Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 567 of 770
Found at i:176711161 original size:16 final size:16
Alignment explanation
Indices: 176711120--176711155 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
176711110 AAGAGAAGAA
176711120 AGAGAAGGGAGAAAAG
1 AGAGAAGGGAGAAAAG
*
176711136 AGAGAAGGGAGGAAAG
1 AGAGAAGGGAGAAAAG
176711152 AGAG
1 AGAG
176711156 GGGGGAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (16 bp):
AGAGAAGGGAGAAAAG
Found at i:176720352 original size:33 final size:30
Alignment explanation
Indices: 176720305--176720374 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 30
176720295 GAAAAAATAT
*
176720305 ATATATATATATATAAATAATAGTATTAGAA
1 ATATATATATATATAAATAATAATATTA-AA
* *
176720336 ATCATATAGTATATATAACTGATAATATTAAA
1 AT-ATATA-TATATATAAATAATAATATTAAA
176720368 ATATATA
1 ATATATA
176720375 CATAATATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 7 0.21
32 9 0.26
33 18 0.53
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.39
Consensus pattern (30 bp):
ATATATATATATATAAATAATAATATTAAA
Found at i:176720550 original size:14 final size:16
Alignment explanation
Indices: 176720521--176720552 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
176720511 AGGTAAATAT
176720521 AATAAAATGATATTAA
1 AATAAAATGATATTAA
176720537 AATAAAA-G-TATTAA
1 AATAAAATGATATTAA
176720551 AA
1 AA
176720553 ACAGTAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (16 bp):
AATAAAATGATATTAA
Found at i:176720598 original size:3 final size:3
Alignment explanation
Indices: 176720590--176720628 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
176720580 ACAAGGATAT
176720590 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
176720629 TTGAAACACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:176720740 original size:3 final size:3
Alignment explanation
Indices: 176720732--176720795 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
176720722 AATGTATTTC
176720732 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
176720780 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
176720796 TTGAAATGCA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:176721394 original size:12 final size:12
Alignment explanation
Indices: 176721377--176721407 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
176721367 AAGGTAATTT
176721377 TTTTTTTGTATA
1 TTTTTTTGTATA
176721389 TTTTTTTGTATA
1 TTTTTTTGTATA
176721401 TTTTTTT
1 TTTTTTT
176721408 ATGTTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.00, G:0.06, T:0.81
Consensus pattern (12 bp):
TTTTTTTGTATA
Found at i:176721830 original size:35 final size:35
Alignment explanation
Indices: 176721785--176721853 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
176721775 GAGTGTGTGA
*
176721785 TGGTGTTGGTGGCAGACAGCATGGGAGAATGGGAG
1 TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGAG
*
176721820 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGA
176721854 AGAGGCAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.22, C:0.10, G:0.49, T:0.19
Consensus pattern (35 bp):
TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGAG
Found at i:176722801 original size:116 final size:116
Alignment explanation
Indices: 176722454--176722852 Score: 719
Period size: 116 Copynumber: 3.4 Consensus size: 116
176722444 GCTCAACTCA
* *
176722454 CTCAGCGTGTCCTGAAGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAA
1 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAA
176722519 AAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATAC
66 AAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATAC
* * * *
176722570 CTTAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAAC-AAAATAA
1 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAA
176722634 AAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATAC
66 AAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATAC
*
176722685 CTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAA
1 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAA
176722750 AAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATAC
66 AAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATAC
*
176722801 CTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
176722853 CGAACAGAAA
Statistics
Matches: 273, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
115 110 0.40
116 163 0.60
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (116 bp):
CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAA
AAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATAC
Found at i:176722872 original size:14 final size:14
Alignment explanation
Indices: 176722855--176722883 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
176722845 GATTTTGACG
176722855 AACAGAAATTGAAA
1 AACAGAAATTGAAA
176722869 AACAGAAATTGAAA
1 AACAGAAATTGAAA
176722883 A
1 A
176722884 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:176722998 original size:77 final size:78
Alignment explanation
Indices: 176722869--176723015 Score: 235
Period size: 77 Copynumber: 1.9 Consensus size: 78
176722859 GAAATTGAAA
*
176722869 AACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTA
1 AACAGAAATTGAAAATACCTCA-CGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTA
176722934 ATTTTTTTTTGATG
65 ATTTTTTTTTGATG
* *
176722948 AACAGAAATT-AAAATTACCTCA-GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AACAGAAATTGAAAA-TACCTCACGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTA
176723011 ATTTT
65 ATTTT
176723016 GACGAACAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
77 43 0.67
78 4 0.06
79 17 0.27
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.30
Consensus pattern (78 bp):
AACAGAAATTGAAAATACCTCACGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAA
TTTTTTTTTGATG
Found at i:176723087 original size:164 final size:165
Alignment explanation
Indices: 176722792--176723096 Score: 576
Period size: 164 Copynumber: 1.9 Consensus size: 165
176722782 AATTTAAAAC
*
176722792 TAAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
1 TAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
176722857 CAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCG
66 CAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCG
176722922 CAATATGAGTTAATTTTTTTTTGATGAACAGAAAT
131 CAATATGAGTTAATTTTTTTTTGATGAACAGAAAT
*
176722957 TAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
1 TAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
*
176723022 CA-AAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACTTCTCG
66 CAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCG
176723086 CAATATGAGTT
131 CAATATGAGTT
176723097 GATTCTTTGG
Statistics
Matches: 137, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
164 72 0.53
165 65 0.47
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.27
Consensus pattern (165 bp):
TAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
CAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCG
CAATATGAGTTAATTTTTTTTTGATGAACAGAAAT
Found at i:176723922 original size:22 final size:21
Alignment explanation
Indices: 176723880--176723922 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
176723870 TGTGTTAATC
**
176723880 AAGACGCCCTTTTTTTTTTTT
1 AAGACGCCCTTTTTTGGTTTT
*
176723901 AAGATGCCCTTTTTTGGGTTTT
1 AAGACGCCCTTTTTT-GGTTTT
176723923 CATCTTGATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.14, C:0.16, G:0.16, T:0.53
Consensus pattern (21 bp):
AAGACGCCCTTTTTTGGTTTT
Found at i:176735528 original size:31 final size:30
Alignment explanation
Indices: 176735456--176735528 Score: 92
Period size: 33 Copynumber: 2.3 Consensus size: 30
176735446 TACTAAGAAA
*
176735456 AAAATATATATATATATAAATAATAGTATT
1 AAAATATATATATATATAAATAATAATATT
* *
176735486 AGAAATCATATAGTATATATAACTGATAATATT
1 A-AAAT-ATATA-TATATATAAATAATAATATT
176735519 AAAATATATA
1 AAAATATATA
176735529 CATAATATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 1 0.03
31 9 0.24
32 9 0.24
33 18 0.49
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (30 bp):
AAAATATATATATATATAAATAATAATATT
Found at i:176735751 original size:3 final size:3
Alignment explanation
Indices: 176735743--176735963 Score: 132
Period size: 3 Copynumber: 71.0 Consensus size: 3
176735733 ACAAGGATAT
176735743 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * ** * *
176735791 ATA ATA ATA ATA ATA TTGA A-A CACA A-A AGCC ATT ATA ATA AAA ATA
1 ATA ATA ATA ATA ATA AT-A ATA -ATA ATA A-TA ATA ATA ATA ATA ATA
* * * * *
176735837 TTA A-A ATA A-A GTA ATA GA-A ACA TTA CTA CATA TATA TATA CATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA -ATA -ATA -ATA
* * *
176735881 CATGA AGA TATA CACTA AT- GTA TTTCA ATA A-A ATA ATA ATA ATA ATA
1 -AT-A ATA -ATA -A-TA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA
176735928 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
176735964 TTGAAATGCA
Statistics
Matches: 177, Mismatches: 24, Indels: 34
0.75 0.10 0.14
Matches are distributed among these distances:
2 10 0.06
3 137 0.77
4 26 0.15
5 4 0.02
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:176736434 original size:10 final size:11
Alignment explanation
Indices: 176736406--176736438 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
176736396 AGGAAAAAAA
*
176736406 GAAGAGAGAGG
1 GAAGAGAGAAG
176736417 GAAGAGAGAAG
1 GAAGAGAGAAG
176736428 G-AGAGAGAAG
1 GAAGAGAGAAG
176736438 G
1 G
176736439 GAGGGGAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAAG
Found at i:176736533 original size:12 final size:12
Alignment explanation
Indices: 176736516--176736558 Score: 70
Period size: 13 Copynumber: 3.6 Consensus size: 12
176736506 AAAGGTAATT
176736516 TTTTTTTGTATA
1 TTTTTTTGTATA
176736528 TTTTTTTTGTATA
1 -TTTTTTTGTATA
176736541 TTTTTTTGTAT-
1 TTTTTTTGTATA
176736552 TTTTTTT
1 TTTTTTT
176736559 ATGTTTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.23
12 11 0.37
13 12 0.40
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.81
Consensus pattern (12 bp):
TTTTTTTGTATA
Found at i:176736533 original size:13 final size:13
Alignment explanation
Indices: 176736515--176736558 Score: 74
Period size: 12 Copynumber: 3.5 Consensus size: 13
176736505 AAAAGGTAAT
176736515 TTTTTTTTGTATA
1 TTTTTTTTGTATA
176736528 TTTTTTTTGTATA
1 TTTTTTTTGTATA
176736541 -TTTTTTTGTAT-
1 TTTTTTTTGTATA
176736552 TTTTTTT
1 TTTTTTT
176736559 ATGTTTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
12 17 0.57
13 13 0.43
ACGTcount: A:0.11, C:0.00, G:0.07, T:0.82
Consensus pattern (13 bp):
TTTTTTTTGTATA
Found at i:176738219 original size:38 final size:38
Alignment explanation
Indices: 176738151--176738229 Score: 133
Period size: 38 Copynumber: 2.1 Consensus size: 38
176738141 TTATCACATA
176738151 TACATACACTTTACATTCACCACATCGGCCATTAGGCCT
1 TACATACACTTTACATT-ACCACATCGGCCATTAGGCCT
176738190 TACATACACTTTCACATT-CCACATCGGCCATTAGGCCT
1 TACATACACTTT-ACATTACCACATCGGCCATTAGGCCT
176738228 TA
1 TA
176738230 TCACATATAC
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
38 22 0.56
39 12 0.31
40 5 0.13
ACGTcount: A:0.28, C:0.33, G:0.10, T:0.29
Consensus pattern (38 bp):
TACATACACTTTACATTACCACATCGGCCATTAGGCCT
Found at i:176738275 original size:49 final size:49
Alignment explanation
Indices: 176738190--176738381 Score: 307
Period size: 49 Copynumber: 4.0 Consensus size: 49
176738180 CATTAGGCCT
176738190 TACATACACTTTCACATT--CCACATCGGCCATTAGGCCTTATCACATA
1 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATA
*
176738237 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATA
1 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATA
* *
176738286 TACATCCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATA
* * * *
176738335 TACATACACTTTCACATTCATCGCATTGGCCATTCGGCCTTATCACA
1 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACA
176738382 CACATATGTA
Statistics
Matches: 135, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
47 18 0.13
49 117 0.87
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.30
Consensus pattern (49 bp):
TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATA
Found at i:176741791 original size:29 final size:29
Alignment explanation
Indices: 176741755--176741947 Score: 341
Period size: 29 Copynumber: 6.7 Consensus size: 29
176741745 TGTTGAAAAA
*
176741755 CTCGCACACACAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
*
176741784 CTCGCACACGTAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
*
176741813 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
*
176741842 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
176741871 CTCGCACACATAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
*
176741900 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
176741929 CTCGCACACATAGTGCCTC
1 CTCGCACACATAGTGCCTC
176741948 TATTCATTCG
Statistics
Matches: 158, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 158 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACTGAT
Found at i:176742244 original size:40 final size:40
Alignment explanation
Indices: 176742189--176742381 Score: 278
Period size: 40 Copynumber: 4.8 Consensus size: 40
176742179 TCATTCGTCG
* * *
176742189 ATGCTCTTCGGGACTTTGCCCGGATACATCACTAGCACGA
1 ATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGA
* *
176742229 ATGCTCTTCGGGACTTTGCCCGGATACATCACTAGCATGA
1 ATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGA
* *
176742269 ATGCTCTTCGGAACTTAGTCCGGATATATCACTAGCATGA
1 ATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGA
* *
176742309 ATGCTCTTCGGAACTTAGTCCGGATATATCACTAGCATGA
1 ATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGA
* * *
176742349 ATGCTCTTCGGAACTTAGTCTGGATATATCACT
1 ATGCTCTTCGGAACTTAGCCCGGATACATCACT
176742382 CTCAATTCTC
Statistics
Matches: 147, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 147 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (40 bp):
ATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGA
Found at i:176744250 original size:37 final size:37
Alignment explanation
Indices: 176744197--176744287 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
176744187 TATAAAAGAA
176744197 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
176744234 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
176744271 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
176744288 TTCCAAGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:176744438 original size:49 final size:49
Alignment explanation
Indices: 176744383--176744685 Score: 473
Period size: 49 Copynumber: 6.4 Consensus size: 49
176744373 TTTTACATTA
176744383 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
176744432 GCCATTAGGCCTTATCACATATACATACACTTT-ACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
176744480 GCCATTAGG------C-C-T-TACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
176744520 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
176744569 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
176744618 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
176744667 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
176744686 CACATATGTA
Statistics
Matches: 236, Mismatches: 8, Indels: 20
0.89 0.03 0.08
Matches are distributed among these distances:
39 12 0.05
40 25 0.11
41 1 0.00
42 1 0.00
46 1 0.00
47 1 0.00
48 25 0.11
49 170 0.72
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:176750035 original size:26 final size:28
Alignment explanation
Indices: 176749958--176750035 Score: 74
Period size: 26 Copynumber: 2.9 Consensus size: 28
176749948 GCAGAACTGT
176749958 AACTAAGCATTTCGGTG-TAATACT-ATG
1 AACTAAGCATTTCGGTGTTAA-ACTGATG
* * * * *
176749985 AATTGAGCACTTCGGTGTGATACTGA-G
1 AACTAAGCATTTCGGTGTTAAACTGATG
176750012 -ACTAAGCATTTCGGTGTTAAACTG
1 AACTAAGCATTTCGGTGTTAAACTG
176750036 TATCTGAGCA
Statistics
Matches: 39, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
26 19 0.49
27 18 0.46
28 2 0.05
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.32
Consensus pattern (28 bp):
AACTAAGCATTTCGGTGTTAAACTGATG
Found at i:176750035 original size:79 final size:79
Alignment explanation
Indices: 176749882--176750052 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 79
176749872 TGCAAAACTG
* * *
176749882 TAAGCACTTCGGTGTGATACTATGAATTGAGCTATTTGGTGAGATAATGAGACTGAGCACTTCGA
1 TAAGCACTTCGGTGTAATACTATGAATTGAGCTATTCGGTGAGATAATGAGACTAAGCACTTCGA
176749947 TGCAGAACTGTAAC
66 TGCAGAACTGTAAC
* * * *
176749961 TAAGCATTTCGGTGTAATACTATGAATTGAGC-ACTTCGGTGTGATACTGAGACTAAGCATTTCG
1 TAAGCACTTCGGTGTAATACTATGAATTGAGCTA-TTCGGTGAGATAATGAGACTAAGCACTTCG
* * *
176750025 GTGTTA-AACTGTATC
65 ATG-CAGAACTGTAAC
*
176750040 TGAGCACTTCGGT
1 TAAGCACTTCGGT
176750053 ACGATATGTG
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
78 1 0.01
79 76 0.97
80 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.32
Consensus pattern (79 bp):
TAAGCACTTCGGTGTAATACTATGAATTGAGCTATTCGGTGAGATAATGAGACTAAGCACTTCGA
TGCAGAACTGTAAC
Found at i:176750071 original size:52 final size:52
Alignment explanation
Indices: 176749959--176750058 Score: 132
Period size: 53 Copynumber: 1.9 Consensus size: 52
176749949 CAGAACTGTA
**
176749959 ACTAAGCATTTCGGTGTAATACTATGAATTGAGCACTTCGGTGTGATACTGAG
1 ACTAAGCATTTCGGTGTAATAC-ATGAATTGAGCACTTCGGTACGATACTGAG
*
176750012 ACTAAGCATTTCGGTGTTAA-AC-TGTATCTGAGCACTTCGGTACGATA
1 ACTAAGCATTTCGGTG-TAATACATGAAT-TGAGCACTTCGGTACGATA
176750059 TGTGAATTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
51 4 0.10
52 17 0.40
53 18 0.43
54 3 0.07
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (52 bp):
ACTAAGCATTTCGGTGTAATACATGAATTGAGCACTTCGGTACGATACTGAG
Found at i:176751578 original size:46 final size:43
Alignment explanation
Indices: 176751474--176751602 Score: 156
Period size: 46 Copynumber: 3.0 Consensus size: 43
176751464 CTTTTATTCA
* * *
176751474 TTCACCGGCATTTCGCCTGCTAGGCTCG--AGGCCCGATATCAT
1 TTCACCGGCATATAGCCTGCTAGGCTCGAAAGGCCCGA-ATAAT
176751516 TTCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCGAATAAT
1 TTCACCGGCA-TATAGCCTGCTAGGCTCGAAAGGCCCGAATAAT
*
176751560 GTCTCACCGGCATAATAGCCTACTAGGCTC-AAAGGCCCGAATA
1 -T-TCACCGGCAT-ATAGCCTGCTAGGCTCGAAAGGCCCGAATA
176751603 TAATACCAGC
Statistics
Matches: 77, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
42 10 0.13
43 16 0.21
44 4 0.05
45 23 0.30
46 24 0.31
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.22
Consensus pattern (43 bp):
TTCACCGGCATATAGCCTGCTAGGCTCGAAAGGCCCGAATAAT
Found at i:176751642 original size:38 final size:38
Alignment explanation
Indices: 176751600--176751706 Score: 187
Period size: 38 Copynumber: 2.8 Consensus size: 38
176751590 AAAGGCCCGA
*
176751600 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCAG
*
176751638 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCAG
*
176751676 TTATATTACCAGCACGAAGCCTGCGGGATTT
1 ATATATTACCAGCACGAAGCCTGCGGGATTT
176751707 TAAGCCCGGA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 66 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.22
Consensus pattern (38 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCAG
Found at i:176755477 original size:14 final size:16
Alignment explanation
Indices: 176755448--176755479 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
176755438 AGGTAAATAT
176755448 AATAAAATGATATTAA
1 AATAAAATGATATTAA
176755464 AATAAAA-G-TATTAA
1 AATAAAATGATATTAA
176755478 AA
1 AA
176755480 ACAGTAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (16 bp):
AATAAAATGATATTAA
Found at i:176755643 original size:3 final size:3
Alignment explanation
Indices: 176755635--176755680 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
176755625 AATGTATTTC
176755635 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
176755681 TTGAAATGCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:176756131 original size:11 final size:12
Alignment explanation
Indices: 176756115--176756155 Score: 59
Period size: 11 Copynumber: 3.6 Consensus size: 12
176756105 AGGAAAAAAA
176756115 GAAGAGAG-AGG
1 GAAGAGAGAAGG
176756126 GAAGAGAGAAGG
1 GAAGAGAGAAGG
176756138 G-AGAGAGAAGG
1 GAAGAGAGAAGG
*
176756149 GAGGAGA
1 GAAGAGA
176756156 ATCCGGCCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 19 0.70
12 8 0.30
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:176756265 original size:12 final size:12
Alignment explanation
Indices: 176756248--176756278 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
176756238 GGTAAATTTT
176756248 TTTTTTTGTATA
1 TTTTTTTGTATA
176756260 TTTTTTTGTATA
1 TTTTTTTGTATA
176756272 TTTTTTT
1 TTTTTTT
176756279 TATGTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.00, G:0.06, T:0.81
Consensus pattern (12 bp):
TTTTTTTGTATA
Found at i:176756706 original size:35 final size:35
Alignment explanation
Indices: 176756661--176756729 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
176756651 GAGTGTGTGA
*
176756661 TGGTGTTGGTGGCAGACAACATGGGAGAATGGGAG
1 TGGTGCTGGTGGCAGACAACATGGGAGAATGGGAG
* *
176756696 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 TGGTGCTGGTGGCAGACAACATGGGAGAATGGGA
176756730 AGAGGCAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.23, C:0.10, G:0.48, T:0.19
Consensus pattern (35 bp):
TGGTGCTGGTGGCAGACAACATGGGAGAATGGGAG
Found at i:176757536 original size:116 final size:116
Alignment explanation
Indices: 176757345--176757728 Score: 705
Period size: 116 Copynumber: 3.3 Consensus size: 116
176757335 GTGTCCTGAA
176757345 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAAAAAGGCTTAACTCACC
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAAAAAGGCTTAACTCACC
*
176757410 TTTCGCAATATGAGTCAATTTAAAACTAAAAATACCTCAGCGTGCCCCGAG
66 TCTCGCAATATGAGTCAATTTAAAACTAAAAATACCTCAGCGTGCCCCGAG
*
176757461 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAGAAATAAAAAGGCTTAACTCACC
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAAAAAGGCTTAACTCACC
176757526 TCTCGCAATATGAGTCAATTTAAAACTAAAAATACCTCAGCGTGCCCCGAG
66 TCTCGCAATATGAGTCAATTTAAAACTAAAAATACCTCAGCGTGCCCCGAG
*
176757577 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAAAAAGGCATAACTCACC
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAAAAAGGCTTAACTCACC
* **
176757642 TCTCGCAATATGAGTCAATTTAAAACTAAAAATACCTCAGCGTGTCTTGAG
66 TCTCGCAATATGAGTCAATTTAAAACTAAAAATACCTCAGCGTGCCCCGAG
*
176757693 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTGA
176757729 CGAACAGAAA
Statistics
Matches: 260, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 260 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (116 bp):
GCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAAAAAGGCTTAACTCACC
TCTCGCAATATGAGTCAATTTAAAACTAAAAATACCTCAGCGTGCCCCGAG
Found at i:176757539 original size:53 final size:53
Alignment explanation
Indices: 176757459--176757656 Score: 170
Period size: 53 Copynumber: 3.5 Consensus size: 53
176757449 GCGTGCCCCG
* *
176757459 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAGAAATAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAAAA
* * * *
176757512 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTT-AA-AACTAAAAATACCTCAGCGTGCCCC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAACAAC-AAAAATA----A--------A
*
176757574 G
53 A
*
176757575 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAAAA
176757628 AGGCAT-AACTCACCTCTCGCAATATGAGT
1 AGGC-TCAACTCACCTCTCGCAATATGAGT
176757657 CAATTTAAAA
Statistics
Matches: 114, Mismatches: 14, Indels: 34
0.70 0.09 0.21
Matches are distributed among these distances:
50 3 0.03
51 8 0.07
52 5 0.04
53 52 0.46
54 1 0.01
55 1 0.01
61 1 0.01
63 26 0.23
64 5 0.04
65 9 0.08
66 3 0.03
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (53 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAAAA
Found at i:176757748 original size:14 final size:14
Alignment explanation
Indices: 176757731--176757759 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
176757721 GATTTTGACG
176757731 AACAGAAATTGAAA
1 AACAGAAATTGAAA
176757745 AACAGAAATTGAAA
1 AACAGAAATTGAAA
176757759 A
1 A
176757760 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:176757878 original size:77 final size:78
Alignment explanation
Indices: 176757745--176757891 Score: 217
Period size: 77 Copynumber: 1.9 Consensus size: 78
176757735 GAAATTGAAA
*
176757745 AACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTAGCAATATGAGTTA
1 AACAGAAATTGAAAATACCTCA-CGCGTGACCTGAGGCTCAACTCACCTCTAGCAATATGAGTTA
176757810 ATTTTCTTTTGATG
65 ATTTTCTTTTGATG
* * * *
176757824 AACAGAAATT-AAAATTACCTCA-GTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AACAGAAATTGAAAA-TACCTCACGCGTGACCTGAGGCTCAACTCACCTCTAGCAATATGAGTTA
176757887 ATTTT
65 ATTTT
176757892 GACGAACAGA
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
77 41 0.66
78 4 0.06
79 17 0.27
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (78 bp):
AACAGAAATTGAAAATACCTCACGCGTGACCTGAGGCTCAACTCACCTCTAGCAATATGAGTTAA
TTTTCTTTTGATG
Found at i:176757913 original size:14 final size:14
Alignment explanation
Indices: 176757896--176757924 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
176757886 GATTTTGACG
176757896 AACAGAAATTGAAA
1 AACAGAAATTGAAA
176757910 AACAGAAATTGAAA
1 AACAGAAATTGAAA
176757924 A
1 A
176757925 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:176757946 original size:165 final size:165
Alignment explanation
Indices: 176757668--176758138 Score: 870
Period size: 165 Copynumber: 2.9 Consensus size: 165
176757658 AATTTAAAAC
* *
176757668 TAAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
1 TAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
*
176757733 CAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTAG
66 CAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCG
176757798 CAATATGAGTTAATTTTCTTTTGATGAACAGAAAT
131 CAATATGAGTTAATTTTCTTTTGATGAACAGAAAT
*
176757833 TAAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
1 TAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
176757898 CAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCG
66 CAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCG
*
176757963 CAATATGAGTTAATTTTTTTTTGATGAACAGAAAT
131 CAATATGAGTTAATTTTCTTTTGATGAACAGAAAT
*
176757998 TAAAATTACCTGAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
1 TAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
* *
176758063 CAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTTAACTCACTTCTCG
66 CAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCG
176758128 CAATATGAGTT
131 CAATATGAGTT
176758139 GATTCTTTGG
Statistics
Matches: 297, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
165 297 1.00
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (165 bp):
TAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
CAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCG
CAATATGAGTTAATTTTCTTTTGATGAACAGAAAT
Found at i:176758039 original size:77 final size:78
Alignment explanation
Indices: 176757910--176758056 Score: 226
Period size: 77 Copynumber: 1.9 Consensus size: 78
176757900 GAAATTGAAA
* *
176757910 AACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTA
1 AACAGAAATTGAAAATACCT-AGAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTA
176757975 ATTTTTTTTTGATG
65 ATTTTTTTTTGATG
* *
176757989 AACAGAAATT-AAAATTACCT-GAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AACAGAAATTGAAAA-TACCTAGAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTA
176758052 ATTTT
65 ATTTT
176758057 GACGAACAGA
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
77 44 0.70
78 4 0.06
79 15 0.24
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (78 bp):
AACAGAAATTGAAAATACCTAGAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAA
TTTTTTTTTGATG
Found at i:176758078 original size:14 final size:14
Alignment explanation
Indices: 176758061--176758089 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
176758051 GATTTTGACG
176758061 AACAGAAATTGAAA
1 AACAGAAATTGAAA
176758075 AACAGAAATTGAAA
1 AACAGAAATTGAAA
176758089 A
1 A
176758090 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:176764560 original size:125 final size:122
Alignment explanation
Indices: 176764337--176764560 Score: 335
Period size: 125 Copynumber: 1.8 Consensus size: 122
176764327 GAATTATGTG
* * *
176764337 AAATGAAATATGGATGTGTAATGATTATTGATTATGTGTGTATGAGTATTTGAATGATACCCGGG
1 AAATGAAACATGGATGTGTAATGATTATTGATTATGTGTGTATGAGCAATTGAATGATACCCGGG
* *
176764402 CTAAGTCCCGAAGGCGATTATGCTAGTGATATATTTGTGTTTGAGCCTTAGTAACGA
66 CTAAGTCCCGAAGACGATTATGCTAGTAATATATTTGTGTTTGAGCCTTAGTAACGA
*
176764459 AAATGAAACATGGATGTGTAATGATTATTGATGTATGTGTGTGCATGAGCAATTGAATGATATCC
1 AAATGAAACATGGATGTGTAATGATTATTGAT-TATGTGTGT--ATGAGCAATTGAATGATACCC
176764524 GGGCTAAGTCCCGAAGAC-ATTTATGCT-GTAATTATAT
63 GGGCTAAGTCCCGAAGACGA-TTATGCTAGTAA-TATAT
176764561 CCGGGTTAAG
Statistics
Matches: 91, Mismatches: 6, Indels: 7
0.88 0.06 0.07
Matches are distributed among these distances:
122 31 0.34
123 9 0.10
124 4 0.04
125 47 0.52
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (122 bp):
AAATGAAACATGGATGTGTAATGATTATTGATTATGTGTGTATGAGCAATTGAATGATACCCGGG
CTAAGTCCCGAAGACGATTATGCTAGTAATATATTTGTGTTTGAGCCTTAGTAACGA
Found at i:176764654 original size:79 final size:79
Alignment explanation
Indices: 176764519--176764723 Score: 243
Period size: 79 Copynumber: 2.6 Consensus size: 79
176764509 AATTGAATGA
* * ** * * *
176764519 TATCCGGGCTAAGTCCCGAAGACATTTATGCTGTAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
*
176764584 TGTGCTAGT-G-AC
66 TGTGCAAGTCGTAC
* * *
176764596 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTTGTTAAATCCGGGCTAATACCCGAAGGCA
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTAGTTATATCCGGGCTAAGACCCGAAGGCA
* *
176764661 TTTGTGCAAGTCGTTC
64 ATTGTGCAAGTCGTAC
*
176764677 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTAGTTATATCCGG
176764724 TCGTATTCCG
Statistics
Matches: 108, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
77 1 0.01
79 92 0.85
80 13 0.12
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (79 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCAAGTCGTAC
Found at i:176764721 original size:40 final size:40
Alignment explanation
Indices: 176764518--176764723 Score: 213
Period size: 40 Copynumber: 5.2 Consensus size: 40
176764508 CAATTGAATG
* * ** **
176764518 ATATCCGGGCTAAGTCCCGAAGACATTTATGC-TGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
* **
176764557 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGC-TAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAT-GTGGTT
* *
176764597 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
* * * * *
176764636 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
*
176764676 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
176764716 ATATCCGG
1 ATATCCGG
176764724 TCGTATTCCG
Statistics
Matches: 140, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
39 61 0.44
40 79 0.56
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
Found at i:176772598 original size:40 final size:40
Alignment explanation
Indices: 176772539--176772746 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
176772529 CAATTGAATG
* * * *
176772539 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
176772579 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
176772619 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
176772659 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
176772699 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
176772739 ATATCCGG
1 ATATCCGG
176772747 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:176772677 original size:80 final size:80
Alignment explanation
Indices: 176772540--176772746 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
176772530 AATTGAATGA
* * ** * * *
176772540 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
176772605 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
176772618 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
176772683 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
176772700 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
176772747 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:176777285 original size:27 final size:29
Alignment explanation
Indices: 176777243--176777313 Score: 103
Period size: 27 Copynumber: 2.5 Consensus size: 29
176777233 AAAATTGTAC
*
176777243 AGCACTAAGTGTGCGAGTTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-TTGAATACATAT
176777271 AGC-CTAAGTGTGCGAGTTGAATACATAT
1 AGCACTAAGTGTGCGAGTTGAATACATAT
176777299 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
176777314 GATTCACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
26 3 0.08
27 15 0.38
28 10 0.26
29 11 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGTTGAATACATAT
Found at i:176783305 original size:28 final size:28
Alignment explanation
Indices: 176783240--176783340 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
176783230 ATAGTGAATC
*
176783240 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
176783269 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
176783297 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
176783327 CGCACACTTAGTGC
1 CGCACACTTAGTGC
176783341 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:176786876 original size:124 final size:124
Alignment explanation
Indices: 176786672--176786913 Score: 448
Period size: 124 Copynumber: 2.0 Consensus size: 124
176786662 GCTTATGAAA
*
176786672 TATACGTAATGTTATATGCTCGGTTATAAGTTAAGCATTATATTATCATGATTCATTGGATATAA
1 TATACGTAATGTTATATGCTCGGTTATAAGTTAAGCATTAGATTATCATGATTCATTGGATATAA
*
176786737 TGTTTGGATATTACTTTGGGAAAATGTATGGATGGCTGTCTATTAATTGGTTTAATAAT
66 TGTTTGGATATTACTTTGGGAAAATGTATGAATGGCTGTCTATTAATTGGTTTAATAAT
*
176786796 TATACGTAATGTTATATGCTCGGTTATAAGTTAAGCATTAGATTATCATGATTTATTGGATATAA
1 TATACGTAATGTTATATGCTCGGTTATAAGTTAAGCATTAGATTATCATGATTCATTGGATATAA
*
176786861 TGTTTGGATATTACTTTGGGAAAATGTATGAATGGTTGTCTATTAATTGGTTT
66 TGTTTGGATATTACTTTGGGAAAATGTATGAATGGCTGTCTATTAATTGGTTT
176786914 GAAATGAATC
Statistics
Matches: 114, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
124 114 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (124 bp):
TATACGTAATGTTATATGCTCGGTTATAAGTTAAGCATTAGATTATCATGATTCATTGGATATAA
TGTTTGGATATTACTTTGGGAAAATGTATGAATGGCTGTCTATTAATTGGTTTAATAAT
Found at i:176788325 original size:45 final size:46
Alignment explanation
Indices: 176788274--176788375 Score: 120
Period size: 45 Copynumber: 2.2 Consensus size: 46
176788264 CGGGAACGAC
176788274 CAAATAGC-ATAAAATGT-AAAAGTTGAACTCTAGTAGTT-GAAGGAT
1 CAAATAGCTATAAAAT-TCAAAA-TTGAACTCTAGTAGTTAGAAGGAT
* ** * *
176788319 CAAATAGCTGTGGAATTCAGAATTGAATTCTAGTAGTTAGAAGGAT
1 CAAATAGCTATAAAATTCAAAATTGAACTCTAGTAGTTAGAAGGAT
176788365 CAAATAGCTAT
1 CAAATAGCTAT
176788376 GGAATTCTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
45 24 0.50
46 24 0.50
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (46 bp):
CAAATAGCTATAAAATTCAAAATTGAACTCTAGTAGTTAGAAGGAT
Found at i:176788372 original size:46 final size:45
Alignment explanation
Indices: 176788296--176788382 Score: 147
Period size: 46 Copynumber: 1.9 Consensus size: 45
176788286 AATGTAAAAG
*
176788296 TTGAACTCTAGTAGTTGAAGGATCAAATAGCTGTGGAATTCAGAA
1 TTGAACTCTAGTAGTTGAAGGATCAAATAGCTATGGAATTCAGAA
*
176788341 TTGAATTCTAGTAGTTAGAAGGATCAAATAGCTATGGAATTC
1 TTGAACTCTAGTAGTT-GAAGGATCAAATAGCTATGGAATTC
176788383 TCTAGTTAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 15 0.38
46 24 0.62
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (45 bp):
TTGAACTCTAGTAGTTGAAGGATCAAATAGCTATGGAATTCAGAA
Found at i:176794110 original size:48 final size:49
Alignment explanation
Indices: 176793985--176794360 Score: 164
Period size: 48 Copynumber: 7.8 Consensus size: 49
176793975 AGGGTAAGAT
* * *
176793985 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATATATCGAT
1 GCCGATGCCATGT-CCAGACATGGTCTTACACTGGCTCTCACATATCGAG
* * * *
176794035 ACCAATGCCATGTTCCAAACATGGTCTTACACTGGC-C-CACATGTCGAG
1 GCCGATGCCATG-TCCAGACATGGTCTTACACTGGCTCTCACATATCGAG
* * * * ** *
176794083 GCCGATGCCATGTCCTAGATATGGTCTTACAGTAGCTCT--TATATAAAT
1 GCCGATGCCATGTCC-AGACATGGTCTTACACTGGCTCTCACATATCGAG
* * * * * * * ** * *
176794131 GTCAATGCCATGTTCCAAATATAGTCTTACACTAGC-C-CATAGGTCAAA
1 GCCGATGCCATG-TCCAGACATGGTCTTACACTGGCTCTCACATATCGAG
* * * ** *
176794179 GCCGTTGCCATGTCCCAGACATGGTCTTACACTAGCTCT--CATGTAAAT
1 GCCGATGCCATGT-CCAGACATGGTCTTACACTGGCTCTCACATATCGAG
** * * * * *
176794227 GTTGATGCCATGTTCCAAACATGGTCTTATACTAG-TC-CACATGTCAAG
1 GCCGATGCCATG-TCCAGACATGGTCTTACACTGGCTCTCACATATCGAG
* * * * ** *
176794275 GTCGATGCCATGTCCCAAACAGGGTCTTACACTAGCTCT--CATATAAAT
1 GCCGATGCCATGT-CCAGACATGGTCTTACACTGGCTCTCACATATCGAG
* * *
176794323 GCTGATGCCATGTTCCAAACATGGTTTTACACTGGCTC
1 GCCGATGCCATG-TCCAGACATGGTCTTACACTGGCTC
176794361 ACATGACCCT
Statistics
Matches: 254, Mismatches: 55, Indels: 36
0.74 0.16 0.10
Matches are distributed among these distances:
47 8 0.03
48 204 0.80
49 10 0.04
50 31 0.12
51 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (49 bp):
GCCGATGCCATGTCCAGACATGGTCTTACACTGGCTCTCACATATCGAG
Found at i:176794169 original size:96 final size:96
Alignment explanation
Indices: 176793985--176794365 Score: 467
Period size: 96 Copynumber: 3.9 Consensus size: 96
176793975 AGGGTAAGAT
* * * **
176793985 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATATATCGATACCAATGCCATGTTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATA--AATGTCAATGCCATGTTC
* *
176794050 CAAACATGGTCTTACACTGGCCCACATGTCGAG
64 CAAACATGGTCTTACACTAGCCCACATGTCAAG
* * * *
176794083 GCCGATGCCATGTCCTAGATATGGTCTTACAGTAGCTCTTATATAAATGTCAATGCCATGTTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGTCAATGCCATGTTCCA
* * * * *
176794148 AATATAGTCTTACACTAGCCCATAGGTCAAA
66 AACATGGTCTTACACTAGCCCACATGTCAAG
* * **
176794179 GCCGTTGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATGTAAATGTTGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGTCAATGCCATGTTCCA
* *
176794244 AACATGGTCTTATACTAGTCCACATGTCAAG
66 AACATGGTCTTACACTAGCCCACATGTCAAG
* * * *
176794275 GTCGATGCCATGTCCCAAACAGGGTCTTACACTAGCTCTCATATAAATG-CTGATGCCATGTTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGTC-AATGCCATGTTCC
* * *
176794339 AAACATGGTTTTACACTGGCTCACATG
65 AAACATGGTCTTACACTAGCCCACATG
176794366 ACCCTAGTAT
Statistics
Matches: 242, Mismatches: 40, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
96 201 0.83
98 41 0.17
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAATGTCAATGCCATGTTCCA
AACATGGTCTTACACTAGCCCACATGTCAAG
Found at i:176807400 original size:96 final size:96
Alignment explanation
Indices: 176807232--176807461 Score: 417
Period size: 96 Copynumber: 2.4 Consensus size: 96
176807222 AAAGGGTAAG
*
176807232 ATGCCGATGCCATGTTCCAAGCATGGTCTTACACTAGCCCACATGTCGAGGCCGATGCCATGTCC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATGTCGAGGCCGATGCCATGTCC
176807297 CGAACATGGTCTTACACTAGCTCTCATATAA
66 CGAACATGGTCTTACACTAGCTCTCATATAA
176807328 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATGTCGAGGCCGATGCCATGTCC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATGTCGAGGCCGATGCCATGTCC
176807393 C-AGACATGGTCTTACACTAGCTCTCATATAA
66 CGA-ACATGGTCTTACACTAGCTCTCATATAA
* *
176807424 ATGTCGATGCCATGTTCCAAACATGGTTTTACACTAGC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGC
176807462 TCATATGACT
Statistics
Matches: 130, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
95 1 0.01
96 129 0.99
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (96 bp):
ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATGTCGAGGCCGATGCCATGTCC
CGAACATGGTCTTACACTAGCTCTCATATAA
Found at i:176807462 original size:48 final size:48
Alignment explanation
Indices: 176807234--176807464 Score: 291
Period size: 48 Copynumber: 4.8 Consensus size: 48
176807224 AGGGTAAGAT
* * * **
176807234 GCCGATGCCATGTTCCAAGCATGGTCTTACACTAGCCCACATGTCGAG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAAAG
* * * *
176807282 GCCGATGCCATGTCCCGAACATGGTCTTACACTAGCTCTCATATAAAT
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAAAG
* * **
176807330 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATGTCGAG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAAAG
* * * *
176807378 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAAAT
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAAAG
* *
176807426 GTCGATGCCATGTTCCAAACATGGTTTTACACTAGCTCA
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCA
176807465 TATGACTCTA
Statistics
Matches: 153, Mismatches: 30, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 153 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAAAG
Found at i:176825597 original size:80 final size:80
Alignment explanation
Indices: 176825513--176825661 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
176825503 TATGGTAACC
* * * *
176825513 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
176825577 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
176825593 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
176825658 CCGG
66 CCGG
176825662 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:176825603 original size:40 final size:38
Alignment explanation
Indices: 176825554--176825661 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
176825544 ATCACGATTT
*
176825554 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
176825594 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
176825634 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
176825662 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:176835604 original size:47 final size:47
Alignment explanation
Indices: 176835533--176835709 Score: 273
Period size: 47 Copynumber: 3.8 Consensus size: 47
176835523 CCCTTCGGGA
* * * *
176835533 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
176835580 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
176835627 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
176835674 CTTATCACTTATATACACTTTCACATTCATCACATT
1 CTTATCACATATATACACTTTCACATTCATCACATT
176835710 AAAATCTTAA
Statistics
Matches: 118, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 118 1.00
ACGTcount: A:0.28, C:0.32, G:0.07, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:176835611 original size:25 final size:25
Alignment explanation
Indices: 176835583--176835661 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
176835573 ACTCGGCCCT
*
176835583 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACATTCACATTC
** * *
176835608 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACATTC-ACATTC
*
176835630 ATCACATATATACACCTTCACATTC
1 ATCACATATATACACATTCACATTC
176835655 ATCACAT
1 ATCACAT
176835662 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:176839545 original size:34 final size:33
Alignment explanation
Indices: 176839486--176839582 Score: 88
Period size: 34 Copynumber: 2.9 Consensus size: 33
176839476 TTATTTGCAT
* *
176839486 ACTGTACTGAAGTGGACT-AAGGCCCAGACTGCC
1 ACTGTACTGAAATGGGCTCAA-GCCCAGACTGCC
**
176839519 ACTGATACTGAAATGGGCTCAAGCCCAGACTGTT
1 ACTG-TACTGAAATGGGCTCAAGCCCAGACTGCC
* * * *
176839553 TCTGCTACTAAAATGAGCTCAGGCCCAGAC
1 ACTG-TACTGAAATGGGCTCAAGCCCAGAC
176839583 ATTTTCTGCT
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
33 4 0.08
34 47 0.89
35 2 0.04
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.21
Consensus pattern (33 bp):
ACTGTACTGAAATGGGCTCAAGCCCAGACTGCC
Found at i:176839589 original size:34 final size:34
Alignment explanation
Indices: 176839524--176839593 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
176839514 CTGCCACTGA
* *
176839524 TACTGAAATGGGCTCAAGCCCAGACTGTTTCTGC
1 TACTAAAATGAGCTCAAGCCCAGACTGTTTCTGC
*
176839558 TACTAAAATGAGCTCAGGCCCAGACAT-TTTCTGC
1 TACTAAAATGAGCTCAAGCCCAGAC-TGTTTCTGC
176839592 TA
1 TA
176839594 TTGAAAGAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
34 31 0.97
35 1 0.03
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (34 bp):
TACTAAAATGAGCTCAAGCCCAGACTGTTTCTGC
Found at i:176846810 original size:40 final size:40
Alignment explanation
Indices: 176846765--176846932 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
176846755 CGGAATATAA
176846765 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
176846805 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
176846845 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
176846885 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
176846925 CCGGATAT
1 CCGGATAT
176846933 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:176846915 original size:80 final size:80
Alignment explanation
Indices: 176846781--176846930 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
176846771 ATAATCACGT
*
176846781 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
176846845 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
176846861 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
176846924 CCCGGAT
64 CCCGGAT
176846931 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:176854815 original size:40 final size:40
Alignment explanation
Indices: 176854770--176854935 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
176854760 CGGAATATAA
176854770 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
176854810 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
176854850 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
176854890 CC-GATATAATTTCCAGCATAATTGTCTTCGGG-ATTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
176854928 CCGGATAT
1 CCGGATAT
176854936 CATTCAATTT
Statistics
Matches: 100, Mismatches: 24, Indels: 5
0.78 0.19 0.04
Matches are distributed among these distances:
38 6 0.06
39 28 0.28
40 66 0.66
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:176860407 original size:39 final size:39
Alignment explanation
Indices: 176860326--176860488 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
176860316 TATGGTAACC
** *
176860326 CGCACAAACGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
176860366 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
176860405 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
176860444 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
176860483 CGCACA
1 CGCACA
176860489 TTCATTCACA
Statistics
Matches: 115, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 99 0.86
40 16 0.14
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:176878541 original size:16 final size:18
Alignment explanation
Indices: 176878511--176878543 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
176878501 GAAGTATCTT
176878511 TATTTGTTTTACCATGCA
1 TATTTGTTTTACCATGCA
176878529 TATTT-TTTT-CCATGC
1 TATTTGTTTTACCATGC
176878544 TACTGTTGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.18, C:0.18, G:0.09, T:0.55
Consensus pattern (18 bp):
TATTTGTTTTACCATGCA
Found at i:176884625 original size:40 final size:41
Alignment explanation
Indices: 176884531--176884715 Score: 195
Period size: 40 Copynumber: 4.6 Consensus size: 41
176884521 TATTCGAATG
*
176884531 ATATCCGGGCTAAG-TCCCGAAGGC-TCTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATATTGTGCTA-GTGACT
* * * *
176884572 ATAACCGGACTAAGATCCGAAGGCAT-TCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATATTGTGCTAG-TGACT
* *
176884612 ATATCCGGGCTAAGACCCGAAGGCAT-TTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATATTGTGCTAGTGACT
* *
176884652 ATATCCGGGCTAAG-TCCCGAAGGCATA-TATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATATTGTGCTAGTGACT
*
176884692 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
176884716 CTTGTGCAAG
Statistics
Matches: 122, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
39 1 0.01
40 91 0.75
41 28 0.23
42 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCGAAGGCATATTGTGCTAGTGACT
Found at i:176884701 original size:80 final size:81
Alignment explanation
Indices: 176884531--176884722 Score: 243
Period size: 80 Copynumber: 2.4 Consensus size: 81
176884521 TATTCGAATG
* *
176884531 ATATCCGGGCTAAGTCCCGAAGGCTCTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCTCTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* *
176884596 ATTCGTGCGAGTTGCT
66 ATTCATGCGAGTTGCC
* *
176884612 ATATCCGGGCTAAGACCCGAAGGCAT-TTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGC-TCTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAG
*
176884674 GCATAT-ATGCTAG-TGACC
64 GCAT-TCATGCGAGTTG-CC
176884692 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCTCTTGTGC
176884723 AAGTATTATA
Statistics
Matches: 99, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
79 9 0.09
80 57 0.58
81 32 0.32
82 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (81 bp):
ATATCCGGGCTAAGACCCGAAGGCTCTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCC
Found at i:176887989 original size:17 final size:18
Alignment explanation
Indices: 176887947--176887995 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
176887937 AGTTGAAAAG
176887947 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
176887966 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
176887983 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
176887996 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:176888883 original size:40 final size:40
Alignment explanation
Indices: 176888817--176888983 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
176888807 AAATTGAATG
* * *
176888817 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
176888856 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
176888896 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
176888936 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
176888976 ATATCCGG
1 ATATCCGG
176888984 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:176895970 original size:17 final size:18
Alignment explanation
Indices: 176895928--176895976 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
176895918 AGTTGAAAAG
176895928 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
176895947 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
176895964 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
176895977 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:176896863 original size:40 final size:39
Alignment explanation
Indices: 176896797--176896962 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 39
176896787 AAATTGAATG
* * *
176896797 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGG-TATT
* * **
176896836 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
*
176896875 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-G-TATT
* * **
176896915 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGT-ATT
176896955 ATATCCGG
1 ATATCCGG
176896963 TTATATTCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
38 3 0.03
39 42 0.41
40 56 0.54
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
Found at i:176901172 original size:40 final size:40
Alignment explanation
Indices: 176901105--176901284 Score: 267
Period size: 40 Copynumber: 4.5 Consensus size: 40
176901095 CATTTGAATG
176901105 ATATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
176901144 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
176901184 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * *
176901224 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
176901264 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
176901285 AAACTTGGGT
Statistics
Matches: 129, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
38 1 0.01
39 26 0.20
40 102 0.79
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:176909178 original size:40 final size:40
Alignment explanation
Indices: 176909119--176909299 Score: 267
Period size: 40 Copynumber: 4.5 Consensus size: 40
176909109 CATTTGAATG
*
176909119 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
176909159 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
176909199 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * *
176909239 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
176909279 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
176909300 AAACTTGGGT
Statistics
Matches: 129, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
38 1 0.01
39 12 0.09
40 116 0.90
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:176917775 original size:2 final size:2
Alignment explanation
Indices: 176917768--176917795 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
176917758 CCAAAAATAC
176917768 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
176917796 GCCAAACACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:176918232 original size:39 final size:39
Alignment explanation
Indices: 176918173--176918309 Score: 238
Period size: 39 Copynumber: 3.5 Consensus size: 39
176918163 ATTTAAGCTT
* *
176918173 GGATATAATTCCGGCTCATAGCCTGCGGACCTGAAGTCC
1 GGATATAATTCCAGCACATAGCCTGCGGACCTGAAGTCC
*
176918212 GGATAAAATTCCAGCACATAGCCTGCGGACCTGAAGTCC
1 GGATATAATTCCAGCACATAGCCTGCGGACCTGAAGTCC
176918251 GGATATAATTCCAGCACATAGCCTGCGGACCTGAAGTCC
1 GGATATAATTCCAGCACATAGCCTGCGGACCTGAAGTCC
*
176918290 GGATATAATTTCAGCACATA
1 GGATATAATTCCAGCACATA
176918310 CAATTATGAT
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 93 1.00
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (39 bp):
GGATATAATTCCAGCACATAGCCTGCGGACCTGAAGTCC
Found at i:176921544 original size:29 final size:29
Alignment explanation
Indices: 176921512--176921611 Score: 109
Period size: 29 Copynumber: 3.5 Consensus size: 29
176921502 ATAGTGAATC
* *
176921512 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAAATTTTCAACT
176921541 CGCACACTTAGTGCTATAGAA---TCAAACT
1 CGCACACTTAGTGCTATA-AATTTTC-AACT
* *
176921569 CGCACACTTAGTGCTGTACAATTTT-AACC
1 CGCACACTTAGTGCTATA-AATTTTCAACT
176921598 CGCACACTTAGTGC
1 CGCACACTTAGTGC
176921612 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
27 2 0.03
28 22 0.36
29 35 0.57
30 1 0.02
31 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCTATAAATTTTCAACT
Found at i:176929408 original size:29 final size:29
Alignment explanation
Indices: 176929376--176929475 Score: 109
Period size: 29 Copynumber: 3.5 Consensus size: 29
176929366 ATAGTGAATC
* *
176929376 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAAATTTTCAACT
176929405 CGCACACTTAGTGCTATAGAA---TCAAACT
1 CGCACACTTAGTGCTATA-AATTTTC-AACT
* *
176929433 CGCACACTTAGTGCTGTACAATTTT-AACC
1 CGCACACTTAGTGCTATA-AATTTTCAACT
176929462 CGCACACTTAGTGC
1 CGCACACTTAGTGC
176929476 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
27 2 0.03
28 22 0.36
29 35 0.57
30 1 0.02
31 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCTATAAATTTTCAACT
Found at i:176945359 original size:80 final size:80
Alignment explanation
Indices: 176945275--176945423 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
176945265 TATGGTAACC
* * * *
176945275 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
176945339 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
176945355 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
176945420 CCGG
66 CCGG
176945424 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:176945365 original size:40 final size:38
Alignment explanation
Indices: 176945316--176945423 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
176945306 ATCACGATTT
*
176945316 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
176945356 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
176945396 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
176945424 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:176949834 original size:46 final size:46
Alignment explanation
Indices: 176949784--176949959 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
176949774 TGGTTGAGCA
176949784 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
176949830 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
176949875 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
176949923 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
176949960 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:176949940 original size:93 final size:93
Alignment explanation
Indices: 176949781--176949952 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
176949771 GGATGGTTGA
* *
176949781 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
176949846 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
176949874 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
176949939 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
176949953 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:176956911 original size:46 final size:46
Alignment explanation
Indices: 176956861--176957036 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
176956851 TGGTTGAGCA
*
176956861 TCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
176956907 TCCGAACTAGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
176956952 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
176957000 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
176957037 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 58 0.55
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:176957017 original size:93 final size:93
Alignment explanation
Indices: 176956858--176957029 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
176956848 GGATGGTTGA
*
176956858 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTAGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTAGTTGAGT
176956923 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
176956951 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTAGTTGAG
176957015 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
176957030 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTAGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:176960803 original size:44 final size:44
Alignment explanation
Indices: 176960755--176960905 Score: 157
Period size: 44 Copynumber: 3.5 Consensus size: 44
176960745 TATGTGTTTC
*
176960755 CGTGTAAGACCATGTCTTGGACATTGGCATCGACTTATGATTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGACTTATGATTTA
* * * * *
176960799 CGTGTAAAACCACGTCTGGGACGTTGGCATCGTCTT-TTATTT-
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGACTTATGATTTA
* * * * *
176960841 TGTGTAAGACCCTGTCTGGGATAGTGGCATCGA-TAATTGA-TTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGACTTA-TGATTTA
*
176960884 CATGTAAGACCATGTCTGGGAC
1 CGTGTAAGACCATGTCTGGGAC
176960906 GTTAGCATTG
Statistics
Matches: 84, Mismatches: 20, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
41 1 0.01
42 27 0.32
43 25 0.30
44 31 0.37
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (44 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGACTTATGATTTA
Found at i:176964598 original size:16 final size:17
Alignment explanation
Indices: 176964577--176964608 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
176964567 AACTGAGTTG
176964577 AGAAAATT-ATTTAATT
1 AGAAAATTAATTTAATT
176964593 AGAAAATTAATTTAAT
1 AGAAAATTAATTTAAT
176964609 AAATAATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
AGAAAATTAATTTAATT
Found at i:176969378 original size:40 final size:40
Alignment explanation
Indices: 176969319--176969460 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
176969309 AAATTGAATG
* * *
176969319 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
176969359 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
176969399 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
176969439 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
176969461 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:176969461 original size:40 final size:39
Alignment explanation
Indices: 176969358--176969486 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
176969348 TGCTGGAAAT
* * *
176969358 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
176969398 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
176969438 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
176969478 TATATCCGG
1 TATATCCGG
176969487 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:176977403 original size:40 final size:40
Alignment explanation
Indices: 176977337--176977503 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
176977327 AAATTGAATG
* * *
176977337 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
176977376 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
176977416 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
176977456 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
176977496 ATATCCGG
1 ATATCCGG
176977504 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:176985189 original size:40 final size:39
Alignment explanation
Indices: 176985024--176985207 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
176985014 AAATTGAATG
* * *
176985024 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
176985064 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
176985104 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
176985144 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
176985183 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
176985208 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:176985232 original size:80 final size:81
Alignment explanation
Indices: 176985064--176985252 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
176985054 GCTGGAAATT
* * * *
176985064 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
176985129 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
176985145 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
176985208 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
176985224 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
176985253 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:176994565 original size:40 final size:40
Alignment explanation
Indices: 176994510--176994730 Score: 356
Period size: 40 Copynumber: 5.5 Consensus size: 40
176994500 CATTTGAATG
176994510 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
176994550 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
176994590 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
176994630 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * *
176994670 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
176994710 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
176994731 AAACTTGGGT
Statistics
Matches: 170, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
38 1 0.01
39 12 0.07
40 157 0.92
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:176996436 original size:40 final size:40
Alignment explanation
Indices: 176996335--176996479 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
176996325 TACTTGAATG
* *
176996335 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACT
* * *
176996376 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTAACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACT
* *
176996416 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
176996456 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
176996480 CTTGGGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:177000850 original size:21 final size:21
Alignment explanation
Indices: 177000826--177000872 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
177000816 TAGGGCACAT
*
177000826 GCCCGTATGGAAGGGAAACAC
1 GCCCGTATGCAAGGGAAACAC
* *
177000847 GCCCGTGTGCAAGGGCAACAC
1 GCCCGTATGCAAGGGAAACAC
*
177000868 TCCCG
1 GCCCG
177000873 AGTGGTCGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.32, G:0.32, T:0.11
Consensus pattern (21 bp):
GCCCGTATGCAAGGGAAACAC
Found at i:177002181 original size:49 final size:49
Alignment explanation
Indices: 177002119--177002259 Score: 148
Period size: 49 Copynumber: 2.9 Consensus size: 49
177002109 CTTTCATATT
** *
177002119 GCGAGGCCAATGCCATGTCCTAGATAGGTCTTACACTAGCTCTCATCTAC
1 GCGAGGCTGATGCCATGTCCTAGACAGGTCTTACACTAGCTCTC-TCTAC
* *
177002169 -C-AGTGTTGATGCCATGT-CTCAGACAGGTTTTACACTAGCT-TCTCTAC
1 GCGAG-GCTGATGCCATGTCCT-AGACAGGTCTTACACTAGCTCTCTCTAC
* *
177002216 TGCGAGGCTGATG-CATGTCCCAGACATGTCTTACACTAGCTCTC
1 -GCGAGGCTGATGCCATGTCCTAGACAGGTCTTACACTAGCTCTC
177002260 GTCTCAATCC
Statistics
Matches: 75, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
47 5 0.07
48 29 0.39
49 39 0.52
50 2 0.03
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (49 bp):
GCGAGGCTGATGCCATGTCCTAGACAGGTCTTACACTAGCTCTCTCTAC
Found at i:177005827 original size:46 final size:46
Alignment explanation
Indices: 177005777--177005948 Score: 201
Period size: 45 Copynumber: 3.7 Consensus size: 46
177005767 TGGTTGAGCA
177005777 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
177005823 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
177005868 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
177005916 -CCCAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
177005949 GGGGCGGTTA
Statistics
Matches: 106, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 34 0.32
46 29 0.27
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:177008931 original size:15 final size:15
Alignment explanation
Indices: 177008911--177008966 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
177008901 GTATCTTGGG
177008911 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
177008926 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
177008941 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
177008956 TTTCTTTATTC
1 TTTCTTTATTC
177008967 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:177011402 original size:46 final size:45
Alignment explanation
Indices: 177011352--177011524 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
177011342 TGGTTGAGCA
*
177011352 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AAACG
* * * *
177011398 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AA--A--CG
177011445 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGA-AACG
* * * *
177011491 CCCGAGCTCGTTGAGTAGAGGCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
177011525 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 60 0.57
47 29 0.28
48 3 0.03
49 1 0.01
50 4 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAAACG
Found at i:177011516 original size:93 final size:93
Alignment explanation
Indices: 177011349--177011519 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
177011339 GGATGGTTGA
* *
177011349 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
* *
177011414 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 AGAGGCCGAGTTCGTGAAATGTAACTAG
*
177011442 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AGAACGCCCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCA-AACGCCCGAACTCGTTGAG
177011506 TAGAGGCCGAGTTC
65 TAGAGGCCGAGTTC
177011520 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 71 0.99
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
AGAGGCCGAGTTCGTGAAATGTAACTAG
Found at i:177013375 original size:40 final size:40
Alignment explanation
Indices: 177013309--177013475 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
177013299 AAATTGAATG
* * * *
177013309 ATATCCGGGCTAA-TCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
177013348 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
177013388 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
177013428 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
177013468 ATATCCGG
1 ATATCCGG
177013476 TTATATTCCG
Statistics
Matches: 102, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
39 15 0.15
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:177022709 original size:40 final size:40
Alignment explanation
Indices: 177022635--177022855 Score: 349
Period size: 40 Copynumber: 5.6 Consensus size: 40
177022625 AACCCAAGTA
* *
177022635 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
177022674 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
177022714 CCTTCGGGGCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
177022754 CCTTCGGGACTTA-CCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
177022793 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
177022833 CCTTCGGGACTTAGCTCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
177022856 CATTCGAATA
Statistics
Matches: 169, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 50 0.30
40 116 0.69
41 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:177022779 original size:79 final size:80
Alignment explanation
Indices: 177022635--177022855 Score: 349
Period size: 79 Copynumber: 2.8 Consensus size: 80
177022625 AACCCAAGTA
* * *
177022635 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
177022698 GTCAATAGCACAAAAG
65 GTCAATAGCACAAAAG
*
177022714 CCTTCGGGGCTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTA-CCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
177022778 TCAATAGCACAAATG
66 TCAATAGCACAAAAG
* *
177022793 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATGCCTTCGGGACTTAGCTCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
177022856 CATTCGAATA
Statistics
Matches: 131, Mismatches: 8, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
79 88 0.67
80 42 0.32
81 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCAATAGCACAAAAG
Found at i:177022846 original size:119 final size:119
Alignment explanation
Indices: 177022635--177022855 Score: 363
Period size: 119 Copynumber: 1.9 Consensus size: 119
177022625 AACCCAAGTA
* * * *
177022635 CCTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CCTTCGGGACTTACCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
177022700 CAATAGCACAAAAGCCTTCGGGGCTTAGCCCGGATATAGTCACTAGCACAAATG
66 CAATAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
177022754 CCTTCGGGACTTACCCGGATATAGTCAA-TAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTACCCGGATATAG-CAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
* *
177022818 TCAATAGCACAAATGCCTTCGGGACTTAGCTCGGATAT
65 TCAATAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
177022856 CATTCGAATA
Statistics
Matches: 94, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
119 91 0.97
120 3 0.03
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.24
Consensus pattern (119 bp):
CCTTCGGGACTTACCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CAATAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:177027212 original size:20 final size:21
Alignment explanation
Indices: 177027173--177027212 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
177027163 GTTATAATGA
177027173 CCACACAGGCGTGTTGCCCTT
1 CCACACAGGCGTGTTGCCCTT
*
177027194 CCACACTGGCGTG-TGCCCT
1 CCACACAGGCGTGTTGCCCT
177027213 ATTTCAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.25, T:0.23
Consensus pattern (21 bp):
CCACACAGGCGTGTTGCCCTT
Found at i:177030691 original size:40 final size:40
Alignment explanation
Indices: 177030617--177030758 Score: 180
Period size: 40 Copynumber: 3.6 Consensus size: 40
177030607 AACCCAAGTA
* * *
177030617 CCTTCGGGATTTAG-CCAGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
177030656 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * * *
177030696 CCTTTGGGACTTATCTCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
177030736 CCTTCGGAACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
177030759 CATTCGAATA
Statistics
Matches: 88, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 12 0.14
40 75 0.85
41 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:177034133 original size:40 final size:40
Alignment explanation
Indices: 177034025--177034234 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
177034015 CGGGATTTAA
* * * * *
177034025 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
177034065 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
177034105 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
177034145 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
177034185 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
177034225 CCGGATATAT
1 CCGGATATAT
177034235 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:177042199 original size:40 final size:40
Alignment explanation
Indices: 177042091--177042340 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
177042081 CGGGATTTAA
* * * * *
177042091 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
177042131 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
177042171 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
177042211 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
177042251 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
177042291 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
177042331 CCGGATATAT
1 CCGGATATAT
177042341 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:177046978 original size:47 final size:47
Alignment explanation
Indices: 177046738--177046970 Score: 351
Period size: 47 Copynumber: 5.0 Consensus size: 47
177046728 TTAGGATTTT
** *
177046738 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
177046785 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
177046832 ATGTGGA-GAATATGATCATGCATATATGTGATAAGGTCGAATGGCCT
1 ATGT-GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
177046879 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
177046926 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
177046971 TAGTGTGAAG
Statistics
Matches: 168, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
46 2 0.01
47 164 0.98
48 2 0.01
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:177047276 original size:37 final size:37
Alignment explanation
Indices: 177047133--177047275 Score: 191
Period size: 37 Copynumber: 3.9 Consensus size: 37
177047123 GGAAATATAT
*
177047133 TCCGGGTGAGA-CCGATGACTACGTATGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTATGGAGATTATG
* * *
177047169 T-CGGGTAAGACTCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTATGGAGATTATG
* *
177047205 TCCGGGTAAGACCCAATGACTACGTATGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTATGGAGATTATG
* * *
177047242 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTATGGAGATT
177047276 TCGTCTGAGC
Statistics
Matches: 92, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
35 8 0.09
36 24 0.26
37 60 0.65
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTATGGAGATTATG
Found at i:177048597 original size:40 final size:40
Alignment explanation
Indices: 177048542--177048889 Score: 614
Period size: 40 Copynumber: 8.8 Consensus size: 40
177048532 GAGAATTGAG
177048542 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
177048582 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
177048622 AGTGATATATCCGGGCTAAGT-CCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
177048661 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
177048701 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
177048741 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
177048781 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTTGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
**
177048821 AGTGATATATCC-GGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
177048860 GGTGTTATA-CCGGGCTAGGT-CCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
177048890 ATCATGCTGG
Statistics
Matches: 297, Mismatches: 9, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
38 12 0.04
39 75 0.25
40 210 0.71
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:177048915 original size:159 final size:159
Alignment explanation
Indices: 177048542--177048889 Score: 612
Period size: 159 Copynumber: 2.2 Consensus size: 159
177048532 GAGAATTGAG
177048542 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
177048607 AAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATATATC
66 AAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATATATC
**
177048672 CGGGCTAAGTCCCGAAGAGCATTCGTGCT
131 CGGGCTAAACCCCGAAGAGCATTCGTGCT
177048701 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
*
177048766 AAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTGATATAT
66 AAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGT-CCGAAGAGCATTCGTGCTAGTGATATAT
177048831 CC-GGCTAAACCCCGAAGAGCATTCGTGCT
130 CCGGGCTAAACCCCGAAGAGCATTCGTGCT
* * *
177048860 GGTGTTATA-CCGGGCTAGGT-CCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
177048890 ATCATGCTGG
Statistics
Matches: 182, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
157 10 0.05
158 10 0.05
159 133 0.73
160 29 0.16
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (159 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
AAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATATATC
CGGGCTAAACCCCGAAGAGCATTCGTGCT
Found at i:177053213 original size:25 final size:25
Alignment explanation
Indices: 177053138--177053213 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
177053128 GTGTATATAT
177053138 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
177053163 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
177053185 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
177053210 GTGA
1 GTGA
177053214 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:177053351 original size:47 final size:47
Alignment explanation
Indices: 177053111--177053343 Score: 367
Period size: 47 Copynumber: 5.0 Consensus size: 47
177053101 TTAGGATTTT
** *
177053111 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
177053158 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
177053205 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
177053252 TTGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
177053299 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
177053344 TAGTGTGAAG
Statistics
Matches: 169, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 169 1.00
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:177053649 original size:37 final size:37
Alignment explanation
Indices: 177053504--177053648 Score: 218
Period size: 37 Copynumber: 3.9 Consensus size: 37
177053494 GGAAATATAT
* *
177053504 TCCGGGTGAGACTCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
177053541 TCCGGGTAAGACTCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
177053578 TCCGGGTAAGACCCGATGACTACGTATGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
177053615 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
177053649 TCGTCTGAGC
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:177055390 original size:40 final size:40
Alignment explanation
Indices: 177054915--177055378 Score: 800
Period size: 40 Copynumber: 11.8 Consensus size: 40
177054905 GAGAATTGAG
177054915 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
177054955 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
177054995 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
177055035 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
177055075 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
177055115 AGTGATATATCC-GGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
177055154 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
177055194 AGTGATATATCC-GGCTAAGT-CC-AAGAGCATTCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
177055231 AGTGATATATCCGGGCTAAATCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
177055271 AGTGATATATCCGGGCTAAGT-CCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
177055310 AGTGATATAT-CGGGCTAA-ACCCCAA-AGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
177055347 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
177055379 ATCATGCTGG
Statistics
Matches: 403, Mismatches: 13, Indels: 16
0.93 0.03 0.04
Matches are distributed among these distances:
37 46 0.11
38 28 0.07
39 80 0.20
40 249 0.62
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:177060899 original size:20 final size:20
Alignment explanation
Indices: 177060833--177060899 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
177060823 GATTTTGATA
*
177060833 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
177060853 ACGTGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
177060873 ACATGATATGTATGATATAC
1 ACATGATATGTATGATATGC
177060893 ACATGAT
1 ACATGAT
177060900 GTAATCATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:177061005 original size:24 final size:24
Alignment explanation
Indices: 177060949--177061029 Score: 128
Period size: 24 Copynumber: 3.4 Consensus size: 24
177060939 GAGGAAGTGA
177060949 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
177060973 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
177060996 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
177061020 CAAAGAGGCT
1 AAAAG-GGCT
177061030 AGGCCTCTAG
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
23 23 0.43
24 26 0.49
25 4 0.08
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:177061270 original size:31 final size:31
Alignment explanation
Indices: 177061235--177061298 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
177061225 CGTTTAAAGT
177061235 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* **
177061266 AAAGGCTTCGGCCTAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
177061297 AA
1 AA
177061299 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:177068550 original size:20 final size:20
Alignment explanation
Indices: 177068525--177068592 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
177068515 GATTTTGATA
*
177068525 AACATGGTATGTATGATATG
1 AACATGATATGTATGATATG
*
177068545 AACATGACATGTATGATATG
1 AACATGATATGTATGATATG
*
177068565 CACATGATATGTATGATATG
1 AACATGATATGTATGATATG
*
177068585 TACATGAT
1 AACATGAT
177068593 GTAATCATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.34
Consensus pattern (20 bp):
AACATGATATGTATGATATG
Found at i:177068698 original size:24 final size:24
Alignment explanation
Indices: 177068642--177068722 Score: 128
Period size: 24 Copynumber: 3.4 Consensus size: 24
177068632 GAGGAAGTGA
177068642 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
177068666 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
177068689 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
177068713 CAAAGAGGCT
1 AAAAG-GGCT
177068723 AGGCCTCTAG
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
23 23 0.43
24 26 0.49
25 4 0.08
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Done.