Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 96 of 332
Found at i:30849750 original size:27 final size:27
Alignment explanation
Indices: 30849387--30849756 Score: 185
Period size: 27 Copynumber: 13.7 Consensus size: 27
30849377 TAGAAAGTCA
* *
30849387 AGGGTATTTCT-GTAACTTTGTAAATC-
1 AGGGTATTT-TGGTAATTTTATAAATCG
** *
30849413 AGGGGTATTTTGGTAATTTTACGAATTG
1 A-GGGTATTTTGGTAATTTTATAAATCG
* * * *
30849441 AGGGTATTTCGGTAATTTCACAAA-CC
1 AGGGTATTTTGGTAATTTTATAAATCG
* *
30849467 AGTGGTATTTTGGTAATTTTACAAA-CT
1 AG-GGTATTTTGGTAATTTTATAAATCG
* * * * * *
30849494 AGTGATATTTTAGCAATTTTACAGA-CT
1 AG-GGTATTTTGGTAATTTTATAAATCG
30849521 AGGGTATTTTGGTAATTTTACT-AATCG
1 AGGGTATTTTGGTAATTTTA-TAAATCG
* * * *
30849548 AAGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTATAAATCG
* *
30849575 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
***** *
30849602 AGGGTAAAACAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
***** *
30849629 AGGGTAAAACAGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
**** * *
30849656 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
**** * *
30849683 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
****
30849710 AGGGTAAAACGGTAATTTTATAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
*
30849737 AGGGTACTTTGGTAATTTTA
1 AGGGTATTTTGGTAATTTTA
30849757 CAATTTGAGG
Statistics
Matches: 292, Mismatches: 45, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
26 21 0.07
27 270 0.92
28 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.36
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAATCG
Found at i:30849753 original size:54 final size:54
Alignment explanation
Indices: 30849558--30849742 Score: 262
Period size: 54 Copynumber: 3.4 Consensus size: 54
30849548 AAGGTATTTT
* * **** *
30849558 GGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
* *
30849612 AGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
* *
30849666 GGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
1 GGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
*
30849720 GGTAATTTTATAAATCGAGGGTA
1 GGTAATTTTGTAAATCGAGGGTA
30849743 CTTTGGTAAT
Statistics
Matches: 116, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 116 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (54 bp):
GGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:30852624 original size:27 final size:27
Alignment explanation
Indices: 30852586--30852639 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
30852576 GCAAGTGAAG
30852586 ATAGTAACAGAAAAGATA-TCGGATCGT
1 ATAGTAACAGAAAAGATACT-GGATCGT
*
30852613 ATAGTAATAGAAAAGATACTGGATCGT
1 ATAGTAACAGAAAAGATACTGGATCGT
30852640 GCGTTGAAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.44, C:0.09, G:0.22, T:0.24
Consensus pattern (27 bp):
ATAGTAACAGAAAAGATACTGGATCGT
Found at i:30860771 original size:67 final size:67
Alignment explanation
Indices: 30860658--30860803 Score: 231
Period size: 67 Copynumber: 2.2 Consensus size: 67
30860648 AAGCATTCTG
*
30860658 GCAGCCTCGCTGCAAACTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAATATC
1 GCAGCCTCGCTGCAAACTGGTGGCCTAGCCACATATATCTGTTCTGGTGACTTCGTCACAATATC
30860723 TA
66 TA
* * *
30860725 GTAGCCTCGCTGCAATCTGGTGGCCTAGCCACA-ATATCTGTATCTGGTTACTTCGTCACAATAT
1 GCAGCCTCGCTGCAAACTGGTGGCCTAGCCACATATATCTGT-TCTGGTGACTTCGTCACAATAT
*
30860789 CTG
65 CTA
30860792 GCAGCCTCGCTG
1 GCAGCCTCGCTG
30860804 TAATTTTTGT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
66 8 0.11
67 64 0.89
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (67 bp):
GCAGCCTCGCTGCAAACTGGTGGCCTAGCCACATATATCTGTTCTGGTGACTTCGTCACAATATC
TA
Found at i:30867142 original size:26 final size:27
Alignment explanation
Indices: 30867113--30867172 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
30867103 CCACATATAT
*
30867113 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
30867139 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
30867166 ATATCTG
1 ATATCTG
30867173 GCAGCCTTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:30875436 original size:39 final size:40
Alignment explanation
Indices: 30875391--30875615 Score: 215
Period size: 40 Copynumber: 5.7 Consensus size: 40
30875381 GCTCCTCGTT
* * * *
30875391 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
30875431 C-AATGCCTTTGGGACTTAACCCGGATTTAATGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
30875470 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
30875510 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
30875550 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
30875591 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
30875616 CAGCATTCAA
Statistics
Matches: 153, Mismatches: 26, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
39 36 0.24
40 103 0.67
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:30875485 original size:40 final size:38
Alignment explanation
Indices: 30875358--30875615 Score: 191
Period size: 40 Copynumber: 6.5 Consensus size: 38
30875348 AAATCACGTA
* * *
30875358 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAG-TACTCG--CACAATG
* * * *
30875397 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACAATG
* *
30875436 CCTTTGGGACTTAACCCGGATTTAATGACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCAC-AATG
*
30875476 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGTA-CTCGCAC-AATG
* *
30875516 CCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCACAAATG
1 CCTTCGGGACTTAACCCGG-ATTTAGTA-CTCGCAC-AATG
** * * * *
30875556 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTAGT-AC-TCGCACAATG
*
30875596 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
30875616 CAGCATTCAA
Statistics
Matches: 178, Mismatches: 30, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
38 2 0.01
39 49 0.28
40 115 0.65
41 12 0.07
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.27
Consensus pattern (38 bp):
CCTTCGGGACTTAACCCGGATTTAGTACTCGCACAATG
Found at i:30875624 original size:41 final size:41
Alignment explanation
Indices: 30875547--30875624 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
30875537 CTTGTATCTC
* * *
30875547 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
30875588 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
30875625 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:30881177 original size:49 final size:49
Alignment explanation
Indices: 30881109--30881215 Score: 180
Period size: 49 Copynumber: 2.2 Consensus size: 49
30881099 TATCACAGTT
*
30881109 ATACACTTCCACTTCCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACTTCCATCACATTGGCCATTCGGCCTTATCACATATAC
*
30881158 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCAGATATAC
1 ATACACTTTCAC-TTCCATCACATTGGCCATTCGGCCTTATCACATATAC
30881207 ATACACTTT
1 ATACACTTT
30881216 GGCCATTCGG
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
49 53 0.96
50 2 0.04
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (49 bp):
ATACACTTTCACTTCCATCACATTGGCCATTCGGCCTTATCACATATAC
Found at i:30881223 original size:34 final size:34
Alignment explanation
Indices: 30881180--30881249 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
30881170 ATTCATCACA
*
30881180 TTGGCCATTCGGCCTTATCAGATATACATACACT
1 TTGGCCATTCGGCCTTATCACATATACATACACT
30881214 TTGGCCATTCGGCCTTATCACATATACATACACT
1 TTGGCCATTCGGCCTTATCACATATACATACACT
30881248 TT
1 TT
30881250 CACATTCATC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.34
Consensus pattern (34 bp):
TTGGCCATTCGGCCTTATCACATATACATACACT
Found at i:30881263 original size:49 final size:49
Alignment explanation
Indices: 30881214--30881504 Score: 527
Period size: 49 Copynumber: 6.0 Consensus size: 49
30881204 TACATACACT
*
30881214 TTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACT
1 TTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACA
30881263 TTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACA
1 TTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACA
*
30881312 TGGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACA
1 TTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACA
30881361 TTGGCCATTCGGCCTTATCAC--ATACATACACTTTCACATTCATCACA
1 TTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACA
30881408 TTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACA
1 TTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACA
*
30881457 TGGGCCATTCGGCCTTATCAC--ATACATACACTTTCACATTCATCACA
1 TTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACA
30881504 T
1 T
30881505 AAAATCCTAA
Statistics
Matches: 236, Mismatches: 4, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
47 74 0.31
49 162 0.69
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (49 bp):
TTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACA
Found at i:30881270 original size:83 final size:83
Alignment explanation
Indices: 30881131--30881298 Score: 318
Period size: 83 Copynumber: 2.0 Consensus size: 83
30881121 TTCCATCACA
30881131 TTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
1 TTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
*
30881196 ATCAGATATACATACACT
66 ATCACATATACATACACT
*
30881214 TTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACTTTGGCCATTCGGCCTT
1 TTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
30881279 ATCACATATACATACACT
66 ATCACATATACATACACT
30881297 TT
1 TT
30881299 CACATTCATC
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (83 bp):
TTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACATATACATACACT
Found at i:30881435 original size:145 final size:144
Alignment explanation
Indices: 30881214--30881504 Score: 539
Period size: 145 Copynumber: 2.0 Consensus size: 144
30881204 TACATACACT
*
30881214 TTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACTTTGGCCATTCGGCCTT
1 TTGGCCATTCGGCCTTATCACA-ATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
30881279 ATCACATATACATACACTTTCACATTCATCACATGGGCCATTCGGCCTTATCACATATACATACA
65 ATCACATATACATACACTTTCACATTCATCACATGGGCCATTCGGCCTTATCAC--ATACATACA
30881344 CTTTCACATTCATCACA
128 CTTTCACATTCATCACA
30881361 TTGGCCATTCGGCCTTATCAC-ATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
1 TTGGCCATTCGGCCTTATCACAATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
30881425 TCACATATACATACACTTTCACATTCATCACATGGGCCATTCGGCCTTATCACATACATACACTT
66 TCACATATACATACACTTTCACATTCATCACATGGGCCATTCGGCCTTATCACATACATACACTT
30881490 TCACATTCATCACA
131 TCACATTCATCACA
30881504 T
1 T
30881505 AAAATCCTAA
Statistics
Matches: 143, Mismatches: 1, Indels: 4
0.97 0.01 0.03
Matches are distributed among these distances:
143 27 0.19
145 95 0.66
147 21 0.15
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (144 bp):
TTGGCCATTCGGCCTTATCACAATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
TCACATATACATACACTTTCACATTCATCACATGGGCCATTCGGCCTTATCACATACATACACTT
TCACATTCATCACA
Found at i:30881450 original size:96 final size:96
Alignment explanation
Indices: 30881214--30881504 Score: 537
Period size: 96 Copynumber: 3.0 Consensus size: 96
30881204 TACATACACT
*
30881214 TTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACTTTGGCCATTCGGCCTT
1 TTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
30881279 ATCACATATACATACACTTTCACATTCATCACA
66 ATCAC--ATACATACACTTTCACATTCATCACA
*
30881312 TGGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
1 TTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
30881377 ATCACATACATACACTTTCACATTCATCACA
66 ATCACATACATACACTTTCACATTCATCACA
*
30881408 TTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATGGGCCATTCGGCCTT
1 TTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
30881473 ATCACATACATACACTTTCACATTCATCACA
66 ATCACATACATACACTTTCACATTCATCACA
30881504 T
1 T
30881505 AAAATCCTAA
Statistics
Matches: 189, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
96 121 0.64
98 68 0.36
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (96 bp):
TTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACATACATACACTTTCACATTCATCACA
Found at i:30893757 original size:22 final size:22
Alignment explanation
Indices: 30893714--30893758 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
30893704 AATTTGTTAC
*
30893714 ATTATATATGTAATTTGTTTTT
1 ATTATATATGTAATTTATTTTT
*
30893736 ATTATATAT-TGATTTATGTTTT
1 ATTATATATGTAATTTAT-TTTT
30893758 A
1 A
30893759 AACATGTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (22 bp):
ATTATATATGTAATTTATTTTT
Found at i:30897817 original size:44 final size:40
Alignment explanation
Indices: 30897769--30897866 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 40
30897759 AAACGATCTT
30897769 GCACACTTAGTGCCATCTCAAATAACCGAAGCTA-TCTCAGTATC
1 GCACACTTAGTGCC-T-T-AAATAACCGAAGCTATTC-CA-TATC
* * * *
30897813 GCACACTTAGTGCCTTATATAGCTGAAGCTATTCCATTTC
1 GCACACTTAGTGCCTTAAATAACCGAAGCTATTCCATATC
30897853 GCACACTTAGTGCC
1 GCACACTTAGTGCC
30897867 GAACATAGTC
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
40 17 0.35
41 14 0.29
42 3 0.06
43 1 0.02
44 14 0.29
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.29
Consensus pattern (40 bp):
GCACACTTAGTGCCTTAAATAACCGAAGCTATTCCATATC
Found at i:30905929 original size:15 final size:16
Alignment explanation
Indices: 30905909--30905938 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30905899 AAGATCTTAA
30905909 AATCATAA-CTTACTC
1 AATCATAACCTTACTC
30905924 AATCATAACCTTACT
1 AATCATAACCTTACT
30905939 GATGGTTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (16 bp):
AATCATAACCTTACTC
Found at i:30906221 original size:42 final size:42
Alignment explanation
Indices: 30906102--30906228 Score: 141
Period size: 42 Copynumber: 3.0 Consensus size: 42
30906092 AACACGGTAC
* * *
30906102 CATACCAATGCCATATCCTAGATATGGTCTTACATGT-GATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACACGTAG-TCT
** * *
30906144 TGTATCAATGCCAATAGCCCA-ACTATGGTCTTACACATAGTCT
1 CATATCAATGCC-ATATCCCAGA-TATGGTCTTACACGTAGTCT
*
30906187 CATATCGATGCCATATCCCAGATATGGTCTTACACGTAGTCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACACGTAGTCT
30906229 TAATAACCCT
Statistics
Matches: 69, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
42 36 0.52
43 32 0.46
44 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.31
Consensus pattern (42 bp):
CATATCAATGCCATATCCCAGATATGGTCTTACACGTAGTCT
Found at i:30913349 original size:17 final size:18
Alignment explanation
Indices: 30913327--30913366 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
30913317 TATTGTAATG
30913327 CCCAAAAAATCCT-AAAA
1 CCCAAAAAATCCTGAAAA
*
30913344 CCC-AAAAATCCTGAAAT
1 CCCAAAAAATCCTGAAAA
30913361 CCCAAA
1 CCCAAA
30913367 CTTTCTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 9 0.45
17 9 0.45
18 2 0.10
ACGTcount: A:0.53, C:0.33, G:0.03, T:0.12
Consensus pattern (18 bp):
CCCAAAAAATCCTGAAAA
Found at i:30914743 original size:29 final size:28
Alignment explanation
Indices: 30914688--30914802 Score: 133
Period size: 29 Copynumber: 4.0 Consensus size: 28
30914678 GTGAGCATGA
* * *
30914688 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
30914716 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
*
30914745 ATATACAA-GTGATTTGGGCCTAATAGGCC
1 ATATA-AATGTGA-TTGGGCCTAATGGGCC
* * *
30914774 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
30914802 A
1 A
30914803 AATACAGGTA
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
28 28 0.37
29 46 0.61
30 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:30915116 original size:26 final size:25
Alignment explanation
Indices: 30915083--30915135 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
30915073 ACCGTAATTA
* * * *
30915083 AGGGAAAATTTACCGAAATGCCCCT
1 AGGGAAAAATGACCAAAATACCCCT
30915108 AGGGTAAAAATGACCAAAATACCCCT
1 AGGG-AAAAATGACCAAAATACCCCT
30915134 AG
1 AG
30915136 ATGTTAAATG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.17
Consensus pattern (25 bp):
AGGGAAAAATGACCAAAATACCCCT
Found at i:30919225 original size:53 final size:54
Alignment explanation
Indices: 30919162--30919368 Score: 209
Period size: 53 Copynumber: 3.8 Consensus size: 54
30919152 TTCCTTTTTA
* * * *
30919162 AACTTACCATTTCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
30919215 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * * *
30919269 TAGTTTATCAATGCCATGTCTTGACATAGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
30919324 AACTTACCAATTCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
30919369 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 31, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
53 45 0.37
54 36 0.30
55 40 0.33
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:30919317 original size:55 final size:53
Alignment explanation
Indices: 30919174--30919368 Score: 183
Period size: 55 Copynumber: 3.6 Consensus size: 53
30919164 CTTACCATTT
* *
30919174 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATTG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
* * * * ** * *
30919227 CCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGTAGTTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G-AACTCACCAATG
* * * * * * *
30919282 CCATGTCTTGACATAGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATT
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATG
* * *
30919336 CCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 CCATGTCTTGACATGGTCTTACATGGTATCCTT
30919369 AAACCCTAAT
Statistics
Matches: 111, Mismatches: 29, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
53 35 0.32
54 36 0.32
55 40 0.36
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
Found at i:30923676 original size:14 final size:14
Alignment explanation
Indices: 30923643--30923677 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
30923633 TCACATTTCA
*
30923643 ACTCATCCCTCATC
1 ACTCATCCCTCACC
30923657 ACTCATCCCTCACC
1 ACTCATCCCTCACC
*
30923671 ATTCATC
1 ACTCATC
30923678 ATTCTCTACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.23, C:0.49, G:0.00, T:0.29
Consensus pattern (14 bp):
ACTCATCCCTCACC
Found at i:30927699 original size:39 final size:39
Alignment explanation
Indices: 30927648--30927830 Score: 249
Period size: 39 Copynumber: 4.7 Consensus size: 39
30927638 TGTGTGAGAT
* *
30927648 TTATATCTGGGCTAAGTCCCGAAGGCATTCGTACTAGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTG
* * * *
30927687 TTATATCCGGGCTATGTCCTGAAGGCATTTGTGCTAGTC
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTG
* * * *
30927726 TTATATCCGGGCTAAATCTCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTG
* *
30927765 TTATATCCGGGCTAAATCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTG
*
30927804 TTATATCCGGGCTAAGTCTCGAAGGCA
1 TTATATCCGGGCTAAGTCCCGAAGGCA
30927831 AATGTGTTGG
Statistics
Matches: 126, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 126 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTG
Found at i:30932351 original size:46 final size:46
Alignment explanation
Indices: 30932204--30932372 Score: 159
Period size: 46 Copynumber: 3.6 Consensus size: 46
30932194 TTTGTGCACT
* *
30932204 AGTGTAAGACATGTCTGGGACATGCATCGACC---ACACTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCG-CCTTGAGACGAT-A-AGCC
* * * *
30932250 AGTGTAAGACCATGTCTAGGACATGGCATCCGCATTGAGACGA-GAGCA
1 AGTGTAAGA-CATGTCTGGGACAT-GCAT-CGCCTTGAGACGATAAGCC
*
30932298 AGTGTAAGACATGTCTGGGACATGCATCAGCCTTGTGAC-ATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCTTGAGACGATAAGCC
* *
30932344 AGTGTAAGACATGTTTGAGACATGCATCG
1 AGTGTAAGACATGTCTGGGACATGCATCG
30932373 ACTACGAGAT
Statistics
Matches: 102, Mismatches: 13, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
45 3 0.03
46 50 0.49
47 26 0.25
48 17 0.17
49 2 0.02
51 4 0.04
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCTTGAGACGATAAGCC
Found at i:30932456 original size:50 final size:48
Alignment explanation
Indices: 30932387--30932563 Score: 148
Period size: 49 Copynumber: 3.6 Consensus size: 48
30932377 CGAGATGTGT
* * * *
30932387 TAGTGGAAGGCCATATCTGGGACATGGCATTGGCAC-AGATATGT-GAGAG
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTAGAT-T-TCGAGAG
* * *
30932436 CTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTCGATAG
1 -TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTAGATTTCGAGAG
* * * *
30932485 TCAGTGTAAGACTATGTCTGGGACATGGCATC-GACTTGA--TGGATGAG
1 T-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTAGATTTCGA-GAG
*
30932532 TCAGTGTAAGACCATGTCTAGGACATGGCATC
1 T-AGTGTAAGACCATGTCTGGGACATGGCATC
30932564 AACATTATAC
Statistics
Matches: 108, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
46 3 0.03
47 32 0.30
48 7 0.06
49 34 0.31
50 32 0.30
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (48 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTAGATTTCGAGAG
Found at i:30932502 original size:49 final size:47
Alignment explanation
Indices: 30932204--30932563 Score: 187
Period size: 47 Copynumber: 7.6 Consensus size: 47
30932194 TTTGTGCACT
* * *
30932204 AGTGTAAGA-CATGTCTGGGACAT-GCATCGAC-C-ACACTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTCGA-TCGAT--GAGTC
* * *
30932250 AGTGTAAGACCATGTCTAGGACATGGCATCCG-CATTGAGACGA-GAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCAT-CGAC-TCGA-TCGATGAGTC
* * * *
30932297 AAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTTG-T-GACATAAGCC
1 -AGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGATCG--ATGAGTC
* * * *
30932344 AGTGTAAGA-CATGTTTGAGACAT-GCATCGACTACGA--GATGTGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACT-CGATCGATGAGTC
* * * * * * * *
30932388 AGTGGAAGGCCATATCTGGGACATGGCATTGGCACAGATATG-TGAGAGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTC-GAT-CGATGAG-TC
* *
30932437 TAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTCGAT-AGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGA--TCGATGAGTC
* * *
30932487 AGTGTAAGACTATGTCTGGGACATGGCATCGACTTGATGGATGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTCGATCGATGAGTC
*
30932534 AGTGTAAGACCATGTCTAGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
30932564 AACATTATAC
Statistics
Matches: 244, Mismatches: 42, Indels: 55
0.72 0.12 0.16
Matches are distributed among these distances:
43 1 0.00
44 10 0.04
45 17 0.07
46 59 0.24
47 61 0.25
48 25 0.10
49 31 0.13
50 28 0.11
51 10 0.04
52 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTCGATCGATGAGTC
Found at i:30932561 original size:140 final size:136
Alignment explanation
Indices: 30932204--30932570 Score: 330
Period size: 140 Copynumber: 2.6 Consensus size: 136
30932194 TTTGTGCACT
*
30932204 AGTGTAAGACATGTCTGGGACATGCATCGACCACACTAT-GA-GAGCCAGTGTAAGACCATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCG-----ACTATGGATGAGTCAGTGTAAGACCATGTCT
* *
30932267 AGGACATGGCATCCGCATTGAGACGAGAGCAAGTGTAAGACATGTCTGGGACATGCATCAGCCTT
61 AGGACATGGCATCAGCATT-AGACGAGAGCAAGTGTAAGACATGTCTGGGACATGCATCAGCCTC
30932332 GTGACATAAGCC
125 GTGACATAAGCC
* * * * * * * * *
30932344 AGTGTAAGACATGTTTGAGACATGCATCGACTACGAGATGTGTTAGTGGAAGGCCATATCTGGGA
1 AGTGTAAGACATGTCTGGGACATGCATCGACTATG-GATGAGTCAGTGTAAGACCATGTCTAGGA
* * * * *
30932409 CATGGCATTGGCA-CAGATATG-TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCC
65 CATGGCA-T--CAGCA-TTA-GACGAGAGCAAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCC
** *
30932472 TCGATTTCGAT-AGTC
123 TCG-TGAC-ATAAGCC
30932487 AGTGTAAGACTATGTCTGGGACATGGCATCGACTTGATGGATGAGTCAGTGTAAGACCATGTCTA
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCGAC-T-ATGGATGAGTCAGTGTAAGACCATGTCTA
*
30932552 GGACATGGCATCAACATTA
62 GGACATGGCATCAGCATTA
30932571 TACCCTATGT
Statistics
Matches: 180, Mismatches: 30, Indels: 31
0.75 0.12 0.13
Matches are distributed among these distances:
135 4 0.02
137 2 0.01
138 26 0.14
139 1 0.01
140 45 0.25
141 17 0.09
142 9 0.05
143 19 0.11
144 15 0.08
145 9 0.05
146 31 0.17
147 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (136 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACTATGGATGAGTCAGTGTAAGACCATGTCTAGGAC
ATGGCATCAGCATTAGACGAGAGCAAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGTGACA
TAAGCC
Found at i:30933779 original size:20 final size:20
Alignment explanation
Indices: 30933743--30933781 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
30933733 GTTATAATGA
*
30933743 CCACACGGCGTGTTGCCCTT
1 CCACACGGCGTGATGCCCTT
30933763 CCACACGAGCGT-ATGCCCT
1 CCACACG-GCGTGATGCCCT
30933782 ATTTCAAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.15, C:0.41, G:0.23, T:0.21
Consensus pattern (20 bp):
CCACACGGCGTGATGCCCTT
Found at i:30934347 original size:9 final size:9
Alignment explanation
Indices: 30934333--30934358 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
30934323 TCCGAACACT
30934333 CCACCTCCC
1 CCACCTCCC
30934342 CCACCTCCC
1 CCACCTCCC
30934351 CCACCTCC
1 CCACCTCC
30934359 TCTGATTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.77, G:0.00, T:0.12
Consensus pattern (9 bp):
CCACCTCCC
Found at i:30939232 original size:78 final size:81
Alignment explanation
Indices: 30939112--30939294 Score: 234
Period size: 78 Copynumber: 2.3 Consensus size: 81
30939102 TGAATGATGT
*
30939112 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAG-TCCCGAAGGCATT
*
30939175 TGTGCGAGTTACTA-ATT
65 TGTGCGAGTTACTATA-A
* * * **
30939192 CC-GGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGTCCCGAAGGCATTT
30939254 GTGCGAGTTACTATAA
66 GTGCGAGTTACTATAA
*
30939270 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
30939295 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
77 1 0.01
78 52 0.58
79 21 0.23
80 16 0.18
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGTCCCGAAGGCATTT
GTGCGAGTTACTATAA
Found at i:30939308 original size:40 final size:40
Alignment explanation
Indices: 30939112--30939294 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
30939102 TGAATGATGT
* * * *
30939112 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
30939152 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
30939192 CC-GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
30939229 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
30939270 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
30939295 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
38 28 0.22
39 13 0.10
40 75 0.60
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:30939313 original size:80 final size:77
Alignment explanation
Indices: 30939164--30939327 Score: 206
Period size: 78 Copynumber: 2.1 Consensus size: 77
30939154 GGACTAAGAT
* **
30939164 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
*
30939229 TCCGGGTTAAGTC
66 TCC-GGTTAAATC
*
30939242 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACC-GGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
30939305 TATATCCGGTTAAATT
62 TAAATCCGGTTAAATC
30939321 CCGAAGG
1 CCGAAGG
30939328 TACGTGATTT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
77 2 0.03
78 26 0.35
79 22 0.29
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (77 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
TCCGGTTAAATC
Found at i:30947243 original size:40 final size:40
Alignment explanation
Indices: 30947048--30947229 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 40
30947038 AATGATGTCT
* * * *
30947048 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACC
* * * *
30947088 AGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-ACC
30947128 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
* * *
30947167 GGGTTAAGTCCCGAAAGCATTTGTGCAAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
*
30947207 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
30947230 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
39 35 0.29
40 74 0.62
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
Found at i:30947251 original size:79 final size:79
Alignment explanation
Indices: 30947098--30947252 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
30947088 AGACTAAGAT
* * * **
30947098 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAAGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
30947163 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
30947177 CCGAAAGCATTTGTGCAAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAAGCATTTGTGCAAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
30947240 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
30947253 ATTCCGAAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 38 0.58
80 25 0.38
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAAGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:30949133 original size:40 final size:40
Alignment explanation
Indices: 30949063--30949240 Score: 218
Period size: 40 Copynumber: 4.5 Consensus size: 40
30949053 AAGCCAAGTA
* * * * * *
30949063 CCTTCGGGATTTA-ACCAGATATAGGT-ACTCGCTCGAATA
1 CCTTCGGGACTTAGCCCGGATATA-GTAACTCGCACAAATG
*
30949102 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
30949142 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
30949182 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
30949222 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
30949241 TTATCATCCA
Statistics
Matches: 123, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 14 0.11
40 109 0.89
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:30957412 original size:40 final size:40
Alignment explanation
Indices: 30957358--30957558 Score: 280
Period size: 40 Copynumber: 5.0 Consensus size: 40
30957348 GGATATAACT
* * * **
30957358 GGATATAGCT-ACTCGCTCGAATACCTTCGGGACAGAGCCC
1 GGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCC
30957398 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
30957438 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
**
30957478 GGATATAGTAACTCGCACAAATGCCTTCAAGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* * *
30957518 GGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCCC
1 GGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
30957558 G
1 G
30957559 ATTATCATCC
Statistics
Matches: 147, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
39 2 0.01
40 145 0.99
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.21
Consensus pattern (40 bp):
GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
Found at i:30961456 original size:13 final size:13
Alignment explanation
Indices: 30961438--30961464 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30961428 AAGTAAGTGA
30961438 TCTTGATGATTTT
1 TCTTGATGATTTT
30961451 TCTTGATGATTTT
1 TCTTGATGATTTT
30961464 T
1 T
30961465 GTATTTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.15, T:0.63
Consensus pattern (13 bp):
TCTTGATGATTTT
Found at i:30964358 original size:65 final size:65
Alignment explanation
Indices: 30964254--30964384 Score: 235
Period size: 65 Copynumber: 2.0 Consensus size: 65
30964244 CCCCTAGGGT
* * *
30964254 TAAGGTTGACCTGAATGCATGTTTGATTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTACATGCCATCTTATTATTATCTGA
30964319 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTACATGCCATCTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTACATGCCATCTTATTATTATCTGA
30964384 T
1 T
30964385 GCATGGGACT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.43
Consensus pattern (65 bp):
TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTACATGCCATCTTATTATTATCTGA
Found at i:30965550 original size:49 final size:47
Alignment explanation
Indices: 30965488--30965618 Score: 138
Period size: 47 Copynumber: 2.7 Consensus size: 47
30965478 GGATATGTGA
* * * *
30965488 GAGCTAGTGTAAGACCATGTCTAGGACATGGCGTCGGCCTCGATTTTGAT
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATC-GACTCGA--TGGAT
* * * *
30965538 -AGTCAGTGTAAGACCATATCTAGAACATGGCATCGACTTGATGGAT
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACTCGATGGAT
* *
30965584 GAGCCAATGTAAGACCATGTCTGGGACATGGCATC
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATC
30965619 AGCATTATAC
Statistics
Matches: 67, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
46 4 0.06
47 29 0.43
48 5 0.07
49 29 0.43
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACTCGATGGAT
Found at i:30986515 original size:25 final size:25
Alignment explanation
Indices: 30986487--30986538 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
30986477 TACCAATTTG
30986487 CAGCTCGTGA-GAGCTTATT-GATTCT
1 CAGCTCGT-ATGAGCTT-TTCGATTCT
30986512 CAGCTCGTATGAGCTTTTCGATTCT
1 CAGCTCGTATGAGCTTTTCGATTCT
30986537 CA
1 CA
30986539 ACTTGTTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 3 0.12
25 22 0.88
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTTTCGATTCT
Found at i:31003541 original size:21 final size:21
Alignment explanation
Indices: 31003515--31003556 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
31003505 AAAAAAAGAG
31003515 ATCATCATACATGTTTCTTCC
1 ATCATCATACATGTTTCTTCC
31003536 ATCATCATACATGTTTCTTCC
1 ATCATCATACATGTTTCTTCC
31003557 TAGCCGAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.29, G:0.05, T:0.43
Consensus pattern (21 bp):
ATCATCATACATGTTTCTTCC
Found at i:31005516 original size:47 final size:47
Alignment explanation
Indices: 31005450--31006002 Score: 953
Period size: 47 Copynumber: 11.6 Consensus size: 47
31005440 GAAATGATAG
31005450 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
31005497 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
*
31005544 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
*
31005593 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
31005640 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
31005687 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
*
31005734 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
* *
31005783 TAGGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
31005830 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
*
31005877 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
* *
31005926 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
*
31005975 TAGGGCCTAATGGCCGATGTGATGAATG
1 TAAGGCCTAATGGCCGATGTGATGAATG
31006003 GGCCTAATGG
Statistics
Matches: 488, Mismatches: 12, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
47 313 0.64
49 175 0.36
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
Found at i:31005711 original size:143 final size:142
Alignment explanation
Indices: 31005450--31006002 Score: 957
Period size: 143 Copynumber: 3.9 Consensus size: 142
31005440 GAAATGATAG
31005450 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATACGTGATAAGGCCTAATGGCCGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATACGTGATAAGGCCTAATGGCCGA
31005514 TGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
66 TGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
*
31005579 GTATATATATGTGA
131 G--TATATACGTGA
*
31005593 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATACGTGATAAGGCCTAATGGCCGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATACGTGATAAGGCCTAATGGCCGA
31005657 TGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
66 TGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
31005722 GTATATACGTGA
131 GTATATACGTGA
* * *
31005734 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATACGTGATAAGGCCTAATGGCCG
31005799 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
65 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
31005864 TGTATATACGTGA
130 TGTATATACGTGA
* *
31005877 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATACGTGATAAGGCCTAATGGCCG
* *
31005942 ATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATG
65 ATGTGATGAATGTGAAAGTG--TATATACGTGATAAGGCCTAATGGCCGATGTGATGAATG
31006003 GGCCTAATGG
Statistics
Matches: 397, Mismatches: 9, Indels: 6
0.96 0.02 0.01
Matches are distributed among these distances:
141 45 0.11
143 315 0.79
145 37 0.09
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.29
Consensus pattern (142 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATACGTGATAAGGCCTAATGGCCGA
TGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
GTATATACGTGA
Found at i:31005773 original size:190 final size:190
Alignment explanation
Indices: 31005450--31006002 Score: 1061
Period size: 190 Copynumber: 2.9 Consensus size: 190
31005440 GAAATGATAG
31005450 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
31005515 GTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
31005580 TATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
131 TATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
31005640 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
31005705 GTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
31005770 TATATATATGTGATAGGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATACGTGA
131 TATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
31005830 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
* *
31005895 GTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTG--TATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
31005960 TGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATG
129 TGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATG
31006003 GGCCTAATGG
Statistics
Matches: 357, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
190 272 0.76
192 85 0.24
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.29
Consensus pattern (190 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
Found at i:31005997 original size:22 final size:24
Alignment explanation
Indices: 31005969--31006027 Score: 86
Period size: 25 Copynumber: 2.5 Consensus size: 24
31005959 GTGTATATAT
31005969 ATGTGAT-A-GGGCCTAATGGCCG
1 ATGTGATAATGGGCCTAATGGCCG
31005991 ATGTGATGAATGGGCCTAATGGCCG
1 ATGTGAT-AATGGGCCTAATGGCCG
31006016 ATGTGATGAATG
1 ATGTGAT-AATG
31006028 TGAAAGTGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
22 7 0.21
24 1 0.03
25 26 0.76
ACGTcount: A:0.25, C:0.14, G:0.36, T:0.25
Consensus pattern (24 bp):
ATGTGATAATGGGCCTAATGGCCG
Found at i:31006008 original size:25 final size:25
Alignment explanation
Indices: 31005977--31006027 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
31005967 ATATGTGATA
31005977 GGGCCTAATGGCCGATGTGATGAAT
1 GGGCCTAATGGCCGATGTGATGAAT
31006002 GGGCCTAATGGCCGATGTGATGAAT
1 GGGCCTAATGGCCGATGTGATGAAT
31006027 G
1 G
31006028 TGAAAGTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.16, G:0.37, T:0.24
Consensus pattern (25 bp):
GGGCCTAATGGCCGATGTGATGAAT
Found at i:31006053 original size:47 final size:47
Alignment explanation
Indices: 31006002--31006093 Score: 130
Period size: 47 Copynumber: 2.0 Consensus size: 47
31005992 TGTGATGAAT
* * * *
31006002 GGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACA
1 GGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGACA
* *
31006049 GGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 GGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGA
31006094 TAAGTCCCGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.29, C:0.11, G:0.35, T:0.25
Consensus pattern (47 bp):
GGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGACA
Found at i:31006271 original size:37 final size:37
Alignment explanation
Indices: 31006215--31006293 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
31006205 CCGAGCTCTA
* * *
31006215 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
31006252 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
31006289 AAGAC
1 AAGAC
31006294 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:31008463 original size:58 final size:59
Alignment explanation
Indices: 31008401--31008513 Score: 138
Period size: 58 Copynumber: 1.9 Consensus size: 59
31008391 AGTGATTAAC
* * * * * * * *
31008401 TTAATATTAAATTTAATTTAATGTTTATGTTAAT-AGTATTCTATTATTTTAATAAGAT
1 TTAATATCAAATTCAATCTAATATTTATCTTAATAAATATTATATTAATTTAATAAGAT
*
31008459 TTAATATCAAATTCAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
1 TTAATATCAAATTCAATCTAATATTTATCTTAATAAATATTATATTAATTTAATA
31008514 TTAAAGTGAT
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
58 28 0.62
59 17 0.38
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (59 bp):
TTAATATCAAATTCAATCTAATATTTATCTTAATAAATATTATATTAATTTAATAAGAT
Found at i:31021137 original size:28 final size:28
Alignment explanation
Indices: 31021101--31021154 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
31021091 GGTAGGAAAG
*
31021101 AATATCCTTTGT-GAAGAATAATGAAAAA
1 AATAACCTTTGTGGAA-AATAATGAAAAA
*
31021129 AATAACCTTTTTGGAAAATAATGAAA
1 AATAACCTTTGTGGAAAATAATGAAA
31021155 TGATAGCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 20 0.87
29 3 0.13
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (28 bp):
AATAACCTTTGTGGAAAATAATGAAAAA
Found at i:31032926 original size:55 final size:55
Alignment explanation
Indices: 31032790--31032928 Score: 143
Period size: 55 Copynumber: 2.5 Consensus size: 55
31032780 TGCGACATGG
* * * * * * **
31032790 CCGTGGGTGAACCTGCCAAAACAAAACAGGCGTGCGACACGCTCGTGCCTGGAAA
1 CCGTGGGTGAACCTGCCAAAACAACACGGGCGTACAACACACCCGTGCCAAGAAA
* * ** ** *
31032845 TCGTGGCTGAACCTATCAAATTAACACGGGCGTACAACACACCCGTGCCAAGCAA
1 CCGTGGGTGAACCTGCCAAAACAACACGGGCGTACAACACACCCGTGCCAAGAAA
31032900 CCGTGGGTGAACCTGCCAAAACAACACGG
1 CCGTGGGTGAACCTGCCAAAACAACACGG
31032929 CCGTGGACCT
Statistics
Matches: 63, Mismatches: 21, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
55 63 1.00
ACGTcount: A:0.31, C:0.30, G:0.25, T:0.14
Consensus pattern (55 bp):
CCGTGGGTGAACCTGCCAAAACAACACGGGCGTACAACACACCCGTGCCAAGAAA
Found at i:31036257 original size:33 final size:33
Alignment explanation
Indices: 31036219--31036281 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
31036209 TTTTTCTAGT
31036219 TAGGCAATTTTTCAATTCAATCTCAATTCTTGC
1 TAGGCAATTTTTCAATTCAATCTCAATTCTTGC
*
31036252 TAGGCAATTTTTCAATTCAATCTCGATTCT
1 TAGGCAATTTTTCAATTCAATCTCAATTCT
31036282 AACCCTTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.43
Consensus pattern (33 bp):
TAGGCAATTTTTCAATTCAATCTCAATTCTTGC
Found at i:31039366 original size:27 final size:27
Alignment explanation
Indices: 31039335--31039512 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31039325 TAAATTGTAC
*
31039335 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
31039362 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
31039388 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
31039416 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
31039443 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
31039471 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
31039498 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31039513 GACTTAATAT
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 25 0.19
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:31039396 original size:54 final size:55
Alignment explanation
Indices: 31039335--31039512 Score: 227
Period size: 54 Copynumber: 3.3 Consensus size: 55
31039325 TAAATTGTAC
* **
31039335 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * ** *
31039390 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* *
31039443 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
*
31039498 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31039513 GACTTAATAT
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
53 1 0.01
54 60 0.57
55 45 0.42
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:31047289 original size:27 final size:27
Alignment explanation
Indices: 31047258--31047435 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31047248 TAAATTGTAC
*
31047258 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
31047285 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
31047311 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
31047339 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
31047366 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
31047394 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
31047421 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31047436 GACTTAATAT
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 25 0.19
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:31047319 original size:54 final size:55
Alignment explanation
Indices: 31047258--31047435 Score: 227
Period size: 54 Copynumber: 3.3 Consensus size: 55
31047248 TAAATTGTAC
* **
31047258 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * ** *
31047313 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* *
31047366 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
*
31047421 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31047436 GACTTAATAT
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
53 1 0.01
54 60 0.57
55 45 0.42
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:31049586 original size:26 final size:25
Alignment explanation
Indices: 31049557--31049631 Score: 105
Period size: 26 Copynumber: 2.9 Consensus size: 25
31049547 CAACACACCA
*
31049557 ATATCGCAGCAAAGCTGCCAGTAATC
1 ATATCGCAACAAAGCTGCCAGTAA-C
*
31049583 ATATCGCAACAAAGCTACCAGTAAC
1 ATATCGCAACAAAGCTGCCAGTAAC
*
31049608 AGTAACGCAACAAAGCTGCCAGTA
1 A-TATCGCAACAAAGCTGCCAGTA
31049632 TCAGTATATG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
25 2 0.05
26 42 0.95
ACGTcount: A:0.40, C:0.27, G:0.17, T:0.16
Consensus pattern (25 bp):
ATATCGCAACAAAGCTGCCAGTAAC
Found at i:31049815 original size:27 final size:26
Alignment explanation
Indices: 31049768--31049818 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
31049758 ATAGTACATG
31049768 TTAGTCATTTACCCTCAAGGGGTAAA
1 TTAGTCATTTACCCTCAAGGGGTAAA
**
31049794 TTAGTCATTTTACCCTTTAGGGGTA
1 TTAGTCA-TTTACCCTCAAGGGGTA
31049819 TTTTGGTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (26 bp):
TTAGTCATTTACCCTCAAGGGGTAAA
Found at i:31056460 original size:42 final size:42
Alignment explanation
Indices: 31056394--31056489 Score: 174
Period size: 42 Copynumber: 2.3 Consensus size: 42
31056384 TACAGGGGAC
31056394 ACACGCCCGTGTGGCCCGGCCGTGTGTCTAACACGGCCAAAG
1 ACACGCCCGTGTGGCCCGGCCGTGTGTCTAACACGGCCAAAG
* *
31056436 ACACGCCCGTGTGGCTCGGTCGTGTGTCTAACACGGCCAAAG
1 ACACGCCCGTGTGGCCCGGCCGTGTGTCTAACACGGCCAAAG
31056478 ACACGCCCGTGT
1 ACACGCCCGTGT
31056490 CACAGGCTGT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.19, C:0.34, G:0.30, T:0.17
Consensus pattern (42 bp):
ACACGCCCGTGTGGCCCGGCCGTGTGTCTAACACGGCCAAAG
Found at i:31057851 original size:48 final size:48
Alignment explanation
Indices: 31057789--31057884 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
31057779 TGAAAGTCTT
* *
31057789 GCACCCGAAGTGCCAATATCATGGCCCAAATACAACTCATTGAATCTC
1 GCACCCGAAGTGCCAATATCATGGCCCAAAGACAACTCAATGAATCTC
* * *
31057837 GCACCTGAAGTGCCAATATCATGGCCCAAAGCCAACTTAATGAATCTC
1 GCACCCGAAGTGCCAATATCATGGCCCAAAGACAACTCAATGAATCTC
31057885 CTAATAACAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.21
Consensus pattern (48 bp):
GCACCCGAAGTGCCAATATCATGGCCCAAAGACAACTCAATGAATCTC
Found at i:31060746 original size:19 final size:18
Alignment explanation
Indices: 31060722--31060783 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 18
31060712 TTGCATATAG
31060722 TTTTATGTGTTTTTTTTA
1 TTTTATGTGTTTTTTTTA
*
31060740 CTTTTAT-TGTTTTCATGTTA
1 -TTTTATGTGTTTT--TTTTA
*
31060760 TTTTGTGTGTTTATTTTTAA
1 TTTTATGTGTTT-TTTTT-A
31060780 TTTT
1 TTTT
31060784 TCATATTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
18 6 0.17
19 14 0.40
20 14 0.40
21 1 0.03
ACGTcount: A:0.13, C:0.03, G:0.11, T:0.73
Consensus pattern (18 bp):
TTTTATGTGTTTTTTTTA
Found at i:31065431 original size:33 final size:33
Alignment explanation
Indices: 31065389--31065498 Score: 159
Period size: 33 Copynumber: 3.3 Consensus size: 33
31065379 CAGTACAGTT
31065389 CAGTATCAGTTGGGCATTAGCCCATTACAGTAC
1 CAGTATCAGTTGGGCATTAGCCCATTACAGTAC
31065422 CAGTATCAGTTGGGCATTAGCCCATTACAGTAC
1 CAGTATCAGTTGGGCATTAGCCCATTACAGTAC
* * * *
31065455 CAGTATCAATGTGAGCCTTAGCCCAATT-CAGTAA
1 CAGTATCAGT-TGGGCATTAGCCC-ATTACAGTAC
31065489 CAGTATCAGT
1 CAGTATCAGT
31065499 ATCAGTACAA
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
33 42 0.60
34 25 0.36
35 3 0.04
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (33 bp):
CAGTATCAGTTGGGCATTAGCCCATTACAGTAC
Found at i:31072563 original size:46 final size:46
Alignment explanation
Indices: 31072510--31072685 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
31072500 TGGTTGAGCA
31072510 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* *
31072556 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G
* * *
31072601 CATCCGAACTCGTTGAGTTGAGTCCGGGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* *
31072649 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31072686 GCAGGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 6 0.05
45 5 0.05
46 60 0.55
47 28 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:31072666 original size:93 final size:93
Alignment explanation
Indices: 31072507--31072678 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
31072497 AGATGGTTGA
* *
31072507 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
31072572 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
31072600 GCATCCGAACTCGTTGAGTTGAGTCCGGGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
31072664 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
31072679 CTTATGGGCA
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:31077992 original size:40 final size:40
Alignment explanation
Indices: 31077850--31077994 Score: 119
Period size: 40 Copynumber: 3.6 Consensus size: 40
31077840 TACTCGAATG
* * * * * *
31077850 ATATCCAGGCTAAGTCCCGAAGGCTTTTGTGCTAAGAGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCT-AGCGACC
* ** * * * *
31077891 ACATCTAGACTAAGATCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACC
* * * *
31077931 ATATCCGGGCTAGGTCTCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACC
*
31077971 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
31077995 CTTGTGCGAG
Statistics
Matches: 82, Mismatches: 22, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
40 55 0.67
41 27 0.33
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACC
Found at i:31100265 original size:37 final size:35
Alignment explanation
Indices: 31100224--31100334 Score: 105
Period size: 37 Copynumber: 3.0 Consensus size: 35
31100214 TAATCACTCG
* *
31100224 TAAGAGCTAATCCACTCAATAACATGCCAGATGCTCA
1 TAAGAGC-AATCCAC-CAATAACACGCCAAATGCTCA
* * *
31100261 TAAGAGGCAATCCACCTGAGAACACGCCAAATGTTCA
1 TAAGA-GCAATCCACC-AATAACACGCCAAATGCTCA
*
31100298 TAAGAGCCAATCCACCAGATAACACACCAAATTGCTC
1 TAAGAG-CAATCCACCA-ATAACACGCCAAA-TGCTC
31100335 CGAAGAGCTA
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
36 2 0.03
37 52 0.87
38 6 0.10
ACGTcount: A:0.39, C:0.29, G:0.14, T:0.18
Consensus pattern (35 bp):
TAAGAGCAATCCACCAATAACACGCCAAATGCTCA
Found at i:31107166 original size:8 final size:8
Alignment explanation
Indices: 31107153--31107192 Score: 80
Period size: 8 Copynumber: 5.0 Consensus size: 8
31107143 TTATCAACTC
31107153 TTATTATT
1 TTATTATT
31107161 TTATTATT
1 TTATTATT
31107169 TTATTATT
1 TTATTATT
31107177 TTATTATT
1 TTATTATT
31107185 TTATTATT
1 TTATTATT
31107193 CTGAATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TTATTATT
Found at i:31107202 original size:24 final size:24
Alignment explanation
Indices: 31107153--31107203 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
31107143 TTATCAACTC
* *
31107153 TTATTATTTTATTATTTTATTATT
1 TTATTATTTTATTATTTGAATATT
31107177 TTATTATTTTATTATTCTGAAT-TT
1 TTATTATTTTATTATT-TGAATATT
31107201 TTA
1 TTA
31107204 ATAATTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 21 0.88
25 3 0.12
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (24 bp):
TTATTATTTTATTATTTGAATATT
Found at i:31120472 original size:40 final size:40
Alignment explanation
Indices: 31120378--31120598 Score: 255
Period size: 40 Copynumber: 5.5 Consensus size: 40
31120368 TATTCGAATG
* * *
31120378 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACT
* * * * * *
31120419 ATAACTGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-CGACT
* *
31120459 ATATACGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
* *
31120499 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
* * * *
31120539 ATATCCGGGCTAAAACCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
*
31120579 ACATCCGGGCTAAGACCCGA
1 ATATCCGGGCTAAGACCCGA
31120599 GGGCCTTGTG
Statistics
Matches: 155, Mismatches: 23, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 125 0.81
41 29 0.19
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
Found at i:31120663 original size:19 final size:19
Alignment explanation
Indices: 31120639--31120676 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
31120629 AATCCCGAAG
31120639 ATTACTTGAGTTTGGGAAT
1 ATTACTTGAGTTTGGGAAT
31120658 ATTACTTGAGTTTGGGAAT
1 ATTACTTGAGTTTGGGAAT
31120677 GAGCGATCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.26, T:0.42
Consensus pattern (19 bp):
ATTACTTGAGTTTGGGAAT
Found at i:31129662 original size:40 final size:40
Alignment explanation
Indices: 31129568--31129788 Score: 282
Period size: 40 Copynumber: 5.5 Consensus size: 40
31129558 TATTCGAATG
* *
31129568 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * *
31129609 ATAACCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* *
31129649 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
31129689 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
31129729 ATATCCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
31129769 ACATCCGGGCTAAGACCCGA
1 ATATCCGGGCTAAGACCCGA
31129789 GGGCCTTGTG
Statistics
Matches: 157, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 126 0.80
41 30 0.19
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:31129748 original size:80 final size:80
Alignment explanation
Indices: 31129568--31129828 Score: 287
Period size: 80 Copynumber: 3.3 Consensus size: 80
31129558 TATTCGAATG
* * * * *
31129568 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
31129633 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTCGCT
* * *
31129649 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
31129714 TTTGTGCTAG-CGATT
66 TTTGTGCGAGTCG-CT
* * * * *
31129729 ATATCCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAGGGC-
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * * *
31129793 CTTGTGCAAGTAGTT
66 TTTGTGCGAGTCGCT
31129808 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
31129829 ATTACTTGAG
Statistics
Matches: 154, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
78 13 0.08
79 17 0.11
80 92 0.60
81 32 0.21
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTCGCT
Found at i:31129785 original size:120 final size:120
Alignment explanation
Indices: 31129568--31129828 Score: 314
Period size: 120 Copynumber: 2.2 Consensus size: 120
31129558 TATTCGAATG
* * * *
31129568 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGACCCGAAGGC
* * * * *
31129633 ATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
66 ATTTATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAG-GAGTT
* * * * *
31129689 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGATTATATCCGGGCTAAGCCCCGAAGGC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGACCCGAAGGC
* * *
31129753 ATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAGGGCCTTGTGCAAGTAGTT
66 ATTTATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
31129808 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAATCCCGAAG
31129829 ATTACTTGAG
Statistics
Matches: 120, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
118 15 0.12
119 18 0.15
120 56 0.47
121 31 0.26
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (120 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGACCCGAAGGC
ATTTATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
Found at i:31131437 original size:47 final size:47
Alignment explanation
Indices: 31131368--31131582 Score: 175
Period size: 47 Copynumber: 4.5 Consensus size: 47
31131358 ATTGACGGAA
* * * *
31131368 AAGACCATGGTTGGAGC-ATGGCAAC-ATGTGATATGTGATTTCCATAT
1 AAGACCATAGCTGG-GCTATGGCAACGATGTGATATGTG-CTTCCGTAT
*
31131415 AAGACCATAGCTGGGCTATGGCATCGGAGAGATGTGATTATGTGCTTCCGTAT
1 AAGACCATAGCTGGGCTATGGCA----A-CGATGTGA-TATGTGCTTCCGTAT
* * * * * *
31131468 AAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTACTGTAT
1 AAGACCATAGCTGGGCTATGGCAACGATGTGATATGTGCTTCCGTAT
* * * * * *
31131515 AAGACCATATCTGGGATATGGCATCGGTGTGATATGTG-ATCCGTGT
1 AAGACCATAGCTGGGCTATGGCAACGATGTGATATGTGCTTCCGTAT
*
31131561 AAGACCATGGCTGGGCTATGGC
1 AAGACCATAGCTGGGCTATGGC
31131583 TTCGGTGTGT
Statistics
Matches: 141, Mismatches: 19, Indels: 17
0.80 0.11 0.10
Matches are distributed among these distances:
46 25 0.18
47 69 0.49
48 6 0.04
51 1 0.01
53 34 0.24
54 6 0.04
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (47 bp):
AAGACCATAGCTGGGCTATGGCAACGATGTGATATGTGCTTCCGTAT
Found at i:31131473 original size:53 final size:47
Alignment explanation
Indices: 31131394--31131600 Score: 218
Period size: 47 Copynumber: 4.2 Consensus size: 47
31131384 CATGGCAACA
* * *
31131394 TGTGATATGTGATTTCCATATAAGACCATAGCTGGGCTATGGCATCGGAGAG
1 TGTGATATGTG-CTTCCGTATAAGACCATAGCTGGGATATGGCATC---G-G
*
31131446 ATGTGATTATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
1 -TGTGA-TATGTGCTTCCGTATAAGACCATAGCTGGGATATGGCATCGG
* * *
31131495 TGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATCGG
1 TGTGATATGTGCTTCCGTATAAGACCATAGCTGGGATATGGCATCGG
* * * * *
31131542 TGTGATATGTG-ATCCGTGTAAGACCATGGCTGGGCTATGGCTTCGGTG
1 TGTGATATGTGCTTCCGTATAAGACCATAGCTGGGATATGGCATC-G-G
31131590 TGTGATATGTG
1 TGTGATATGTG
31131601 ACTATTTGCA
Statistics
Matches: 137, Mismatches: 14, Indels: 11
0.85 0.09 0.07
Matches are distributed among these distances:
46 25 0.18
47 52 0.38
48 17 0.12
49 1 0.01
50 1 0.01
53 35 0.26
54 6 0.04
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (47 bp):
TGTGATATGTGCTTCCGTATAAGACCATAGCTGGGATATGGCATCGG
Found at i:31131590 original size:93 final size:100
Alignment explanation
Indices: 31131412--31131600 Score: 239
Period size: 93 Copynumber: 1.9 Consensus size: 100
31131402 GTGATTTCCA
* *
31131412 TATAAGACCATAGCTGGGCTATGGCATCGGAGAGATGTGATTATGTGCTTCCGTATAAGACCATA
1 TATAAGACCATAGCTGGGATATGGCATC-G-GAGATGTGATTATGTGCATCCGTATAAGACCATA
*
31131477 TCTGGGATATGGCATC-G-GTGTGATATGTGCTACTG
64 GCTGGGATATGGCATCGGTGTGTGATATGTGCTACTG
* * *
31131512 TATAAGACCATATCTGGGATATGGCATC-G-G-TGTGA-TATGTG-ATCCGTGTAAGACCATGGC
1 TATAAGACCATAGCTGGGATATGGCATCGGAGATGTGATTATGTGCATCCGTATAAGACCATAGC
* *
31131572 TGGGCTATGGCTTCGGTGTGTGATATGTG
66 TGGGATATGGCATCGGTGTGTGATATGTG
31131601 ACTATTTGCA
Statistics
Matches: 79, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
93 27 0.34
94 7 0.09
95 17 0.22
96 1 0.01
97 1 0.01
100 26 0.33
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (100 bp):
TATAAGACCATAGCTGGGATATGGCATCGGAGATGTGATTATGTGCATCCGTATAAGACCATAGC
TGGGATATGGCATCGGTGTGTGATATGTGCTACTG
Found at i:31142897 original size:16 final size:16
Alignment explanation
Indices: 31142876--31142924 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
31142866 TGTAATTTGT
31142876 AATGAATATGAAATTA
1 AATGAATATGAAATTA
31142892 AATGAA-ATG---TTA
1 AATGAATATGAAATTA
* *
31142904 AATGAATATAAAATGA
1 AATGAATATGAAATTA
31142920 AATGA
1 AATGA
31142925 TGATTATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
12 9 0.33
13 2 0.07
15 3 0.11
16 13 0.48
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (16 bp):
AATGAATATGAAATTA
Found at i:31143059 original size:22 final size:22
Alignment explanation
Indices: 31143053--31143128 Score: 77
Period size: 22 Copynumber: 3.4 Consensus size: 22
31143043 AATGTAAACG
31143053 AAATGAAATGAAATGAAAATAC
1 AAATGAAATGAAATGAAAATAC
*
31143075 AAATGAAATGAACAAGAAGAA-AC
1 AAATGAAATGAA-ATGAA-AATAC
31143098 GAAATGCAAATGAAAT-ATAAATA-
1 -AAATG-AAATGAAATGA-AAATAC
31143121 AAATGAAA
1 AAATGAAA
31143129 AAACAATTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
21 3 0.07
22 17 0.37
23 9 0.20
24 10 0.22
25 7 0.15
ACGTcount: A:0.64, C:0.05, G:0.14, T:0.16
Consensus pattern (22 bp):
AAATGAAATGAAATGAAAATAC
Found at i:31143062 original size:5 final size:5
Alignment explanation
Indices: 31143033--31143128 Score: 61
Period size: 5 Copynumber: 18.2 Consensus size: 5
31143023 AATAATTTAG
* *
31143033 ATGAA ATGTAA ATGTAA ACGAA ATGAA ATGAA ATGAAA ATACAA ATGAA
1 ATGAA ATG-AA ATG-AA ATGAA ATGAA ATGAA ATG-AA AT-GAA ATGAA
* * * *
31143082 ATGAA CAAG-A A-GAA ACGAA ATGCAA ATGAA ATATAA ATAAA ATGAA
1 ATGAA -ATGAA ATGAA ATGAA ATG-AA ATGAA AT-GAA ATGAA ATGAA
31143128 A
1 A
31143129 AAACAATTGA
Statistics
Matches: 74, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
3 1 0.01
4 3 0.04
5 41 0.55
6 29 0.39
ACGTcount: A:0.61, C:0.05, G:0.16, T:0.18
Consensus pattern (5 bp):
ATGAA
Found at i:31143072 original size:11 final size:11
Alignment explanation
Indices: 31143036--31143129 Score: 50
Period size: 11 Copynumber: 8.3 Consensus size: 11
31143026 AATTTAGATG
*
31143036 AAATGTAAATGT
1 AAATG-AAATGA
*
31143048 AAACGAAATG-
1 AAATGAAATGA
31143058 AAATGAAATGA
1 AAATGAAATGA
*
31143069 AAATACAAATG-
1 AAAT-GAAATGA
*
31143080 AAATGAACAAGAA
1 AAATGAA-ATG-A
* *
31143093 GAAACGAAATGC
1 -AAATGAAATGA
31143105 AAATGAAAT-A
1 AAATGAAATGA
*
31143115 TAAATAAAATGA
1 -AAATGAAATGA
31143127 AAA
1 AAA
31143130 AACAATTGAA
Statistics
Matches: 63, Mismatches: 11, Indels: 17
0.69 0.12 0.19
Matches are distributed among these distances:
10 11 0.17
11 34 0.54
12 10 0.16
13 2 0.03
14 6 0.10
ACGTcount: A:0.63, C:0.05, G:0.15, T:0.17
Consensus pattern (11 bp):
AAATGAAATGA
Found at i:31143072 original size:27 final size:27
Alignment explanation
Indices: 31143033--31143086 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
31143023 AATAATTTAG
* **
31143033 ATGAAATGTAAATGTAAACGAAATGAA
1 ATGAAATGAAAATACAAACGAAATGAA
*
31143060 ATGAAATGAAAATACAAATGAAATGAA
1 ATGAAATGAAAATACAAACGAAATGAA
31143087 CAAGAAGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.59, C:0.04, G:0.17, T:0.20
Consensus pattern (27 bp):
ATGAAATGAAAATACAAACGAAATGAA
Found at i:31144534 original size:89 final size:90
Alignment explanation
Indices: 31144312--31144721 Score: 327
Period size: 91 Copynumber: 4.6 Consensus size: 90
31144302 AGTACACGAC
* * * * *
31144312 AAATTAAATTTACAGACACAATAAAATACAAATATTCT-ACAATATTAATACA-AAAAATATAAA
1 AAATTAAATTTACAGATACAAAAAAATACAAATATTCTAAAAAAATTAATACACGAAAATATAAA
* *
31144375 ATTCAAACAAAAAT-A-AAATGC-ACT
66 AATCAAACATAAATCATAAA--CAACT
* * * ** * * * * * * * *
31144399 AAGTTAAATTTAAACACCCAACAAACTACAAACAGAT-GAGAAAAATTAATACACGAAAATTTTA
1 AAATTAAATTTACAGATACAAAAAAATACAAATA-TTCTAAAAAAATTAATACACGAAAATATAA
* * *
31144463 AATTCAAAC-TACAT-ATAATACGAATT
65 AAATCAAACATAAATCATAA-AC-AACT
* *
31144489 AAATTAAATTTACAGATACAAAAAAATACAAATATTCT-AAGAAATTAATACATGAAAATATAAA
1 AAATTAAATTTACAGATACAAAAAAATACAAATATTCTAAAAAAATTAATACACGAAAATATAAA
* *
31144553 AATGAAACATTAAATCCTAAACAACT
66 AATCAAACA-TAAATCATAAACAACT
* * *
31144579 ATATTAAATTTACATATATAAAAAAATACAAATATTCTAAAAAAATTAATACACGAAAATATAAA
1 AAATTAAATTTACAGATACAAAAAAATACAAATATTCTAAAAAAATTAATACACGAAAATATAAA
* * * * *
31144644 AATGATACCTTAATTCCTAAACAACT
66 AATCA-AACATAAATCATAAACAACT
* * * * *
31144670 ATATTAAATTTATAGATATAAAAAAATACAAACATTCTAAATAAA-TAATACA
1 AAATTAAATTTACAGATACAAAAAAATACAAATATTCTAAAAAAATTAATACA
31144722 ATTATTTTGA
Statistics
Matches: 260, Mismatches: 50, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
87 27 0.10
88 17 0.07
89 46 0.18
90 74 0.28
91 91 0.35
92 5 0.02
ACGTcount: A:0.57, C:0.12, G:0.04, T:0.27
Consensus pattern (90 bp):
AAATTAAATTTACAGATACAAAAAAATACAAATATTCTAAAAAAATTAATACACGAAAATATAAA
AATCAAACATAAATCATAAACAACT
Found at i:31144648 original size:91 final size:91
Alignment explanation
Indices: 31144491--31144721 Score: 358
Period size: 91 Copynumber: 2.6 Consensus size: 91
31144481 TACGAATTAA
* * *
31144491 ATTAAATTTACAGATACAAAAAAATACAAATATTCT-AAGAAATTAATACATGAAAATATAAAAA
1 ATTAAATTTACAGATATAAAAAAATACAAATATTCTAAAAAAATTAATACACGAAAATATAAAAA
31144555 TGAAACATTAAATCCTAAACAACTAT
66 TGAAACATTAAATCCTAAACAACTAT
*
31144581 ATTAAATTTACATATATAAAAAAATACAAATATTCTAAAAAAATTAATACACGAAAATATAAAAA
1 ATTAAATTTACAGATATAAAAAAATACAAATATTCTAAAAAAATTAATACACGAAAATATAAAAA
* * *
31144646 TGATACCTTAATTCCTAAACAACTAT
66 TGAAACATTAAATCCTAAACAACTAT
* * *
31144672 ATTAAATTTATAGATATAAAAAAATACAAACATTCTAAATAAA-TAATACA
1 ATTAAATTTACAGATATAAAAAAATACAAATATTCTAAAAAAATTAATACA
31144722 ATTATTTTGA
Statistics
Matches: 129, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
90 41 0.32
91 88 0.68
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.29
Consensus pattern (91 bp):
ATTAAATTTACAGATATAAAAAAATACAAATATTCTAAAAAAATTAATACACGAAAATATAAAAA
TGAAACATTAAATCCTAAACAACTAT
Found at i:31150838 original size:40 final size:40
Alignment explanation
Indices: 31150794--31151025 Score: 297
Period size: 40 Copynumber: 5.8 Consensus size: 40
31150784 ATAACCACAA
*
31150794 GCACAAATGCCCTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
31150834 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
31150874 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
31150914 GCACAATTGCCTTCGGGTCTTATCCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * * *
31150954 GCACAAATGCCTTCGGGTCTTGGCCCAGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
31150994 GCACGATTGCCTTCGGGACTTAGCCCAGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
31151026 CATTCAAATG
Statistics
Matches: 167, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.02
40 156 0.93
41 7 0.04
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:31150897 original size:80 final size:80
Alignment explanation
Indices: 31150794--31151025 Score: 340
Period size: 80 Copynumber: 2.9 Consensus size: 80
31150784 ATAACCACAA
* * * *
31150794 GCACAAATGCCCTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCACAATTGCCTTCGGGTCTTAGC
*
31150858 CCGGATATATCAACTC
65 CCGGATATAGCAACTC
*
31150874 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTATCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCC
*
31150939 CGGGTATAGCAACTC
66 CGGATATAGCAACTC
* * * *
31150954 GCACAAATGCCTTCGGGTCTTGGCCCAGATAAAATCACTAGCACGATTGCCTTCGGGACTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCC
*
31151019 CAGATAT
66 CGGATAT
31151026 CATTCAAATG
Statistics
Matches: 137, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
80 133 0.97
81 4 0.03
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCC
CGGATATAGCAACTC
Found at i:31151005 original size:120 final size:120
Alignment explanation
Indices: 31150765--31151024 Score: 335
Period size: 120 Copynumber: 2.2 Consensus size: 120
31150755 ACCCAAGTTT
* * * *
31150765 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAAATGCCCTCGGGTCTTAGCCCGGATATATC
1 CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCCTCGGGTCTTAGCCCGGATATAGC
* * *
31150829 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGC
66 AACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATAAATCAACTAGCACAAATGC
* * * * * * *
31150884 CTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTATCCCGGGTATAGC
1 CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCCTCGGGTCTTAGCCCGGATATAGC
* * *
31150949 AACTCGCACAAATGCCTTCGGGTCTTGGCCCAGATAAAATC-ACTAGCACGATTGC
66 AACTCGCACAAATGCCTTCGGGTCTTAGCCCAGAT-AAATCAACTAGCACAAATGC
*
31151004 CTTCGGGACTTAGCCCAGATA
1 CTTCGGGACTTAGCCCGGATA
31151025 TCATTCAAAT
Statistics
Matches: 120, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
119 10 0.08
120 106 0.88
121 4 0.03
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (120 bp):
CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCCTCGGGTCTTAGCCCGGATATAGC
AACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATAAATCAACTAGCACAAATGC
Found at i:31164114 original size:42 final size:42
Alignment explanation
Indices: 31163999--31164114 Score: 119
Period size: 42 Copynumber: 2.8 Consensus size: 42
31163989 AGGTTATTAA
* *
31163999 GATTCCATATAAGACCATATCCA-GGATATGGCCTCGGTATGT
1 GATTTCATATAAGACCATAT-CAGGGATATGGCCTCGATATGT
* * * * *
31164041 GATTTCGTATAAGACCATGTCGGGGACATGGCGTCGATATGAT
1 GATTTCATATAAGACCATATCAGGGATATGGCCTCGATATG-T
* *
31164084 -ATTTCATGTAAGACCATATAAGGGATATGGC
1 GATTTCATATAAGACCATATCAGGGATATGGC
31164115 ATTGAAACGA
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
41 1 0.02
42 57 0.97
43 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.28
Consensus pattern (42 bp):
GATTTCATATAAGACCATATCAGGGATATGGCCTCGATATGT
Found at i:31165569 original size:23 final size:25
Alignment explanation
Indices: 31165543--31165589 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
31165533 TATCATTCAT
*
31165543 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
31165566 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
31165590 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:31165910 original size:46 final size:46
Alignment explanation
Indices: 31165850--31166115 Score: 352
Period size: 46 Copynumber: 6.0 Consensus size: 46
31165840 TTTGACGTGA
* * * * * *
31165850 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
31165896 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
31165942 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
31165988 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
31166034 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
31166072 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
31166116 AGAGCACACT
Statistics
Matches: 198, Mismatches: 13, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
38 33 0.17
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 151 0.76
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:31166080 original size:38 final size:38
Alignment explanation
Indices: 31166029--31166104 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
31166019 CATTTCATAT
31166029 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
31166067 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
31166105 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:31175499 original size:16 final size:16
Alignment explanation
Indices: 31175480--31175510 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31175470 CTTCTTCACT
31175480 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
31175496 TACTTACTTACTTAA
1 TACTCACTTACTTAA
31175511 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:31175516 original size:20 final size:20
Alignment explanation
Indices: 31175477--31175516 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
31175467 AAACTTCTTC
* *
31175477 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
31175497 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
31175517 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:31175627 original size:23 final size:24
Alignment explanation
Indices: 31175589--31175633 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
31175579 TTTGCTCTTC
*
31175589 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
31175613 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
31175634 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:31175831 original size:53 final size:53
Alignment explanation
Indices: 31175702--31175956 Score: 236
Period size: 55 Copynumber: 4.8 Consensus size: 53
31175692 ACACGGGTAC
* * *
31175702 CTTACC-ATAGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TTA-AAA
1 CTTACCAAT-GCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
*
31175751 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * * * *
31175804 CTCACTAATGCCATGTCTTGGCATGGTCTTACATGGGA-CCTTTGCTTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGC-CT-TAGAAA
* * * *
31175859 CTTATCAATGCCATGTCTTGACATGGTCTTAAATGATTTCCTTGCCTTAGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * * *
31175912 CCTTACCAATTTCCATGCCTTGGCATCGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGTATCCTT
31175957 AAACCCTAAT
Statistics
Matches: 165, Mismatches: 28, Indels: 20
0.77 0.13 0.09
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 5 0.03
53 44 0.27
54 10 0.06
55 66 0.40
56 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.37
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:31175901 original size:108 final size:110
Alignment explanation
Indices: 31175749--31175949 Score: 282
Period size: 108 Copynumber: 1.8 Consensus size: 110
31175739 ATCCTTTTAA
* * * *
31175749 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACTAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTAAATGATATCCTTGCCTTA-GAAACCTCACCAA
* *
31175812 -TGCCATGTCTTGGCATGGTCTTACATGGGACCTTTGCTTTATAGT
65 TTGCCATGCCTTGGCATCGTCTTACATGGGACCTTTGCTTTATAGT
* * *
31175857 AACTTATCAATGCCATGTCTTGACATGGTCTTAAATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTAAATGATATCCTTGCCTTAGAAACCTCACCAAT
*
31175922 TTCCATGCCTTGGCATCGTCTTACATGG
66 TGCCATGCCTTGGCATCGTCTTACATGG
31175950 TATCCTTAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.60
109 6 0.08
110 25 0.31
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTAAATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATCGTCTTACATGGGACCTTTGCTTTATAGT
Found at i:31177481 original size:93 final size:93
Alignment explanation
Indices: 31177348--31177518 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
31177338 GCCCCTAAGT
* * * *
31177348 GAACTCGGACTCAACTCAATGAGCTTGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
31177413 TGAGTTTGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
31177441 GAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTT-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
31177505 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
31177519 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:31177512 original size:46 final size:46
Alignment explanation
Indices: 31177343--31177515 Score: 176
Period size: 46 Copynumber: 3.7 Consensus size: 46
31177333 AACCCGCCCC
* * * *
31177343 TAAGTGAACTCGGACTCAACTCAATGAGCTT-GGGCGTTCGTATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCA
* * *
31177389 TAAGTGAACTCGGACTCAACTCAATGAGTTTGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
31177437 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
31177482 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
31177516 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 59 0.56
47 27 0.25
48 2 0.02
49 2 0.02
50 2 0.02
51 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:31177534 original size:46 final size:44
Alignment explanation
Indices: 31177391--31177534 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 44
31177381 CGTATCCATA
* *
31177391 AGTGAACTCGGACTCAACTCAATGAGTTTGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
31177438 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
31177484 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
31177530 AGTGA
1 AGTGA
31177535 CATGTCACTT
Statistics
Matches: 78, Mismatches: 11, Indels: 16
0.74 0.10 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 33 0.42
47 29 0.37
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:31177972 original size:30 final size:30
Alignment explanation
Indices: 31177938--31177997 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
31177928 ATTTAATACG
31177938 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
31177968 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
31177998 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:31180131 original size:44 final size:44
Alignment explanation
Indices: 31180082--31180168 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
31180072 GGATGAACCG
31180082 CCAAACAAACATTATGTGCTTCATGCAAAATATTTTGAATCAAA
1 CCAAACAAACATTATGTGCTTCATGCAAAATATTTTGAATCAAA
* *
31180126 CCAAACAACCATTATGTGCTTCATGCAAAATCTTTTGAATCAA
1 CCAAACAAACATTATGTGCTTCATGCAAAATATTTTGAATCAA
31180169 CTCATCATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (44 bp):
CCAAACAAACATTATGTGCTTCATGCAAAATATTTTGAATCAAA
Found at i:31185079 original size:93 final size:93
Alignment explanation
Indices: 31184967--31185137 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
31184957 GCCCCTAAAT
*
31184967 GAACTCGGACTCAACTCAACGAGCTT-GGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
31185031 ACAAGTTCGGATGCCTAGTTACATCTCAC
65 ACAAGTTCGGATGCCTAGTTACATCTCAC
*
31185060 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
31185125 CGAGTTCGGATGC
66 CAAGTTCGGATGC
31185138 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGTTCGGATGCCTAGTTACATCTCAC
Found at i:31185126 original size:46 final size:46
Alignment explanation
Indices: 31184966--31185134 Score: 202
Period size: 46 Copynumber: 3.7 Consensus size: 46
31184956 CGCCCCTAAA
* *
31184966 TGAACTCGGACTCAACTCAACGAGCTT-GGGCATTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAG-TTCGGACATTTGCATCCATAAG
* * * *
31185012 TGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTTACAT-C-TCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCATAAG
*
31185059 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
31185105 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
31185135 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 54 0.52
47 28 0.27
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
Found at i:31185591 original size:30 final size:30
Alignment explanation
Indices: 31185557--31185616 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
31185547 ATTTAATACG
31185557 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
31185587 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
31185617 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:31189295 original size:48 final size:48
Alignment explanation
Indices: 31189228--31189341 Score: 124
Period size: 48 Copynumber: 2.3 Consensus size: 48
31189218 ACACGGGTAG
* * * *
31189228 ACCACACGCCCGTGTCTATTTAACAGATTGT-AACATGACCTAAGCCAC
1 ACCACACG-GCGTGTCTATTTAACAGACTCTAAACACGACCTAAGCCAC
* *
31189276 ACCACACGGTCGTGTCTATTTAGCAGACTCTAAACACGGCCTAAGCCAC
1 ACCACACGG-CGTGTCTATTTAACAGACTCTAAACACGACCTAAGCCAC
31189325 -CTCACACAGGCGTGTCT
1 AC-CACAC-GGCGTGTCT
31189342 CTGTCGAGCC
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
48 27 0.48
49 27 0.48
50 2 0.04
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (48 bp):
ACCACACGGCGTGTCTATTTAACAGACTCTAAACACGACCTAAGCCAC
Found at i:31189331 original size:49 final size:48
Alignment explanation
Indices: 31189238--31189341 Score: 122
Period size: 49 Copynumber: 2.1 Consensus size: 48
31189228 ACCACACGCC
* * *
31189238 CGTGTCTATTTAACAGATTGTAACATGACCTAAGCCACACCACAC-GG
1 CGTGTCTATTTAACAGACTCTAACACGACCTAAGCCACACCACACAGG
* *
31189285 TCGTGTCTATTTAGCAGACTCTAAACACGGCCTAAGCCAC-CTCACACAGG
1 -CGTGTCTATTTAACAGACTCT-AACACGACCTAAGCCACAC-CACACAGG
31189335 CGTGTCT
1 CGTGTCT
31189342 CTGTCGAGCC
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
48 19 0.40
49 27 0.56
50 2 0.04
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (48 bp):
CGTGTCTATTTAACAGACTCTAACACGACCTAAGCCACACCACACAGG
Found at i:31193390 original size:29 final size:29
Alignment explanation
Indices: 31193356--31193415 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
31193346 GCTTATTTTA
*
31193356 GCTCATACCACGGGCAGCGACATAGCCGT
1 GCTCATACCACGGGCAGCGACACAGCCGT
*
31193385 GCTCATACCACGGGCGGCGACACAGCCGT
1 GCTCATACCACGGGCAGCGACACAGCCGT
31193414 GC
1 GC
31193416 GATATGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.22, C:0.37, G:0.30, T:0.12
Consensus pattern (29 bp):
GCTCATACCACGGGCAGCGACACAGCCGT
Found at i:31199240 original size:22 final size:22
Alignment explanation
Indices: 31199214--31199258 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
31199204 ATTTCAACAC
31199214 AAATAT-AATCGCATACATATCA
1 AAATATCAATCGCA-ACATATCA
* *
31199236 AAATATCGATCTCAACATATCA
1 AAATATCAATCGCAACATATCA
31199258 A
1 A
31199259 TCATCATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.49, C:0.20, G:0.04, T:0.27
Consensus pattern (22 bp):
AAATATCAATCGCAACATATCA
Found at i:31204216 original size:5 final size:5
Alignment explanation
Indices: 31204206--31204231 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
31204196 ATCATTTTTA
31204206 TTATT TTATT TTATT TTATT TTATT T
1 TTATT TTATT TTATT TTATT TTATT T
31204232 GTTAGTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:31207586 original size:21 final size:21
Alignment explanation
Indices: 31207534--31207578 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
31207524 ATAAGATTGA
31207534 CTAATTACAATAATTACTTGG
1 CTAATTACAATAATTACTTGG
31207555 CTAATTACAATAATTACTTGG
1 CTAATTACAATAATTACTTGG
31207576 CTA
1 CTA
31207579 GTTTCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (21 bp):
CTAATTACAATAATTACTTGG
Found at i:31209631 original size:93 final size:93
Alignment explanation
Indices: 31209472--31209643 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
31209462 CGCCCATAAG
* *
31209472 CGAACTCAGACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAGGTGAACTCAGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCAGACTCAACTCA
31209537 ACGAGTTCGGATGCCTAGTTGCATTTCA
66 ACGAGTTCGGATGCCTAGTTGCATTTCA
* * *
31209565 CGAACTCGGACTCAACTCAACGAGTTCG-GACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCAGACTCAACTCAACGAGCTCGAG-CATTCGCATCCATAAGTGAACTCAGACTCAACTC
31209629 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
31209644 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTGCATTTCA
Found at i:31209639 original size:46 final size:47
Alignment explanation
Indices: 31209465--31209640 Score: 193
Period size: 46 Copynumber: 3.8 Consensus size: 47
31209455 TGTAACCCGC
* *
31209465 CCATAAGCGAACTCAGACTCAACTCAACGAGCTC-GAGCGTTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGAGCATTCGCAT
* *
31209511 CCATAGGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-GCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCAT
* * *
31209561 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGAGCATTCGCAT
* *
31209604 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGA
31209641 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 1 0.01
45 2 0.02
46 60 0.55
47 30 0.28
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (47 bp):
CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGAGCATTCGCAT
Found at i:31212030 original size:14 final size:14
Alignment explanation
Indices: 31212011--31212070 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
31212001 CAAAGATAAC
31212011 AAGAAAACCGAATA
1 AAGAAAACCGAATA
* *
31212025 AAGAAATCC-AAGA
1 AAGAAAACCGAATA
*
31212038 TAGAGAAACCGAATA
1 AAGA-AAACCGAATA
*
31212053 AA-AAATCCAGAATA
1 AAGAAAACC-GAATA
31212067 AAGA
1 AAGA
31212071 GATCCAGGAT
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
13 10 0.29
14 20 0.57
15 5 0.14
ACGTcount: A:0.62, C:0.13, G:0.15, T:0.10
Consensus pattern (14 bp):
AAGAAAACCGAATA
Found at i:31212077 original size:15 final size:15
Alignment explanation
Indices: 31212011--31212087 Score: 74
Period size: 15 Copynumber: 5.4 Consensus size: 15
31212001 CAAAGATAAC
*
31212011 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
31212025 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
31212040 GAGAAA-CC-GAATA
1 AAGAAATCCAGAATA
31212053 AA-AAATCCAGAATA
1 AAGAAATCCAGAATA
* *
31212067 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
31212082 AAGAAA
1 AAGAAA
31212088 CCCAAGATAC
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
12 3 0.06
13 6 0.12
14 19 0.37
15 23 0.45
ACGTcount: A:0.60, C:0.13, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:31212096 original size:15 final size:15
Alignment explanation
Indices: 31212022--31212096 Score: 68
Period size: 15 Copynumber: 5.2 Consensus size: 15
31212012 AGAAAACCGA
31212022 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
31212037 ATAGAGAAA-CCGA-
1 ATAAAGAAATCCAAG
31212050 ATAAA-AAATCC-AG
1 ATAAAGAAATCCAAG
* *
31212063 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
31212079 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
31212094 ATA
1 ATA
31212097 CGATACTATG
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
12 4 0.09
13 6 0.13
14 8 0.17
15 28 0.60
16 1 0.02
ACGTcount: A:0.57, C:0.15, G:0.16, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:31215150 original size:93 final size:91
Alignment explanation
Indices: 31214992--31215161 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 91
31214982 CGCCCATAAG
*
31214992 CGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAGTGAACTCGGACTCAACTCAAC
1 CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAGTGAACTCGGACTCAACTCAAC
31215057 GAGTTCGGATGCCTAGTTACATTTCA
66 GAGTTCGGATGCCTAGTTACATTTCA
*
31215083 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCAT-AGTGAACTCGGACTCAACTCA
31215148 ACGAGTTCGGATGC
64 ACGAGTTCGGATGC
31215162 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
91 28 0.37
92 12 0.16
93 35 0.47
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (91 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCA
Found at i:31215177 original size:46 final size:45
Alignment explanation
Indices: 31214993--31215177 Score: 148
Period size: 44 Copynumber: 4.0 Consensus size: 45
31214983 GCCCATAAGC
* * * * *
31214993 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCA--TAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCATCTAGT
* *
31215037 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AGT
* * * *
31215084 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCTAGT
31215130 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAGT
31215176 GA
1 GA
31215178 CATGTCACTT
Statistics
Matches: 114, Mismatches: 13, Indels: 26
0.75 0.08 0.17
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
44 36 0.32
45 3 0.03
46 33 0.29
47 32 0.28
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAGT
Found at i:31221661 original size:44 final size:42
Alignment explanation
Indices: 31221579--31221707 Score: 134
Period size: 42 Copynumber: 3.0 Consensus size: 42
31221569 AGGATTTCTG
* * * * *
31221579 ATATGTGATATCGTGTAAGACCACGTCTGGGACGTTGGCATC
1 ATATCTGATTTCGTGTAAGACCATGTCTAGGACATTGGCATC
* *
31221621 GACT-TTTGTTTTACGTGTAAGACCATGTCTAGGACATTGGCATC
1 -A-TATCTGATTT-CGTGTAAGACCATGTCTAGGACATTGGCATC
* * *
31221665 ATATCTGATTTCGTATAAGACCCTGTCTAGGACAGTGGCATC
1 ATATCTGATTTCGTGTAAGACCATGTCTAGGACATTGGCATC
31221707 A
1 A
31221708 ATGTTTGATT
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
42 30 0.42
43 13 0.18
44 29 0.40
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (42 bp):
ATATCTGATTTCGTGTAAGACCATGTCTAGGACATTGGCATC
Found at i:31225238 original size:15 final size:15
Alignment explanation
Indices: 31225218--31225270 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
31225208 GTATCTTGGG
31225218 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
31225233 TTTCTTTATTATGGG
1 TTTCTTTATTCTGGA
* *
31225248 TTTCTCTA-TCTTGAA
1 TTTCTTTATTC-TGGA
31225263 TTTCTTTA
1 TTTCTTTA
31225271 CTTGGTTTTC
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
14 1 0.03
15 29 0.97
ACGTcount: A:0.15, C:0.13, G:0.11, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Done.