACC
78852123 ACTTGCAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.20
Consensus pattern (20 bp):
GAAACGTACCTAGTTCGACC
Found at i:78855281 original size:29 final size:29
Alignment explanation
Indices: 78855242--78855297 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
78855232 GATGGAGAAA
*
78855242 GGTGAATATTGATAGTGTTGTGTTTCAAG
1 GGTGAATATTGACAGTGTTGTGTTTCAAG
*
78855271 GGTGAATATTGACGGTGTTGTGTTTCA
1 GGTGAATATTGACAGTGTTGTGTTTCA
78855298 GCTTTCAGCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.21, C:0.05, G:0.32, T:0.41
Consensus pattern (29 bp):
GGTGAATATTGACAGTGTTGTGTTTCAAG
Found at i:78855752 original size:22 final size:23
Alignment explanation
Indices: 78855727--78855772 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
78855717 CAACCAAATC
78855727 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
78855749 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
78855772 A
1 A
78855773 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:78855778 original size:23 final size:23
Alignment explanation
Indices: 78855734--78855778 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
78855724 ATCAATTCAA
*
78855734 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
78855757 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
78855779 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:78862824 original size:22 final size:23
Alignment explanation
Indices: 78862799--78862844 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
78862789 CAACCAAATT
78862799 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
78862821 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
78862844 A
1 A
78862845 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:78862850 original size:23 final size:23
Alignment explanation
Indices: 78862806--78862850 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
78862796 ATTAATTCAA
*
78862806 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
78862829 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
78862851 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:78865858 original size:61 final size:59
Alignment explanation
Indices: 78865737--78865901 Score: 155
Period size: 61 Copynumber: 2.8 Consensus size: 59
78865727 ATCAAAATAA
* * *
78865737 AATATAATACTTATCAAAATAAAATATTAGATTAAATTTAATATTAAATCTATTAAATT
1 AATATAATACTTATCAAAATAAAATATTAAATTAAATTTAATATTAAATCAATCAAATT
* *
78865796 AATATAATACTTATCTACAAGAT-AAATATTAAATTTAATTTAATATTAAGAT-AATCACATT
1 AATATAATACTTATC-A-AA-ATAAAATATTAAATTAAATTTAATATTAA-ATCAATCAAATT
* *
78865857 AATATTAA-A-TTA--ATAATAAAATATTAAAATAAGTATTTAAT-TTAA
1 AATA-TAATACTTATCAAAATAAAATATTAAATTAA--ATTTAATATTAA
78865902 TTTAATTTTC
Statistics
Matches: 90, Mismatches: 8, Indels: 18
0.78 0.07 0.16
Matches are distributed among these distances:
55 2 0.02
56 13 0.14
57 5 0.06
58 7 0.08
59 15 0.17
60 4 0.04
61 37 0.41
62 7 0.08
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (59 bp):
AATATAATACTTATCAAAATAAAATATTAAATTAAATTTAATATTAAATCAATCAAATT
Found at i:78871535 original size:22 final size:21
Alignment explanation
Indices: 78871507--78871557 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
78871497 GCGCTTATAA
**
78871507 GCCCGTGTGGTCCAAGGGACAC
1 GCCCGTGTGACCCAA-GGACAC
*
78871529 GCCCGTGTGACCCTAGGACAC
1 GCCCGTGTGACCCAAGGACAC
78871550 GCCCGTGT
1 GCCCGTGT
78871558 TGTAGGCCGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.16, C:0.35, G:0.33, T:0.16
Consensus pattern (21 bp):
GCCCGTGTGACCCAAGGACAC
Found at i:78873038 original size:16 final size:18
Alignment explanation
Indices: 78873017--78873049 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
78873007 ATTCACATAA
78873017 ATACAAA-AC-ACATTCT
1 ATACAAACACAACATTCT
78873033 ATACAAACACAACATTC
1 ATACAAACACAACATTC
78873050 AATTTAACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (18 bp):
ATACAAACACAACATTCT
Found at i:78875615 original size:26 final size:27
Alignment explanation
Indices: 78875577--78875646 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 27
78875567 CATTCCGACC
**
78875577 CATAGCTTATGTGAGCAAG-CCCATTT
1 CATAGCTCGTGTGAGCAAGACCCATTT
*
78875603 CATAGCTCGTGTGAGC-AGACTCATTT
1 CATAGCTCGTGTGAGCAAGACCCATTT
* *
78875629 CACAGCTCGTATGAGCAA
1 CATAGCTCGTGTGAGCAA
78875647 CGATGTAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 2 0.05
26 34 0.92
27 1 0.03
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (27 bp):
CATAGCTCGTGTGAGCAAGACCCATTT
Found at i:78883542 original size:101 final size:98
Alignment explanation
Indices: 78883371--78883592 Score: 309
Period size: 100 Copynumber: 2.2 Consensus size: 98
78883361 GTTTGCATAA
*
78883371 TAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTAGTA
1 TAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTAGTA
* * *
78883436 CTACACACGTGACCTAACCATCTGATACACGTAG
66 CTACACACGCGACC-AACAATCCGATACACGTAG
* * * **
78883470 TAGCCTGCACTTAGTACTACACATGTGATCGAAGTTATCGGGTACGTATAGTAGCCTGCACTTAG
1 TAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACTTAG
* * *
78883535 TACTACACATGCGACCAATAATCCGGTACACGTAG
64 TACTACACACGCGACCAACAATCCGATACACGTAG
78883570 TAGCCTGCACTTAGTACTACACA
1 TAGCCTGCACTTAGTACTACACA
78883593 CATGACCTCA
Statistics
Matches: 109, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
99 27 0.25
100 41 0.38
101 41 0.38
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (98 bp):
TAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTAGTA
CTACACACGCGACCAACAATCCGATACACGTAG
Found at i:78883595 original size:51 final size:49
Alignment explanation
Indices: 78883371--78883592 Score: 300
Period size: 49 Copynumber: 4.5 Consensus size: 49
78883361 GTTTGCATAA
78883371 TAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
* * ** * *
78883420 TAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAG
1 TAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACGTAG
* * * ***
78883470 TAGCCTGCACTTAGTACTACACATGTGATCGAAGTTATCGGGTACGTATAG
1 TAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACACGTAG
*
78883521 TAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAG
1 TAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
78883570 TAGCCTGCACTTAGTACTACACA
1 TAGCCTGCACTTAGTACTACACA
78883593 CATGACCTCA
Statistics
Matches: 148, Mismatches: 22, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
49 63 0.43
50 47 0.32
51 38 0.26
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
Found at i:78883764 original size:12 final size:12
Alignment explanation
Indices: 78883742--78883771 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
78883732 GCCACATTTC
78883742 ATATGATAACAAA
1 ATAT-ATAACAAA
78883755 ATATATAACAAA
1 ATATATAACAAA
78883767 ATATA
1 ATATA
78883772 ATAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.63, C:0.07, G:0.03, T:0.27
Consensus pattern (12 bp):
ATATATAACAAA
Found at i:78886635 original size:16 final size:16
Alignment explanation
Indices: 78886614--78886654 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
78886604 AATAACCTAT
78886614 ATTTAAAAGA-ATATA
1 ATTTAAAAGACATATA
78886629 CATTTAAAA-ACATATA
1 -ATTTAAAAGACATATA
*
78886645 ATTGAAAAGA
1 ATTTAAAAGA
78886655 TCTGAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.29
Consensus pattern (16 bp):
ATTTAAAAGACATATA
Found at i:78889264 original size:16 final size:16
Alignment explanation
Indices: 78889243--78889275 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
78889233 AAGTTCTAAA
78889243 AAAAGCCAGAAAATTT
1 AAAAGCCAGAAAATTT
78889259 AAAAGCCAGAAAATTT
1 AAAAGCCAGAAAATTT
78889275 A
1 A
78889276 CACCTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.18
Consensus pattern (16 bp):
AAAAGCCAGAAAATTT
Found at i:78892071 original size:18 final size:19
Alignment explanation
Indices: 78892048--78892083 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
78892038 TTGGATTGTG
78892048 AATGAA-GTGTAAAAAATA
1 AATGAATGTGTAAAAAATA
*
78892066 AATGAATGTGTGAAAAAT
1 AATGAATGTGTAAAAAAT
78892084 CAAAGTGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.25
Consensus pattern (19 bp):
AATGAATGTGTAAAAAATA
Found at i:78900704 original size:42 final size:42
Alignment explanation
Indices: 78900616--78900709 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 42
78900606 CCTAATTGGG
**
78900616 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATGAGGA
1 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATGAAAA
* * *
78900658 AAAATAGTTCTCTTATTCTAATAAACTACTAAAAGAT-AAAA
1 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATGAAAA
78900699 TAAAAT-ATTCC
1 -AAAATAATTCC
78900710 TAGAATATGA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
41 5 0.11
42 39 0.89
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (42 bp):
AAAATAATTCCCTTATTCTAATAAACTACTAAAACATGAAAA
Found at i:78900749 original size:19 final size:18
Alignment explanation
Indices: 78900727--78900766 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
78900717 TGAATAGAAC
78900727 TTATATACCTAAATAAGAT
1 TTATATACCTAAATAA-AT
* *
78900746 TTATCTATCTAAATAAAT
1 TTATATACCTAAATAAAT
78900764 TTA
1 TTA
78900767 AAATATATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (18 bp):
TTATATACCTAAATAAAT
Found at i:78904554 original size:42 final size:41
Alignment explanation
Indices: 78904463--78904558 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 41
78904453 ATCCTAATTG
* * *
78904463 AGAAAATAATTTCCTTATTCTAATAAACTACTAAAACATGAG
1 AGAAAAT-ATTCCCTTATTCTAATAAACTACTAAAACATAAA
* *
78904505 GGAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAA
1 AGAAAATA-TTCCCTTATTCTAATAAACTACTAAAACATAAA
**
78904547 ATTAAATATTCC
1 AGAAAATATTCC
78904559 TAAAATATGA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
41 5 0.11
42 40 0.89
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.31
Consensus pattern (41 bp):
AGAAAATATTCCCTTATTCTAATAAACTACTAAAACATAAA
Found at i:78904598 original size:19 final size:18
Alignment explanation
Indices: 78904576--78904615 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
78904566 TGAATAAAAC
*
78904576 TTATCTACCTATATAAGAT
1 TTATCTACCTAAATAA-AT
*
78904595 TTATCTATCTAAATAAAT
1 TTATCTACCTAAATAAAT
78904613 TTA
1 TTA
78904616 AAATATATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.40, C:0.12, G:0.03, T:0.45
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:78927255 original size:18 final size:19
Alignment explanation
Indices: 78927218--78927255 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
78927208 TAGCAATAAA
*
78927218 TTAATTACACATGGTGATT
1 TTAATTACACATGATGATT
*
78927237 TTAATTACTCAT-ATGATT
1 TTAATTACACATGATGATT
78927255 T
1 T
78927256 GTTTTCAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (19 bp):
TTAATTACACATGATGATT
Found at i:78928917 original size:3 final size:3
Alignment explanation
Indices: 78928909--78928953 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
78928899 TTTTGGGTGG
78928909 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
78928954 GTAAAAGCTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:78930116 original size:16 final size:16
Alignment explanation
Indices: 78930095--78930130 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
78930085 AAATATAAAT
78930095 TAAAAAATTTAAA-AAA
1 TAAAAAA-TTAAAGAAA
78930111 TAAAAAATTAAAGAAA
1 TAAAAAATTAAAGAAA
78930127 TAAA
1 TAAA
78930131 TAAAATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (16 bp):
TAAAAAATTAAAGAAA
Found at i:78935101 original size:48 final size:47
Alignment explanation
Indices: 78934989--78935289 Score: 234
Period size: 46 Copynumber: 6.3 Consensus size: 47
78934979 GGTGATATGT
* * *
78934989 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC---ACATTATGA
1 GAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTTGAGA-TAT-A
*
78935035 GAGCCAGTGTGAGACATGTTTGGGACATGCATCGGCCTTGAGATATA
1 GAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTTGAGATATA
* * * **
78935082 CCAGCCAGTGTAAGACATGTTTGGGACATGCATTGGCATTGAGA-CGA
1 -GAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTTGAGATATA
* * *
78935129 GAGCTAGTGTAAGACATGTTTGGGACATACATCGGCCTCGAGATATA
1 GAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTTGAGATATA
* * * * * * * *
78935176 CAAGCTAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGA
1 -GAGCCAGTGTAAGACATGTTTGGGACAT-GCATCGGC-CTTGAGATAT-A
* * * * * *
78935226 GAGCCAGTGTAAGACCTATCTGGGACACGGCATCGGCCTCGATATATGA
1 GAGCCAGTGTAAGACATGTTTGGGACA-TGCATCGGCCTTGAGATAT-A
* *
78935275 AAGTCAGTGTAAGAC
1 GAGCCAGTGTAAGAC
78935290 CTATCTAGGA
Statistics
Matches: 211, Mismatches: 33, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
46 71 0.34
47 3 0.01
48 68 0.32
49 67 0.32
50 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTTGAGATATA
Found at i:78935144 original size:94 final size:92
Alignment explanation
Indices: 78934994--78935303 Score: 291
Period size: 94 Copynumber: 3.3 Consensus size: 92
78934984 TATGTGAGCT
* *
78934994 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTGAGACATGTTTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCGG-C-CATTACGAGAGCCAGTGTAAGACATGTTTGGG
* * *
78935059 ACATGCATCGGCCTTGAGATATACCAGCC
64 ACATACATCGGCCTCGAGATATACAAGCC
* * *
78935088 AGTGTAAGACATGTTTGGGACATGCATTGG-CATTGAGACGAGAGCTAGTGTAAGACATGTTTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATT---ACGAGAGCCAGTGTAAGACATGTTTGG
*
78935152 GACATACATCGGCCTCGAGATATACAAGCT
63 GACATACATCGGCCTCGAGATATACAAGCC
* * * * * * *
78935182 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCCAGTGTAAGACCTATCT
1 AGTGTAAGACATGTCTGGGACAT-GCATCG--GCC-AT-TACGAGAGCCAGTGTAAGACATGTTT
** * *
78935247 GGGACACGGCATCGGCCTCGATATATGA-AAGTC
61 GGGACA-TACATCGGCCTCGAGATAT-ACAAGCC
* * *
78935280 AGTGTAAGACCTATCTAGGACATG
1 AGTGTAAGACATGTCTGGGACATG
78935304 GTATCGACTT
Statistics
Matches: 179, Mismatches: 26, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
91 4 0.02
94 99 0.55
95 5 0.03
97 27 0.15
98 41 0.23
99 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCATTACGAGAGCCAGTGTAAGACATGTTTGGGAC
ATACATCGGCCTCGAGATATACAAGCC
Found at i:78935239 original size:49 final size:49
Alignment explanation
Indices: 78935134--78935311 Score: 173
Period size: 49 Copynumber: 3.7 Consensus size: 49
78935124 GACGAGAGCT
* * * * * * * *
78935134 AGTGTAAGACATGTTTGGGACAT-ACATCGGCCTCGAGATAT-ACAAGCT
1 AGTGTAAGACCTATCTGGGACATGGCATCGACCTCGATAGATGA-AAGCC
* *
78935182 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTATCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCC
* * * *
78935231 AGTGTAAGACCTATCTGGGACACGGCATCGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTATCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* *
78935280 AGTGTAAGACCTATCTAGGACATGGTATCGAC
1 AGTGTAAGACCTATCTGGGACATGGCATCGAC
78935312 TTTGATATGC
Statistics
Matches: 108, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
48 22 0.20
49 84 0.78
50 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (49 bp):
AGTGTAAGACCTATCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
Found at i:78939159 original size:16 final size:17
Alignment explanation
Indices: 78939138--78939175 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
78939128 AGCAGGGAAA
*
78939138 GAAATAAGAA-AAAAGG
1 GAAATAAAAAGAAAAGG
78939154 GAAATAAAAAGAAAAGG
1 GAAATAAAAAGAAAAGG
*
78939171 AAAAT
1 GAAAT
78939176 TTAAGGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.08
Consensus pattern (17 bp):
GAAATAAAAAGAAAAGG
Found at i:78939167 original size:19 final size:20
Alignment explanation
Indices: 78939131--78939168 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
78939121 CACAAATAGC
78939131 AGGGAAAGAAATAAGAAAAA
1 AGGGAAAGAAATAAGAAAAA
*
78939151 AGGGAAATAAA-AAGAAAA
1 AGGGAAAGAAATAAGAAAA
78939169 GGAAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (20 bp):
AGGGAAAGAAATAAGAAAAA
Found at i:78946448 original size:19 final size:20
Alignment explanation
Indices: 78946412--78946449 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
78946402 CACGAATAGT
78946412 AGGGAAAGAAATAAGAAAAA
1 AGGGAAAGAAATAAGAAAAA
78946432 AGGGAAAGAAA-AAGAAAA
1 AGGGAAAGAAATAAGAAAA
78946450 GGAAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (20 bp):
AGGGAAAGAAATAAGAAAAA
Found at i:78948467 original size:46 final size:43
Alignment explanation
Indices: 78948399--78948523 Score: 135
Period size: 46 Copynumber: 2.7 Consensus size: 43
78948389 TATGTGTGCT
*
78948399 AGTGTAAGACATGTCTGAGACATGCATCGGTCACATT-ATGAGAGCC
1 AGTGTAAGACATGTCTG-GACATGCATCGG-C-C-TTGACGAGAGCC
*
78948445 AGTGTAAGACATGTCTAGGACATGCATCGGCCTTGAGACGAGAGCT
1 AGTGTAAGACATGTCT-GGACATGCATCGGCCTT--GACGAGAGCC
* *
78948491 AGTGTAAGACATGTCTGGGACATACATCAGCCT
1 AGTGTAAGACATGTCT-GGACATGCATCGGCCT
78948524 CGAGATATAC
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
43 2 0.03
44 1 0.01
45 1 0.01
46 65 0.93
47 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (43 bp):
AGTGTAAGACATGTCTGGACATGCATCGGCCTTGACGAGAGCC
Found at i:78948773 original size:28 final size:28
Alignment explanation
Indices: 78948742--78948795 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
78948732 ACCCCAAATT
78948742 GACCATTAAAAACTATTCGGGATTAATC
1 GACCATTAAAAACTATTCGGGATTAATC
*
78948770 GACCATTGAAAACTATTCGGGATTAA
1 GACCATTAAAAACTATTCGGGATTAA
78948796 CCCGGGTCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (28 bp):
GACCATTAAAAACTATTCGGGATTAATC
Found at i:78950683 original size:18 final size:18
Alignment explanation
Indices: 78950655--78950718 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
78950645 GAACAATTAT
* *
78950655 TTATTTAGTAATAGTCAG
1 TTATTCAGTAATAATCAG
* * *
78950673 TTATTCGGTAACAATCAA
1 TTATTCAGTAATAATCAG
*
78950691 TTATTCAATAATAATCAG
1 TTATTCAGTAATAATCAG
78950709 TTATTCAGTA
1 TTATTCAGTA
78950719 TCAATCAATT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (18 bp):
TTATTCAGTAATAATCAG
Found at i:78950686 original size:36 final size:36
Alignment explanation
Indices: 78950621--78950728 Score: 110
Period size: 36 Copynumber: 3.0 Consensus size: 36
78950611 CAATCATTAA
* * * * * *
78950621 TATTCATTAACAATCAGTCAATCAG-AACAATTATT
1 TATTCAATAATAATCAGTTATTCAGTAACAATCAAT
* * * *
78950656 TATTTAGTAATAGTCAGTTATTCGGTAACAATCAAT
1 TATTCAATAATAATCAGTTATTCAGTAACAATCAAT
*
78950692 TATTCAATAATAATCAGTTATTCAGTATCAATCAAT
1 TATTCAATAATAATCAGTTATTCAGTAACAATCAAT
78950728 T
1 T
78950729 GATCGGTTAT
Statistics
Matches: 58, Mismatches: 14, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
35 18 0.31
36 40 0.69
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (36 bp):
TATTCAATAATAATCAGTTATTCAGTAACAATCAAT
Found at i:78950724 original size:18 final size:18
Alignment explanation
Indices: 78950669--78950725 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
78950659 TTAGTAATAG
* *
78950669 TCAGTTATTCGGTAACAA
1 TCAGTTATTCAGTATCAA
* *
78950687 TCAATTATTCAATAAT-AA
1 TCAGTTATTCAGT-ATCAA
78950705 TCAGTTATTCAGTATCAA
1 TCAGTTATTCAGTATCAA
78950723 TCA
1 TCA
78950726 ATTGATCGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
17 2 0.06
18 28 0.90
19 1 0.03
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.37
Consensus pattern (18 bp):
TCAGTTATTCAGTATCAA
Found at i:78950761 original size:18 final size:18
Alignment explanation
Indices: 78950735--78950805 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 18
78950725 AATTGATCGG
*
78950735 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* *
78950753 TTATTCAGTAAAAATCAA
1 TTATTCAGTAACAGTCAA
* * *
78950771 TTATACAGTAACAATTAAA
1 TTATTCAGTAAC-AGTCAA
*
78950790 TTATTCACTAACAGTC
1 TTATTCAGTAACAGTC
78950806 GATCTTTCCA
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
18 27 0.66
19 14 0.34
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.32
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:78950801 original size:19 final size:19
Alignment explanation
Indices: 78950751--78950802 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
78950741 AGTAACAGTC
*
78950751 AATTATTCAGTAA-AAATC
1 AATTATTCAGTAACAAATA
* *
78950769 AATTATACAGTAACAATTA
1 AATTATTCAGTAACAAATA
*
78950788 AATTATTCACTAACA
1 AATTATTCAGTAACA
78950803 GTCGATCTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.50, C:0.13, G:0.04, T:0.33
Consensus pattern (19 bp):
AATTATTCAGTAACAAATA
Found at i:78950972 original size:47 final size:47
Alignment explanation
Indices: 78950917--78951009 Score: 159
Period size: 47 Copynumber: 2.0 Consensus size: 47
78950907 CGGCTGAAGC
*
78950917 CGGAACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATT
1 CGGAACAGTAACAGTACGATACACAGAGTACCTCATCGGAACAAATT
* *
78950964 CGGAACAGTAATAGTACGATACACGGAGTACCTCATCGGAACAAAT
1 CGGAACAGTAACAGTACGATACACAGAGTACCTCATCGGAACAAAT
78951010 CCAAAACAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.17
Consensus pattern (47 bp):
CGGAACAGTAACAGTACGATACACAGAGTACCTCATCGGAACAAATT
Found at i:78951023 original size:47 final size:47
Alignment explanation
Indices: 78950920--78951026 Score: 151
Period size: 47 Copynumber: 2.3 Consensus size: 47
78950910 CTGAAGCCGG
* * * **
78950920 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATTCGG
1 AACAGTAATAGTACGATACACAGAGTACCTCATCGGAACAAATCCAA
*
78950967 AACAGTAATAGTACGATACACGGAGTACCTCATCGGAACAAATCCAA
1 AACAGTAATAGTACGATACACAGAGTACCTCATCGGAACAAATCCAA
*
78951014 AACAATAATAGTA
1 AACAGTAATAGTA
78951027 ACGGTAACAA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 53 1.00
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (47 bp):
AACAGTAATAGTACGATACACAGAGTACCTCATCGGAACAAATCCAA
Found at i:78952297 original size:17 final size:16
Alignment explanation
Indices: 78952267--78952306 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
78952257 AACCTTGAAT
*
78952267 TTTCCTTTTTTCTTTC
1 TTTCCTTTTTTCTTCC
78952283 TTTCCTTTCTTTCTTCC
1 TTTCCTTT-TTTCTTCC
78952300 TTTCCTT
1 TTTCCTT
78952307 CCCTTGCTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTCCTTTTTTCTTCC
Found at i:78952412 original size:14 final size:14
Alignment explanation
Indices: 78952385--78952417 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
78952375 AATATAATAA
*
78952385 TATT-ATAAATATC
1 TATTAATAAAAATC
78952398 TATTAATAAAAATC
1 TATTAATAAAAATC
78952412 TATTAA
1 TATTAA
78952418 ATAACCAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
TATTAATAAAAATC
Found at i:78953312 original size:46 final size:44
Alignment explanation
Indices: 78953219--78953386 Score: 135
Period size: 46 Copynumber: 3.6 Consensus size: 44
78953209 TCTCGTAGTT
* ** *
78953219 GATGCATGTCCCAAATATGTCTTACACTGGCTTAT-GTCTCGAGGCC
1 GATGCATGTCCCAAACATGTCTTACACT-GC--ATCGTCTAAATGCC
* *
78953265 GATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTAATGCC
1 GATGCATGTCCCAAACATGTCTTACACT-GCA-TCGTCTAAATGCC
*
78953311 GATGCCATGTCCCAAACATGGT-TTAACACTGGATC-TCATAATATGGCC
1 GATG-CATGTCCCAAACAT-GTCTT-ACACTGCATCGTC-TAA-AT-GCC
* *
78953359 AATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAAACATGTCTTACACT
78953387 TGCTCACAAT
Statistics
Matches: 102, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
44 1 0.01
45 3 0.03
46 51 0.50
47 34 0.33
48 13 0.13
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (44 bp):
GATGCATGTCCCAAACATGTCTTACACTGCATCGTCTAAATGCC
Found at i:78954672 original size:49 final size:48
Alignment explanation
Indices: 78954615--78954785 Score: 166
Period size: 49 Copynumber: 3.5 Consensus size: 48
78954605 TGTTGTGTGT
* * *
78954615 CAGTGTAAGACCTGTCTAGGACATGGCATCGACACTGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGACATCGAC-CTGATAGATGAAAGC
* * * * * * * *
78954664 CAGTGTAAGACATGTTTGAGACACGACATTGGCCTTGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGACATCGACC-TGATAGATGAAAGC
* **
78954713 CAGTGTAAGACCTGTCTGGGACATGACATCGACTTTGAT-G-TGCTAGC
1 CAGTGTAAGACCTGTCTGGGACATGACATCGAC-CTGATAGATGAAAGC
78954760 CAGTGTAAGACCATGTCTGGGACATG
1 CAGTGTAAGACC-TGTCTGGGACATG
78954786 GTGCCGGCAT
Statistics
Matches: 97, Mismatches: 22, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
47 16 0.16
48 14 0.14
49 67 0.69
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
CAGTGTAAGACCTGTCTGGGACATGACATCGACCTGATAGATGAAAGC
Found at i:78956466 original size:15 final size:15
Alignment explanation
Indices: 78956448--78956506 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
78956438 CTTCTCTATC
78956448 TTGGATCTCTTTATT
1 TTGGATCTCTTTATT
78956463 TTGGATCTCTTTATT
1 TTGGATCTCTTTATT
* * * * *
78956478 CTGGGTTTCTCTGTT
1 TTGGATCTCTTTATT
*
78956493 TTGGATTTCTTTAT
1 TTGGATCTCTTTAT
78956507 CTTAGTTTTC
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.10, C:0.14, G:0.17, T:0.59
Consensus pattern (15 bp):
TTGGATCTCTTTATT
Found at i:78958765 original size:49 final size:49
Alignment explanation
Indices: 78958547--78958766 Score: 145
Period size: 49 Copynumber: 4.6 Consensus size: 49
78958537 TATGTGTGCT
* *
78958547 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATAT-ACAAGCT-
1 AGTGTAAGACCTGTCTGGGACATGGCATCGG-CTCGATATATGACAA-CTC
* * * * * * **
78958595 AGTGTAAGACCTGTCTGGGATAGGGAATTGGCTTG-T-TGTG---TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCTCGATATATGACAACTC
* * * * * * *
78958639 AGTGTAAGACCTATCTAGGACATGGCATCGACACTGATAGATGAGAGC-C
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCTC-GATATATGACAACTC
* * **
78958688 AATGTAAGACCTGGCTGGGACACAGCATCGGTCTCGATATATGA-AACTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGG-CTCGATATATGACAACTC
78958737 AGTGTAAGACCTGTCTGGGACATGGCATCG
1 AGTGTAAGACCTGTCTGGGACATGGCATCG
78958767 ACTTTGATGT
Statistics
Matches: 124, Mismatches: 37, Indels: 21
0.68 0.20 0.12
Matches are distributed among these distances:
43 1 0.01
44 25 0.20
45 1 0.01
46 3 0.02
47 2 0.02
48 25 0.20
49 65 0.52
50 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGCTCGATATATGACAACTC
Found at i:78964325 original size:18 final size:18
Alignment explanation
Indices: 78964292--78964349 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
78964282 AGGCCATTTT
78964292 GGGCTATGTGGG-CCACAC
1 GGGCT-TGTGGGTCCACAC
78964310 GGGCTTGTGGGTCCACAC
1 GGGCTTGTGGGTCCACAC
* * *
78964328 GAGCGTGTGGGTCTACAC
1 GGGCTTGTGGGTCCACAC
78964346 GGGC
1 GGGC
78964350 CAGCAATAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 6 0.17
18 29 0.83
ACGTcount: A:0.14, C:0.26, G:0.41, T:0.19
Consensus pattern (18 bp):
GGGCTTGTGGGTCCACAC
Found at i:78964763 original size:38 final size:38
Alignment explanation
Indices: 78964709--78964786 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 38
78964699 TGGAGTGTAA
*
78964709 GGATAGGTGGGTTGATTATATCCCCACATAGAGTATAG
1 GGATAGGTGAGTTGATTATATCCCCACATAGAGTATAG
* * *
78964747 GGATGGGTGAGTTGATTATATCCCCACATGGAGTGTAG
1 GGATAGGTGAGTTGATTATATCCCCACATAGAGTATAG
78964785 GG
1 GG
78964787 TTGGACGGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.26, C:0.13, G:0.33, T:0.28
Consensus pattern (38 bp):
GGATAGGTGAGTTGATTATATCCCCACATAGAGTATAG
Found at i:78965675 original size:25 final size:25
Alignment explanation
Indices: 78965628--78965675 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
78965618 AAACTGAAAT
* * *
78965628 TGAAACTGTTTTTGATAGTATATCC
1 TGAAACTGTTATAGATAGCATATCC
*
78965653 TGAAACTGTTATAGGTAGCATAT
1 TGAAACTGTTATAGATAGCATAT
78965676 ACTAAGACTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (25 bp):
TGAAACTGTTATAGATAGCATATCC
Found at i:78980263 original size:13 final size:13
Alignment explanation
Indices: 78980245--78980289 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
78980235 AACGAAGTAA
78980245 AACACGACCGTGT
1 AACACGACCGTGT
78980258 AACACGACCGTGT
1 AACACGACCGTGT
* *
78980271 GACACGACCATGT
1 AACACGACCGTGT
*
78980284 GACACG
1 AACACG
78980290 GCTCGTGTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.31, C:0.31, G:0.24, T:0.13
Consensus pattern (13 bp):
AACACGACCGTGT
Found at i:78980275 original size:26 final size:27
Alignment explanation
Indices: 78980246--78980298 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
78980236 ACGAAGTAAA
*
78980246 ACACGACCGTGTAACACGAC-CGTGTG
1 ACACGACCATGTAACACGACTCGTGTG
* *
78980272 ACACGACCATGTGACACGGCTCGTGTG
1 ACACGACCATGTAACACGACTCGTGTG
78980299 CACCCACACG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.25, C:0.30, G:0.28, T:0.17
Consensus pattern (27 bp):
ACACGACCATGTAACACGACTCGTGTG
Found at i:78987139 original size:30 final size:30
Alignment explanation
Indices: 78987104--78987163 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
78987094 TATTTTATTA
*
78987104 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
*
78987134 TTAATTTTATTATTATTTTAAAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
78987164 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.02, G:0.12, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:78988628 original size:16 final size:16
Alignment explanation
Indices: 78988607--78988661 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
78988597 GTTTGATTCC
78988607 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGGG
* *
78988623 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGGG
78988639 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGGG
*
78988655 TTGTAAT
1 CTGTAAT
78988662 AATATACAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.33, C:0.05, G:0.31, T:0.31
Consensus pattern (16 bp):
CTGTAATGGAATAGGG
Found at i:78988673 original size:32 final size:32
Alignment explanation
Indices: 78988607--78988675 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
78988597 GTTTGATTCC
* *
78988607 CTGTAATGGAATAGGGCTGTAATTGAATAGAG
1 CTGTAATGGAATAGGGCTGTAATTAAATACAG
*
78988639 CTGTAATGGAATAGGGTTGTAA-TAATATACAG
1 CTGTAATGGAATAGGGCTGTAATTAA-ATACAG
78988671 CTGTA
1 CTGTA
78988676 GTCAGTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 2 0.06
32 31 0.94
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (32 bp):
CTGTAATGGAATAGGGCTGTAATTAAATACAG
Found at i:78988866 original size:26 final size:25
Alignment explanation
Indices: 78988817--78988867 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
78988807 ATGATTATTG
*
78988817 TTATTGTTATTAAATTTTAATAAAA
1 TTATTGTTAATAAATTTTAATAAAA
* *
78988842 TTATTGTTAAATATATTTTATTAAAA
1 TTATTGTT-AATAAATTTTAATAAAA
78988868 AAATAATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (25 bp):
TTATTGTTAATAAATTTTAATAAAA
Found at i:78988927 original size:60 final size:56
Alignment explanation
Indices: 78988827--78988967 Score: 147
Period size: 57 Copynumber: 2.4 Consensus size: 56
78988817 TTATTGTTAT
* * * * *
78988827 TAAATTTTAATAAAATTATTGTTAAATATATTTTATTAAAAAAATAATAAATAATTTAA
1 TAAATTTTAATATAATTATTATTAAATACA--AT-TTAATAAAATAATAAATAATTTAA
* * *
78988886 TCAAATTTTAACATAATTATTATTAAATGCAATTTAATAAAATAATATATAATTTAA
1 T-AAATTTTAATATAATTATTATTAAATACAATTTAATAAAATAATAAATAATTTAA
*
78988943 TAACATTCTTAATATAATAATTATT
1 TAA-ATT-TTAATATAATTATTATT
78988968 GCTATATGAA
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
56 2 0.03
57 26 0.38
58 16 0.23
59 1 0.01
60 24 0.35
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (56 bp):
TAAATTTTAATATAATTATTATTAAATACAATTTAATAAAATAATAAATAATTTAA
Found at i:78992591 original size:43 final size:43
Alignment explanation
Indices: 78992543--78992708 Score: 201
Period size: 43 Copynumber: 3.9 Consensus size: 43
78992533 GTTATCGAGA
* *
78992543 TGTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
78992586 TGTGATTACGTGTAAGACCATGTCTGGAACATTGGGATCGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * *
78992629 TATGATTTCATGTAAGACCTTGTCTGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
78992671 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
78992709 TGTACGAGCT
Statistics
Matches: 104, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
42 8 0.08
43 96 0.92
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:79006508 original size:21 final size:24
Alignment explanation
Indices: 79006447--79006508 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 24
79006437 AATCTCAAAG
79006447 TCAAATCATACAAACAATTGACTA
1 TCAAATCATACAAACAATTGACTA
* *
79006471 TCAAATTATA-AAA-AATT-CCT-
1 TCAAATCATACAAACAATTGACTA
*
79006491 T-TAATCATACAAACAATT
1 TCAAATCATACAAACAATT
79006509 ATTTTTGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
19 6 0.19
20 4 0.12
21 6 0.19
22 4 0.12
23 3 0.09
24 9 0.28
ACGTcount: A:0.50, C:0.18, G:0.02, T:0.31
Consensus pattern (24 bp):
TCAAATCATACAAACAATTGACTA
Found at i:79006984 original size:22 final size:24
Alignment explanation
Indices: 79006926--79006984 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 24
79006916 TCAAAGTCAG
79006926 ATCATACAAACAATTGACTATTAA
1 ATCATACAAACAATTGACTATTAA
* **
79006950 ATTATA-AAA-AATTTCCTA-T-A
1 ATCATACAAACAATTGACTATTAA
79006970 ATCATACAAACAATT
1 ATCATACAAACAATT
79006985 AAGTTTCCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
20 6 0.21
21 4 0.14
22 11 0.38
23 3 0.10
24 5 0.17
ACGTcount: A:0.51, C:0.15, G:0.02, T:0.32
Consensus pattern (24 bp):
ATCATACAAACAATTGACTATTAA
Found at i:79013594 original size:42 final size:42
Alignment explanation
Indices: 79013491--79013650 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 42
79013481 ATATGTGTTA
* * *
79013491 TCGTGTAAGACCACGT-TCGGGATATTGGCATCGATTTGTGATT
1 TCGTGTAAGACCATGTCT-GGGACATTGGCATCGATAT-TGATT
*
79013534 TACGTGTCAGACCATGTCTGGGACATTGGCATC-ATATATGATT
1 T-CGTGTAAGACCATGTCTGGGACATTGGCATCGATAT-TGATT
*
79013577 TCGTGTAAGATCC-TGTCTGGGACAGTGGCATCGATATTCGATT
1 TCGTGTAAGA-CCATGTCTGGGACATTGGCATCGATATT-GATT
* * * *
79013620 ACATGTAAGACCACGTTTGGGACATTGGCAT
1 TCGTGTAAGACCATGTCTGGGACATTGGCAT
79013651 TGTACGAGTT
Statistics
Matches: 99, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
42 29 0.29
43 43 0.43
44 26 0.26
45 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACATTGGCATCGATATTGATT
Found at i:79018078 original size:21 final size:21
Alignment explanation
Indices: 79018044--79018111 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
79018034 GGTCCAAGCA
* *
79018044 GTGTGAC-AAGGGACACGCCT
1 GTGTGACTGAGGGACACGCCC
*
79018064 GTGTGACTGAGGGACATGCCC
1 GTGTGACTGAGGGACACGCCC
* *
79018085 ATGTGACTGAGGGTCACGCCC
1 GTGTGACTGAGGGACACGCCC
79018106 GTGTGA
1 GTGTGA
79018112 ATAGGTTGTG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 7 0.17
21 33 0.82
ACGTcount: A:0.21, C:0.24, G:0.37, T:0.19
Consensus pattern (21 bp):
GTGTGACTGAGGGACACGCCC
Found at i:79022305 original size:46 final size:45
Alignment explanation
Indices: 79022180--79022316 Score: 152
Period size: 46 Copynumber: 3.0 Consensus size: 45
79022170 ATGTAACCCC
*
79022180 AGTCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCT
1 AGTCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCT
* *** *
79022225 AGTTACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-
1 AG-TCCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CT
*
79022274 A-TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCC
1 AGTCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
79022317 CAAATATCCT
Statistics
Matches: 75, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.04
45 2 0.03
46 32 0.43
47 32 0.43
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCT
Found at i:79022331 original size:46 final size:44
Alignment explanation
Indices: 79022188--79022331 Score: 98
Period size: 46 Copynumber: 3.1 Consensus size: 44
79022178 CCAGTCCATA
* * *
79022188 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCCA---A-ATC-CT
* * * *
79022237 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC--AGATGCCCAAATCC-T
79022280 AAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCC-AA-ATCCT
79022327 AGTGA
1 AGTGA
79022332 CATGTCACTT
Statistics
Matches: 74, Mismatches: 11, Indels: 23
0.69 0.10 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 5 0.07
46 31 0.42
47 26 0.35
48 4 0.05
49 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCCAAATCCT
Found at i:79024715 original size:29 final size:29
Alignment explanation
Indices: 79024669--79024755 Score: 88
Period size: 29 Copynumber: 3.0 Consensus size: 29
79024659 AAAAGATAAC
79024669 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAAT-AAGAAATCCAAGATA
* *
79024698 GAGAAACCCAGAATAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAGAAATCCAAG-ATA
* * * *
79024727 AAGATATCCAGGATAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAGAAATCCAAGATA
79024756 CGATATATGC
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
28 2 0.04
29 40 0.83
30 6 0.12
ACGTcount: A:0.56, C:0.16, G:0.16, T:0.11
Consensus pattern (29 bp):
AAGAAAACCAGAATAAGAAATCCAAGATA
Found at i:79024735 original size:15 final size:15
Alignment explanation
Indices: 79024669--79024746 Score: 74
Period size: 14 Copynumber: 5.4 Consensus size: 15
79024659 AAAAGATAAC
*
79024669 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
79024683 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
79024698 GAGAAACCCAGAAT-
1 AAGAAATCCAGAATA
79024712 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
79024727 AAGATATCCAGGAT-
1 AAGAAATCCAGAATA
79024741 AAGAAA
1 AAGAAA
79024747 CCCAAGATAC
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
14 26 0.50
15 25 0.48
16 1 0.02
ACGTcount: A:0.58, C:0.14, G:0.17, T:0.12
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:79024755 original size:14 final size:14
Alignment explanation
Indices: 79024683--79024755 Score: 60
Period size: 14 Copynumber: 5.1 Consensus size: 14
79024673 AAACCGAATA
79024683 AAGAAATCCAAGAT
1 AAGAAATCCAAGAT
*
79024697 AGAGAAA-CCCAGAAT
1 A-AGAAATCCAAG-AT
79024712 AAGAAATCC-AGAAT
1 AAGAAATCCAAG-AT
* *
79024726 AAAGATATCCAGGAT
1 -AAGAAATCCAAGAT
*
79024741 AAGAAACCCAAGAT
1 AAGAAATCCAAGAT
79024755 A
1 A
79024756 CGATATATGC
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
14 27 0.56
15 20 0.42
16 1 0.02
ACGTcount: A:0.55, C:0.16, G:0.16, T:0.12
Consensus pattern (14 bp):
AAGAAATCCAAGAT
Found at i:79027800 original size:93 final size:93
Alignment explanation
Indices: 79027690--79027861 Score: 256
Period size: 93 Copynumber: 1.8 Consensus size: 93
79027680 GCCCATAAGT
* * *
79027690 GAACTCGAGCTCAACTCAACAAGCTCGGGCCTTCACATCCATAAGTGAACTCGGACTCAACTTAA
1 GAACTCGAGCTCAACTCAACAAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
79027755 CGAGCTCAGATGCCTAGTTACATCTCTC
66 CGAGCTCAGATGCCTAGTTACATCTCTC
* * *
79027783 GAACTCG-GACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGAG-CTCAACTCAACAAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
* *
79027847 ACGAGTTCGGATGCC
65 ACGAGCTCAGATGCC
79027862 CAAATATCCT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
92 1 0.01
93 69 0.99
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGAGCTCAACTCAACAAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCTC
Found at i:79027845 original size:46 final size:45
Alignment explanation
Indices: 79027682--79027857 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 45
79027672 TGTAACCCGC
* * *
79027682 CCATAAGTGAACTC-GAGCTCAACTCAACAAGCTCGGGCCTTCACAT
1 CCATAAGTGAACTCGGA-CTCAACTCAACGAGCTCGGACATTC-CAT
* * *
79027728 CCATAAGTGAACTCGGACTCAACTTAACGAGCTC--AGATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCC-A--T
* *** *
79027774 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTC-CAT
*
79027821 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
79027858 TGCCCAAATA
Statistics
Matches: 104, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 63 0.61
47 31 0.30
49 5 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCCAT
Found at i:79039124 original size:37 final size:37
Alignment explanation
Indices: 79039074--79039148 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
79039064 AATCAAAGAT
* *
79039074 AAACATTTAAATCTTACAGTCTCAGAGTTTCACACGG
1 AAACATTTAAATCTTACAATCTCAAAGTTTCACACGG
79039111 AAACATTTAAATCTTACAATCTCAAAGTTTCACACGG
1 AAACATTTAAATCTTACAATCTCAAAGTTTCACACGG
79039148 A
1 A
79039149 CCAGCATCGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (37 bp):
AAACATTTAAATCTTACAATCTCAAAGTTTCACACGG
Found at i:79049845 original size:5 final size:5
Alignment explanation
Indices: 79049835--79049867 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
79049825 CAATTTGTGA
79049835 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
79049868 GAACACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:79053232 original size:36 final size:36
Alignment explanation
Indices: 79053185--79053258 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
79053175 GACAAGTAAG
79053185 AAATCCCGTTTGAACCTTATGAATAAATTAGGATAC
1 AAATCCCGTTTGAACCTTATGAATAAATTAGGATAC
*
79053221 AAATCCCGTTTGAACCTTATGAATAGATTAGGATAC
1 AAATCCCGTTTGAACCTTATGAATAAATTAGGATAC
79053257 AA
1 AA
79053259 GTGACATGTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (36 bp):
AAATCCCGTTTGAACCTTATGAATAAATTAGGATAC
Found at i:79063959 original size:2 final size:2
Alignment explanation
Indices: 79063954--79063978 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
79063944 TATATATATA
79063954 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
79063979 ATATAGCTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:79065647 original size:50 final size:50
Alignment explanation
Indices: 79065589--79065703 Score: 133
Period size: 50 Copynumber: 2.3 Consensus size: 50
79065579 CCACTCATTT
* * * *
79065589 GGCCGAATATGCAAGAT-CAAGTATAAGATCACATATGTACATATCTATAA
1 GGCCGAATATGCAAGATCCAA-CATAACATCACATAAGTACATACCTATAA
* * * **
79065639 GGCTGAATATACAAGTTCCAACATAACATCACATAAGTACATACCTATGT
1 GGCCGAATATGCAAGATCCAACATAACATCACATAAGTACATACCTATAA
79065689 GGCCGAATATGCAAG
1 GGCCGAATATGCAAG
79065704 GTCATTTAAC
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
50 50 0.94
51 3 0.06
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (50 bp):
GGCCGAATATGCAAGATCCAACATAACATCACATAAGTACATACCTATAA
Found at i:79076709 original size:48 final size:48
Alignment explanation
Indices: 79076653--79076788 Score: 182
Period size: 48 Copynumber: 2.8 Consensus size: 48
79076643 TCGATATGTG
79076653 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATCTACA
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATCTACA
* * * * ***
79076701 ATCTCATGTAAGACCATGTCTAGGACATGGCATTGGCATCAGTTTGTG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATCTACA
* * *
79076749 ATCCCATGTAAGACCATATCCGGGATATGGCATTGGCATC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
79076789 CTACCATGTG
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 76 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (48 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATCTACA
Found at i:79083935 original size:12 final size:13
Alignment explanation
Indices: 79083905--79083935 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
79083895 ATGATGCATA
79083905 GGTTACCTCTATG
1 GGTTACCTCTATG
79083918 GGTTACCTCTAT-
1 GGTTACCTCTATG
79083930 GGTTAC
1 GGTTAC
79083936 AAGTTCAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (13 bp):
GGTTACCTCTATG
Found at i:79089716 original size:12 final size:13
Alignment explanation
Indices: 79089699--79089733 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
79089689 CCATTTTTCC
79089699 TATTTTATTTT-T
1 TATTTTATTTTAT
79089711 TATTTTATTTTAT
1 TATTTTATTTTAT
*
79089724 TTTTTTATTT
1 TATTTTATTT
79089734 CACCTTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TATTTTATTTTAT
Found at i:79089721 original size:17 final size:18
Alignment explanation
Indices: 79089699--79089733 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
79089689 CCATTTTTCC
79089699 TATTTTA-TTTTTTATTT
1 TATTTTATTTTTTTATTT
79089716 TATTTTATTTTTTTATTT
1 TATTTTATTTTTTTATTT
79089734 CACCTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (18 bp):
TATTTTATTTTTTTATTT
Found at i:79091333 original size:6 final size:6
Alignment explanation
Indices: 79091322--79091378 Score: 66
Period size: 6 Copynumber: 10.0 Consensus size: 6
79091312 ATTGAGTCCA
* *
79091322 TTTATT TTTA-T TTTA-T TTTA-T TTTATT TTTATA TTTATT TTTATG
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
79091367 TTTATT GTTATT
1 TTTATT TTTATT
79091379 GTCTTAGATT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
5 15 0.33
6 30 0.67
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:79091360 original size:12 final size:11
Alignment explanation
Indices: 79091322--79091378 Score: 80
Period size: 12 Copynumber: 5.1 Consensus size: 11
79091312 ATTGAGTCCA
79091322 TTTATTTTTAT
1 TTTATTTTTAT
79091333 TTTA-TTTTAT
1 TTTATTTTTAT
79091343 TTTATTTTTAT
1 TTTATTTTTAT
79091354 ATTTATTTTTAT
1 -TTTATTTTTAT
*
79091366 GTTTATTGTTAT
1 -TTTATTTTTAT
79091378 T
1 T
79091379 GTCTTAGATT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.24
11 11 0.26
12 21 0.50
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (11 bp):
TTTATTTTTAT
Done.