Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold22
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: 1926927
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.27
Warning! 314813 characters in sequence are not A, C, G, or T
File 4 of 11
Found at i:470081 original size:66 final size:63
Alignment explanation
Indices: 470009--470150 Score: 169
Period size: 63 Copynumber: 2.2 Consensus size: 63
469999 AGTTGGTTTG
* ** * * *
470009 TATGGTTTCGTCTCGATTAACCCTTTTTCAACTTAGGTTTCACTTTGCTCATCCAAAGTT-AGTT
1 TATGGTTTCGTCCCGACCAACCCTTTTT-AACTCAAGTTTCACTTAG-TCA-CCAAAGTTGA-TT
470073 CA
62 CA
*
470075 TATGGTTTCGTCCCGGCCAACCCTTTTTAACTCAAGTTTCACTTAGTCACCAAAGTTGATTCA
1 TATGGTTTCGTCCCGACCAACCCTTTTTAACTCAAGTTTCACTTAGTCACCAAAGTTGATTCA
*
470138 TATGGTTTTGTCC
1 TATGGTTTCGTCC
470151 TGGTCAACTC
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
63 24 0.36
64 4 0.06
65 15 0.22
66 24 0.36
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (63 bp):
TATGGTTTCGTCCCGACCAACCCTTTTTAACTCAAGTTTCACTTAGTCACCAAAGTTGATTCA
Found at i:470585 original size:65 final size:65
Alignment explanation
Indices: 470483--470628 Score: 177
Period size: 65 Copynumber: 2.2 Consensus size: 65
470473 TTGGCTAACC
* * * * *
470483 CTTTTTGACTTAGGTTTTACCCGGGTTACCTTTAGTTGGTTCATATGGTTTCA-TCTCAGCCAAC
1 CTTTTTGACTTAGGTTTTACCCGAGTCACCTTCAGTTGGCTCATATGGTTTCATTCT-AACCAAC
470547 A
65 A
* * * * *
470548 CTTTTTGACTTAGGTTTTGCCCTAGTCAGCTTCAGTTGGCTCATATGGTTTCATTCTAACTAACT
1 CTTTTTGACTTAGGTTTTACCCGAGTCACCTTCAGTTGGCTCATATGGTTTCATTCTAACCAACA
*
470613 CTTTCTGACTTAGGTT
1 CTTTTTGACTTAGGTT
470629 CCATCTTGGT
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
65 66 0.96
66 3 0.04
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.43
Consensus pattern (65 bp):
CTTTTTGACTTAGGTTTTACCCGAGTCACCTTCAGTTGGCTCATATGGTTTCATTCTAACCAACA
Found at i:470809 original size:194 final size:195
Alignment explanation
Indices: 470413--470823 Score: 431
Period size: 194 Copynumber: 2.1 Consensus size: 195
470403 TCACCCTTAT
* * * * * * *
470413 CAACCCTTTTTGACTTAGGTTCCTCATTGGTCACTCAGAGCTGGTTTGTATGGTTTTGTCTTGGC
1 CAACTCTTTTTGACTTAGGTTCCTCATTGGTCACACAAAGCTGGTTCGTATGGTTTCGCCTTGAC
* ** ** *
470478 TAACCCTTTTTGACTTAGGTTTTACCCGGGTTACCTTTAGTTGGTTCATATGGTTTCATCTCAGC
66 TAACCCTTTTTGACTTAGGTTCTACCCGGGCCACCTAAAGTTAGTTCATATGGTTTCATCTCAGC
**** *
470543 CAACACTTTTTGACTTAGGTTTTGCCCTAGTCAGCTTCAGTTGGCTCATATGGTTTCATTCTAAC
131 CAACACTTTTTGACTTAGGTTCCAACCTAGTCACCTTCAGTTGGCTCATATGGTTTCATTCTAAC
* * *
470608 TAACTCTTTCTGACTTAGGTTCCATC-TTGGTCA-ACAAAGTTGGTTCGTATGGTTTCGCCTTGA
1 CAACTCTTTTTGACTTAGGTTCC-TCATTGGTCACACAAAGCTGGTTCGTATGGTTTCGCCTTGA
* ** *
470671 CTAACCCTTTTTAGACTCTA-GTTCTA-CCTGGCCACC-AAAGTTAGTTCATATGGTTTTGTCTT
65 CTAACCCTTTTT-GACT-TAGGTTCTACCCGGGCCACCTAAAGTTAGTTCATATGGTTTCATCTC
* * **
470733 AGCCAACCCTTTTTTGACTTAGGTTCCAACCTAGTCACCCTT-AGTTGGTTTGTATGGTTTCA-T
128 AGCCAACAC-TTTTTGACTTAGGTTCCAACCTAGTCA-CCTTCAGTTGGCTCATATGGTTTCATT
**
470796 CTCGGC
191 CT-AAC
470802 CAACTCTTTTTTGACTTAGGTT
1 CAACTC-TTTTTGACTTAGGTT
470824 TTGCCTTAGT
Statistics
Matches: 176, Mismatches: 33, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
193 31 0.18
194 88 0.50
195 53 0.30
196 4 0.02
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (195 bp):
CAACTCTTTTTGACTTAGGTTCCTCATTGGTCACACAAAGCTGGTTCGTATGGTTTCGCCTTGAC
TAACCCTTTTTGACTTAGGTTCTACCCGGGCCACCTAAAGTTAGTTCATATGGTTTCATCTCAGC
CAACACTTTTTGACTTAGGTTCCAACCTAGTCACCTTCAGTTGGCTCATATGGTTTCATTCTAAC
Found at i:477124 original size:60 final size:62
Alignment explanation
Indices: 477029--477151 Score: 196
Period size: 60 Copynumber: 2.0 Consensus size: 62
477019 TGGCTCATTG
* * *
477029 TATCGATAACATTCTGAGTTTTACCGAGATGTATCGATACATTGTTCATTGTATCGATACAT
1 TATCGATAACATTCTGAGGTTTACCCAGATGTATCGATACATTGTTCAATGTATCGATACAT
*
477091 TATCGAT-ACATTCT-AGGTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACAT
1 TATCGATAACATTCTGAGGTTTACCCAGATGTATCGATACATTGTTCAATGTATCGATACAT
477151 T
1 T
477152 CAGGCATTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
60 43 0.75
61 7 0.12
62 7 0.12
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (62 bp):
TATCGATAACATTCTGAGGTTTACCCAGATGTATCGATACATTGTTCAATGTATCGATACAT
Found at i:479390 original size:50 final size:49
Alignment explanation
Indices: 479336--479461 Score: 146
Period size: 50 Copynumber: 2.5 Consensus size: 49
479326 TAAATTTCTA
* * * *
479336 GATTTTTCATCTCAGGGATACTCCAACCCCTGCTTTATTTCTAAAATATT
1 GATTTTTCATCTCAGGGATACTCCAA-CCCAGCTTTATTTCCAAAACATC
* *
479386 GATTTTTCATCTC-GGGAATACTCTAACCCAGTTTTATTTCCAAAACATC
1 GATTTTTCATCTCAGGG-ATACTCCAACCCAGCTTTATTTCCAAAACATC
* *
479435 AATTTTTCATAATCAGGGATACTCCAA
1 GATTTTTCAT-CTCAGGGATACTCCAA
479462 TCCCGTTATT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
49 30 0.47
50 31 0.48
51 3 0.05
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.37
Consensus pattern (49 bp):
GATTTTTCATCTCAGGGATACTCCAACCCAGCTTTATTTCCAAAACATC
Found at i:479441 original size:49 final size:50
Alignment explanation
Indices: 479337--479461 Score: 146
Period size: 49 Copynumber: 2.5 Consensus size: 50
479327 AAATTTCTAG
* * * **
479337 ATTTTTCATCTCAGGGATACTCCAACCCCTGCTTTATTTCTAAAATATTG
1 ATTTTTCATCTCAGGGATACTCCAACCCCAGCTTTATTTCCAAAACATCA
* *
479387 ATTTTTCATCTC-GGGAATACTCTAA-CCCAGTTTTATTTCCAAAACATCA
1 ATTTTTCATCTCAGGG-ATACTCCAACCCCAGCTTTATTTCCAAAACATCA
*
479436 ATTTTTCATAATCAGGGATACTCCAA
1 ATTTTTCAT-CTCAGGGATACTCCAA
479462 TCCCGTTATT
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
49 30 0.48
50 30 0.48
51 3 0.05
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.38
Consensus pattern (50 bp):
ATTTTTCATCTCAGGGATACTCCAACCCCAGCTTTATTTCCAAAACATCA
Found at i:479533 original size:79 final size:79
Alignment explanation
Indices: 479418--479776 Score: 359
Period size: 79 Copynumber: 4.5 Consensus size: 79
479408 CTAACCCAGT
* * * *
479418 TTTATTTCCAAAACATCAATTTTTCATAATCAGGGATACTCCAATCCCGTTATTTTTGAGGGGAT
1 TTTATTTCTAAAACATCGATTTTTCATAATCAGGGATACTCCAACCCCGTTATTTTCGAGGGGAT
*
479483 ACTCCAACCCCTGC
66 ACTCCAACCCCGGC
* * * * * * * *
479497 TTTATTTCTAAAATATTGATTTCTCATGATCGGGGATACTCCAACCCCGTTATTTTGGCGTGGAT
1 TTTATTTCTAAAACATCGATTTTTCATAATCAGGGATACTCCAACCCCGTTATTTTCGAGGGGAT
479562 ACTCCAACCCCGGC
66 ACTCCAACCCCGGC
* * * *
479576 CTTATTTCTAAAGCATCGATTTTTCACAATCCGGGATACTCCAACCCCGTTATTTTCGAGGGGAT
1 TTTATTTCTAAAACATCGATTTTTCATAATCAGGGATACTCCAACCCCGTTATTTTCGAGGGGAT
**
479641 ACTCCAACCCCGAT
66 ACTCCAACCCCGGC
* * * * * * *
479655 TTTATTT-TCAAA-GTGCCGA-TTTTCTATAATTAGGGATACTCTAACCCTGTTATTTTCAAAGG
1 TTTATTTCTAAAACAT--CGATTTTTC-ATAATCAGGGATACTCCAACCCCGTTATTTTCGAGGG
***
479717 GATACTCCAACCCCAAT
63 GATACTCCAACCCCGGC
* *
479734 TTTATTT-TCAAAACACCGATTTTCCATAATC-GAGGATACTCCA
1 TTTATTTCT-AAAACATCGATTTTTCATAATCAG-GGATACTCCA
479777 GCCCTATTGT
Statistics
Matches: 230, Mismatches: 43, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
77 1 0.00
78 9 0.04
79 213 0.93
80 7 0.03
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (79 bp):
TTTATTTCTAAAACATCGATTTTTCATAATCAGGGATACTCCAACCCCGTTATTTTCGAGGGGAT
ACTCCAACCCCGGC
Found at i:479739 original size:158 final size:158
Alignment explanation
Indices: 479403--479776 Score: 402
Period size: 158 Copynumber: 2.4 Consensus size: 158
479393 CATCTCGGGA
* * * * *
479403 ATACTCTAA-CCCAGTTTTATTTCCAAAACATCAATTTTTCATAATCAGGGATACTCCAATCCCG
1 ATACTCCAACCCCAGTTTTATTTCTAAAACATCGATTTTTCATAATCCGGGATACTCCAACCCCG
* ** * *
479467 TTATTTTTGAGGGGATACTCCAACCCCTGCTTTATTTCTAAAATATTGATTTCTCATGATCGGGG
66 TTATTTTCGAGGGGATACTCCAACCCCTGCTTTATTTCTAAAATACCGATTTCTCATAATCAGGG
***
479532 ATACTCCAACCCCGTTATTTTGGCGTGG
131 ATACTCCAACCCCGTTATTTTAAAGTGG
* ** * *
479560 ATACTCCAACCCCGGCCTTATTTCTAAAGCATCGATTTTTCACAATCCGGGATACTCCAACCCCG
1 ATACTCCAACCCCAGTTTTATTTCTAAAACATCGATTTTTCATAATCCGGGATACTCCAACCCCG
* * * *
479625 TTATTTTCGAGGGGATACTCCAACCCC-GATTTTATTT-TCAAAGTGCCGATTT-TCTATAATTA
66 TTATTTTCGAGGGGATACTCCAACCCCTG-CTTTATTTCT-AAAATACCGATTTCTC-ATAATCA
* *
479687 GGGATACTCTAACCCTGTTATTTTCAAAG-GG
128 GGGATACTCCAACCCCGTTATTTT-AAAGTGG
* * *
479718 ATACTCCAACCCCAATTTTATTT-TCAAAACACCGATTTTCCATAAT-CGAGGATACTCCA
1 ATACTCCAACCCCAGTTTTATTTCT-AAAACATCGATTTTTCATAATCCG-GGATACTCCA
479777 GCCCTATTGT
Statistics
Matches: 178, Mismatches: 32, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
157 15 0.08
158 162 0.91
159 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (158 bp):
ATACTCCAACCCCAGTTTTATTTCTAAAACATCGATTTTTCATAATCCGGGATACTCCAACCCCG
TTATTTTCGAGGGGATACTCCAACCCCTGCTTTATTTCTAAAATACCGATTTCTCATAATCAGGG
ATACTCCAACCCCGTTATTTTAAAGTGG
Found at i:482181 original size:20 final size:20
Alignment explanation
Indices: 482156--482213 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
482146 CTACCAGTTT
*
482156 CATGTATAGATACAATTGTC
1 CATGTATAGATACAATTGTA
*
482176 CATGTATCA-ATACAA-TGAA
1 CATGTAT-AGATACAATTGTA
*
482195 CATGTATCGATAC-ATTGTA
1 CATGTATAGATACAATTGTA
482214 TCGATACAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
18 1 0.03
19 16 0.52
20 13 0.42
21 1 0.03
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.33
Consensus pattern (20 bp):
CATGTATAGATACAATTGTA
Found at i:482215 original size:13 final size:13
Alignment explanation
Indices: 482197--482221 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
482187 ACAATGAACA
482197 TGTATCGATACAT
1 TGTATCGATACAT
482210 TGTATCGATACA
1 TGTATCGATACA
482222 AAGCATAATG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:483712 original size:79 final size:78
Alignment explanation
Indices: 483571--483865 Score: 292
Period size: 79 Copynumber: 3.7 Consensus size: 78
483561 ATGTTTTGGA
* * * * * * *
483571 GGGTTGGCGTATCCCTTCGAAAGTGATGGGGTTAGAGTATCTCTGATGGTGAAAAA-TCAATATT
1 GGGTTGGAGTATCCCTTCGAAAATAATGGGGTTAGAGTATCTC-CAAGATGAAAAATTTAATATT
483635 TTAGAAATAAAAATG
65 TT-GAAATAAAAATG
*
483650 GGGTTGGAGTATCCCTTCGAAAATAATGGGGTTGGAGTATCTCCAAGATGAAAAATTTAATATTT
1 GGGTTGGAGTATCCCTTCGAAAATAATGGGGTTAGAGTATCTCCAAGATGAAAAATTTAATATTT
483715 TGAAAATAAAAATG
66 TG-AAATAAAAATG
** * * * *
483729 GGGTTGGAGTAT-CCTCTC-AGAAATAACAGGGTGAGAGTATCCCCACGATGAAAATTTTAATAT
1 GGGTTGGAGTATCCCT-TCGA-AAATAATGGGGTTAGAGTATCTCCAAGATGAAAAATTTAATAT
*
483792 TTTGGAAATAAAAACG
64 TTT-GAAATAAAAATG
* * * * * * *
483808 AGATTGGAGTATCTCTTCGAAATTGATGAGGTTAGAGTATC-CCTTAAGATGACAAATT
1 GGGTTGGAGTATCCCTTCGAAAATAATGGGGTTAGAGTATCTCC--AAGATGAAAAATT
483866 CGATGCTTTT
Statistics
Matches: 179, Mismatches: 28, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
78 16 0.09
79 149 0.83
80 14 0.08
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (78 bp):
GGGTTGGAGTATCCCTTCGAAAATAATGGGGTTAGAGTATCTCCAAGATGAAAAATTTAATATTT
TGAAATAAAAATG
Found at i:486338 original size:20 final size:21
Alignment explanation
Indices: 486315--486368 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
486305 CATTTCAGGC
486315 ATGTATCGATACATTCACT-T
1 ATGTATCGATACATTCACTAT
* *
486335 ATGTATCGATATATTTACTAT
1 ATGTATCGATACATTCACTAT
* *
486356 TTGTATCAATACA
1 ATGTATCGATACA
486369 AATTGTAGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATTCACTAT
Found at i:488163 original size:62 final size:62
Alignment explanation
Indices: 488076--488257 Score: 168
Period size: 64 Copynumber: 2.9 Consensus size: 62
488066 AAAGAGCTTA
* * * *
488076 ACATCATTTTGTGGCTCGACATATTTATAGGAAAAGATGTTCAACTTAAAAAAAAGACCTCG
1 ACATCATTTTGAGGCTTGACCTATTTATAGGAAAACATGTTCAACTTAAAAAAAAGACCTCG
* ** * * * * *
488138 ATATTGTTTTGGGGCTTGACCTATTTATAGGAAAATA-GTTCTGACTAAAAAAAAAAAGACCTTG
1 ACATCATTTTGAGGCTTGACCTATTTATAGGAAAACATGTTC-AACT--TAAAAAAAAGACCTCG
** * * *
488202 ACATCATTTCAAGGCTTAACCTATTTTTAGGAAAACATGCTCAACTTAAAACAAAA
1 ACATCATTTTGAGGCTTGACCTATTTATAGGAAAACATGTTCAACTTAAAA-AAAA
488258 ATATCTCAGC
Statistics
Matches: 93, Mismatches: 22, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
61 4 0.04
62 37 0.40
63 4 0.04
64 45 0.48
65 3 0.03
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (62 bp):
ACATCATTTTGAGGCTTGACCTATTTATAGGAAAACATGTTCAACTTAAAAAAAAGACCTCG
Found at i:489581 original size:19 final size:18
Alignment explanation
Indices: 489557--489612 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
489547 TGTATCGATA
*
489557 CATTGTATTGATACATGTT
1 CATTGTATCGATACATG-T
*
489576 CATTGTATCGATACACAGT
1 CATTGTATCGATACA-TGT
489595 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
489613 AAACTAGCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (18 bp):
CATTGTATCGATACATGT
Found at i:492841 original size:20 final size:21
Alignment explanation
Indices: 492793--492846 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
492783 TCTCACAATT
* *
492793 TGTATTGATACAAATAGTAAA
1 TGTATCGATACATATAGTAAA
* *
492814 TATATCGATACATA-AGTGAA
1 TGTATCGATACATATAGTAAA
492834 TGTATCGATACAT
1 TGTATCGATACAT
492847 GCCTGAAATG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATATAGTAAA
Found at i:492853 original size:20 final size:21
Alignment explanation
Indices: 492811--492866 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
492801 TACAAATAGT
* *
492811 AAATATATCGATACATAAGTG
1 AAATGTATCGATACATAACTG
**
492832 -AATGTATCGATACATGCCTG
1 AAATGTATCGATACATAACTG
*
492852 AAATGTATTGATACA
1 AAATGTATCGATACA
492867 AAACCACTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.30
Consensus pattern (21 bp):
AAATGTATCGATACATAACTG
Found at i:495533 original size:78 final size:76
Alignment explanation
Indices: 495274--495550 Score: 279
Period size: 79 Copynumber: 3.5 Consensus size: 76
495264 CATCTTAAGG
* * * * *
495274 GATACTCTAACCTCATCAATTTCGAAGAGATACTCCAATCTCGTTTTTATTTCCAAAATATTAAA
1 GATACTCTAACCCCATC-ATTTCGAAGGGATACTCCAACCCCATTTTTATTT-CAAAATATTAAA
* *
495339 ATTTTCATCGTGGG
64 TTTTTCATC-TGGA
* ** *
495353 GATACTCTCACCCTGTTATTTCTG-AGAGGATACTCCAACCCCATTTTTATTTTCAAAATATTAA
1 GATACTCTAACCCCATCATTTC-GAAG-GGATACTCCAACCCCATTTTTA-TTTCAAAATATTAA
495417 ATTTTTCATCTTGGA
63 ATTTTTCATC-TGGA
* * * *
495432 GATACTCCAACCCCATTATTTTCGAAGGGATACTCCAACCCCATTTTTATTTCTAAATATT-GAT
1 GATACTCTAACCCCATCA-TTTCGAAGGGATACTCCAACCCCATTTTTATTTCAAAATATTAAAT
* *
495496 TTTTCACCATCAGA
65 TTTTCATC-T-GGA
*
495510 GATACTCTAACCCCATCACTTTCGAAGGGATACGCCAACCC
1 GATACTCTAACCCCATCA-TTTCGAAGGGATACTCCAACCC
495551 TCCAAAACAT
Statistics
Matches: 167, Mismatches: 25, Indels: 13
0.81 0.12 0.06
Matches are distributed among these distances:
77 10 0.06
78 57 0.34
79 91 0.54
80 9 0.05
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.35
Consensus pattern (76 bp):
GATACTCTAACCCCATCATTTCGAAGGGATACTCCAACCCCATTTTTATTTCAAAATATTAAATT
TTTCATCTGGA
Found at i:496892 original size:13 final size:13
Alignment explanation
Indices: 496874--496898 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
496864 ACATATGCTT
496874 TGTATCGATACAA
1 TGTATCGATACAA
496887 TGTATCGATACA
1 TGTATCGATACA
496899 TGTTCATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:496929 original size:20 final size:20
Alignment explanation
Indices: 496883--496938 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 20
496873 TTGTATCGAT
* *
496883 ACAA-TGTATCGATACATGT
1 ACAATTGTATTGATACATGG
*
496902 TC-ATTGTATTGATACATGG
1 ACAATTGTATTGATACATGG
496921 ACAATTGTATT-ATACATG
1 ACAATTGTATTGATACATG
496939 AAACTGGTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 1 0.03
19 22 0.71
20 8 0.26
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (20 bp):
ACAATTGTATTGATACATGG
Found at i:662818 original size:20 final size:20
Alignment explanation
Indices: 662772--662828 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 20
662762 TTATATCGAT
*
662772 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGG
*
662791 TC-ATTGTATCGATACATGG
1 ACAATTGTATCGATACATGG
*
662810 ACAATTGTATCAATACATG
1 ACAATTGTATCGATACATG
662829 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 1 0.03
19 16 0.50
20 15 0.47
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:662892 original size:13 final size:13
Alignment explanation
Indices: 662874--662903 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
662864 GATATATGGC
662874 ACATTGTATCAAT
1 ACATTGTATCAAT
*
662887 ACATTGTATCGAT
1 ACATTGTATCAAT
662900 ACAT
1 ACAT
662904 GATGAATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (13 bp):
ACATTGTATCAAT
Found at i:662894 original size:33 final size:32
Alignment explanation
Indices: 662857--662925 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 32
662847 CTAACACTGT
*
662857 TTGTATCGATATATG-GCACATTGTATCAATACA
1 TTGTATCGATACATGAG-A-ATTGTATCAATACA
*
662890 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGA-GAATTGTATCAATACA
662923 TTG
1 TTG
662926 CTTCAAACAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (32 bp):
TTGTATCGATACATGAGAATTGTATCAATACA
Found at i:669763 original size:156 final size:156
Alignment explanation
Indices: 669388--669763 Score: 456
Period size: 156 Copynumber: 2.4 Consensus size: 156
669378 AATACCCTTG
* * * * * *
669388 AAAGACTTAAAAAGGA-TATAGATGAGATGAACCTATCCTAAATACCCACCTTCGGCCTAAAAGC
1 AAAGACTTAAAAA-GATTAGAGATGGGATGAACCTATCCTAAATGCCCACATTCGGCATAAAAGT
* * * * ** * *
669452 ATACCCGGTGACAACTTAGGACTCTACTCTTAGAAATTACAAAAATACCTCTATAAGTATACCTT
65 AGACACGGTGACAACCTAAGACTAGACTCTAAAAAATTACAAAAATACCTCTATAAGTATACCTT
*
669517 CGACATGAAAGCATCTCGGTAACCCTA
130 CGACATGAAAACATCTCGGTAACCCTA
* *
669544 AAGGACTTAAAAAGATTAGCA-ATGGGATGAACCTATCCTAAATGCTCA-ACTTCGGCATAAAAG
1 AAAGACTTAAAAAGATTAG-AGATGGGATGAACCTATCCTAAATGCCCACA-TTCGGCATAAAAG
* * * * *
669607 TAGATATGGTGACAACCTAAGACTAGGCTCTAAAAAATTACAAAAATACC-CTTGTAGGTATACC
64 TAGACACGGTGACAACCTAAGACTAGACTCTAAAAAATTACAAAAATACCTC-TATAAGTATACC
*
669671 TTCGACATGAAAATATCTCGGTAACCCTA
128 TTCGACATGAAAACATCTCGGTAACCCTA
*
669700 AAAGACTTAAAAAAATTAGAGATGGGAT-AAGCCTATCCTAAATGCCCACATTCGGCATAAAAGT
1 AAAGACTTAAAAAGATTAGAGATGGGATGAA-CCTATCCTAAATGCCCACATTCGGCATAAAAGT
669764 GGAGTCGATG
Statistics
Matches: 187, Mismatches: 26, Indels: 14
0.82 0.11 0.06
Matches are distributed among these distances:
155 6 0.03
156 179 0.96
157 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.24
Consensus pattern (156 bp):
AAAGACTTAAAAAGATTAGAGATGGGATGAACCTATCCTAAATGCCCACATTCGGCATAAAAGTA
GACACGGTGACAACCTAAGACTAGACTCTAAAAAATTACAAAAATACCTCTATAAGTATACCTTC
GACATGAAAACATCTCGGTAACCCTA
Found at i:669781 original size:156 final size:157
Alignment explanation
Indices: 669388--669813 Score: 436
Period size: 156 Copynumber: 2.7 Consensus size: 157
669378 AATACCCTTG
* * * * *
669388 AAAGACTTAAAAAGGATATAG--ATGAGATGAACCTATCCTAAATACCCACCTTCGGCCTAAAAG
1 AAAGACTTAAAAA-AAT-TAGCAATGGGATGAACCTATCCTAAATGCCCAACTTCGGCATAAAAG
* * ** * * * *** * *
669451 CATACCCGGTGACAACTTAGGACTCTACTCTTAGAAATTACAAAAATA-CCTCTATAAGTATACC
64 TAGATACGATGACAACCTAAGACTAGGCTCTAAAAAATTACAAAAATACCCTCTATAAGTATACC
*
669515 TTCGACATGAAAGCATCTCGGTAACCCTA
129 TTCGACATGAAAACATCTCGGTAACCCTA
* * *
669544 AAGGACTTAAAAAGATTAGCAATGGGATGAACCTATCCTAAATGCTCAACTTCGGCATAAAAGTA
1 AAAGACTTAAAAAAATTAGCAATGGGATGAACCTATCCTAAATGCCCAACTTCGGCATAAAAGTA
* * * *
669609 GATATGGTGACAACCTAAGACTAGGCTCTAAAAAATTACAAAAATACCCT-TGTAGGTATACCTT
66 GATACGATGACAACCTAAGACTAGGCTCTAAAAAATTACAAAAATACCCTCTATAAGTATACCTT
*
669673 CGACATGAAAATATCTCGGTAACCCTA
131 CGACATGAAAACATCTCGGTAACCCTA
669700 AAAGACTTAAAAAAATTAG-AGATGGGAT-AAGCCTATCCTAAATGCCC-ACATTCGGCATAAAA
1 AAAGACTTAAAAAAATTAGCA-ATGGGATGAA-CCTATCCTAAATGCCCAAC-TTCGGCATAAAA
* * * * * * **
669762 GTGGAGT-CGATGACGACCTAGGAGTTGGTTCTAAAAAATTATGAAAATACCC
63 GTAGA-TACGATGACAACCTAAGACTAGGCTCTAAAAAATTACAAAAATACCC
669814 GTAAGGCATA
Statistics
Matches: 228, Mismatches: 35, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
154 3 0.01
155 8 0.04
156 213 0.93
157 4 0.02
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (157 bp):
AAAGACTTAAAAAAATTAGCAATGGGATGAACCTATCCTAAATGCCCAACTTCGGCATAAAAGTA
GATACGATGACAACCTAAGACTAGGCTCTAAAAAATTACAAAAATACCCTCTATAAGTATACCTT
CGACATGAAAACATCTCGGTAACCCTA
Found at i:671435 original size:18 final size:17
Alignment explanation
Indices: 671409--671452 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
671399 TTTTCCTCGT
671409 TTTTTTTTTCT-CTCTTC
1 TTTTTTTTTCTCCTC-TC
*
671426 TTTCTTTTTTTTCCTCTC
1 TTT-TTTTTTCTCCTCTC
671444 TTTTTTTTT
1 TTTTTTTTT
671453 TACTAGCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 9 0.38
18 12 0.50
19 3 0.12
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTTTTTTCTCCTCTC
Found at i:671435 original size:21 final size:19
Alignment explanation
Indices: 671408--671453 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
671398 ATTTTCCTCG
671408 TTTTTTTTTT-CTCTCTTCT
1 TTTTTTTTTTCCTCTCTT-T
671427 TTCTTTTTTTTCCTCTCTTT
1 TT-TTTTTTTTCCTCTCTTT
671447 TTTTTTT
1 TTTTTTT
671454 ACTAGCCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.28
20 11 0.44
21 7 0.28
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTTTTTTCCTCTCTTT
Found at i:672256 original size:162 final size:164
Alignment explanation
Indices: 672056--672362 Score: 397
Period size: 166 Copynumber: 1.9 Consensus size: 164
672046 AAAAAGCCCC
* * * * *
672056 CGAAAACCTTTCTGGAATAGAAAACTCAGTTTTTCAAAAAAAGA-AATTTTAAGGAAAAAATTTA
1 CGAAAACATTTCTGGAATAGAAAACTCAGTATTTCAAAAAAAAAGAATTTGAAGGAAAAAATTCA
* *
672120 AAAACTC-AAGATGAATT-ATTTTTTCAAAACCAATTTAACATGAAATAAATTATAATATTCGAT
66 AAAACTCAAAAATGAATTAATTTTTT-AAAACCAATTTAACATGAAATAAATAATAATATTCGAT
672183 GAATTTTAAAAATTAAAAACCAAGAAAAATCACTT
130 GAATTTTAAAAATTAAAAACCAAGAAAAATCACTT
* *
672218 CGAAAACATTTAC-GGAGTAGAAAACTCTGTATTTCAAAAAAAAAGAATTTGAAGGAAAAAATTC
1 CGAAAACATTT-CTGGAATAGAAAACTCAGTATTTCAAAAAAAAAGAATTTGAAGGAAAAAATTC
* * ** * * *
672282 AAAAACTCATGAAAATTAATTAATTTTTTGAAACTGATTTAATATGAATTAAATAATAATATTTG
65 AAAAACTCA--AAAATGAATTAATTTTTTAAAACCAATTTAACATGAAATAAATAATAATATTCG
*
672347 ATGAATTTTCAAAATT
128 ATGAATTTTAAAAATT
672363 TTAAATCCAT
Statistics
Matches: 122, Mismatches: 17, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
162 37 0.30
163 26 0.21
166 52 0.43
167 7 0.06
ACGTcount: A:0.49, C:0.09, G:0.10, T:0.32
Consensus pattern (164 bp):
CGAAAACATTTCTGGAATAGAAAACTCAGTATTTCAAAAAAAAAGAATTTGAAGGAAAAAATTCA
AAAACTCAAAAATGAATTAATTTTTTAAAACCAATTTAACATGAAATAAATAATAATATTCGATG
AATTTTAAAAATTAAAAACCAAGAAAAATCACTT
Found at i:673652 original size:14 final size:14
Alignment explanation
Indices: 673633--673673 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
673623 CTTTAGGAAA
673633 TATAATTGACTTTT
1 TATAATTGACTTTT
673647 TATAATTGACTTTT
1 TATAATTGACTTTT
* *
673661 GAT-TTTGACTTTT
1 TATAATTGACTTTT
673674 AAAATCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 9 0.36
14 16 0.64
ACGTcount: A:0.24, C:0.07, G:0.10, T:0.59
Consensus pattern (14 bp):
TATAATTGACTTTT
Found at i:676452 original size:157 final size:157
Alignment explanation
Indices: 676161--676725 Score: 747
Period size: 157 Copynumber: 3.6 Consensus size: 157
676151 ATACCGACGG
* * * * *
676161 TGACGTAGGAGTTGGTCCTAAAAAATTACCAAAATACCCTTAGGGGTATACCTTTGACGTAAAAG
1 TGACCTAGGAGTTGGTTCTAAAAAATTACCAAAATGCCCTCAAGGGTATACCTTTGACGTAAAAG
* * * * *
676226 TATCCCGACAATCGTAAAGGACCTAAAAAGACTCATAAAAGGGATGAACCTATCCTAAATGCCCA
66 TATCCCAACAACCCTAAAGGACTTAAAAAGACTCATAAAAGAGATGAACCTATCCTAAATGCCCA
* * *
676291 CCTTCGTTATAAAAGTAAACCCAATGA
131 CCTTCGATATAAAAGTAGACCCGATGA
** * * *
676318 CAATCTAGGAGTTCGTTCTAGAAAATTACCAAAATGCCCTCAAGGGTATA-CTTTCGACGTAAAA
1 TGACCTAGGAGTTGGTTCTAAAAAATTACCAAAATGCCCTCAAGGGTATACCTTT-GACGTAAAA
* * *
676382 GTATCCCAACGACTCTAAAAGACTTAAAAAGACTCATAAAAGAGATGAACCTATCCTAAATGCCC
65 GTATCCCAACAACCCTAAAGGACTTAAAAAGACTCATAAAAGAGATGAACCTATCCTAAATGCCC
* *
676447 ACCTTCGGTATAAAAGTGGACCCGATGA
130 ACCTTCGATATAAAAGTAGACCCGATGA
* * *
676475 TGACCTAGGAGTTGGTTCTAAAAAATTACCAAAATGCCCTTAAGGGTATACCTTCGACATAAAAG
1 TGACCTAGGAGTTGGTTCTAAAAAATTACCAAAATGCCCTCAAGGGTATACCTTTGACGTAAAAG
* * * *
676540 TATTCTAGCAACCCTAAAGGACTTAAAAAGACTCATAAAAGAGATGAACCTATCCTAAATGGCCA
66 TATCCCAACAACCCTAAAGGACTTAAAAAGACTCATAAAAGAGATGAACCTATCCTAAATGCCCA
* * * *
676605 CCTTCAACATAAAAATAGACCCGGTGA
131 CCTTCGATATAAAAGTAGACCCGATGA
* * *
676632 TGACCTAGGAGTTAGTTCTAAAAAATTACCAAAATGCCC-CTAAGGATATACCTTTGATGTAAAA
1 TGACCTAGGAGTTGGTTCTAAAAAATTACCAAAATGCCCTC-AAGGGTATACCTTTGACGTAAAA
* *
676696 GTATCTCGACAACCCTAAAGGACTTAAAAA
65 GTATCCCAACAACCCTAAAGGACTTAAAAA
676726 AACACATTAC
Statistics
Matches: 351, Mismatches: 54, Indels: 6
0.85 0.13 0.01
Matches are distributed among these distances:
156 4 0.01
157 344 0.98
158 3 0.01
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.23
Consensus pattern (157 bp):
TGACCTAGGAGTTGGTTCTAAAAAATTACCAAAATGCCCTCAAGGGTATACCTTTGACGTAAAAG
TATCCCAACAACCCTAAAGGACTTAAAAAGACTCATAAAAGAGATGAACCTATCCTAAATGCCCA
CCTTCGATATAAAAGTAGACCCGATGA
Found at i:677026 original size:155 final size:154
Alignment explanation
Indices: 676738--677116 Score: 469
Period size: 155 Copynumber: 2.5 Consensus size: 154
676728 CACATTACCC
* *
676738 ACCTTCAGCATAAAAGCAAACCCGGTGATGACCTAGGAGTTGGTTTTAAAAAATTACCAAAATAC
1 ACCTTCGGCATAAAAGCAAACCCGGTGATGACCTAGGAGTTGGTTCTAAAAAATTACCAAAATAC
* * * *
676803 CCCTAAAGTACCTTCGACGTAAAAGTATTCCGGCAATCCTAAAGGACTTAAAAAGTCTCACAAAA
66 CCCTAAAGTACCTTCGACGTAAAAGTATCCCGACAACCCTAAAGGACTTAAAAAGACTCACAAAA
*
676868 GGGATGAACTTATCCTAAATGCCCT
131 GGGATGAACCTATCCTAAATG-CCT
* * * * *
676893 -CTTTCGGCATAAAAGCAGACCCGGTGATGAGCTAGGAGTTGGTTCT-AAAAATTACGAAAAT-G
1 ACCTTCGGCATAAAAGCAAACCCGGTGATGACCTAGGAGTTGGTTCTAAAAAATTACCAAAATAC
* * *
676955 CCTTAACGGTGTACCTTCGACGTAAAAGTATCCCGACAACCCTAAAGGACTTAAAAAGACTCATA
66 CCCTAA---AGTACCTTCGACGTAAAAGTATCCCGACAACCCTAAAGGACTTAAAAAGACTCACA
*
677020 AAAGGGATGAACCTATCCTAGATGCCT
128 AAAGGGATGAACCTATCCTAAATGCCT
* ** * * * * *
677047 ACCTTCGGCATAAAAGCAAACCCAGTGACAACCTAGGACTCGATTCTAATAAAA-TACAAAAATG
1 ACCTTCGGCATAAAAGCAAACCCGGTGATGACCTAGGAGTTGGTTCTAA-AAAATTACCAAAATA
677111 CCCCTA
65 CCCCTA
677117 GGGGCATACC
Statistics
Matches: 189, Mismatches: 28, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
152 5 0.03
153 14 0.07
154 44 0.23
155 109 0.58
156 9 0.05
157 8 0.04
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.22
Consensus pattern (154 bp):
ACCTTCGGCATAAAAGCAAACCCGGTGATGACCTAGGAGTTGGTTCTAAAAAATTACCAAAATAC
CCCTAAAGTACCTTCGACGTAAAAGTATCCCGACAACCCTAAAGGACTTAAAAAGACTCACAAAA
GGGATGAACCTATCCTAAATGCCT
Found at i:677558 original size:13 final size:12
Alignment explanation
Indices: 677534--677567 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
677524 TAAAAAAGAA
677534 TTTATTTATTAT
1 TTTATTTATTAT
677546 TTTATTCTATTAT
1 TTTATT-TATTAT
677559 TTT-TTTATT
1 TTTATTTATT
677568 TTTGAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.19
12 8 0.38
13 9 0.43
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTATTTATTAT
Found at i:678598 original size:13 final size:12
Alignment explanation
Indices: 678582--678631 Score: 50
Period size: 13 Copynumber: 4.1 Consensus size: 12
678572 CTCCCTCTAT
678582 TTTCTCCTTTTTC
1 TTTCT-CTTTTTC
*
678595 TTTCT-TTTTTT
1 TTTCTCTTTTTC
678606 TTTCTCTTTCTT-
1 TTTCTCTTT-TTC
678618 TTCTCTCTTTTTC
1 TT-TCTCTTTTTC
678631 T
1 T
678632 CAGCTAAACC
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
11 10 0.31
12 7 0.22
13 15 0.47
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTCTCTTTTTC
Found at i:678622 original size:11 final size:11
Alignment explanation
Indices: 678581--678629 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 11
678571 TCTCCCTCTA
678581 TTTTCTCCTTTT
1 TTTTCT-CTTTT
*
678593 TCTTTCTTTTTT
1 T-TTTCTCTTTT
678605 TTTTCTCTTTCT
1 TTTTCTCTTT-T
678617 TTTCTCTCTTTT
1 TTT-TCTCTTTT
678629 T
1 T
678630 CTCAGCTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 8 0.25
12 12 0.38
13 12 0.38
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTCTCTTTT
Found at i:680694 original size:156 final size:155
Alignment explanation
Indices: 680529--680849 Score: 353
Period size: 155 Copynumber: 2.1 Consensus size: 155
680519 ACCATTGGCA
* * * *
680529 TAGAAGTGCCCAAAGATC-CTAAAGAACTTTAAAAAATATTATAGATGGGAAGAACCTATCCTAA
1 TAGAAGTGCCCAAAGACCTCTAAAAAAC-TTAAAAAAGATTATAGATGGGAAGAACCAATCCTAA
* *** *** * *
680593 ATA-CTCACT-TTCGGCATAAAAGTGGACTTGGTGATAACCTAAGACTCGGTTTTAAAAAATTAT
65 ATATC-CA-TATTCGCCATAAAAACAGACCCAGTGATAACCTAAGACTCGATTTTAAAAAATTAC
* *
680656 GAAAATACTCCTAAGGGATACCTTCGACT
128 AAAAATACT-CTAAGGGATACCTTCAACT
** * * * * *
680685 TAGAAGTG-CCTGATACCTCTAAAAAACTTAAAGAGGATTATGGATGGGATGAACCAATCCTAAA
1 TAGAAGTGCCCAAAGACCTCTAAAAAACTTAAAAAAGATTATAGATGGGAAGAACCAATCCTAAA
* *
680749 TATCCATATTCGCCATAAAAACAGACCCAGTGATAACCTAGGACTCGATTTTCAAAAATTACAAA
66 TATCCATATTCGCCATAAAAACAGACCCAGTGATAACCTAAGACTCGATTTTAAAAAATTACAAA
*
680814 AATACTCTAGGGGATACCTTCAACT
131 AATACTCTAAGGGATACCTTCAACT
680839 TAGAAGTGCCC
1 TAGAAGTGCCC
680850 GATAACCCTA
Statistics
Matches: 136, Mismatches: 25, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
154 26 0.19
155 93 0.68
156 17 0.12
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.26
Consensus pattern (155 bp):
TAGAAGTGCCCAAAGACCTCTAAAAAACTTAAAAAAGATTATAGATGGGAAGAACCAATCCTAAA
TATCCATATTCGCCATAAAAACAGACCCAGTGATAACCTAAGACTCGATTTTAAAAAATTACAAA
AATACTCTAAGGGATACCTTCAACT
Found at i:680749 original size:155 final size:154
Alignment explanation
Indices: 680566--680853 Score: 373
Period size: 155 Copynumber: 1.9 Consensus size: 154
680556 TTTAAAAAAT
* * *** ***
680566 ATTATAGATGGGAAGAACCTATCCTAAATA-CTCACT-TTCGGCATAAAAGTGGACTTGGTGATA
1 ATTATAGATGGGAAGAACCAATCCTAAATATC-CA-TATTCGCCATAAAAACAGACCCAGTGATA
* ** *
680629 ACCTAAGACTCGGTTTTAAAAAATTATGAAAATACTCCTAAGGGATACCTTCGACTTAGAAGTGC
64 ACCTAAGACTCGATTTTAAAAAATTACAAAAATACT-CTAAGGGATACCTTCAACTTAGAAGTGC
*
680694 CTGATACCTCTAAAAAACTTAAAGAGG
128 CCGATACCTCTAAAAAACTTAAAGAGG
* *
680721 ATTATGGATGGGATGAACCAATCCTAAATATCCATATTCGCCATAAAAACAGACCCAGTGATAAC
1 ATTATAGATGGGAAGAACCAATCCTAAATATCCATATTCGCCATAAAAACAGACCCAGTGATAAC
* * *
680786 CTAGGACTCGATTTTCAAAAATTACAAAAATACTCTAGGGGATACCTTCAACTTAGAAGTGCCCG
66 CTAAGACTCGATTTTAAAAAATTACAAAAATACTCTAAGGGATACCTTCAACTTAGAAGTGCCCG
680851 ATA
131 ATA
680854 ACCCTAGTGG
Statistics
Matches: 113, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
154 32 0.28
155 80 0.71
156 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (154 bp):
ATTATAGATGGGAAGAACCAATCCTAAATATCCATATTCGCCATAAAAACAGACCCAGTGATAAC
CTAAGACTCGATTTTAAAAAATTACAAAAATACTCTAAGGGATACCTTCAACTTAGAAGTGCCCG
ATACCTCTAAAAAACTTAAAGAGG
Found at i:681313 original size:138 final size:140
Alignment explanation
Indices: 681006--681489 Score: 554
Period size: 138 Copynumber: 3.5 Consensus size: 140
680996 GGAGACCCAA
* **
681006 AAAGATACAAAAAGTTTTGAAGATTTCTATACCCCTACGGAAAACCATAGGAATA-TAGAAATCT
1 AAAGATACGAAAAGTTTTGAAGATTTCTATACCCCTAAAGAAAACCATAGGAATATTAGAAATCT
* *
681070 TGAAAAATTAAGATAATAATTTTTATTT-AATTTTAAATTTTTAAGAAAATTCATTTCGTACCTT
66 TGAAAAATTAAG---ATAATTTTTATTTGATTTTTAATTTTTTAAGAAAATTCATTTCGTACCTT
*** *
681134 AATTTTAAAC-CG
128 AATGGAAAACTAG
* *
681146 AAACAATACGAAAAGTTTTGAAGATTTCTATACCCCTAAAGAAAACCATATGAATATTAGAAATC
1 AAA-GATACGAAAAGTTTTGAAGATTTCTATACCCCTAAAGAAAACCATAGGAATATTAGAAATC
* * * *
681211 TT-AAAAACTTAAGAT-ATTTTTATTTGATTTTTAATTTTTTAA-AATATTCATTTTGTATCATA
65 TTGAAAAA-TTAAGATAATTTTTATTTGATTTTTAATTTTTTAAGAAAATTCATTTCGTACCTTA
681273 ATGGAAAACTAG
129 ATGGAAAACTAG
* * * *
681285 AAAGATATGAAAAGTTTTG-AGTATTTCTAT-GCCCTTACGAAAAACCATAGGAATATTAGAAAT
1 AAAGATACGAAAAGTTTTGAAG-ATTTCTATACCCCTAAAG-AAAACCATAGGAATATTAGAAAT
*
681348 CTTGAAAAATTAAGATAATAATTTCTATGTGATTTTTAATTTTTTAAGAAAATTCATTTCGTACC
64 CTTGAAAAATTAAGATAAT--TTT-TATTTGATTTTTAATTTTTTAAGAAAATTCATTTCGTACC
*
681413 TTAATGGATAACTAG
126 TTAATGGAAAACTAG
* ** ** * * *
681428 AAAGATATGAAAAGTTTCAAAGATTTCTAT-CCGTTATAGATAACCATAGGAATAATAGAAAT
1 AAAGATACGAAAAGTTTTGAAGATTTCTATACCCCTAAAGAAAACCATAGGAATATTAGAAAT
681490 ATATAAAAAT
Statistics
Matches: 293, Mismatches: 37, Indels: 26
0.82 0.10 0.07
Matches are distributed among these distances:
137 8 0.03
138 86 0.29
139 27 0.09
140 3 0.01
141 55 0.19
142 57 0.19
143 55 0.19
144 2 0.01
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.36
Consensus pattern (140 bp):
AAAGATACGAAAAGTTTTGAAGATTTCTATACCCCTAAAGAAAACCATAGGAATATTAGAAATCT
TGAAAAATTAAGATAATTTTTATTTGATTTTTAATTTTTTAAGAAAATTCATTTCGTACCTTAAT
GGAAAACTAG
Found at i:682972 original size:165 final size:164
Alignment explanation
Indices: 682615--683193 Score: 695
Period size: 165 Copynumber: 3.5 Consensus size: 164
682605 ATGGGAGTTT
* * * ** * *
682615 AATAATAATATTAGATGATTTTTTAAAATTTTAAACCAAGAGAAATCCCCTCGAAAACATTTATG
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCC-CGAAAACATTTACG
*
682680 GAATAGAAAACT-CG-ATTTTACGAAAAT-AGAGAAATTTCAAAGAAAAAAT-AAAAACTCATGA
65 GAATAGAAAACTCCGTATTTT--GAAAATAAGAG-AATTTC-AAGAAAAAATGAAAAGCTCATGA
* * *
682741 AAATAAAT-AATTTTTTGAAAAATGATATAATATGAATTA
126 AAATGAATGAA-TTTTTGAAAAATGATTTACTATGAATTA
* * * * *
682780 AATAATAAAATTTTATGGATTTTAAAAATTAAAAAACC-AGAAAAATCTCCCAAAAACATTTACG
1 AATAATAATATTTGATGAATTTTAAAAATT-AAAAACCAAGAAAAATCCCCCGAAAACATTTACG
*
682844 GAGTAGAAAACTCCGTATTTTGAAAATAAGAGAATTTCAAGGAAAAAATGAAAAGCTCATGAAAA
65 GAATAGAAAACTCCGTATTTTGAAAATAAGAGAATTTCAA-GAAAAAATGAAAAGCTCATGAAAA
*
682909 TGAATGAATTTTTGAAAAATGATTTACTAAGAATTA
129 TGAATGAATTTTTGAAAAATGATTTACTATGAATTA
* * * * *
682945 GATAATAATATTTGATGAATTTTAAAAATGAAAAACCAAGAAAAACCCCTCCGAAAGCATTTAAG
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCC-CCGAAAACATTTACG
* ** *
683010 AAATAGAAAACTCTATATTTCGAAAATAAGAGAATTTCAAGAAAAAATGAAAAGCTCATGAAAAT
65 GAATAGAAAACTCCGTATTTTGAAAATAAGAGAATTTCAAGAAAAAATGAAAAGCTCATGAAAAT
*
683075 GAATGAATTTTTGAAAACTGATTTACTATGAATTA
130 GAATGAATTTTTGAAAAATGATTTACTATGAATTA
* * *** *
683110 AATAATAATATTTGATAAATTTCAAAAATT-AAAACCAAGAAAAATCCTTTTGAAAATATTTACG
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCC-CCCGAAAACATTTACG
* *
683174 GAGTACAAAACTCCGTATTT
65 GAATAGAAAACTCCGTATTT
683194 CAAAAATATG
Statistics
Matches: 353, Mismatches: 51, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
163 2 0.01
164 91 0.26
165 201 0.57
166 59 0.17
ACGTcount: A:0.50, C:0.10, G:0.11, T:0.29
Consensus pattern (164 bp):
AATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCGAAAACATTTACGG
AATAGAAAACTCCGTATTTTGAAAATAAGAGAATTTCAAGAAAAAATGAAAAGCTCATGAAAATG
AATGAATTTTTGAAAAATGATTTACTATGAATTA
Found at i:683250 original size:330 final size:328
Alignment explanation
Indices: 682616--683264 Score: 787
Period size: 330 Copynumber: 2.0 Consensus size: 328
682606 TGGGAGTTTA
* * *** * * *
682616 ATAATAATATTAGATGATTTTTTAAAATTTTAAACCAAGAGAAATCCCCTCGAAAACATTTATGG
1 ATAATAATATTAGATGAATTTTAAAAATGAAAAACCAAGAGAAAACCCCTCGAAAACATTTAAGA
682681 AATAGAAAACTCGATTTTACGAAAATAGAGAAATTTCAAAGAAAAAATAAAAACTCATGAAAATA
66 AATAGAAAACTCGATTTTACGAAAATAGAGAAATTTCAAAGAAAAAATAAAAACTCATGAAAATA
* ** *
682746 AATAATTTTTTGAAAAATGATATAATATGAATTAAATAATAAAATTTTATGGATTTTAAAAATTA
131 AATAATTTTTTGAAAAATGATATAATATGAATTAAATAATAAAATTTGATAAATTTCAAAAATT-
* **
682811 AAAAACCAGAAAAATCTCCCAAAAACATTTACGGAGTAGAAAACTCCGTATTTTGAAAATAAGAG
195 AAAAACCAGAAAAATCTCCCAAAAACATTTACGGAGTACAAAACTCCGTATTTCAAAAATAAGAG
* * * * *
682876 AATTTCAAGGAAAAAATGAAAAGCTCATGAAAATGAATGAATTTTTGAAAAATGATTTACTAAGA
260 AATTTCAA-GAAAAAATCAAAAGCGCATGAAAATAAAAGAATTTTTCAAAAATGATTTACTAAGA
682941 ATTAG
324 ATTAG
* *
682946 ATAATAATATTTGATGAATTTTAAAAATGAAAAACCAAGA-AAAACCCCTCCGAAAGCATTTAAG
1 ATAATAATATTAGATGAATTTTAAAAATGAAAAACCAAGAGAAAACCCCT-CGAAAACATTTAAG
* *
683010 AAATAGAAAACTCTATATTT-CGAAAATA-AGAGAATTTC-AAGAAAAAATGAAAAGCTCATGAA
65 AAATAGAAAACTCGAT-TTTACGAAAATAGAGA-AATTTCAAAGAAAAAAT-AAAAACTCATGAA
* * * * *
683072 AATGAATGAA-TTTTTGAAAACTGATTTACTATGAATTAAATAATAATATTTGATAAATTTCAAA
127 AATAAAT-AATTTTTTGAAAAATGATATAATATGAATTAAATAATAAAATTTGATAAATTTCAAA
**** *
683136 AATT-AAAACCAAGAAAAATCCTTTTGAAAATATTTACGGAGTACAAAACTCCGTATTTCAAAAA
191 AATTAAAAACC-AGAAAAAT-CTCCCAAAAACATTTACGGAGTACAAAACTCCGTATTTCAAAAA
*
683200 TATGAGGAA-TTCTAA-AAGAAAATCAATAA-CGCAT-AAAATAAAAAGAATTTTTCAAAAATGA
254 TAAGA-GAATTTC-AAGAA-AAAATCAA-AAGCGCATGAAAAT-AAAAGAATTTTTCAAAAATGA
683261 TTTA
314 TTTA
683265 ATGGTGATTA
Statistics
Matches: 272, Mismatches: 35, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
328 6 0.02
329 36 0.13
330 218 0.80
331 12 0.04
ACGTcount: A:0.51, C:0.10, G:0.11, T:0.29
Consensus pattern (328 bp):
ATAATAATATTAGATGAATTTTAAAAATGAAAAACCAAGAGAAAACCCCTCGAAAACATTTAAGA
AATAGAAAACTCGATTTTACGAAAATAGAGAAATTTCAAAGAAAAAATAAAAACTCATGAAAATA
AATAATTTTTTGAAAAATGATATAATATGAATTAAATAATAAAATTTGATAAATTTCAAAAATTA
AAAACCAGAAAAATCTCCCAAAAACATTTACGGAGTACAAAACTCCGTATTTCAAAAATAAGAGA
ATTTCAAGAAAAAATCAAAAGCGCATGAAAATAAAAGAATTTTTCAAAAATGATTTACTAAGAAT
TAG
Found at i:683277 original size:165 final size:164
Alignment explanation
Indices: 682615--683283 Score: 680
Period size: 165 Copynumber: 4.1 Consensus size: 164
682605 ATGGGAGTTT
* * * * * * *
682615 AATAATAATATTAGATGATTTTTTAAAATTTTAAACCAAGAGAAATCC-CCTCGAAAACATTTAT
1 AATAATAATATTTGATGA-ATTTTAAAAATTAAAACCAAGAAAAATCCTTC-CGAAAACATTTAC
* *
682679 GGAATAGAAAACT-CG-ATTTTACGAAAAT-AGAGAAATTTCAAAGAAAAAAT-AAAAACTCATG
64 GGAGTAGAAAACTCCGTA-TTT-CGAAAATAAGAG-AATTTC-AAGAAAAAATGAAAAGCTCATG
* *
682740 AAAATAAAT-AATTTTTTGAAAAATGATATAATATGAATTA
125 AAAATGAATGAA-TTTTTGAAAAATGATTTAATATGAATTA
* * * * *
682780 AATAATAAAATTTTATGGATTTTAAAAATTAAAAAACC-AGAAAAAT-CTCCCAAAAACATTTAC
1 AATAATAATATTTGATGAATTTTAAAAATT--AAAACCAAGAAAAATCCTTCCGAAAACATTTAC
*
682843 GGAGTAGAAAACTCCGTATTTTGAAAATAAGAGAATTTCAAGGAAAAAATGAAAAGCTCATGAAA
64 GGAGTAGAAAACTCCGTATTTCGAAAATAAGAGAATTTCAA-GAAAAAATGAAAAGCTCATGAAA
* *
682908 ATGAATGAATTTTTGAAAAATGATTTACTAAGAATTA
128 ATGAATGAATTTTTGAAAAATGATTTAATATGAATTA
* * * * * *
682945 GATAATAATATTTGATGAATTTTAAAAATGAAAAACCAAGAAAAACCCCTCCGAAAGCATTTAAG
1 AATAATAATATTTGATGAATTTTAAAAAT-TAAAACCAAGAAAAATCCTTCCGAAAACATTTACG
* * **
683010 AAATAGAAAACTCTATATTTCGAAAATAAGAGAATTTCAAGAAAAAATGAAAAGCTCATGAAAAT
65 GAGTAGAAAACTCCGTATTTCGAAAATAAGAGAATTTCAAGAAAAAATGAAAAGCTCATGAAAAT
* *
683075 GAATGAATTTTTGAAAACTGATTTACTATGAATTA
130 GAATGAATTTTTGAAAAATGATTTAATATGAATTA
* * ** *
683110 AATAATAATATTTGATAAATTTCAAAAATTAAAACCAAGAAAAATCCTTTTGAAAATATTTACGG
1 AATAATAATATTTGATGAATTTTAAAAATTAAAACCAAGAAAAATCCTTCCGAAAACATTTACGG
* * * * *
683175 AGTACAAAACTCCGTATTTCAAAAATATGAGGAA-TTCTAA-AAGAAAATCAATAA-CGCAT-AA
66 AGTAGAAAACTCCGTATTTCGAAAATAAGA-GAATTTC-AAGAA-AAAATGAA-AAGCTCATGAA
* * * *
683236 AATAAAAAGAATTTTTCAAAAATGATTTAATGGTG-ATTA
127 AAT-GAATGAATTTTTGAAAAATGATTTAAT-ATGAATTA
*
683275 AATGATAAT
1 AATAATAAT
683284 TTTAAGGGAT
Statistics
Matches: 424, Mismatches: 62, Indels: 36
0.81 0.12 0.07
Matches are distributed among these distances:
163 2 0.00
164 121 0.29
165 241 0.57
166 60 0.14
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (164 bp):
AATAATAATATTTGATGAATTTTAAAAATTAAAACCAAGAAAAATCCTTCCGAAAACATTTACGG
AGTAGAAAACTCCGTATTTCGAAAATAAGAGAATTTCAAGAAAAAATGAAAAGCTCATGAAAATG
AATGAATTTTTGAAAAATGATTTAATATGAATTA
Found at i:684947 original size:23 final size:22
Alignment explanation
Indices: 684921--684980 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
684911 AACAAAAAAG
* *
684921 AAAATAATGGATAAATTTACATC
1 AAAATAATGGATAAA-ATACATA
* *
684944 AAAATACATGCACAAAATACATA
1 AAAATA-ATGGATAAAATACATA
*
684967 AAAATGATGGATAA
1 AAAATAATGGATAA
684981 TCGAAGTGTA
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
22 6 0.21
23 16 0.55
24 7 0.24
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.23
Consensus pattern (22 bp):
AAAATAATGGATAAAATACATA
Found at i:685412 original size:78 final size:77
Alignment explanation
Indices: 685330--685522 Score: 219
Period size: 78 Copynumber: 2.5 Consensus size: 77
685320 CAAAAATTTA
* *
685330 ATATTTGGAAGTAAAAACAGGGTTGGAGTAT-CCTCTCGAAAATGATGGGATTGAAGTAT-CTGT
1 ATATTTGGAA-TAAAAATAGGGTTGGAGTATCCCT-TCGAAAATGATGGGATTGAAGAATCCT-T
685393 GATGGTGAAAAATCG
63 GATGGTGAAAAATCG
* * * * * * *
685408 ATATTTTGAAAATAAAATGGGGTTAGAGTATCCCTTCGGAAATGATGGGGTTGGAGAATCCTTGA
1 ATATTTGGAATA-AAAATAGGGTTGGAGTATCCCTTCGAAAATGATGGGATTGAAGAATCCTTGA
*
685473 TGGTGAAAAATTG
65 TGGTGAAAAATCG
*
685486 ATATTTTGGAAATAAAAATAAGGTTGGAGTATCCCTT
1 ATA-TTTGG-AATAAAAATAGGGTTGGAGTATCCCTT
685523 TAGAGATGGT
Statistics
Matches: 95, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
77 1 0.01
78 62 0.65
79 29 0.31
80 3 0.03
ACGTcount: A:0.35, C:0.08, G:0.26, T:0.31
Consensus pattern (77 bp):
ATATTTGGAATAAAAATAGGGTTGGAGTATCCCTTCGAAAATGATGGGATTGAAGAATCCTTGAT
GGTGAAAAATCG
Found at i:685623 original size:79 final size:78
Alignment explanation
Indices: 685274--685655 Score: 294
Period size: 79 Copynumber: 4.8 Consensus size: 78
685264 AAAATCGAGA
* * *
685274 TTGGAGTATTCCCTCA-AAGATGGTAGGGTTGGAGTATCCCCGA-GATCAAAAATTTAATA-TTT
1 TTGGAGTA-TCCCTCAGAA-ATGATAGGGTTGGAGTATCCCTGATGATGAAAAA-TTAATATTTT
*
685336 GGAAGTAAAAACAGGG
63 GGAAATAAAAACAGGG
* ** * **
685352 TTGGAGTATCCTCTC-GAAAATGAT-GGGATTGAAGTATCTGTGATGGTGAAAAATCGATATTTT
1 TTGGAGTATCC-CTCAG-AAATGATAGGG-TTGGAGTATCCCTGATGATGAAAAATTAATATTTT
* **
685415 GAAAAT-AAAATGGGG
63 GGAAATAAAAACAGGG
* * * * * * *
685430 TTAGAGTATCCCTTCGGAAATGATGGGGTTGGAGAATCCTTGATGGTGAAAAATTGATATTTTGG
1 TTGGAGTATCCC-TCAGAAATGATAGGGTTGGAGTATCCCTGATGATGAAAAATTAATATTTTGG
* *
685495 AAATAAAAATAAGG
65 AAATAAAAACAGGG
* * * * ** *
685509 TTGGAGTATCCCTTTAGAGATGGTGGGGTCAGAGTATCCCTGA-GATGAAAATTTTAATATTTTG
1 TTGGAGTATCCC-TCAGAAATGATAGGGTTGGAGTATCCCTGATGATGAAAA-ATTAATATTTTG
* *
685573 GAAGTAAAAACGGGG
64 GAAATAAAAACAGGG
* * *
685588 TTGGAGTATTCCCTCAGAAATGATAGAGTTGGAGTATCCCCGATGGTGAAAAA-TAGATATTTTT
1 TTGGAGTA-TCCCTCAGAAATGATAGGGTTGGAGTATCCCTGATGATGAAAAATTA-ATA-TTTT
685652 GGAA
63 GGAA
685656 GGAGAAATTT
Statistics
Matches: 241, Mismatches: 48, Indels: 28
0.76 0.15 0.09
Matches are distributed among these distances:
77 7 0.03
78 100 0.41
79 115 0.48
80 19 0.08
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.30
Consensus pattern (78 bp):
TTGGAGTATCCCTCAGAAATGATAGGGTTGGAGTATCCCTGATGATGAAAAATTAATATTTTGGA
AATAAAAACAGGG
Found at i:688065 original size:51 final size:51
Alignment explanation
Indices: 687963--688078 Score: 146
Period size: 51 Copynumber: 2.3 Consensus size: 51
687953 GGTTTGCATA
* * *
687963 TATCGATACATTTAAGTCAAAACCTAAAATTTATCGATACAATGAATAATG
1 TATCGATACATTTTAGTCAAAAACTAAAATGTATCGATACAATGAATAATG
* *
688014 TATCAATACATTTTGGTCAAAAACTCAAAATGTATCGATACAAT-AGA-AATG
1 TATCGATACATTTTAGTCAAAAACT-AAAATGTATCGATACAATGA-ATAATG
*
688065 TATTGATACATTTT
1 TATCGATACATTTT
688079 CCTTCCAGAA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
51 38 0.68
52 18 0.32
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (51 bp):
TATCGATACATTTTAGTCAAAAACTAAAATGTATCGATACAATGAATAATG
Found at i:688981 original size:45 final size:43
Alignment explanation
Indices: 688932--689055 Score: 125
Period size: 37 Copynumber: 3.0 Consensus size: 43
688922 AAAAGTGTCC
*
688932 CCAACGTGTGCAGGCTTTGAAAAGGAAAAAGAGAAAGAGGTGCTG
1 CCAACCTGTGCAGGCTTTGAAAAGGAAAAA-AGAAA-AGGTGCTG
* * * *
688977 CCAACCTGTGTAGGC-TT-AAAA--AGAAAA-AAAA-TTACTG
1 CCAACCTGTGCAGGCTTTGAAAAGGAAAAAAGAAAAGGTGCTG
*
689014 CCAACTTGTGCAGGCTTTGAAAAGGAAAAAAGAAAAAGGTGC
1 CCAACCTGTGCAGGCTTTGAAAAGGAAAAAAG-AAAAGGTGC
689056 CACCTGTAGA
Statistics
Matches: 62, Mismatches: 10, Indels: 15
0.71 0.11 0.17
Matches are distributed among these distances:
37 17 0.27
38 3 0.05
39 7 0.11
40 1 0.02
41 9 0.15
43 8 0.13
44 4 0.06
45 13 0.21
ACGTcount: A:0.42, C:0.15, G:0.26, T:0.18
Consensus pattern (43 bp):
CCAACCTGTGCAGGCTTTGAAAAGGAAAAAAGAAAAGGTGCTG
Found at i:689032 original size:82 final size:82
Alignment explanation
Indices: 688902--689055 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 82
688892 CACCAACTTA
*
688902 TGTAGGCTTTAAAAAGAGAAAAAAGTGTCCCCAACGTGTGCAGGCTTTGAAAAGGAAAAAGAGAA
1 TGTAGGCTTTAAAAAGAGAAAAAAATGTCCCCAACGTGTGCAGGCTTTGAAAAGGAAAAA-AGAA
*
688967 AGAGGTGCTGCCAACCTG
65 AAAGGTGCTGCCAACCTG
* *
688985 TGTAGGC-TTAAAAAGA-AAAAAAAT-TACTGCCAACTTGTGCAGGCTTTGAAAAGGAAAAAAGA
1 TGTAGGCTTTAAAAAGAGAAAAAAATGT-C-CCCAACGTGTGCAGGCTTTGAAAAGGAAAAAAGA
689047 AAAAGGTGC
64 AAAAGGTGC
689056 CACCTGTAGA
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
80 1 0.02
81 19 0.29
82 38 0.58
83 7 0.11
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.19
Consensus pattern (82 bp):
TGTAGGCTTTAAAAAGAGAAAAAAATGTCCCCAACGTGTGCAGGCTTTGAAAAGGAAAAAAGAAA
AAGGTGCTGCCAACCTG
Found at i:691307 original size:13 final size:13
Alignment explanation
Indices: 691289--691315 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
691279 ACATATTGCT
691289 TTGTATCGATACA
1 TTGTATCGATACA
691302 TTGTATCGATACA
1 TTGTATCGATACA
691315 T
1 T
691316 GTTCATAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:691312 original size:33 final size:32
Alignment explanation
Indices: 691270--691333 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
691260 CGCTCCCAGA
* *
691270 TGTATCGATACATATTGCTTTGTATCGATACAT
1 TGTATCGATACATATT-CATAGTATCGATACAT
*
691303 TGTATCGATACATGTTCATAGTATCGATACA
1 TGTATCGATACATATTCATAGTATCGATACA
691334 CCTTGAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATATTCATAGTATCGATACAT
Found at i:692981 original size:3 final size:3
Alignment explanation
Indices: 692973--693009 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
692963 TCAACCATCA
*
692973 ATG ATG ATG AAG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
693010 AGTTGACTCG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.30
Consensus pattern (3 bp):
ATG
Found at i:694977 original size:8 final size:8
Alignment explanation
Indices: 694955--694994 Score: 55
Period size: 9 Copynumber: 4.9 Consensus size: 8
694945 TAGATTTATT
694955 TAAAAAAA
1 TAAAAAAA
694963 TACAAAAAA
1 TA-AAAAAA
694972 T-AAAAAA
1 TAAAAAAA
694979 TAAAAAAA
1 TAAAAAAA
694987 TGAAAAAA
1 T-AAAAAA
694995 GAAGGGGTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.24
8 9 0.31
9 13 0.45
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (8 bp):
TAAAAAAA
Found at i:694978 original size:16 final size:16
Alignment explanation
Indices: 694957--694994 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
694947 GATTTATTTA
694957 AAAAAATACAAAAAAT-
1 AAAAAATA-AAAAAATG
694973 AAAAAATAAAAAAATG
1 AAAAAATAAAAAAATG
694989 AAAAAA
1 AAAAAA
694995 GAAGGGGTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.84, C:0.03, G:0.03, T:0.11
Consensus pattern (16 bp):
AAAAAATAAAAAAATG
Found at i:695471 original size:50 final size:52
Alignment explanation
Indices: 695412--695519 Score: 184
Period size: 52 Copynumber: 2.1 Consensus size: 52
695402 TGAACAATGC
*
695412 ATGTATTGATATATT-T-TGTTTTTTACCTAGATGTATCGATACATTTTTCA
1 ATGTATTGATACATTATGTGTTTTTTACCTAGATGTATCGATACATTTTTCA
*
695462 ATGTATTGATACATTATGTTTTTTTTACCTAGATGTATCGATACATTTTTCA
1 ATGTATTGATACATTATGTGTTTTTTACCTAGATGTATCGATACATTTTTCA
695514 ATGTAT
1 ATGTAT
695520 CAATACATCT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
50 14 0.26
51 1 0.02
52 39 0.72
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.51
Consensus pattern (52 bp):
ATGTATTGATACATTATGTGTTTTTTACCTAGATGTATCGATACATTTTTCA
Found at i:699444 original size:20 final size:20
Alignment explanation
Indices: 699419--699574 Score: 167
Period size: 20 Copynumber: 7.7 Consensus size: 20
699409 TTTTACCTAG
699419 ATGTATCGATACATCTTCCA
1 ATGTATCGATACATCTTCCA
*
699439 ATGTATCGATACAT-TACCCA
1 ATGTATCGATACATCT-TCCA
699459 GATGTATCGATACATCTTCCA
1 -ATGTATCGATACATCTTCCA
*
699480 ATGTATCGATACAT-TACCCA
1 ATGTATCGATACATCT-TCCA
* *
699500 GATATATCGATACATCTTTCA
1 -ATGTATCGATACATCTTCCA
* * *
699521 ATGTATCAATACATGTAT-GA
1 ATGTATCGATACATCT-TCCA
699541 ATGTATCGATACATTCTT-CA
1 ATGTATCGATACA-TCTTCCA
699561 ATGTATCGATACAT
1 ATGTATCGATACAT
699575 TCTGTCCTTT
Statistics
Matches: 115, Mismatches: 13, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
19 3 0.03
20 75 0.65
21 35 0.30
22 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATCTTCCA
Found at i:699465 original size:41 final size:41
Alignment explanation
Indices: 699411--699575 Score: 237
Period size: 41 Copynumber: 4.0 Consensus size: 41
699401 GGTCACATTT
*
699411 TTACCTAGATGTATCGATACATCTTCCAATGTATCGATACA
1 TTACCCAGATGTATCGATACATCTTCCAATGTATCGATACA
699452 TTACCCAGATGTATCGATACATCTTCCAATGTATCGATACA
1 TTACCCAGATGTATCGATACATCTTCCAATGTATCGATACA
* * *
699493 TTACCCAGATATATCGATACATCTTTCAATGTATCAATACA
1 TTACCCAGATGTATCGATACATCTTCCAATGTATCGATACA
**
699534 TGTA-TGA-ATGTATCGATACATTCTT-CAATGTATCGATACA
1 T-TACCCAGATGTATCGATACA-TCTTCCAATGTATCGATACA
699574 TT
1 TT
699576 CTGTCCTTTT
Statistics
Matches: 114, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 27 0.24
41 84 0.74
42 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.35
Consensus pattern (41 bp):
TTACCCAGATGTATCGATACATCTTCCAATGTATCGATACA
Found at i:703815 original size:13 final size:13
Alignment explanation
Indices: 703797--703822 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
703787 TACACCAAGT
703797 ATGTATCGATACA
1 ATGTATCGATACA
703810 ATGTATCGATACA
1 ATGTATCGATACA
703823 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:703820 original size:32 final size:33
Alignment explanation
Indices: 703779--703842 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
703769 TAGCCAAACT
* **
703779 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
703811 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
703843 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:707911 original size:15 final size:15
Alignment explanation
Indices: 707891--707921 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
707881 TAAAAATGTC
*
707891 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
707906 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
707921 C
1 C
707922 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:710001 original size:13 final size:13
Alignment explanation
Indices: 709983--710008 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
709973 ACATTTTTCT
709983 TTGTATCGATACA
1 TTGTATCGATACA
709996 TTGTATCGATACA
1 TTGTATCGATACA
710009 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:710171 original size:20 final size:19
Alignment explanation
Indices: 710130--710172 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
710120 ATCTTTTACA
710130 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
710150 AAATCACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
710170 AAA
1 AAA
710173 ACCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.30, C:0.21, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:712572 original size:13 final size:13
Alignment explanation
Indices: 712554--712579 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
712544 TACACCAAGT
712554 ATGTATCGATACA
1 ATGTATCGATACA
712567 ATGTATCGATACA
1 ATGTATCGATACA
712580 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:712577 original size:32 final size:33
Alignment explanation
Indices: 712536--712599 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
712526 TAGCCAAACT
* **
712536 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
712568 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
712600 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:715070 original size:20 final size:20
Alignment explanation
Indices: 715045--715108 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
715035 AAACCCAGAT
715045 GTATCGATACAAAATTTTTA
1 GTATCGATACAAAATTTTTA
715065 GTATCGATAC---A---TT-
1 GTATCGATACAAAATTTTTA
715078 GTATCGATACAAAATTTTTA
1 GTATCGATACAAAATTTTTA
715098 GTATCGATACA
1 GTATCGATACA
715109 TTGTATCAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.27
14 2 0.05
16 1 0.03
17 1 0.03
19 2 0.05
20 21 0.57
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (20 bp):
GTATCGATACAAAATTTTTA
Found at i:715086 original size:33 final size:33
Alignment explanation
Indices: 715044--715121 Score: 147
Period size: 33 Copynumber: 2.4 Consensus size: 33
715034 AAAACCCAGA
715044 TGTATCGATACAAAATTTTTAGTATCGATACAT
1 TGTATCGATACAAAATTTTTAGTATCGATACAT
715077 TGTATCGATACAAAATTTTTAGTATCGATACAT
1 TGTATCGATACAAAATTTTTAGTATCGATACAT
*
715110 TGTATCAATACA
1 TGTATCGATACA
715122 TGGGTACTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (33 bp):
TGTATCGATACAAAATTTTTAGTATCGATACAT
Found at i:717094 original size:43 final size:44
Alignment explanation
Indices: 717002--717127 Score: 134
Period size: 43 Copynumber: 2.9 Consensus size: 44
716992 TTTGTTTTAA
* * * *
717002 GAGTTTTAAAAAATGGGAGAAGTTATTAACGGGGAG--AAGTAT
1 GAGTTTTAAAAAAGGGGAAAATTTATTAAGGGGGAGAAAAGTAT
717044 GAGTTTTAAAAAAAGGGGAAAATTTATTAAGGGGGAGAAAAGT-T
1 GAGTTTT-AAAAAAGGGGAAAATTTATTAAGGGGGAGAAAAGTAT
* * * *
717088 G-TTTTTATAAAAGAGGGATAATTTGTTAAGGGGGAGAAAA
1 GAGTTTTAAAAAAG-GGGAAAATTTATTAAGGGGGAGAAAA
717128 ATTTGTTAAG
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
42 13 0.18
43 53 0.74
44 2 0.03
45 4 0.06
ACGTcount: A:0.42, C:0.01, G:0.30, T:0.27
Consensus pattern (44 bp):
GAGTTTTAAAAAAGGGGAAAATTTATTAAGGGGGAGAAAAGTAT
Found at i:717802 original size:19 final size:20
Alignment explanation
Indices: 717760--717809 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
717750 ACACTCAAAT
*
717760 GTATCGATACATATTGCTTA
1 GTATCGATACATATTGCATA
*
717780 GTATCGATACATGTT-CATA
1 GTATCGATACATATTGCATA
*
717799 GTATCAATACA
1 GTATCGATACA
717810 CCTTGAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (20 bp):
GTATCGATACATATTGCATA
Found at i:719631 original size:79 final size:79
Alignment explanation
Indices: 719499--719991 Score: 555
Period size: 79 Copynumber: 6.2 Consensus size: 79
719489 TTCATTGATG
* * * * *
719499 TTTTAATTTCTAAAATATCGATTTTCCACCATCGGGGATACTCCAACCCCGTTATTT-TTAAGGG
1 TTTT-ATTTCTAAAACATCAATTTTTCACCATCGAGGATACTCCAACCCCGTTATTTCTGAA-GG
719563 GATACTCCAACCTCGA
64 GATACTCCAACCTCGA
* * * * *
719579 TTTTATTTCTAAAATATCAATTTTTCACCATTGAAGATAATCCAACCCCGTTATTTCTGAGGGGA
1 TTTTATTTCTAAAACATCAATTTTTCACCATCGAGGATACTCCAACCCCGTTATTTCTGAAGGGA
* *
719644 TACTCCAACCCCAA
66 TACTCCAACCTCGA
* * ** * *
719658 TTTTATTCCTAAAACACCTTTTTTTCCACTATC-AGGGATACTCCAACCCCATTATTTCTGAAGG
1 TTTTATTTCTAAAACATCAATTTTT-CACCATCGA-GGATACTCCAACCCCGTTATTTCTGAAGG
*
719722 AATACTCCAACCTCGA
64 GATACTCCAACCTCGA
* * * * * *
719738 TTTTATTTCTAAAATA-CTGATTTTCCACGATCGAGGATACTCTAACCCCGTTATTAT-TGAGGG
1 TTTTATTTCTAAAACATC-AATTTTTCACCATCGAGGATACTCCAACCCCGTTATT-TCTGAAGG
* *
719801 GATACTCTAACCCCGA
64 GATACTCCAACCTCGA
* ** **
719817 TTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATACTCCATTCCTATTATTTCTGAAGGGA
1 TTTTATTTCTAAAACATCAATTTTTCACCATCGAGGATACTCCAACCCCGTTATTTCTGAAGGGA
719882 TACTCCAACCTCGA
66 TACTCCAACCTCGA
* * *
719896 TTTTATTCCTAAAACACCAA-TTTTCTACCATCCGGGGATACTCCAACCCCGTTATTTCTGAAGG
1 TTTTATTTCTAAAACATCAATTTTTC-ACCAT-CGAGGATACTCCAACCCCGTTATTTCTGAAGG
*
719960 GATACTCCAACCTCAA
64 GATACTCCAACCTCGA
719976 TTTTATTTCTAAAACA
1 TTTTATTTCTAAAACA
719992 CCACTATCGG
Statistics
Matches: 346, Mismatches: 57, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
78 6 0.02
79 212 0.61
80 128 0.37
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.34
Consensus pattern (79 bp):
TTTTATTTCTAAAACATCAATTTTTCACCATCGAGGATACTCCAACCCCGTTATTTCTGAAGGGA
TACTCCAACCTCGA
Found at i:719785 original size:159 final size:159
Alignment explanation
Indices: 719520--719994 Score: 634
Period size: 159 Copynumber: 3.0 Consensus size: 159
719510 AAAATATCGA
* *
719520 TTTTCCACCATCGGGGATACTCCAACCCCGTTATTT-TTAAGGGGATACTCCAACCTCGATTTTA
1 TTTTCCACCATCGGGGATACTCCAACCCCATTATTTCTGAA-GGGATACTCCAACCTCGATTTTA
* * * *
719584 TTTCTAAAATA-TCAATTTTTCACCATTGAAGATAATCCAACCCCGTTATTTCTGAGGGGATACT
65 TTTCTAAAATACT-AATTTTCCACCATCGAGGATACTCCAACCCCGTTATTTCTGAGGGGATACT
* **
719648 CCAACCCCAATTTTATTCCTAAAACACCTTT
129 CCAACCCCAATTTTATTTCTAAAACACCAAT
* * *
719679 TTTTCCACTATCAGGGATACTCCAACCCCATTATTTCTGAAGGAATACTCCAACCTCGATTTTAT
1 TTTTCCACCATCGGGGATACTCCAACCCCATTATTTCTGAAGGGATACTCCAACCTCGATTTTAT
* * *
719744 TTCTAAAATACTGATTTTCCACGATCGAGGATACTCTAACCCCGTTATTAT-TGAGGGGATACTC
66 TTCTAAAATACTAATTTTCCACCATCGAGGATACTCCAACCCCGTTATT-TCTGAGGGGATACTC
* * *
719808 TAACCCCGATTTTATTTCTAAAACATCAAT
130 CAACCCCAATTTTATTTCTAAAACACCAAT
** *
719838 TTTT-CACCATCGGGGATACTCCATTCCTATTATTTCTGAAGGGATACTCCAACCTCGATTTTAT
1 TTTTCCACCATCGGGGATACTCCAACCCCATTATTTCTGAAGGGATACTCCAACCTCGATTTTAT
* * * * * *
719902 TCCTAAAACACCAATTTTCTACCATCCGGGGATACTCCAACCCCGTTATTTCTGAAGGGATACTC
66 TTCTAAAATACTAATTTTCCACCAT-CGAGGATACTCCAACCCCGTTATTTCTGAGGGGATACTC
*
719967 CAACCTCAATTTTATTTCTAAAACACCA
130 CAACCCCAATTTTATTTCTAAAACACCA
719995 CTATCGGGGA
Statistics
Matches: 274, Mismatches: 37, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
158 74 0.27
159 195 0.71
160 5 0.02
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (159 bp):
TTTTCCACCATCGGGGATACTCCAACCCCATTATTTCTGAAGGGATACTCCAACCTCGATTTTAT
TTCTAAAATACTAATTTTCCACCATCGAGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCC
AACCCCAATTTTATTTCTAAAACACCAAT
Found at i:719936 original size:238 final size:238
Alignment explanation
Indices: 719499--719989 Score: 698
Period size: 238 Copynumber: 2.1 Consensus size: 238
719489 TTCATTGATG
* *
719499 TTTTAATTTCTAAAATATCGATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTTAAGGGG
1 TTTT-ATTTCTAAAATATCGATTTTCCACCATCGAGGATACTCCAACCCCGTTATTATTAAGGGG
* * * *
719564 ATACTCCAACCTCGATTTTATTTCTAAAATATCAATTTTTCACCATTGAAGATAATCCAACCCCG
65 ATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACCATCGAAGATAATCCAACCCCA
* ** *
719629 TTATTTCTGAGGGGATACTCCAACCCCAATTTTATTCCTAAAACACCTTTTTTTCCACTATCAGG
130 TTATTTCTGAAGGGATACTCCAACCCCAATTTTATTCCTAAAACACCTAATTTTCCACCATCAGG
*
719694 GATACTCCAACCCCATTATTTCTGAAGGAATACTCCAACCTCGA
195 GATACTCCAACCCCATTATTTCTGAAGGAATACTCCAACCTCAA
* * *
719738 TTTTATTTCTAAAATA-CTGATTTTCCACGATCGAGGATACTCTAACCCCGTTATTATTGAGGGG
1 TTTTATTTCTAAAATATC-GATTTTCCACCATCGAGGATACTCCAACCCCGTTATTATTAAGGGG
* ** * ** *
719802 ATACTCTAACCCCGATTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATACTCCATTCCTA
65 ATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACCATCGAAGATAATCCAACCCCA
* * * *
719867 TTATTTCTGAAGGGATACTCCAACCTCGATTTTATTCCTAAAACACC-AATTTTCTACCATCCGG
130 TTATTTCTGAAGGGATACTCCAACCCCAATTTTATTCCTAAAACACCTAATTTTCCACCAT-CAG
* *
719931 GGATACTCCAACCCCGTTATTTCTGAAGGGATACTCCAACCTCAA
194 GGATACTCCAACCCCATTATTTCTGAAGGAATACTCCAACCTCAA
719976 TTTTATTTCTAAAA
1 TTTTATTTCTAAAA
719990 CACCACTATC
Statistics
Matches: 223, Mismatches: 27, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
237 10 0.04
238 209 0.94
239 4 0.02
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.34
Consensus pattern (238 bp):
TTTTATTTCTAAAATATCGATTTTCCACCATCGAGGATACTCCAACCCCGTTATTATTAAGGGGA
TACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACCATCGAAGATAATCCAACCCCAT
TATTTCTGAAGGGATACTCCAACCCCAATTTTATTCCTAAAACACCTAATTTTCCACCATCAGGG
ATACTCCAACCCCATTATTTCTGAAGGAATACTCCAACCTCAA
Found at i:729592 original size:13 final size:13
Alignment explanation
Indices: 729576--729618 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
729566 ATAATTCATC
*
729576 ATGTGTCGATACA
1 ATGTATCGATACA
729589 ATGTATCGATACA
1 ATGTATCGATACA
729602 ATGTATCGATACA
1 ATGTATCGATACA
729615 ATGT
1 ATGT
729619 GTCATTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:729688 original size:20 final size:20
Alignment explanation
Indices: 729663--729717 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
729653 CTACCAATTT
**
729663 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
729683 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
729702 CATGTATCGATACAAT
1 CATGTATCGATACAAT
729718 AGATCGATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:730330 original size:21 final size:23
Alignment explanation
Indices: 730304--730349 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
730294 GCTCTCATTC
*
730304 AAAAAAATTT-T-CCCTTTGATA
1 AAAAAAATTTCTCCCCCTTGATA
730325 AAAAAAATTTCTCCCCCTTGATA
1 AAAAAAATTTCTCCCCCTTGATA
730348 AA
1 AA
730350 CTGTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.45
22 1 0.05
23 11 0.50
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.33
Consensus pattern (23 bp):
AAAAAAATTTCTCCCCCTTGATA
Found at i:732072 original size:20 final size:22
Alignment explanation
Indices: 732032--732073 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
732022 ATGATTTTGT
*
732032 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGTAATTTGAAG
732054 TGAAAAAT-AAG-AATTTGAAG
1 TGAAAAATGAAGTAATTTGAAG
732074 AAGATTTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 3 0.16
22 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (22 bp):
TGAAAAATGAAGTAATTTGAAG
Found at i:740984 original size:13 final size:14
Alignment explanation
Indices: 740966--741003 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
740956 AATACCCATA
*
740966 TATCGATACTTA-G
1 TATCGATACTAAGG
740979 TATCGATAC-AAGG
1 TATCGATACTAAGG
740992 TATCGATACTAA
1 TATCGATACTAA
741004 AATATTTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 1 0.05
13 19 0.86
14 2 0.09
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (14 bp):
TATCGATACTAAGG
Found at i:741060 original size:20 final size:20
Alignment explanation
Indices: 741035--741072 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
741025 GGGTTTTCCA
741035 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
741055 AATGTATCGATACATTAT
1 AATGTATCGATACATTAT
741073 GGGAAATTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:747947 original size:51 final size:50
Alignment explanation
Indices: 747890--748004 Score: 176
Period size: 51 Copynumber: 2.3 Consensus size: 50
747880 AATAAACTAT
* *
747890 ATGTATCGATACATTGAAAAATGTATCGATACATCTGAGAAAAAAAATAGA
1 ATGTATCGATACATTGAAAAATATATCGATACATCTG-GAAAAAAAACAGA
* **
747941 ATGTATCAATACATTGAAAAATATATCGATACATCTGGGTAAAAAACAGA
1 ATGTATCGATACATTGAAAAATATATCGATACATCTGGAAAAAAAACAGA
747991 ATGTATCGATACAT
1 ATGTATCGATACAT
748005 ATACTGTTCA
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 23 0.40
51 35 0.60
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.27
Consensus pattern (50 bp):
ATGTATCGATACATTGAAAAATATATCGATACATCTGGAAAAAAAACAGA
Found at i:748481 original size:13 final size:13
Alignment explanation
Indices: 748457--748494 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
748447 TGCACCCCAT
748457 TTTTTAATTTTTAA
1 TTTTTAA-TTTTAA
748471 TTTTTAATTTTAA
1 TTTTTAATTTTAA
*
748484 TTTTTTATTTT
1 TTTTTAATTTT
748495 TTATTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTAATTTTAA
Found at i:748483 original size:20 final size:20
Alignment explanation
Indices: 748458--748501 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
748448 GCACCCCATT
748458 TTTTAATTTTTAATTTTTAA
1 TTTTAATTTTTAATTTTTAA
* *
748478 TTTTAATTTTTTATTTTTTA
1 TTTTAATTTTTAATTTTTAA
748498 TTTT
1 TTTT
748502 TTATTGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTAATTTTTAATTTTTAA
Found at i:748518 original size:7 final size:7
Alignment explanation
Indices: 748455--748519 Score: 85
Period size: 7 Copynumber: 9.1 Consensus size: 7
748445 GTTGCACCCC
748455 ATTTTTT
1 ATTTTTT
*
748462 AATTTTT
1 ATTTTTT
*
748469 AATTTTT
1 ATTTTTT
* *
748476 AATTTTA
1 ATTTTTT
748483 ATTTTTT
1 ATTTTTT
748490 ATTTTTT
1 ATTTTTT
748497 ATTTTTT
1 ATTTTTT
748504 ATTGTTTT
1 ATT-TTTT
748512 ATTTTTT
1 ATTTTTT
748519 A
1 A
748520 ACCTCGTTGG
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
7 46 0.87
8 7 0.13
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.77
Consensus pattern (7 bp):
ATTTTTT
Found at i:752466 original size:19 final size:18
Alignment explanation
Indices: 752439--752480 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
752429 TCCTTTCTTT
*
752439 AAAAAAAAAACAA-CAAC
1 AAAAAAAAAAAAATCAAC
*
752456 AAAAAAGAAAAAAATGAAC
1 AAAAAA-AAAAAAATCAAC
752475 AAAAAA
1 AAAAAA
752481 TGGAAAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 6 0.29
19 9 0.43
ACGTcount: A:0.83, C:0.10, G:0.05, T:0.02
Consensus pattern (18 bp):
AAAAAAAAAAAAATCAAC
Found at i:753842 original size:59 final size:59
Alignment explanation
Indices: 753477--754042 Score: 511
Period size: 61 Copynumber: 9.4 Consensus size: 59
753467 AACCTTTTAT
* * * *
753477 CCTTTTAGTCCTCAAAGAGCAGGATGC-CTTTTCCTTTTAAAACCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAAGA--CAC-TTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
753538 CCTTTCAGTTCTCAAAAAGCAAGACACTTTCCTTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAAGACACTTTCC-TTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
753598 CCTTTCAGTCCTCAAAGAACAGGA-AGTCTTTCCCTTTTAAAGCCCACACGAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAAGACA--CTTT-CCTTTCAAAGCCCACACAAGTTGGTGGCA
* ** * * *
753659 CCTTTCAGTCCTTAAAGAGCAAGATGCGTTCTCCTTTCAAAGCCTACACAAGTTGCTGTCA
1 CCTTTCAGTCCTCAAAGAGCAAGACAC-TT-TCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
753720 CCTTTCAGTCCTCAAAGAGCAAGATGC-CTTTTCCTTTTAAAGCCCACACGAGTTGGTGACA
1 CCTTTCAGTCCTCAAAGAGCAAGA--CAC-TTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
753781 CC-TTCTAGTCCTCAAGGAGCATA-ACACTCTCCTTTCAAAGCTCATACAAGTTGGTGGCA
1 CCTTTC-AGTCCTCAAAGAGCA-AGACACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
753840 CC-TTCTAGTCCTCAAAAAGCAAGACACTTTCTTTTCAAAGTCCACACAAGTTGGGGGCA
1 CCTTTC-AGTCCTCAAAGAGCAAGACACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
753899 CC-TTCTAGTCC-CTAAAGAGTAAGACATTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTC-AGTCCTC-AAAGAGCAAGACACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * ** * *
753958 CCTTTTAGTCTTCGAAGAGTAGGACATTTCTTTTTTTTCTTAAAGCCCACATAAGCTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAAGACA---CTTTCCTTTC--AAAGCCCACACAAGTTGGTGGCA
754022 CC-TTCTAGTCCTCAAAGAGCA
1 CCTTTC-AGTCCTCAAAGAGCA
754043 GGATGCCTCT
Statistics
Matches: 421, Mismatches: 61, Indels: 43
0.80 0.12 0.08
Matches are distributed among these distances:
58 2 0.00
59 151 0.36
60 55 0.13
61 162 0.38
62 14 0.03
63 2 0.00
64 35 0.08
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (59 bp):
CCTTTCAGTCCTCAAAGAGCAAGACACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:754689 original size:41 final size:40
Alignment explanation
Indices: 754644--754740 Score: 122
Period size: 41 Copynumber: 2.4 Consensus size: 40
754634 ATTTACTATT
* *
754644 TGTATCCATACATTTTTCATTATACCGATACATTACCCAAA
1 TGTATCGATACATTTTTCAATATACCGATACATTACCC-AA
* * * * *
754685 TGTATCGATACATTTCTCAATGTATCGATACATTTCTCAA
1 TGTATCGATACATTTTTCAATATACCGATACATTACCCAA
754725 TGTATCGATACATTTT
1 TGTATCGATACATTTT
754741 GGCATTTTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 17 0.35
41 31 0.65
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (40 bp):
TGTATCGATACATTTTTCAATATACCGATACATTACCCAA
Found at i:754708 original size:20 final size:20
Alignment explanation
Indices: 754621--754739 Score: 123
Period size: 20 Copynumber: 5.8 Consensus size: 20
754611 TTCATAAGTA
*
754621 AATGTATCAATACATTTACT-
1 AATGTATCGATACATTT-CTC
* * *
754641 ATTTGTATCCATACATTTTTC
1 A-ATGTATCGATACATTTCTC
* * * * *
754662 ATTATACCGATACATTACCC
1 AATGTATCGATACATTTCTC
754682 AAATGTATCGATACATTTCTC
1 -AATGTATCGATACATTTCTC
754703 AATGTATCGATACATTTCTC
1 AATGTATCGATACATTTCTC
754723 AATGTATCGATACATTT
1 AATGTATCGATACATTT
754740 TGGCATTTTT
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
20 52 0.63
21 30 0.37
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTTCTC
Found at i:754734 original size:61 final size:62
Alignment explanation
Indices: 754620--754738 Score: 152
Period size: 61 Copynumber: 1.9 Consensus size: 62
754610 ATTCATAAGT
* * *
754620 AAATGTATCAATACATTTACTATTTGTATCCATACATTTTTCATTATACCGATACATTACCC
1 AAATGTATCAATACATTTACTATATGTATCCATACATTTCTCAATATACCGATACATTACCC
* * * *
754682 AAATGTATCGATACATTT-CTCA-ATGTATCGATACATTTCTCAATGTATCGATACATT
1 AAATGTATCAATACATTTACT-ATATGTATCCATACATTTCTCAATATACCGATACATT
754739 TTGGCATTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
61 31 0.63
62 18 0.37
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (62 bp):
AAATGTATCAATACATTTACTATATGTATCCATACATTTCTCAATATACCGATACATTACCC
Found at i:756909 original size:19 final size:19
Alignment explanation
Indices: 756875--756913 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
756865 ACCATGCATT
*
756875 TTTTTATTATGTTCCATGCA
1 TTTTTAATATGTTCCA-GCA
756895 TTTTTAATATG-TCCAGCA
1 TTTTTAATATGTTCCAGCA
756913 T
1 T
756914 CTCATTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.23, C:0.15, G:0.10, T:0.51
Consensus pattern (19 bp):
TTTTTAATATGTTCCAGCA
Found at i:757517 original size:37 final size:37
Alignment explanation
Indices: 757470--757657 Score: 130
Period size: 37 Copynumber: 5.0 Consensus size: 37
757460 GAAAAAAAGG
757470 ATGTCACCAACTTATGTGGGCTTAAAAAAAGAAAAAA
1 ATGTCACCAACTTATGTGGGCTTAAAAAAAGAAAAAA
* ** * *
757507 ATGTCGCCAACTTATACGGGCTTTAAAAAGGAAAAAAA
1 ATGTCACCAACTTATGTGGGCTTAAAAAAAG-AAAAAA
* * **
757545 AGGTGCTC-CCAACCTGTGTGGGCTTAAAAGGA-AAAAAA
1 A--TG-TCACCAACTTATGTGGGCTTAAAAAAAGAAAAAA
* * * *
757583 ATGTGCCACTAACTTGTGT-GTCTTAAAAAGAGAAAAAA
1 ATGT--CACCAACTTATGTGGGCTTAAAAAAAGAAAAAA
* * * * * *
757621 GTGCCACCAACTTTTGCGGGCTTTAAAAAGGAAAAAA
1 ATGTCACCAACTTATGTGGGCTTAAAAAAAGAAAAAA
757658 GAAAAAGGTG
Statistics
Matches: 116, Mismatches: 26, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
35 1 0.01
36 12 0.10
37 52 0.45
38 31 0.27
40 18 0.16
41 2 0.02
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (37 bp):
ATGTCACCAACTTATGTGGGCTTAAAAAAAGAAAAAA
Found at i:757545 original size:38 final size:38
Alignment explanation
Indices: 757459--757657 Score: 108
Period size: 38 Copynumber: 5.2 Consensus size: 38
757449 TTTGAAATAG
**
757459 GGAAAAAAAGGATGTCACCAACTTATGTGGGCTTAAAAAA
1 GGAAAAAAA--ATGTCACCAACTTATACGGGCTTAAAAAA
* * *
757499 AG-AAAAAAATGTCGCCAACTTATACGGGCTTTAAAAA
1 GGAAAAAAAATGTCACCAACTTATACGGGCTTAAAAAA
* * **
757536 GGAAAAAAAAGGTGCTC-CCAACCTGTGTGGGCTT--AAAA
1 GGAAAAAAAA--TG-TCACCAACTTATACGGGCTTAAAAAA
* * *
757574 GGAAAAAAAATGTGCCACTAACTTGT--GTGTCTT-AAAAA
1 GGAAAAAAAATGT--CACCAACTTATACG-GGCTTAAAAAA
* * * * *
757612 -GAGAAAAAAGTGCCACCAACTTTTGCGGGCTTTAAAAA
1 GGA-AAAAAAATGTCACCAACTTATACGGGCTTAAAAAA
757650 GGAAAAAA
1 GGAAAAAA
757658 GAAAAAGGTG
Statistics
Matches: 127, Mismatches: 18, Indels: 30
0.73 0.10 0.17
Matches are distributed among these distances:
35 1 0.01
36 12 0.09
37 37 0.29
38 51 0.40
39 8 0.06
40 16 0.13
41 2 0.02
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.21
Consensus pattern (38 bp):
GGAAAAAAAATGTCACCAACTTATACGGGCTTAAAAAA
Found at i:757568 original size:77 final size:77
Alignment explanation
Indices: 757446--757590 Score: 188
Period size: 77 Copynumber: 1.9 Consensus size: 77
757436 AACTTATGTA
* * *
757446 GGCTTTGAAATAGGGAAAAAAAGGATGTCACCAACTTATGTGGGCTTAAAAAAAGAAAAAAATGT
1 GGCTTTGAAAAAGGAAAAAAAAGGATGTCACCAACCTATGTGGGCTTAAAAAAA-AAAAAAATGT
757511 CGCCAACTTATACG
65 -GCCAACTTATACG
* **
757525 GGCTTT-AAAAAGGAAAAAAAAGG-TGCTC-CCAACCTGTGTGGGCTTAAAAGGAAAAAAAATGT
1 GGCTTTGAAAAAGGAAAAAAAAGGATG-TCACCAACCTATGTGGGCTTAAAAAAAAAAAAAATGT
757587 GCCA
65 GCCA
757591 CTAACTTGTG
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
75 4 0.07
76 10 0.17
77 22 0.37
78 17 0.29
79 6 0.10
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (77 bp):
GGCTTTGAAAAAGGAAAAAAAAGGATGTCACCAACCTATGTGGGCTTAAAAAAAAAAAAAATGTG
CCAACTTATACG
Found at i:757578 original size:115 final size:119
Alignment explanation
Indices: 757349--757657 Score: 309
Period size: 114 Copynumber: 2.7 Consensus size: 119
757339 GTTTAGACCC
* * * *
757349 AAAAGG-TGTCACCAATTTATGTGCGCTTAAAAAGAGAATAAAGGTGGT-GCCAGCTTATACGGG
1 AAAAGGATGTCACCAACTTATGTGGGCTTAAAAAGAGAA-AAAAGT-GTCGCCAACTTATACGGG
* ** *
757412 CTTCAAAAA-G---AAAGGGGTGCCACCAACTTATGTAGGCTTTGAAATAGGGAAA
64 CTTTAAAAAGGAAAAAAAAGGTGCCACCAACCTATGTAGGCTTTGAAATAGGGAAA
* *
757464 AAAAGGATGTCACCAACTTATGTGGGCTTAAAAAAAGAAAAAAATGTCGCCAACTTATACGGGCT
1 AAAAGGATGTCACCAACTTATGTGGGCTTAAAAAGAGAAAAAAGTGTCGCCAACTTATACGGGCT
* * *
757529 TTAAAAAGGAAAAAAAAGGTGCTC-CCAACCTGTGTGGGC-TT-AAA-AGGAAAA
66 TTAAAAAGGAAAAAAAAGGTGC-CACCAACCTATGTAGGCTTTGAAATAGGGAAA
* * * * * * * * *
757580 AAAATG-TGCCACTAACTTGTGT-GTCTTAAAAAGAGAAAAAAGTGCCACCAACTTTTGCGGGCT
1 AAAAGGATGTCACCAACTTATGTGGGCTTAAAAAGAGAAAAAAGTGTCGCCAACTTATACGGGCT
757643 TTAAAAAGGAAAAAA
66 TTAAAAAGGAAAAAA
757658 GAAAAAGGTG
Statistics
Matches: 163, Mismatches: 24, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
114 51 0.31
115 45 0.28
116 41 0.25
117 3 0.02
118 2 0.01
119 20 0.12
120 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (119 bp):
AAAAGGATGTCACCAACTTATGTGGGCTTAAAAAGAGAAAAAAGTGTCGCCAACTTATACGGGCT
TTAAAAAGGAAAAAAAAGGTGCCACCAACCTATGTAGGCTTTGAAATAGGGAAA
Found at i:757690 original size:43 final size:44
Alignment explanation
Indices: 757607--757701 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 44
757597 TGTGTGTCTT
* *
757607 AAAAAGAGAAAAAAGTGCCACCAACTTTTGCGGGCTTTAAAAAGG
1 AAAAA-AGAAAAAAGTGACACCAACTTGTGCGGGCTTTAAAAAGG
* * *
757652 AAAAAAGAAAAAGGTGACACCAACTTGTGTGGGC-TTAAAGAGG
1 AAAAAAGAAAAAAGTGACACCAACTTGTGCGGGCTTTAAAAAGG
*
757695 GAAAAAG
1 AAAAAAG
757702 GTGCCACTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
43 14 0.32
44 25 0.57
45 5 0.11
ACGTcount: A:0.46, C:0.13, G:0.25, T:0.16
Consensus pattern (44 bp):
AAAAAAGAAAAAAGTGACACCAACTTGTGCGGGCTTTAAAAAGG
Found at i:757701 original size:37 final size:38
Alignment explanation
Indices: 757658--758238 Score: 290
Period size: 37 Copynumber: 15.0 Consensus size: 38
757648 AAGGAAAAAA
* *
757658 GAAAAAGGTGACACCAACTTGTGTGGGC-TTAAAGAGG
1 GAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGG
* * * *
757695 GAAAAAGGTGCCACTAGCTTGCGTTGGCTTTAAAAA--
1 GAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGG
* * * *
757731 GAAATAGGTGCTACCAGCTTGTGCGGGCTTTAAAAAGG
1 GAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGG
* * * *
757769 AAAAAATAAAAGGGTGCCATCAACTTATGTGGGC-TTAAAAAGA
1 ----GA-AAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAAGG
* * * ***
757812 AAAAAAGGTGCCGCCAACTTTTGCAAGCTTTAAAAAGG
1 GAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGG
* * * *
757850 AAAAAAAAGGTGCCACCAACCTGTGTGGGC-TTCAAGAGG
1 --GAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGG
** ** * *
757889 G-AAAAGGTGCTGCCAGTTTGTGCGAGCTTTTAAAAA--
1 GAAAAAGGTGCCACCAACTTGTGTGGGC-TTTAAAAAGG
* * *
757925 -AAAAGAGGTGCTACCAACTTGTGTAGGCTTTGAAAAGG
1 GAAAA-AGGTGCCACCAACTTGTGTGGGCTTTAAAAAGG
* *
757963 AAAAAAGATAAAGGTGCCACCAACTTGTGTGGGC-TTAAAAAGA
1 ------GAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGG
** * * **
758006 GAAAAAGGTATCGCCATCTTGTACGGGCTTTAAAAAGG
1 GAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGG
* * * * * *
758044 AAAAAAAAAGACGTACCACCAACCTATGTGGGC-TTGAAGAGG
1 ---GAAAAAG--GTGCCACCAACTTGTGTGGGCTTTAAAAAGG
* **
758086 GAAAAAGGTGTCACCAACTTGTGCAGGCTTTAAAAA--
1 GAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGG
* * *
758122 GAAAGAGGTGCCACCAAATTGTGTGGGCTTTGAAAAGG
1 GAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGG
* * * *
758160 AAAAAAAAGAGGTGACACCAACCTATGTGGGC-TTAAAAAGAG
1 ---GAAAA-AGGTGCCACCAACTTGTGTGGGCTTTAAAAAG-G
* * *
758202 AAAAAAGGTGCCGCCAACTTGTGTAGGCTTTAAAAAG
1 GAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG
758239 AAAAGGATGC
Statistics
Matches: 402, Mismatches: 102, Indels: 78
0.69 0.18 0.13
Matches are distributed among these distances:
36 89 0.22
37 92 0.23
38 54 0.13
39 28 0.07
40 22 0.05
41 16 0.04
42 28 0.07
43 32 0.08
44 38 0.09
45 3 0.01
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (38 bp):
GAAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGG
Found at i:757724 original size:81 final size:79
Alignment explanation
Indices: 757579--757731 Score: 182
Period size: 81 Copynumber: 1.9 Consensus size: 79
757569 TAAAAGGAAA
* * * *
757579 AAAAATGTGCCACTAACTTGTGTGTCTTAAAAAGAGAAAAAAGTGCCACCAACTTTTGCGGGCTT
1 AAAAAGGTGACACCAACTTGTGTGGCTTAAAAAGAGAAAAAAGTGCCACCAAC-TTTGCGGGCTT
757644 TAAAAAGGAAAAAAG
65 TAAAAAGGAAAAAAG
* * * * *
757659 AAAAAGGTGACACCAACTTGTGTGGGCTTAAAGAGGGAAAAAGGTGCCACTAGC-TTGCGTTGGC
1 AAAAAGGTGACACCAACTTGTGT-GGCTTAAAAAGAGAAAAAAGTGCCACCAACTTTGCG--GGC
757723 TTTAAAAAG
63 TTTAAAAAG
757732 AAATAGGTGC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.08
80 20 0.33
81 36 0.59
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (79 bp):
AAAAAGGTGACACCAACTTGTGTGGCTTAAAAAGAGAAAAAAGTGCCACCAACTTTGCGGGCTTT
AAAAAGGAAAAAAG
Found at i:757765 original size:117 final size:114
Alignment explanation
Indices: 757488--757881 Score: 348
Period size: 117 Copynumber: 3.4 Consensus size: 114
757478 AACTTATGTG
* * * * * *
757488 GGCTTAAAAAAAGAAAAAAATGTCGCCAACTTATACGGGCTTTAAAAAGG---AAAAAAAAGGTG
1 GGCTTAAAAAGAGAAAAAAGTGCCACCAACTTGTGCGGGCTTTAAAAAGGAAAAAAAAAAAGGTG
* * * *
757550 CTCCCAACCTGTGTGGGCTTAAAAGGAAAAAAAATGTGCCACTAACTTGTGT
66 C-ACCAACTTGTGTGGGCTTAAAAGG--AAAAAAGGTGCCACTAACTTGCGT
* *
757602 GTCTTAAAAAGAGAAAAAAGTGCCACCAACTTTTGCGGGCTTTAAAAAGGAAAAAAGAAAAAGGT
1 GGCTTAAAAAGAGAAAAAAGTGCCACCAACTTGTGCGGGCTTTAAAAAGGAAAAAA-AAAAAGGT
* *
757667 GACACCAACTTGTGTGGGCTTAAAGAGGGAAAAAGGTGCCACTAGCTTGCGTT
65 G-CACCAACTTGTGTGGGCTTAAA-AGGAAAAAAGGTGCCACTAACTTGCG-T
* * * * * *
757720 GGCTTTAAAA-AGAAATAGGTGCTACCAGCTTGTGCGGGCTTTAAAAAGGAAAAAATAAAAGGGT
1 GGCTTAAAAAGAGAAAAAAGTGCCACCAACTTGTGCGGGCTTTAAAAAGGAAAAAA-AAAAAGGT
* * * * * *
757784 GCCATCAACTTATGTGGGCTTAAAAAGAAAAAAAGGTGCCGCCAACTTTTGC-A
65 G-CACCAACTTGTGTGGGCTT-AAAAGGAAAAAAGGTGCCACTAAC--TTGCGT
* * * *
757837 AGCTTTAAAAAGGAAAAAAAAGGTGCCACCAACCTGTGTGGGCTT
1 GGC-TTAAAAA-GAGAAAAAA-GTGCCACCAACTTGTGCGGGCTT
757882 CAAGAGGGAA
Statistics
Matches: 226, Mismatches: 40, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
114 43 0.19
117 105 0.46
118 46 0.20
119 8 0.04
120 5 0.02
121 19 0.08
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.21
Consensus pattern (114 bp):
GGCTTAAAAAGAGAAAAAAGTGCCACCAACTTGTGCGGGCTTTAAAAAGGAAAAAAAAAAAGGTG
CACCAACTTGTGTGGGCTTAAAAGGAAAAAAGGTGCCACTAACTTGCGT
Found at i:757921 original size:77 final size:80
Alignment explanation
Indices: 757729--757924 Score: 204
Period size: 77 Copynumber: 2.5 Consensus size: 80
757719 TGGCTTTAAA
* * * * *
757729 AAGAAATAGGTGCTACCAGCTTGTGCGGGCTTTAAAAAGGAAAAAATAAAAGGGTGCCATCAACT
1 AAGAAA-AGGTGCTGCCAGTTTGTGCGAGCTTTAAAAAGG-AAAAATAAAAGGGTGCCACCAACC
757794 TATGTGGGCTTAAAAAG
64 TATGTGGGCTTAAAAAG
* * * *
757811 AAAAAAAGGTGCCGCCAACTTT-TGCAAGCTTTAAAAAGG-AAAA-AAAA-GGTGCCACCAACCT
1 AAGAAAAGGTGCTGCC-AGTTTGTGCGAGCTTTAAAAAGGAAAAATAAAAGGGTGCCACCAACCT
* * *
757872 GTGTGGGCTTCAAGAG
65 ATGTGGGCTTAAAAAG
*
757888 -GGAAAAGGTGCTGCCAGTTTGTGCGAGCTTTTAAAAA
1 AAGAAAAGGTGCTGCCAGTTTGTGCGAGC-TTTAAAAA
757925 AAAAGAGGTG
Statistics
Matches: 94, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
75 4 0.04
76 18 0.19
77 33 0.35
78 4 0.04
79 4 0.04
81 23 0.24
82 8 0.09
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (80 bp):
AAGAAAAGGTGCTGCCAGTTTGTGCGAGCTTTAAAAAGGAAAAATAAAAGGGTGCCACCAACCTA
TGTGGGCTTAAAAAG
Found at i:757923 original size:194 final size:194
Alignment explanation
Indices: 757538--758242 Score: 794
Period size: 194 Copynumber: 3.6 Consensus size: 194
757528 TTTAAAAAGG
* * * *
757538 AAAA-AAA-AGGTGCTCCCAACCTGTGTGGGC-TT-AAAAGG--AAAAAAAATGTGCCACTAACT
1 AAAAGAAAGAGGTGCTACCAACTTGTGTGGGCTTTGAAAAGGAAAAAAAAAAGGTGCCACCAACT
* * * * *
757597 TGTGT-GTCTTAAAAAGAGAAAAAA-GTGCCACCAACTTTTGCGGGCTTTAAAAAGGAAAAAAGA
66 TATGTGGGCTTAAAAAGAGAAAAAAGGTGCCGCCAACTTGTGCAGGCTTTAAAAAGG--AAAA-A
* * * * * *
757660 AAAAGGTGACACCAACTTGTGTGGGCTTAAAGAGGGAAAAAGGTGCCACTAGCTTGCGTTG-GCT
128 AAAAGGTGCCACCAACCTGTGTGGGCTTAAAGAGGGAAAAAGGTGCTACCAGCTTGTG-CGAGCT
757724 TTA
192 TTA
* * * * *
757727 AAAAGAAATAGGTGCTACCAGCTTGTGCGGGCTTTAAAAAGGAAAAAATAAAAGGGTGCCATCAA
1 AAAAGAAAGAGGTGCTACCAACTTGTGTGGGCTTTGAAAAGGAAAAAA-AAAA-GGTGCCACCAA
* *
757792 CTTATGTGGGCTTAAAAAGA-AAAAAAGGTGCCGCCAACTTTTGCAAGCTTTAAAAAGG-AAAAA
64 CTTATGTGGGCTTAAAAAGAGAAAAAAGGTGCCGCCAACTTGTGCAGGCTTTAAAAAGGAAAAAA
* * *
757855 AAAGGTGCCACCAACCTGTGTGGGCTTCAAGAGGG-AAAAGGTGCTGCCAGTTTGTGCGAGCTTT
129 AAAGGTGCCACCAACCTGTGTGGGCTTAAAGAGGGAAAAAGGTGCTACCAGCTTGTGCGAGC-TT
757919 TA
193 TA
* *
757921 AAAAAAAAGAGGTGCTACCAACTTGTGTAGGCTTTGAAAAGGAAAAAAGATAAAGGTGCCACCAA
1 AAAAGAAAGAGGTGCTACCAACTTGTGTGGGCTTTGAAAAGGAAAAAA-A-AAAGGTGCCACCAA
* ** * * *
757986 CTTGTGTGGGCTTAAAAAGAG-AAAAAGGTATCGCCATCTTGTACGGGCTTTAAAAAGGAAAAAA
64 CTTATGTGGGCTTAAAAAGAGAAAAAAGGTGCCGCCAACTTGTGCAGGCTTTAAAAAGGAAAAAA
* * * *
758050 AAAGACGTACCACCAACCTATGTGGGCTTGAAGAGGGAAAAAGGTG-TCACCAACTTGTGC-AGG
129 AAAG--GTGCCACCAACCTGTGTGGGCTTAAAGAGGGAAAAAGGTGCT-ACCAGCTTGTGCGA-G
758113 CTTTA
190 CTTTA
* * * * *
758118 AAAAGAAAGAGGTGCCACCAAATTGTGTGGGCTTTGAAAAGGAAAAAAAAGAGGTGACACCAACC
1 AAAAGAAAGAGGTGCTACCAACTTGTGTGGGCTTTGAAAAGGAAAAAAAAAAGGTGCCACCAACT
*
758183 TATGTGGGCTTAAAAAGAGAAAAAAGGTGCCGCCAACTTGTGTAGGCTTTAAAAA-GAAAA
66 TATGTGGGCTTAAAAAGAGAAAAAAGGTGCCGCCAACTTGTGCAGGCTTTAAAAAGGAAAA
758243 GGATGCCACA
Statistics
Matches: 438, Mismatches: 57, Indels: 36
0.82 0.11 0.07
Matches are distributed among these distances:
189 4 0.01
190 3 0.01
191 19 0.04
192 3 0.01
193 24 0.05
194 140 0.32
195 55 0.13
196 34 0.08
197 98 0.22
198 58 0.13
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (194 bp):
AAAAGAAAGAGGTGCTACCAACTTGTGTGGGCTTTGAAAAGGAAAAAAAAAAGGTGCCACCAACT
TATGTGGGCTTAAAAAGAGAAAAAAGGTGCCGCCAACTTGTGCAGGCTTTAAAAAGGAAAAAAAA
AGGTGCCACCAACCTGTGTGGGCTTAAAGAGGGAAAAAGGTGCTACCAGCTTGTGCGAGCTTTA
Found at i:757968 original size:44 final size:44
Alignment explanation
Indices: 757920--758011 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
757910 GCGAGCTTTT
* * *
757920 AAAAAA-AAAGAGGTGCTACCAACTTGTGTAGGCTTTGAAAAG-G
1 AAAAAAGAAAAAGGTGCCACCAACTTGTGTAGGC-TTAAAAAGAG
* *
757963 AAAAAAGATAAAGGTGCCACCAACTTGTGTGGGCTTAAAAAGAG
1 AAAAAAGAAAAAGGTGCCACCAACTTGTGTAGGCTTAAAAAGAG
758007 AAAAA
1 AAAAA
758012 GGTATCGCCA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
43 13 0.31
44 29 0.69
ACGTcount: A:0.46, C:0.12, G:0.24, T:0.18
Consensus pattern (44 bp):
AAAAAAGAAAAAGGTGCCACCAACTTGTGTAGGCTTAAAAAGAG
Found at i:758038 original size:117 final size:112
Alignment explanation
Indices: 757799--758041 Score: 256
Period size: 117 Copynumber: 2.1 Consensus size: 112
757789 CAACTTATGT
* * *
757799 GGGCTTAAAAAGAAAAAAAGGTGCCGCCAACTTTTGCAAGCTTTAAAAAGGAAAAAAAAGGTGCC
1 GGGCTTTAAAA-AAAAAAAGGTGCCACCAACTTGTGCAAGCTTTAAAAAGGAAAAAAAAGGTGCC
* * * *
757864 ACCAACCTGTGTGGGCTTCAAGAGGGAAAAGGTGCTGCCAGTTTGTGC
65 ACCAACCTGTGTGGGCTTAAAAAGGAAAAAGGTGCTGCCAGTTTGTAC
* * * * * *
757912 GAGCTTTTAAAAAAAAAGAGGTGCTACCAACTTGTGTAGGCTTTGAAAAGGAAAAAAGATAAAGG
1 GGGC-TTTAAAAAAAAAAAGGTGCCACCAACTTGTGCAAGCTTTAAAAAGG--AAAA-A-AAAGG
* *
757977 TGCCACCAACTTGTGTGGGCTTAAAAAGAGAAAAAGGT-ATCGCCA-TCTTGTAC
61 TGCCACCAACCTGTGTGGGCTTAAAAAG-GAAAAAGGTGCT-GCCAGT-TTGTAC
758030 GGGCTTTAAAAA
1 GGGCTTTAAAAA
758042 GGAAAAAAAA
Statistics
Matches: 106, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
113 35 0.33
114 6 0.06
115 4 0.04
116 1 0.01
117 40 0.38
118 20 0.19
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (112 bp):
GGGCTTTAAAAAAAAAAAGGTGCCACCAACTTGTGCAAGCTTTAAAAAGGAAAAAAAAGGTGCCA
CCAACCTGTGTGGGCTTAAAAAGGAAAAAGGTGCTGCCAGTTTGTAC
Found at i:758090 original size:80 final size:81
Alignment explanation
Indices: 757937--758122 Score: 214
Period size: 80 Copynumber: 2.3 Consensus size: 81
757927 AAGAGGTGCT
** * * * * *
757937 ACCAACTTGTGTAGGCTTTGAAAAGGAAAAAAGATAAAGGTGCCACCAACTTGTGTGGGCTTAAA
1 ACCAACTTGTACAGGCTTTAAAAAGGAAAAAAGATAAACGTACCACCAACCTATGTGGGCTTAAA
758002 AAGAGAAAAAGGTATC
66 AAGAGAAAAAGGTATC
* * * *
758018 GCCATCTTGTACGGGCTTTAAAAAGGAAAAAA-A-AAGACGTACCACCAACCTATGTGGGCTTGA
1 ACCAACTTGTACAGGCTTTAAAAAGGAAAAAAGATAA-ACGTACCACCAACCTATGTGGGCTTAA
* * *
758081 AGAGGGAAAAAGGTGTC
65 AAAGAGAAAAAGGTATC
*
758098 ACCAACTTGTGCAGGCTTTAAAAAG
1 ACCAACTTGTACAGGCTTTAAAAAG
758123 AAAGAGGTGC
Statistics
Matches: 86, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
79 2 0.02
80 58 0.67
81 26 0.30
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (81 bp):
ACCAACTTGTACAGGCTTTAAAAAGGAAAAAAGATAAACGTACCACCAACCTATGTGGGCTTAAA
AAGAGAAAAAGGTATC
Found at i:758165 original size:116 final size:116
Alignment explanation
Indices: 757972--758251 Score: 329
Period size: 116 Copynumber: 2.4 Consensus size: 116
757962 GAAAAAAGAT
** * * **
757972 AAAGGTGCCACCAACTTGTGTGGGCTTAAAAAGAGAAAAAGGTATCGCCATC---TTGTACGGGC
1 AAAGGTGCCACCAACTTGTGCAGGCTTTAAAA-AG-AAAAGG-AT-GCCACCAAATTGTGTGGGC
* * *
758034 TTTAAAAAGGAAAAAAAAAGACGT-ACCACCAACCTATGTGGGCTTGAAGAG-GGAA
62 TTTAAAAAGG-AAAAAAAAGACGTGA-CACCAACCTATGTGGGCTTAAAAAGAGAAA
*
758089 AAAGGTGTCACCAACTTGTGCAGGCTTTAAAAAGAAAGAGG-TGCCACCAAATTGTGTGGGCTTT
1 AAAGGTGCCACCAACTTGTGCAGGCTTTAAAAAGAAA-AGGATGCCACCAAATTGTGTGGGCTTT
* *
758153 GAAAAGGAAAAAAAAGAGGTGACACCAACCTATGTGGGCTTAAAAAGAGAAA
65 AAAAAGGAAAAAAAAGACGTGACACCAACCTATGTGGGCTTAAAAAGAGAAA
* *
758205 AAAGGTGCCGCCAACTTGTGTAGGCTTTAAAAAGAAAAGGATGCCAC
1 AAAGGTGCCACCAACTTGTGCAGGCTTTAAAAAGAAAAGGATGCCAC
758252 AGCTCGTGTG
Statistics
Matches: 141, Mismatches: 15, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
113 5 0.04
114 1 0.01
115 41 0.29
116 66 0.47
117 28 0.20
ACGTcount: A:0.39, C:0.16, G:0.26, T:0.19
Consensus pattern (116 bp):
AAAGGTGCCACCAACTTGTGCAGGCTTTAAAAAGAAAAGGATGCCACCAAATTGTGTGGGCTTTA
AAAAGGAAAAAAAAGACGTGACACCAACCTATGTGGGCTTAAAAAGAGAAA
Found at i:758231 original size:80 final size:75
Alignment explanation
Indices: 758087--758242 Score: 179
Period size: 80 Copynumber: 2.0 Consensus size: 75
758077 TTGAAGAGGG
* * * *
758087 AAAAAGGTGTCACCAACTTGTGCAGGCTTTAAAAAGAAAGAGGTGCCACCAAATTGTGTGGGCTT
1 AAAAAGGTGACACCAACTTGTG-AGGCTTAAAAAAGAAAAAGGTGCCACCAAATTGTGTAGGCTT
*
758152 TGAAAAGGAAAA
65 T-AAAAAGAAAA
* *
758164 AAAAGAGGTGACACCAACCTATGTG-GGCTTAAAAAGAGAAAAAAGGTGCCGCCAACTTGTGTAG
1 AAAA-AGGTGACACCAA-CT-TGTGAGGCTTAAAAA-AG-AAAAAGGTGCCACCAAATTGTGTAG
758228 GCTTTAAAAAGAAAA
61 GCTTTAAAAAGAAAA
758243 GGATGCCACA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
77 4 0.06
78 20 0.30
79 13 0.19
80 30 0.45
ACGTcount: A:0.41, C:0.15, G:0.25, T:0.19
Consensus pattern (75 bp):
AAAAAGGTGACACCAACTTGTGAGGCTTAAAAAAGAAAAAGGTGCCACCAAATTGTGTAGGCTTT
AAAAAGAAAA
Found at i:764795 original size:78 final size:79
Alignment explanation
Indices: 764585--764889 Score: 264
Period size: 78 Copynumber: 3.9 Consensus size: 79
764575 GGAAAAATGG
* * * * *
764585 GGTTGAAGTATCCCCTTAGAAATGATGGGGTTGAAGTATCCCCGATGGTAAAAAATAGATATTTT
1 GGTTGGAGTATCCCCTTAGAAATGATGGGGTTGGAGTATCCCCGAAGATAAAAAATCGATA-TTT
**
764650 TA-AAATAAAAA-TG
65 TAGAAATAAAAACAA
* * * * * * *
764663 GGGTAGAGTATTCCCC-CAGAAATGATAGGGTTGGAGTATCCCCGATGGT-GAAAATCGATATTT
1 GGTTGGAGTA-TCCCCTTAGAAATGATGGGGTTGGAGTATCCCCGAAGATAAAAAATCGATATTT
*
764726 TGGAAATAAAAACAA
65 TAGAAATAAAAACAA
* * ** *
764741 GGTTGGAGTATCCCCTTAGAGATGGTGGGGTTGGAGTATCCCC-AAGATAAAAAATTTAATTTTT
1 GGTTGGAGTATCCCCTTAGAAATGATGGGGTTGGAGTATCCCCGAAGATAAAAAA-TCGATATTT
*
764805 TAGAAGTAAAAACAA
65 TAGAAATAAAAACAA
* * * * * *
764820 GGTTGGAGTAT-CTCTTCGAAAATGATGAGGTTAGAGTATCCCC-AATAGTGAAAAATCGATATT
1 GGTTGGAGTATCCCCTTAG-AAATGATGGGGTTGGAGTATCCCCGAAGA-TAAAAAATCGATA-T
764883 TTTAGAA
63 TTTAGAA
764890 GGAGAAATTT
Statistics
Matches: 182, Mismatches: 36, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
76 4 0.02
77 26 0.14
78 77 0.42
79 61 0.34
80 14 0.08
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.29
Consensus pattern (79 bp):
GGTTGGAGTATCCCCTTAGAAATGATGGGGTTGGAGTATCCCCGAAGATAAAAAATCGATATTTT
AGAAATAAAAACAA
Found at i:774057 original size:33 final size:33
Alignment explanation
Indices: 774011--774080 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
774001 ATACATTTTG
* *
774011 CATTGCATTGATACATGGCTCATTGTATTGATA
1 CATTGCATCGATACATGGCTCATTGTATCGATA
* *
774044 CATTGTATCGATACATTGCTCATTGTATCGATA
1 CATTGCATCGATACATGGCTCATTGTATCGATA
774077 CATT
1 CATT
774081 TTGCAATGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (33 bp):
CATTGCATCGATACATGGCTCATTGTATCGATA
Found at i:774069 original size:20 final size:20
Alignment explanation
Indices: 774044--774101 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
774034 TGTATTGATA
774044 CATTGTATCGATACATTGCT-
1 CATTGTATCGATACATT-CTG
*
774064 CATTGTATCGATACATTTTG
1 CATTGTATCGATACATTCTG
*
774084 CAATGTATCGATACATTC
1 CATTGTATCGATACATTC
774102 AGGCATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 1 0.03
20 33 0.97
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.40
Consensus pattern (20 bp):
CATTGTATCGATACATTCTG
Found at i:774080 original size:13 final size:13
Alignment explanation
Indices: 774031--774061 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
774021 ATACATGGCT
*
774031 CATTGTATTGATA
1 CATTGTATCGATA
774044 CATTGTATCGATA
1 CATTGTATCGATA
774057 CATTG
1 CATTG
774062 CTCATTGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:776463 original size:51 final size:51
Alignment explanation
Indices: 776393--776622 Score: 293
Period size: 51 Copynumber: 4.5 Consensus size: 51
776383 AAATTTCTAG
* * * *
776393 ATTTTTCAT-CTCGGGGATACTCCAGC-CTCGATTTTATTTCTAAAATACCA
1 ATTTTTCATAATCGGGGATACTCCAACTC-CGATTTTATTTCCAAAACACCA
*
776443 ATTTTCCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCA
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCA
* * * * *
776494 ATGTTTCTTAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACATCG
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCA
* * * *
776545 ATTTTTCATAATTGGGGATAGTCTAACTCCGATTTTATTTCCAAAGCACCA
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCA
* *
776596 ATTTTTCACAATCGGGGGTACTCCAAC
1 ATTTTTCATAATCGGGGATACTCCAAC
776623 CCCGTTATTT
Statistics
Matches: 153, Mismatches: 25, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
50 8 0.05
51 144 0.94
52 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.35
Consensus pattern (51 bp):
ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCA
Found at i:776837 original size:79 final size:79
Alignment explanation
Indices: 776560--776855 Score: 286
Period size: 79 Copynumber: 3.7 Consensus size: 79
776550 TCATAATTGG
* * * * *
776560 GGATAGTCTAACTCCGATTTTATTTCCAAAGCACCAATTTTTCACAATCGGGGGTACTCCAACCC
1 GGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATCAGGGATACTCCAACCC
*
776625 CGTTATTTTCGCGA
66 CGTTATTTTCGAGA
* * ** * * *** * *
776639 GGATACTCCAACCCCAACCTTATTTCTAAAGCATTGATTTTTCACAATCGGGGATACTCCGACCC
1 GGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATCAGGGATACTCCAACCC
776704 CGTTATTTTCGAGA
66 CGTTATTTTCGAGA
* * **** * *
776718 GAATACTCCAACTCCGATTTTATTTTCAAAACTTTGATTTTTTATAATCAGGGATACTCCAACCC
1 GGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATCAGGGATACTCCAACCC
* ** *
776783 TGTTATTGCCGAGG
66 CGTTATTTTCGAGA
* * * *
776797 GGGTACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCCATAGTCAGGGGATACT
1 GGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATCA-GGGATACT
776856 TCAGCCCTAT
Statistics
Matches: 176, Mismatches: 40, Indels: 1
0.81 0.18 0.00
Matches are distributed among these distances:
79 168 0.95
80 8 0.05
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (79 bp):
GGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATCAGGGATACTCCAACCC
CGTTATTTTCGAGA
Found at i:778922 original size:4 final size:4
Alignment explanation
Indices: 778913--778939 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
778903 TTTCGAGGTG
778913 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
778940 TGTTTTTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:787797 original size:79 final size:79
Alignment explanation
Indices: 787666--787846 Score: 206
Period size: 79 Copynumber: 2.3 Consensus size: 79
787656 TTTTGGAGAT
** * * *
787666 AATAACGGGGTTGGAGTATCCCCGGTTGTGAAAAATCGATGATTAGGAAATAAA-ATCGGGATTG
1 AATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTAGGAAATAAAGCT-GGGATTG
*
787730 GAGTATCCCCTCGGA
65 GAGTATCCCCTCAGA
* * * *
787745 AATAACGGGGTTGGAGTATCCCCAATTAT-AAGGAATCAAT-ATTTTGGGAATAAAGCTGGGGTT
1 AATAACGGGGTTGGAGTATCCCCAATTATGAA-AAATCAATGA-TTAGGAAATAAAGCTGGGATT
787808 GGAGTATCCCCTCAGA
64 GGAGTATCCCCTCAGA
**
787824 GGTAACGGGGTTGGAGTATCCCC
1 AATAACGGGGTTGGAGTATCCCC
787847 GATGAAATAA
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
78 3 0.03
79 83 0.95
80 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (79 bp):
AATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTAGGAAATAAAGCTGGGATTGG
AGTATCCCCTCAGA
Found at i:787842 original size:28 final size:28
Alignment explanation
Indices: 787802--787872 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
787792 GAATAAAGCT
**
787802 GGGGTTGGAGTATCCCCTCA-GAGGTAAC
1 GGGGTTGGAGTATCCCC-CATGAAATAAC
*
787830 GGGGTTGGAGTATCCCCGATGAAATAAC
1 GGGGTTGGAGTATCCCCCATGAAATAAC
*
787858 GAGGTTGGAGTATCC
1 GGGGTTGGAGTATCC
787873 TCGATTGTGA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 1 0.03
28 37 0.97
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.23
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCCATGAAATAAC
Found at i:787930 original size:52 final size:51
Alignment explanation
Indices: 787864--787994 Score: 163
Period size: 52 Copynumber: 2.5 Consensus size: 51
787854 TAACGAGGTT
* * *
787864 GGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCAGAGTC
1 GGAGTATCCCCGATTATGAAAAATTGGTG-TTTTGAAAATAAAATCAGAGTC
* * * * *
787916 GGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAATCGGGGTT
1 GGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTGAAAATAAAATCAGAGTC
*
787968 GGAGTATCCCCGATTATGAACAATTGG
1 GGAGTATCCCCGATTATGAAAAATTGG
787995 GAAACTTAAC
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
51 9 0.13
52 47 0.70
53 11 0.16
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (51 bp):
GGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAATCAGAGTC
Found at i:790331 original size:20 final size:20
Alignment explanation
Indices: 790306--790357 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
790296 AAACTTCCAA
790306 GATGTATCGATACAAAGATC
1 GATGTATCGATACAAAGATC
790326 GATGTATCGATACAAAGATC
1 GATGTATCGATACAAAGATC
790346 GATGTATCGATA
1 GATGTATCGATA
790358 ATCGATACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.27
Consensus pattern (20 bp):
GATGTATCGATACAAAGATC
Found at i:790429 original size:13 final size:13
Alignment explanation
Indices: 790411--790462 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
790401 AGCTTCGTAG
790411 CGATACATTGTAT
1 CGATACATTGTAT
790424 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
790443 CGATACATTGTAT
1 CGATACATTGTAT
790456 CGATACA
1 CGATACA
790463 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:790443 original size:19 final size:18
Alignment explanation
Indices: 790419--790481 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
790409 AGCGATACAT
790419 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
790438 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
790451 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
*
790470 TGTATTGATACA
1 TGTATCGATACA
790482 TTTTCTGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
16 2 0.05
18 1 0.03
19 22 0.59
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:790452 original size:32 final size:32
Alignment explanation
Indices: 790411--790483 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
790401 AGCTTCGTAG
790411 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
790443 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
790475 TGATACATT
1 CGATACATT
790484 TTCTGTTTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:790510 original size:19 final size:19
Alignment explanation
Indices: 790450--790511 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
790440 TATCGATACA
790450 TTGTATCGATACAACACT-T
1 TTGTATCGATACAA-ACTGT
* * **
790469 ATGTATTGATACATTTTCTGT
1 TTGTATCGATACA--AACTGT
790490 TTGTATCGATACAAACTGT
1 TTGTATCGATACAAACTGT
790509 TTG
1 TTG
790512 AAATTCAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
19 18 0.56
20 2 0.06
21 12 0.38
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (19 bp):
TTGTATCGATACAAACTGT
Found at i:795628 original size:13 final size:13
Alignment explanation
Indices: 795610--795637 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
795600 ATACAAAGAT
795610 CAATGTATCGATA
1 CAATGTATCGATA
795623 CAATGTATCGATA
1 CAATGTATCGATA
795636 CA
1 CA
795638 TTGAATAATG
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:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:795629 original size:33 final size:33
Alignment explanation
Indices: 795592--795657 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
795582 AAATTCCCAG
795592 ATGTATCAATACAAAG-ATCAATGTATCGATACA
1 ATGTATCAATACAAAGAAT-AATGTATCGATACA
* **
795625 ATGTATCGATACATTGAATAATGTATCGATACA
1 ATGTATCAATACAAAGAATAATGTATCGATACA
795658 TTTCCTTGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (33 bp):
ATGTATCAATACAAAGAATAATGTATCGATACA
Found at i:795713 original size:19 final size:19
Alignment explanation
Indices: 795689--795751 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
795679 AGCCATACAT
795689 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
795708 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
795721 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
795740 TGTATCGATACA
1 TGTATCGATACA
795752 GTTACTGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
16 6 0.16
18 1 0.03
19 21 0.55
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:795724 original size:32 final size:32
Alignment explanation
Indices: 795683--795751 Score: 138
Period size: 32 Copynumber: 2.2 Consensus size: 32
795673 CTTTGTAGCC
795683 ATACATTGTATCGATACAACACTTATGTATCG
1 ATACATTGTATCGATACAACACTTATGTATCG
795715 ATACATTGTATCGATACAACACTTATGTATCG
1 ATACATTGTATCGATACAACACTTATGTATCG
795747 ATACA
1 ATACA
795752 GTTACTGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (32 bp):
ATACATTGTATCGATACAACACTTATGTATCG
Found at i:795726 original size:13 final size:13
Alignment explanation
Indices: 795708--795732 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
795698 ACAACACTTA
795708 TGTATCGATACAT
1 TGTATCGATACAT
795721 TGTATCGATACA
1 TGTATCGATACA
795733 ACACTTATGT
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:796933 original size:1 final size:1
Alignment explanation
Indices: 796929--797058 Score: 53
Period size: 1 Copynumber: 130.0 Consensus size: 1
796919 CTTCTTTTTT
* * ** * ** * * * * *
796929 AAAAAAACAAAAAACAAAAAACGAAAAAAACAAAGCAAAAAATAGAAAAAAGAAACAAAAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * ** * * * * * *
796994 AAAAAACAACAAAAAACAAAGCAAAAAACAAAAAACAAAACAAAAAACAAAAGAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
797059 GAGAGAAAAG
Statistics
Matches: 86, Mismatches: 43, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
1 86 1.00
ACGTcount: A:0.82, C:0.12, G:0.05, T:0.01
Consensus pattern (1 bp):
A
Found at i:796942 original size:7 final size:7
Alignment explanation
Indices: 796930--797045 Score: 98
Period size: 7 Copynumber: 16.6 Consensus size: 7
796920 TTCTTTTTTA
796930 AAAAAAC
1 AAAAAAC
796937 AAAAAAC
1 AAAAAAC
796944 AAAAAAC
1 AAAAAAC
796951 GAAAAAA-
1 -AAAAAAC
* *
796958 ACAAAGC
1 AAAAAAC
*
796965 AAAAAAT
1 AAAAAAC
*
796972 AGAAAA-
1 AAAAAAC
*
796978 AAGAAAC
1 AAAAAAC
796985 AAAAAAAC
1 -AAAAAAC
796993 AAAAAAAC
1 -AAAAAAC
797001 AACAAAA-
1 AA-AAAAC
*
797008 AACAAAGC
1 AA-AAAAC
797016 AAAAAAC
1 AAAAAAC
797023 AAAAAAC
1 AAAAAAC
797030 --AAAAC
1 AAAAAAC
797035 AAAAAAC
1 AAAAAAC
797042 AAAA
1 AAAA
797046 GAAAAAAGAA
Statistics
Matches: 90, Mismatches: 11, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
5 5 0.06
6 8 0.09
7 51 0.57
8 26 0.29
ACGTcount: A:0.82, C:0.13, G:0.04, T:0.01
Consensus pattern (7 bp):
AAAAAAC
Done.