Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 100 of 425
Found at i:28921650 original size:93 final size:92
Alignment explanation
Indices: 28921483--28921652 Score: 304
Period size: 92 Copynumber: 1.8 Consensus size: 92
28921473 GCCCATAAGT
* *
28921483 GAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCATCCATAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAAC
28921548 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
28921575 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCAA
28921640 CGAGTTCGGATGC
65 CGAGTTCGGATGC
28921653 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 39 0.53
93 35 0.47
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:28922105 original size:30 final size:30
Alignment explanation
Indices: 28922071--28922130 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
28922061 ATTTAATACG
28922071 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
28922101 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
28922131 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:28935107 original size:15 final size:15
Alignment explanation
Indices: 28935075--28935103 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
28935065 ATTTTCTATG
28935075 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
28935090 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
28935104 ATTTTCATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:28935356 original size:27 final size:27
Alignment explanation
Indices: 28935299--28935356 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
28935289 TGTTTTATAT
*
28935299 TATATAATAAAGGTTAAATAGGTAAAT
1 TATATAATAAAGGTTAAATAGGTAAAA
*
28935326 TATATAAT-AA-GTTAATATATGTTAAAA
1 TATATAATAAAGGTTAA-ATA-GGTAAAA
28935353 TATA
1 TATA
28935357 ACATAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 5 0.19
26 5 0.19
27 17 0.63
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (27 bp):
TATATAATAAAGGTTAAATAGGTAAAA
Found at i:28935639 original size:15 final size:15
Alignment explanation
Indices: 28935621--28935651 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
28935611 AAATATGAAA
28935621 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
28935636 GATATGTTTTGTATT
1 GATATGTTTTGGATT
28935651 G
1 G
28935652 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:28936262 original size:45 final size:42
Alignment explanation
Indices: 28936213--28936362 Score: 133
Period size: 45 Copynumber: 3.5 Consensus size: 42
28936203 TGTATTTGCC
*
28936213 TGTAAGACCACATCTGGGATGTTGGCATAGATATATGTGGTTACG
1 TGTAAGACCACGTCTGGGA-GTT-GCATA-ATATATGTGGTTACG
* ** * * * *
28936258 TGTAAGACCATGTCTGGGACAT-CAAAATTGTATTTGATT-CG
1 TGTAAGACCACGTCTGGGAGTTGCATAA-TATATGTGGTTACG
28936299 TGTAAGACCACGTCTGGGACGTTGTCATCAATATATGTGGTTACG
1 TGTAAGACCACGTCTGGGA-GTTG-CAT-AATATATGTGGTTACG
* *
28936344 TGTAAGACCATGTTTGGGA
1 TGTAAGACCACGTCTGGGA
28936363 AATTAGCATC
Statistics
Matches: 82, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
41 21 0.26
42 12 0.15
44 11 0.13
45 38 0.46
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGAGTTGCATAATATATGTGGTTACG
Found at i:28936362 original size:86 final size:86
Alignment explanation
Indices: 28936213--28936393 Score: 256
Period size: 86 Copynumber: 2.1 Consensus size: 86
28936203 TGTATTTGCC
* *
28936213 TGTAAGACCACATCTGGGATGTTGGCATAGATATATGTGGTTACGTGTAAGACCATGTCTGGGAC
1 TGTAAGACCACATCTGGGACGTTGGCATAGATATATGTGGTTACGTGTAAGACCATGTCTGGGAA
**
28936278 ATCAAAATTGTATTTGATTCG
66 ATCAAAATCATATTTGATTCG
* * *
28936299 TGTAAGACCACGTCTGGGACGTTGTCATCA-ATATATGTGGTTACGTGTAAGACCATGTTTGGGA
1 TGTAAGACCACATCTGGGACGTTGGCAT-AGATATATGTGGTTACGTGTAAGACCATGTCTGGGA
* **
28936363 AATTAGCATCATATTTGATTCG
65 AATCAAAATCATATTTGATTCG
28936385 TGTAAGACC
1 TGTAAGACC
28936394 CTGTCTAGGA
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
86 83 0.99
87 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.33
Consensus pattern (86 bp):
TGTAAGACCACATCTGGGACGTTGGCATAGATATATGTGGTTACGTGTAAGACCATGTCTGGGAA
ATCAAAATCATATTTGATTCG
Found at i:28936373 original size:45 final size:43
Alignment explanation
Indices: 28936243--28936405 Score: 140
Period size: 41 Copynumber: 3.8 Consensus size: 43
28936233 GTTGGCATAG
* *
28936243 ATATATGTGGTTACGTGTAAGACCATGTCTGGGACA-T-CA-AA
1 ATATATGTGATT-CGTGTAAGACCATGTCTGGGACATTGCATCA
* * * *
28936284 ATTGTATTTGATTCGTGTAAGACCACGTCTGGGACGTTGTCATCA
1 A-TATATGTGATTCGTGTAAGACCATGTCTGGGACATTG-CATCA
* * *
28936329 ATATATGTGGTTACGTGTAAGACCATGTTTGGGAAATTAGCATC-
1 ATATATGTGATT-CGTGTAAGACCATGTCTGGGACATT-GCATCA
* *
28936373 ATAT-T-TGATTCGTGTAAGACCCTGTCTAGGACA
1 ATATATGTGATTCGTGTAAGACCATGTCTGGGACA
28936406 GTGGCATCGA
Statistics
Matches: 97, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
41 41 0.42
42 13 0.13
43 1 0.01
44 14 0.14
45 27 0.28
46 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (43 bp):
ATATATGTGATTCGTGTAAGACCATGTCTGGGACATTGCATCA
Found at i:28940416 original size:81 final size:81
Alignment explanation
Indices: 28940287--28940529 Score: 239
Period size: 81 Copynumber: 3.0 Consensus size: 81
28940277 TCATTTTGCC
* * * *
28940287 CTACAGGGGTA-TTTCAATAATTTTACACTA-TAAGGGTATTTCGGTAATTTTAC-A-CTACAGG
1 CTACA-GGGTATTTTC-ATAATTTTACA-AACTAGGGGTATTTTGATAATTTTACAAGCT--AGG
28940348 GGTATTTTCA-TAATTTTAC-A
61 GGTA-TTTCAGTAATTTTACAA
*
28940368 CTACAGGGTTATTTTCATAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAGCTGGGGGTA
1 CTACAGGG-TATTTTCATAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAGCTAGGGGTA
28940433 TTTCAGTAATTTTACAA
65 TTTCAGTAATTTTACAA
* ** ** * * * *
28940450 ATTGAGGGTATTTTGGTAATTTTACAAACTGGGGGTATTTTGATAATATTACAAACT-GGAGTAT
1 CTACAGGGTATTTTCATAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAGCTAGGGGTAT
*
28940514 TTCGGTAATTTTACAA
66 TTCAGTAATTTTACAA
28940530 ACCAAGGGCA
Statistics
Matches: 140, Mismatches: 15, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
80 30 0.21
81 97 0.69
82 11 0.08
83 2 0.01
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.40
Consensus pattern (81 bp):
CTACAGGGTATTTTCATAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAGCTAGGGGTAT
TTCAGTAATTTTACAA
Found at i:28940422 original size:27 final size:27
Alignment explanation
Indices: 28940291--28940556 Score: 211
Period size: 27 Copynumber: 9.9 Consensus size: 27
28940281 TTTGCCCTAC
** *
28940291 AGGGGTATTTCAATAATTTTACACTA-T
1 AGGGGTATTTTGATAATTTTACA-AACT
* * * *
28940318 AAGGGTATTTCGGTAATTTTACACTAC-
1 AGGGGTATTTTGATAATTTTACA-AACT
* *
28940345 AGGGGTATTTTCATAATTTTACACTAC-
1 AGGGGTATTTTGATAATTTTACA-AACT
* *
28940372 AGGGTTATTTTCATAATTTTACAAACT
1 AGGGGTATTTTGATAATTTTACAAACT
*
28940399 AGGGGTATTTTGATAATTTTACAAGCT
1 AGGGGTATTTTGATAATTTTACAAACT
* *
28940426 GGGGGTA-TTTCAGTAATTTTACAAA-T
1 AGGGGTATTTTGA-TAATTTTACAAACT
* *
28940452 TGAGGGTATTTTGGTAATTTTACAAACT
1 AG-GGGTATTTTGATAATTTTACAAACT
* *
28940480 GGGGGTATTTTGATAATATTACAAACT
1 AGGGGTATTTTGATAATTTTACAAACT
* * * *
28940507 -GGAGTATTTCGGTAATTTTACAAACC
1 AGGGGTATTTTGATAATTTTACAAACT
* * * *
28940533 AAGGGCATTTCGCTAATTTTACAA
1 AGGGGTATTTTGATAATTTTACAA
28940557 TCCGAGGTCT
Statistics
Matches: 202, Mismatches: 30, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
26 29 0.14
27 168 0.83
28 5 0.02
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.39
Consensus pattern (27 bp):
AGGGGTATTTTGATAATTTTACAAACT
Found at i:28947319 original size:15 final size:15
Alignment explanation
Indices: 28947299--28947329 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
28947289 AAATATGAAA
28947299 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
28947314 GATATGTTTTGTATT
1 GATATGTTTTGGATT
28947329 G
1 G
28947330 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:28947977 original size:41 final size:41
Alignment explanation
Indices: 28947926--28948088 Score: 184
Period size: 41 Copynumber: 3.9 Consensus size: 41
28947916 TATGTGGTTA
*
28947926 CGTGTAAGACCATGTCTGGGACATCGACATCATATTTGATT
1 CGTGTAAGACCATGTCTGGGACATCGGCATCATATTTGATT
* * * * *
28947967 TGTGTAAGACCACGTCTGGGACATTGGCGTCGATATATGTGGTT
1 CGTGTAAGACCATGTCTGGGACATCGGCATC-ATAT-T-TGATT
* *
28948011 ACGTGTAAGACCATGTTTGGGACATCGGCATCGTATTTGATT
1 -CGTGTAAGACCATGTCTGGGACATCGGCATCATATTTGATT
*
28948053 CGTGTAAGACCCTGTCTGGGACAGT-GGCATCGATAT
1 CGTGTAAGACCATGTCTGGGACA-TCGGCATC-ATAT
28948089 GAGTTAGTAT
Statistics
Matches: 100, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
41 53 0.53
42 12 0.12
43 2 0.02
44 7 0.07
45 26 0.26
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (41 bp):
CGTGTAAGACCATGTCTGGGACATCGGCATCATATTTGATT
Found at i:28948032 original size:86 final size:86
Alignment explanation
Indices: 28947905--28948088 Score: 289
Period size: 86 Copynumber: 2.1 Consensus size: 86
28947895 TTTAGGATGT
* *
28947905 TGGCATAGATATATGTGGTTACGTGTAAGACCATGTCTGGGACATCGACATCATATTTGATTTGT
1 TGGCATCGATATATGTGGTTACGTGTAAGACCATGTCTGGGACATCGACATCATATTTGATTCGT
*
28947970 GTAAGACCAC-GTCTGGGACAT
66 GTAAGACC-CTGTCTGGGACAG
* * * *
28947991 TGGCGTCGATATATGTGGTTACGTGTAAGACCATGTTTGGGACATCGGCATCGTATTTGATTCGT
1 TGGCATCGATATATGTGGTTACGTGTAAGACCATGTCTGGGACATCGACATCATATTTGATTCGT
28948056 GTAAGACCCTGTCTGGGACAG
66 GTAAGACCCTGTCTGGGACAG
28948077 TGGCATCGATAT
1 TGGCATCGATAT
28948089 GAGTTAGTAT
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
85 1 0.01
86 88 0.99
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.32
Consensus pattern (86 bp):
TGGCATCGATATATGTGGTTACGTGTAAGACCATGTCTGGGACATCGACATCATATTTGATTCGT
GTAAGACCCTGTCTGGGACAG
Found at i:28949173 original size:28 final size:27
Alignment explanation
Indices: 28949116--28949173 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
28949106 AAATTTTACA
*
28949116 TTCCACACATAGGGGTATTTTAGTCAT
1 TTCCACACATAGGGGTATTTTAGTAAT
* * *
28949143 TTCCACCCTTAGGGGTATTTTTGGTAAT
1 TTCCACACATAGGGGTA-TTTTAGTAAT
28949171 TTC
1 TTC
28949174 TCTTTATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (27 bp):
TTCCACACATAGGGGTATTTTAGTAAT
Found at i:28954655 original size:10 final size:10
Alignment explanation
Indices: 28954640--28954678 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
28954630 TGCTTTTGTA
28954640 CATGATATGC
1 CATGATATGC
28954650 CATGATATGC
1 CATGATATGC
28954660 ACATGATATGC
1 -CATGATATGC
*
28954671 CATCATAT
1 CATGATAT
28954679 ATTCACATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 17 0.63
11 10 0.37
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:28954664 original size:21 final size:21
Alignment explanation
Indices: 28954639--28954678 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
28954629 CTGCTTTTGT
*
28954639 ACATGATATGCCATGATATGC
1 ACATGATATGCCATCATATGC
28954660 ACATGATATGCCATCATAT
1 ACATGATATGCCATCATAT
28954679 ATTCACATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATCATATGC
Found at i:28954760 original size:25 final size:24
Alignment explanation
Indices: 28954725--28954794 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
28954715 AGGGAGTGCT
*
28954725 AAAAGGTCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTT-CCCCAGTTTACCG
*
28954750 AAAAGGGCTTTCCCCTAGTGTACCG
1 AAAAGGGCTTTCCCC-AGTTTACCG
28954775 AAAAGGGCTTTACCCCAGTT
1 AAAAGGGCTTT-CCCCAGTT
28954795 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
24 4 0.10
25 32 0.80
26 4 0.10
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTCCCCAGTTTACCG
Found at i:28958805 original size:40 final size:40
Alignment explanation
Indices: 28958718--28958868 Score: 123
Period size: 40 Copynumber: 3.8 Consensus size: 40
28958708 AATTGAATGA
* * * **
28958718 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* * *
28958758 TAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
28958799 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
* *
28958838 TATCCGGGCTAAGACCCAAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
28958869 AAATCGTGAT
Statistics
Matches: 89, Mismatches: 14, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.06
40 81 0.91
41 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:28958882 original size:40 final size:40
Alignment explanation
Indices: 28958799--28958890 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 40
28958789 TAGTGGCTAC
* * * **
28958799 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCT
1 ATCCGGGCTAAGACCCAAAGGCATTCGTGCAAATCATGAT
* *
28958839 ATCCGGGCTAAGACCCAAAGGCATTTGTGCAAATCGTGAT
1 ATCCGGGCTAAGACCCAAAGGCATTCGTGCAAATCATGAT
*
28958879 ATCCGGGTTAAG
1 ATCCGGGCTAAG
28958891 TCCCGTAGGC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCAAAGGCATTCGTGCAAATCATGAT
Found at i:28965874 original size:10 final size:10
Alignment explanation
Indices: 28965859--28965897 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
28965849 TGCTTTTGTA
28965859 CATGATATGC
1 CATGATATGC
28965869 CATGATATGC
1 CATGATATGC
*
28965879 ACATGATATCC
1 -CATGATATGC
28965890 CATGATAT
1 CATGATAT
28965898 ATTCACATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:28965883 original size:21 final size:21
Alignment explanation
Indices: 28965858--28965897 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
28965848 CTGCTTTTGT
*
28965858 ACATGATATGCCATGATATGC
1 ACATGATATCCCATGATATGC
28965879 ACATGATATCCCATGATAT
1 ACATGATATCCCATGATAT
28965898 ATTCACATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (21 bp):
ACATGATATCCCATGATATGC
Found at i:28969398 original size:28 final size:26
Alignment explanation
Indices: 28969342--28969399 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 26
28969332 AAAATTATAT
* *
28969342 TTAATAATTTATTTTAAAATATTTCA
1 TTAATAATTTATTTTAAAATAATTAA
*
28969368 TTAATAATTTGGATTTTAAATTAATTAA
1 TTAATAATTT--ATTTTAAAATAATTAA
28969396 TTAA
1 TTAA
28969400 ATTGGATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 10 0.37
28 17 0.63
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (26 bp):
TTAATAATTTATTTTAAAATAATTAA
Found at i:28972866 original size:7 final size:7
Alignment explanation
Indices: 28972854--28972887 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
28972844 CATATTTCTA
28972854 CTCATCC
1 CTCATCC
28972861 CTCATCC
1 CTCATCC
28972868 CTCATCC
1 CTCATCC
28972875 CTCATCC
1 CTCATCC
28972882 CTCATC
1 CTCATC
28972888 ATTCATCATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.15, C:0.56, G:0.00, T:0.29
Consensus pattern (7 bp):
CTCATCC
Found at i:28972893 original size:14 final size:14
Alignment explanation
Indices: 28972854--28972894 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
28972844 CATATTTCTA
*
28972854 CTCATCCCTCATCC
1 CTCATCACTCATCC
*
28972868 CTCATCCCTCATCC
1 CTCATCACTCATCC
*
28972882 CTCATCATTCATC
1 CTCATCACTCATC
28972895 ATGCTCTCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.17, C:0.51, G:0.00, T:0.32
Consensus pattern (14 bp):
CTCATCACTCATCC
Found at i:28972893 original size:21 final size:21
Alignment explanation
Indices: 28972854--28972894 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
28972844 CATATTTCTA
*
28972854 CTCATCCCTCATCCCTCATCC
1 CTCATCCCTCATCACTCATCC
*
28972875 CTCATCCCTCATCATTCATC
1 CTCATCCCTCATCACTCATC
28972895 ATGCTCTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.51, G:0.00, T:0.32
Consensus pattern (21 bp):
CTCATCCCTCATCACTCATCC
Found at i:28973345 original size:14 final size:14
Alignment explanation
Indices: 28973326--28973357 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
28973316 GGTACATGGC
28973326 TGTGTCATAGCCCA
1 TGTGTCATAGCCCA
*
28973340 TGTGTCATAGCCCG
1 TGTGTCATAGCCCA
28973354 TGTG
1 TGTG
28973358 GACAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.25, G:0.28, T:0.31
Consensus pattern (14 bp):
TGTGTCATAGCCCA
Found at i:28974994 original size:40 final size:39
Alignment explanation
Indices: 28974930--28975014 Score: 107
Period size: 40 Copynumber: 2.2 Consensus size: 39
28974920 ATAAATATAT
*
28974930 AGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTTTC
1 AGCCGAAGCTATCTCAAATCGCACACCAAGTGCCA-TTTC
* * ** *
28974970 AGCCGAAGCTATTTCGAATCGCACATTAAGTGCCATTTT
1 AGCCGAAGCTATCTCAAATCGCACACCAAGTGCCATTTC
28975009 AGCCGA
1 AGCCGA
28975015 TAAGTCATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 9 0.23
40 30 0.77
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (39 bp):
AGCCGAAGCTATCTCAAATCGCACACCAAGTGCCATTTC
Found at i:28978967 original size:43 final size:43
Alignment explanation
Indices: 28978919--28979020 Score: 116
Period size: 43 Copynumber: 2.4 Consensus size: 43
28978909 TCCTAGATAT
* * * *
28978919 GGTCTTACATGTTATCAC-ATATCGATGCCACTGTCCCACATAA
1 GGTCTTACATGTAATCACAATA-CAATGCCAATGTCCCACACAA
* * * *
28978962 GGTCTTACACGAAATCACAATACAATGCCAATGTCCCATACAT
1 GGTCTTACATGTAATCACAATACAATGCCAATGTCCCACACAA
28979005 GGTCTTACATGTAATC
1 GGTCTTACATGTAATC
28979021 CATGTCCCAG
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 45 0.94
44 3 0.06
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.28
Consensus pattern (43 bp):
GGTCTTACATGTAATCACAATACAATGCCAATGTCCCACACAA
Found at i:28979129 original size:50 final size:50
Alignment explanation
Indices: 28979020--28979189 Score: 165
Period size: 50 Copynumber: 3.5 Consensus size: 50
28979010 TACATGTAAT
*
28979020 CCATGTCCCAGACATGGTCTTACACTAACTCTCTTGTATCGAGGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGACTCTCTTGTATCGAGGCCGATG
* * * * * * *
28979070 ACATATCCCAGACATGGTCTTACACTGGCTCTGCTCT-TTTTG-TGCTGATG
1 CCATGTCCCAGACATGGTCTTACACTGACTCT-CT-TGTATCGAGGCCGATG
* * * *
28979120 CCATGTCCCAGACATGGTCTTACACTGA--CAC--ATATC-AAGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTGACTCTCTTGTATCGAGGCCGATG
28979165 CCATGTCCCAGACATGGTCTTACAC
1 CCATGTCCCAGACATGGTCTTACAC
28979190 CAGCTCACAT
Statistics
Matches: 99, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
45 32 0.32
47 1 0.01
48 1 0.01
50 59 0.60
51 5 0.05
52 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACACTGACTCTCTTGTATCGAGGCCGATG
Found at i:28981957 original size:40 final size:39
Alignment explanation
Indices: 28981892--28981974 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 39
28981882 TATATATATA
** *
28981892 TAGCCGAAGCTATCTCAAATTGCACACCAAA-TGCCCCTTT
1 TAGCCGAAGCTATCTCAAACCGCACA-CAAAGTG-CCATTT
* *
28981932 TAGCCGAAGCTATTTCGAACCGCACACAAAGTGCCATTT
1 TAGCCGAAGCTATCTCAAACCGCACACAAAGTGCCATTT
28981971 TAGC
1 TAGC
28981975 TGATAAGTCG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
39 13 0.35
40 24 0.65
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCAAACCGCACACAAAGTGCCATTT
Found at i:28990830 original size:40 final size:39
Alignment explanation
Indices: 28990770--28990891 Score: 122
Period size: 40 Copynumber: 3.1 Consensus size: 39
28990760 CCTTCGGAGT
* **
28990770 TTAACCGGATATAGCT-ACTCGTTCAAATGCCTCCGGGA-C
1 TTAACCGGATTTAG-TAACTCGCACAAATGCCTCC-GGATC
*
28990809 TTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGATC
1 TTAA-CCGGATTTAGTAACTCGCACAAATGCCTCCGGATC
* * * *
28990849 TTAGTCGGGATTTAGTAACTCGCACGAATGCCTTCGGATC
1 TTA-ACCGGATTTAGTAACTCGCACAAATGCCTCCGGATC
28990889 TTA
1 TTA
28990892 GTCCGGATAT
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
39 8 0.11
40 64 0.89
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (39 bp):
TTAACCGGATTTAGTAACTCGCACAAATGCCTCCGGATC
Found at i:28990892 original size:40 final size:40
Alignment explanation
Indices: 28990814--28990938 Score: 155
Period size: 40 Copynumber: 3.1 Consensus size: 40
28990804 GGGACTTAAC
28990814 CCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGT
1 CCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGT
* *
28990854 CGGGATTTAGTAACTCGCACGAATGCCTTCGGATCTTAGT
1 CCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGT
* ** * *
28990894 CCGGATATAGTCATTTAGCACAAA-GCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-AACTCGCACAAATGCCTTC-GGATCTTAGT
28990934 CCGGA
1 CCGGA
28990939 CATCATTCGA
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
40 63 0.85
41 11 0.15
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGT
Found at i:28998847 original size:40 final size:40
Alignment explanation
Indices: 28998810--28998995 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
28998800 GCTACTCGTT
*
28998810 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
28998850 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
28998890 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
28998930 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
28998971 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
28998996 CATCATTCGA
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 117 0.89
41 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:29002425 original size:30 final size:31
Alignment explanation
Indices: 29002345--29002427 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
29002335 TCAGTCTCGA
29002345 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
29002375 CATATCACTGGGCTGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
29002406 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
29002428 ACTGTAAGCG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 17 0.34
31 33 0.66
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:29002661 original size:24 final size:24
Alignment explanation
Indices: 29002634--29002717 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
29002624 CTGGAGGCCT
*
29002634 AGCCTCTTTTAAT-AATTGGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
*
29002658 AGCCCTTTTTGATAAACTGGGGCAA
1 AGCCC-TTTTAATAAACTGGGGCAA
* *
29002683 AGCCCTTTTCGATAAACTGGGGCAT
1 AGCCCTTTT-AATAAACTGGGGCAA
29002708 AGCCCTTTTA
1 AGCCCTTTTA
29002718 GCACTTCTTC
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
23 1 0.02
24 14 0.26
25 38 0.72
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:29002684 original size:25 final size:25
Alignment explanation
Indices: 29002650--29002716 Score: 116
Period size: 25 Copynumber: 2.7 Consensus size: 25
29002640 TTTTAATAAT
*
29002650 TGGGGCAAAGCCCTTTTTGATAAAC
1 TGGGGCAAAGCCCTTTTCGATAAAC
29002675 TGGGGCAAAGCCCTTTTCGATAAAC
1 TGGGGCAAAGCCCTTTTCGATAAAC
*
29002700 TGGGGCATAGCCCTTTT
1 TGGGGCAAAGCCCTTTT
29002717 AGCACTTCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.28
Consensus pattern (25 bp):
TGGGGCAAAGCCCTTTTCGATAAAC
Found at i:29002949 original size:27 final size:27
Alignment explanation
Indices: 29002919--29003117 Score: 276
Period size: 27 Copynumber: 7.4 Consensus size: 27
29002909 GAGGTAAAAT
* * *
29002919 GGTAATT-TCACCCCACAAGGGTATCTC
1 GGTAATTCT-ACCCTACAGGGGTATTTC
29002946 GGTAATTCTACCCTAC-GGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
29002972 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
29002999 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
29003026 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
29003053 GGTAATTCTACCCTATAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
29003080 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
29003107 GATAATTCTAC
1 GGTAATTCTAC
29003118 AAATCGAGAG
Statistics
Matches: 154, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
26 23 0.15
27 130 0.84
28 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:29003140 original size:54 final size:52
Alignment explanation
Indices: 29002963--29003140 Score: 187
Period size: 54 Copynumber: 3.3 Consensus size: 52
29002953 CTACCCTACG
* * * **
29002963 GGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACA
1 GGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTACAAT-CA
* * *
29003016 GGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTAT-A
1 -GGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTA--CAATCA
*
29003070 GGGTTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACAAATCGA
1 GGG-TATTTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTAC-AATC-A
* *
29003125 GAGTATTTTGATAATT
1 GGGTATTTCGATAATT
29003141 TCACAAATCG
Statistics
Matches: 104, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
52 1 0.01
53 5 0.05
54 93 0.89
55 3 0.03
56 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (52 bp):
GGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGATAATTCTACAATCA
Found at i:29003140 original size:81 final size:81
Alignment explanation
Indices: 29002948--29003140 Score: 214
Period size: 81 Copynumber: 2.4 Consensus size: 81
29002938 GGTATCTCGG
** * * *
29002948 TAATTCTACCCTAC-GGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCC
1 TAATTCTACAATACAGGAGTATTTCGATAATTCTACCCTACAAGGGTATTTCGATAATTCTACCC
29003012 TACAGGGGTATTTCAA
66 TACAGGGGTATTTCAA
** * * * *
29003028 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTA-TAGGGTTATTTCGGTAATTCTACC
1 TAATTCTACAATACAGGAGTATTTCGATAATTCTACCCTACAAGGG-TATTTCGATAATTCTACC
*
29003092 CTACAGGGGTATTTCGA
65 CTACAGGGGTATTTCAA
*
29003109 TAATTCTACAA-ATC-GAGAGTATTTTGATAATT
1 TAATTCTACAATA-CAG-GAGTATTTCGATAATT
29003141 TCACAAATCG
Statistics
Matches: 100, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
80 20 0.20
81 80 0.80
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (81 bp):
TAATTCTACAATACAGGAGTATTTCGATAATTCTACCCTACAAGGGTATTTCGATAATTCTACCC
TACAGGGGTATTTCAA
Found at i:29003159 original size:81 final size:81
Alignment explanation
Indices: 29002990--29003167 Score: 184
Period size: 81 Copynumber: 2.2 Consensus size: 81
29002980 TACCCTACAA
* ** * *
29002990 GGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCGG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACAATACAGGAGTATTTCGA
**
29003055 TAATTCTACCCTATAG
66 TAATTCTACCAAATAG
* * *
29003071 GGTTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACAA-ATC-GAGAGTATTTT
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACAATA-CAG-GAGTATTTC
*
29003134 GATAATT-T-CACAAATCGG
64 GATAATTCTAC-CAAAT-AG
*
29003152 GGGTATTTTGGTAATT
1 GGGTATTTCGGTAATT
29003168 TTACAAGCTA
Statistics
Matches: 80, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
79 1 0.01
80 6 0.08
81 73 0.91
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (81 bp):
GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACAATACAGGAGTATTTCGA
TAATTCTACCAAATAG
Found at i:29003308 original size:27 final size:27
Alignment explanation
Indices: 29003096--29003303 Score: 215
Period size: 27 Copynumber: 7.7 Consensus size: 27
29003086 TCTACCCTAC
* * *
29003096 AGGGGTATTTCGATAATTCTACAAA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
* * * *
29003122 CGAGAGTATTTTGATAATTTCACAAA-T
1 AG-GGGTATTTTGGTAATTTTACAAACT
* *
29003149 CGGGGGTATTTTGGTAATTTTACAAGCT
1 -AGGGGTATTTTGGTAATTTTACAAACT
*
29003177 AGGGGTATTTTGGTAATTTTACAAGCT
1 AGGGGTATTTTGGTAATTTTACAAACT
*
29003204 AGGGGTGTTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
* *
29003231 AGGGGTATTTTTGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACT
** *
29003258 A-GGGTATTTTGGTAATTTTGTAAACC
1 AGGGGTATTTTGGTAATTTTACAAACT
* *
29003284 AAGGGTATTTTAGTAATTTT
1 AGGGGTATTTTGGTAATTTT
29003304 GTAAATCGAA
Statistics
Matches: 158, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
26 24 0.15
27 132 0.84
28 2 0.01
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:29003413 original size:27 final size:27
Alignment explanation
Indices: 29003098--29003414 Score: 176
Period size: 27 Copynumber: 11.8 Consensus size: 27
29003088 TACCCTACAG
* * * *
29003098 GGGTATTTCGATAATTCTACAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
* * * * *
29003125 GAGTATTTTGATAATTTCACAAATCGG
1 GGGTATTTTGGTAATTTTATAAATCGA
* * *
29003152 GGGTATTTTGGTAATTTTA-CAAGCTA
1 GGGTATTTTGGTAATTTTATAAATCGA
* * *
29003178 GGGGTATTTTGGTAATTTTA-CAAGCTA
1 -GGGTATTTTGGTAATTTTATAAATCGA
* * *
29003205 GGGGTGTTTTGGTAATTTTACAAA-CTA
1 -GGGTATTTTGGTAATTTTATAAATCGA
* * *
29003232 GGGGTATTTTTGTAATTTTACAAA-CCA
1 -GGGTATTTTGGTAATTTTATAAATCGA
* * *
29003259 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAATCGA
* *
29003286 GGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
** **** * *
29003313 -AATAAAACGATAATTCTATAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
**** *
29003339 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
*** *
29003366 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
*
29003393 GGGTACTTTGGTAATTTTATAA
1 GGGTATTTTGGTAATTTTATAA
29003415 TTTGAGGGCA
Statistics
Matches: 244, Mismatches: 42, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
26 39 0.16
27 203 0.83
28 2 0.01
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAATCGA
Found at i:29007792 original size:48 final size:48
Alignment explanation
Indices: 29007679--29007808 Score: 145
Period size: 48 Copynumber: 2.7 Consensus size: 48
29007669 CATATCGATG
* ** * *
29007679 CCATGTCTTAGACATGGTCTTACAC-GAAATCATATATCGATGCCAACG
1 CCATGTCCTAGACATGGTCTTAC-CTGGGATCACATATCGATGCCAACA
* ** *
29007727 CCATATCCTAGGTATGGTCTTACCTGGGATCACATATCGATGCCAATA
1 CCATGTCCTAGACATGGTCTTACCTGGGATCACATATCGATGCCAACA
* *
29007775 CCATGTCCCAGACATGGTCTTACATGGGATCACA
1 CCATGTCCTAGACATGGTCTTACCTGGGATCACA
29007809 CATAACCCTA
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
47 1 0.01
48 66 0.99
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (48 bp):
CCATGTCCTAGACATGGTCTTACCTGGGATCACATATCGATGCCAACA
Found at i:29015007 original size:46 final size:45
Alignment explanation
Indices: 29014957--29015225 Score: 253
Period size: 46 Copynumber: 5.8 Consensus size: 45
29014947 TGGTTGAGCT
29014957 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
29015003 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* **
29015048 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAGCG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
29015096 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* *
29015141 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* *
29015189 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
29015226 GCGGGTTACA
Statistics
Matches: 181, Mismatches: 24, Indels: 36
0.75 0.10 0.15
Matches are distributed among these distances:
42 3 0.02
43 8 0.04
45 6 0.03
46 91 0.50
47 57 0.31
48 6 0.03
50 7 0.04
51 3 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:29015072 original size:47 final size:47
Alignment explanation
Indices: 29015003--29015171 Score: 227
Period size: 47 Copynumber: 3.6 Consensus size: 47
29014993 GATGCGAATG
29015003 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
* * * * ** *
29015050 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGT-GAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACTAG-GCA
*
29015096 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
29015143 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
29015172 ACTTACGGAT
Statistics
Matches: 103, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
45 2 0.02
46 35 0.34
47 64 0.62
48 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
Found at i:29015116 original size:93 final size:93
Alignment explanation
Indices: 29014957--29015217 Score: 450
Period size: 93 Copynumber: 2.8 Consensus size: 93
29014947 TGGTTGAGCT
*
29014957 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGA
29015022 GTCCGAGTTCGTGAAATGTAACTAGGCA
66 GTCCGAGTTCGTGAAATGTAACTAGGCA
* * *
29015050 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAGCGTCCGAACTCGTTGAGTTGA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGA
*
29015115 GTCCGAGTTCGTGAGATGTAACTAGGCA
66 GTCCGAGTTCGTGAAATGTAACTAGGCA
* * *
29015143 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAGCTCGTTGAGTTGA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGA
29015208 GTCCGAGTTC
66 GTCCGAGTTC
29015218 ACTTATGGGC
Statistics
Matches: 157, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 157 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGA
GTCCGAGTTCGTGAAATGTAACTAGGCA
Found at i:29017513 original size:15 final size:15
Alignment explanation
Indices: 29017493--29017561 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
29017483 GTATCTTGGG
29017493 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
29017508 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
29017523 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
29017538 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
29017553 TTTCTTTAT
1 TTTCTTTAT
29017562 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:29017562 original size:30 final size:30
Alignment explanation
Indices: 29017484--29017571 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
29017474 CATAGTATCG
* * * *
29017484 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
29017514 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
29017544 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
29017572 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:29020001 original size:46 final size:45
Alignment explanation
Indices: 29019951--29020170 Score: 195
Period size: 46 Copynumber: 4.8 Consensus size: 45
29019941 TGGTTGAGCA
29019951 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
29019997 TCCGAACTCGTTGAG-TGAGTCCGAGTTC-GTGAATGTAACTAGGCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GGAATG
* * *
29020042 TCCG-ACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
*
29020086 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* *
29020134 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
29020171 GCGGGTTACA
Statistics
Matches: 143, Mismatches: 14, Indels: 34
0.75 0.07 0.18
Matches are distributed among these distances:
39 2 0.01
40 1 0.01
41 1 0.01
44 12 0.08
45 35 0.24
46 55 0.38
47 27 0.19
48 4 0.03
50 4 0.03
51 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:29020046 original size:45 final size:47
Alignment explanation
Indices: 29019948--29020116 Score: 219
Period size: 45 Copynumber: 3.7 Consensus size: 47
29019938 GGATGGTTGA
* * *
29019948 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAG
29019996 G--TCCGAACTCGTTGAG-TGAGTCCGAGTTCGTGA-ATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
29020039 GCATCCG-ACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
29020085 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
29020117 ACTTATGGAT
Statistics
Matches: 110, Mismatches: 3, Indels: 17
0.85 0.02 0.13
Matches are distributed among these distances:
40 2 0.02
41 4 0.04
43 1 0.01
44 12 0.11
45 34 0.31
46 32 0.29
47 24 0.22
48 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:29022120 original size:50 final size:48
Alignment explanation
Indices: 29022004--29022139 Score: 141
Period size: 50 Copynumber: 2.8 Consensus size: 48
29021994 CATAGTAGGG
* * *
29022004 TGCCAATGCCATATCCCTGACATGGT-TATACATGAGA-CCCTTATCAA
1 TGCCAATGCCATATCCCAGACATGGTCT-TACATGGGATCCCATATCAA
* *
29022051 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATCGA
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGATC-C-CATATCAA
** * * *
29022101 TGCTGATGCCATATCCCAGATATGGTCTTATACGGGATC
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGATC
29022140 TCATCAACCC
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
47 32 0.43
48 2 0.03
49 1 0.01
50 39 0.53
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (48 bp):
TGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCCCATATCAA
Found at i:29026308 original size:44 final size:42
Alignment explanation
Indices: 29026245--29026401 Score: 154
Period size: 43 Copynumber: 3.7 Consensus size: 42
29026235 TGAGTTATCG
* * ** *
29026245 TGTAAGACCACGTCTGGGACGTTTTCTTCGAT-TTAAGATTTACA
1 TGTAAGACCATGTCTGGGACATTGGCATC-ATATT-AGATTT-CA
*
29026289 TGTAAGACCATGTCTGGGACATTGGCATCATATTTGATTTCA
1 TGTAAGACCATGTCTGGGACATTGGCATCATATTAGATTTCA
* * * *
29026331 TGTAAGACCCTGTCTGGGACAGTGGCATCGATATTCGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATC-ATATTAGATTTCA
* * *
29026374 TATAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
29026402 TGTACAAGCT
Statistics
Matches: 96, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
42 29 0.30
43 41 0.43
44 26 0.27
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCATATTAGATTTCA
Found at i:29026345 original size:42 final size:43
Alignment explanation
Indices: 29026281--29026401 Score: 156
Period size: 43 Copynumber: 2.8 Consensus size: 43
29026271 TTCGATTTAA
* *
29026281 GATTTACATGTAAGACCATGTCTGGGACATTGGCATC-ATATTT
1 GATTT-CATGTAAGACCCTGTCTGGGACATTGGCATCGATATTC
*
29026324 GATTTCATGTAAGACCCTGTCTGGGACAGTGGCATCGATATTC
1 GATTTCATGTAAGACCCTGTCTGGGACATTGGCATCGATATTC
* * *
29026367 GATTACATATAAGACCAC-GTCTGGGACGTTGGCAT
1 GATTTCATGTAAGACC-CTGTCTGGGACATTGGCAT
29026402 TGTACAAGCT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
42 29 0.42
43 39 0.57
44 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (43 bp):
GATTTCATGTAAGACCCTGTCTGGGACATTGGCATCGATATTC
Found at i:29027552 original size:28 final size:30
Alignment explanation
Indices: 29027509--29027589 Score: 96
Period size: 29 Copynumber: 2.8 Consensus size: 30
29027499 TACATACTTA
*
29027509 CATATGGCCCACTAGGCCC-AATCT-CATT
1 CATATGGCCCATTAGGCCCAAATCTACATT
*
29027537 CATATGGCTCATTAGGCCCAAAT-TACATT
1 CATATGGCCCATTAGGCCCAAATCTACATT
* * *
29027566 CATACGGCCCATCAGGCCCGAATC
1 CATATGGCCCATTAGGCCCAAATC
29027590 AATTCCAAGC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
28 18 0.41
29 26 0.59
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.23
Consensus pattern (30 bp):
CATATGGCCCATTAGGCCCAAATCTACATT
Found at i:29030418 original size:33 final size:33
Alignment explanation
Indices: 29030380--29030445 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
29030370 AAGGAAAGGC
*
29030380 CTTATTACACCCCAAATAAAAAATAATAATTTA
1 CTTATTACACCACAAATAAAAAATAATAATTTA
29030413 CTTATTACACCACAAATAAAAAATAATAATTTA
1 CTTATTACACCACAAATAAAAAATAATAATTTA
29030446 AAATCAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (33 bp):
CTTATTACACCACAAATAAAAAATAATAATTTA
Found at i:29032136 original size:29 final size:29
Alignment explanation
Indices: 29032098--29032198 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
29032088 ATCGATCACT
*
29032098 CACACTTAGTGCCATATGATTTAAGCTCG
1 CACACTTAGTGCCATATAATTTAAGCTCG
*
29032127 CACACATAGTGCCATATAATTTAAGCTCG
1 CACACTTAGTGCCATATAATTTAAGCTCG
* *
29032156 CACACTTAGTGCCATA-CATTTCAAGCTTG
1 CACACTTAGTGCCATATAATTT-AAGCTCG
29032185 CACACTTAGTGCCA
1 CACACTTAGTGCCA
29032199 ATCTCGTCAC
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
28 4 0.06
29 62 0.94
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CACACTTAGTGCCATATAATTTAAGCTCG
Found at i:29039896 original size:29 final size:29
Alignment explanation
Indices: 29039856--29039958 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
29039846 TAATCGATCA
* * *
29039856 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACATAGTGCCATATAATTTAAGCT
*
29039885 CGCACGCATAGTGCCATATAATTTAAGCT
1 CGCACACATAGTGCCATATAATTTAAGCT
* *
29039914 CGCACACTTAGTGCCATA-CATTTCAAGCT
1 CGCACACATAGTGCCATATAATTT-AAGCT
* *
29039943 TGCACACTTAGTGCCA
1 CGCACACATAGTGCCA
29039959 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
28 4 0.06
29 61 0.94
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.28
Consensus pattern (29 bp):
CGCACACATAGTGCCATATAATTTAAGCT
Found at i:29042676 original size:28 final size:29
Alignment explanation
Indices: 29042643--29042710 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 29
29042633 AAGTCTACAT
*
29042643 ACATTCATATGGCCCACTAGGCCC-AATT
1 ACATTCATATGGCCCACTAGGCCCAAATC
* * *
29042671 TCATTCATATGGCCCATTATGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
29042700 ACATTCATATG
1 ACATTCATATG
29042711 TCTCATCTGG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 21 0.62
29 13 0.38
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAAATC
Found at i:29044909 original size:31 final size:31
Alignment explanation
Indices: 29044871--29044949 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
29044861 TTTAACGGTT
*
29044871 ACTGGGCCAAAGCCTTTTCATAAATCAAATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
*
29044902 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
* *
29044933 ACTAGGCCGGAGCCTTT
1 ACTGGGCCGAAGCCTTT
29044950 ATTGTAAACG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCAAATC
Found at i:29045033 original size:42 final size:42
Alignment explanation
Indices: 29044973--29045064 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
29044963 TGGCCCATAG
*
29044973 GCCCATTTCAATAACACATGAAATATCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
*
29045015 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
29045057 GCCCATTT
1 GCCCATTT
29045065 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
Found at i:29045286 original size:52 final size:52
Alignment explanation
Indices: 29045209--29045351 Score: 252
Period size: 52 Copynumber: 2.8 Consensus size: 52
29045199 CCTCTTTAAT
*
29045209 AACTGGGGCA-AAGCCCTTTTCAATAAACTAGGGCATAAGCCATTTTTGGTA
1 AACTGGGGCATAAGCCCTTTTCAATAAACTAGGGCATAAGCCATTTTCGGTA
* *
29045260 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATAAACTAGGGCATAAGCCATTTTCGGTA
29045312 AACTGGGGCATAAGCCCTTTTCAATAAACTAGGGCATAAG
1 AACTGGGGCATAAGCCCTTTTCAATAAACTAGGGCATAAG
29045352 TCGTTTTGCA
Statistics
Matches: 87, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 10 0.11
52 77 0.89
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (52 bp):
AACTGGGGCATAAGCCCTTTTCAATAAACTAGGGCATAAGCCATTTTCGGTA
Found at i:29045358 original size:26 final size:26
Alignment explanation
Indices: 29045209--29045351 Score: 207
Period size: 26 Copynumber: 5.5 Consensus size: 26
29045199 CCTCTTTAAT
29045209 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* * ***
29045234 AACTAGGGCATAAGCCATTTTTGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
29045260 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
29045286 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
29045312 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
29045338 AACTAGGGCATAAG
1 AACTGGGGCATAAG
29045352 TCGTTTTGCA
Statistics
Matches: 102, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
25 9 0.09
26 93 0.91
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:29045433 original size:20 final size:20
Alignment explanation
Indices: 29045408--29045464 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
29045398 TTATGAATTC
*
29045408 ATCATGTGCATTTCATA-CA
1 ATCATGTGCATATCATATCA
29045427 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
29045448 ATCATGT--ATATCATATC
1 ATCATGTGCATATCATATC
29045465 CCACGTATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 23 0.66
21 2 0.06
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:29046253 original size:27 final size:27
Alignment explanation
Indices: 29046162--29046244 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 27
29046152 GGGCATATTC
* * *
29046162 GTCATTTTACCATACAGGGGTATTACG
1 GTCACTTTACCCTACAGGGGTTTTACG
*
29046189 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGTTTTACG
*
29046216 GTCACTTTACCCTACAGGGGTTTTTCG
1 GTCACTTTACCCTACAGGGGTTTTACG
29046243 GT
1 GT
29046245 TTTTTTACCT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGTTTTACG
Found at i:29046337 original size:27 final size:27
Alignment explanation
Indices: 29046307--29046404 Score: 90
Period size: 27 Copynumber: 3.6 Consensus size: 27
29046297 GTAAATCTAC
*
29046307 AAACCAAGGGTATTTCAATAATTTTGT
1 AAACCAAGGGTATTTCTATAATTTTGT
* *
29046334 AAACCAATGGTTTTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
* * *
29046360 AGAAAGTCAAGGGTATTTCTGTAACTTTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
* *
29046390 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
29046405 TGGTAATTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
26 1 0.02
27 33 0.57
28 6 0.10
29 17 0.29
30 1 0.02
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:29046410 original size:27 final size:25
Alignment explanation
Indices: 29046370--29046520 Score: 124
Period size: 27 Copynumber: 5.6 Consensus size: 25
29046360 AGAAAGTCAA
*
29046370 GGGTATTTCT-GTAACTTTGTAAATCAG
1 GGGTATTT-TGGTAA-TTT-TAAAACAG
**
29046397 GGGTATTTTGGTAATTTTACAAATTG
1 GGGTATTTTGGTAATTTTA-AAACAG
* *
29046423 AGGGTGTTTCGGTAATTTTACAAACCAG
1 -GGGTATTTTGGTAATTTTA-AAA-CAG
*
29046451 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTA-AAAC-AG
* *
29046478 GGGCATTTTTGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTA-AAAC-AG
29046505 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
29046521 CTATCCTACA
Statistics
Matches: 104, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
25 2 0.02
26 8 0.08
27 93 0.89
28 1 0.01
ACGTcount: A:0.27, C:0.09, G:0.23, T:0.42
Consensus pattern (25 bp):
GGGTATTTTGGTAATTTTAAAACAG
Found at i:29046456 original size:54 final size:53
Alignment explanation
Indices: 29046394--29046520 Score: 175
Period size: 54 Copynumber: 2.4 Consensus size: 53
29046384 CTTTGTAAAT
*
29046394 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTG-TTTCGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAACT-AGGG-GATTTCGGTAATTTTACAAAC
* **
29046448 CAGTGGTATTTTGGTAATTTTACAAACTAGGGGCATTTTTGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAACTAGGGG-ATTTCGGTAATTTTACAAAC
*
29046502 TAGGGGTATTTTGGTAATT
1 CAGGGGTATTTTGGTAATT
29046521 CTATCCTACA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
52 1 0.02
53 4 0.06
54 60 0.92
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.41
Consensus pattern (53 bp):
CAGGGGTATTTTGGTAATTTTACAAACTAGGGGATTTCGGTAATTTTACAAAC
Found at i:29046534 original size:54 final size:54
Alignment explanation
Indices: 29046394--29046553 Score: 164
Period size: 54 Copynumber: 3.0 Consensus size: 54
29046384 CTTTGTAAAT
* * *
29046394 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTG--TTTCGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTCTACAAACT-AGGG-GCATTTCAGTAATTTTACAAAC
* * **
29046448 CAGTGGTATTTTGGTAATTTTACAAACTAGGGGCATTTTTGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTCTACAAACTAGGGGCATTTCAGTAATTTTACAAAC
* ** * *
29046502 TAGGGGTATTTTGGTAATTCTATCCTAC-AGGGGTATTTCAGTAATTTCACAA
1 CAGGGGTATTTTGGTAATTCTA-CAAACTAGGGGCATTTCAGTAATTTTACAA
29046554 TCGAGGGTAA
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
52 1 0.01
53 4 0.04
54 82 0.91
55 3 0.03
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.39
Consensus pattern (54 bp):
CAGGGGTATTTTGGTAATTCTACAAACTAGGGGCATTTCAGTAATTTTACAAAC
Found at i:29046537 original size:81 final size:81
Alignment explanation
Indices: 29046395--29046553 Score: 178
Period size: 81 Copynumber: 2.0 Consensus size: 81
29046385 TTTGTAAATC
* * * * * *
29046395 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTGTTTCGGTAATTTTACAAACCAGTGGTATTTT
1 AGGGGCATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTCTACAAACCAGGGGTATTTC
* *
29046460 GGTAATTTTACAAACT
66 AGTAATTTCACAAACT
* * **
29046476 AGGGGCATTTTTGTAATTTTACAAACTAG-GGGTATTTTGGTAATTCTATCCTA-CAGGGGTATT
1 AGGGGCATTTTGGTAATTTTACAAA-TAGAGGGTATTTCGGTAATTCTA-CAAACCAGGGGTATT
29046539 TCAGTAATTTCACAA
64 TCAGTAATTTCACAA
29046554 TCGAGGGTAA
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
81 60 0.94
82 4 0.06
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (81 bp):
AGGGGCATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTCTACAAACCAGGGGTATTTC
AGTAATTTCACAAACT
Found at i:29046590 original size:27 final size:27
Alignment explanation
Indices: 29046552--29046749 Score: 227
Period size: 27 Copynumber: 7.3 Consensus size: 27
29046542 GTAATTTCAC
*
29046552 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
29046579 AA-CTGGGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
*
29046606 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
29046633 AATCAAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
29046660 AATTGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * **
29046687 AATCGAGGGTGAAACGGTAATTCTAAA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * **
29046714 AATCGATGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
29046741 AATCGAGGG
1 AATCGAGGG
29046750 CATTTCAGTA
Statistics
Matches: 145, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 143 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:29046670 original size:81 final size:81
Alignment explanation
Indices: 29046552--29046749 Score: 270
Period size: 81 Copynumber: 2.4 Consensus size: 81
29046542 GTAATTTCAC
* * * * * *
29046552 AATCGAGGGTAAAACGATAATTTTGTAAACTGGGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTAAAATGGTAATTTTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
**
29046617 AAACGGTAATTCTGTA
66 AAACGGTAATTCTAAA
* *
29046633 AATCAAGGGTAAAATGGTAATTTTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTTTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
29046698 AAACGGTAATTCTAAA
66 AAACGGTAATTCTAAA
* * * *
29046714 AATCGATGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTTTATAAATTGAGGG
29046750 CATTTCAGTA
Statistics
Matches: 102, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 102 1.00
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTTTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
AAACGGTAATTCTAAA
Found at i:29046761 original size:81 final size:81
Alignment explanation
Indices: 29046595--29046769 Score: 224
Period size: 81 Copynumber: 2.2 Consensus size: 81
29046585 GGGTAAAATG
** * *
29046595 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATGGTAATTTTATA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTAAAAATCAAGGGTAAAATGGTAATTCTACA
* * *
29046660 AATTGAGGGTAAAACG
66 AATCGAGGGCAAAACA
* * *
29046676 GTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTAAAAATCGATGGTAAAATGGTAATTCTACA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTAAAAATCAAGGGTAAAATGGTAATTCTACA
***
29046741 AATCGAGGGCATTTCA
66 AATCGAGGGCAAAACA
*
29046757 GTAATTTGGTAAA
1 GTAATTTTGTAAA
29046770 CTAAAGTATT
Statistics
Matches: 80, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (81 bp):
GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTAAAAATCAAGGGTAAAATGGTAATTCTACA
AATCGAGGGCAAAACA
Found at i:29051036 original size:20 final size:20
Alignment explanation
Indices: 29050989--29051058 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
29050979 TATGGCAATT
* *
29050989 TAATTCTATTCATATAAACTG
1 TAATTC-ATTCATATAACCAG
29051010 TAATTCATTCATATAACCAG
1 TAATTCATTCATATAACCAG
* *
29051030 TAGTTCATAT-GTATAACCAG
1 TAATTCAT-TCATATAACCAG
29051050 TAATTCATT
1 TAATTCATT
29051059 AGTAATAACA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
19 1 0.02
20 35 0.81
21 7 0.16
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (20 bp):
TAATTCATTCATATAACCAG
Found at i:29051070 original size:20 final size:20
Alignment explanation
Indices: 29051009--29051074 Score: 75
Period size: 20 Copynumber: 3.3 Consensus size: 20
29050999 CATATAAACT
29051009 GTAATTCATTCA-TATAACCA
1 GTAATTCATT-AGTATAACCA
*
29051029 GTAGTTCA-TATGTATAACCA
1 GTAATTCATTA-GTATAACCA
29051049 GTAATTCATTAGTAATAA-CA
1 GTAATTCATTAGT-ATAACCA
29051069 GTAATT
1 GTAATT
29051075 TATCCGTATC
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 32 0.80
21 6 0.15
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (20 bp):
GTAATTCATTAGTATAACCA
Found at i:29051317 original size:23 final size:23
Alignment explanation
Indices: 29051291--29051344 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
29051281 AGCTGATTCA
*
29051291 GTAAGCTCCAATGAGCTAAAACG
1 GTAAGCTCCAACGAGCTAAAACG
** * *
29051314 GTAAGCTCTTACGAGCTGAATCG
1 GTAAGCTCCAACGAGCTAAAACG
29051337 GTAAGCTC
1 GTAAGCTC
29051345 ATCCGAGCTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.22
Consensus pattern (23 bp):
GTAAGCTCCAACGAGCTAAAACG
Found at i:29051351 original size:23 final size:23
Alignment explanation
Indices: 29051303--29051354 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
29051293 AAGCTCCAAT
* *
29051303 GAGCTAAAACGGTAAGCTCTTAC
1 GAGCTGAAACGGTAAGCTCATAC
* *
29051326 GAGCTGAATCGGTAAGCTCATCC
1 GAGCTGAAACGGTAAGCTCATAC
29051349 GAGCTG
1 GAGCTG
29051355 TGGTGAGTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (23 bp):
GAGCTGAAACGGTAAGCTCATAC
Found at i:29051838 original size:18 final size:18
Alignment explanation
Indices: 29051812--29051855 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
29051802 CAACTTCTCG
*
29051812 TAATTACAATGAAAATAA
1 TAATAACAATGAAAATAA
** *
29051830 TAATAACAATTCAAGTAA
1 TAATAACAATGAAAATAA
29051848 TAATAACA
1 TAATAACA
29051856 TAATGAAAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.59, C:0.09, G:0.05, T:0.27
Consensus pattern (18 bp):
TAATAACAATGAAAATAA
Found at i:29052765 original size:28 final size:29
Alignment explanation
Indices: 29052723--29052837 Score: 137
Period size: 29 Copynumber: 4.0 Consensus size: 29
29052713 TAGCTGTATT
* *
29052723 TGGCACATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
* * *
29052751 TGGCCCATTAGGCCCAAACCACCTGT-ATA
1 TGGCCCATTAAGCCCAAATCACAT-TCATA
*
29052780 TGGCCCATTAAGCCCAAATCACATTTATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
*
29052809 TGGCCCATTAGGCCC-AATCACATTCATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
29052837 T
1 T
29052838 TCATGCTCAC
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 27 0.36
29 46 0.62
30 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.26
Consensus pattern (29 bp):
TGGCCCATTAAGCCCAAATCACATTCATA
Found at i:29052789 original size:57 final size:58
Alignment explanation
Indices: 29052716--29052825 Score: 177
Period size: 58 Copynumber: 1.9 Consensus size: 58
29052706 ATGCACGTAG
* *
29052716 CTGTATTTGGCACATTAAGCCC-AATCATATTCATATGGCCCATTAGGCCCAAACCAC
1 CTGTATATGGCACATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAACCAC
* *
29052773 CTGTATATGGCCCATTAAGCCCAAATCACATTTATATGGCCCATTAGGCCCAA
1 CTGTATATGGCACATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAA
29052826 TCACATTCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
57 20 0.42
58 28 0.58
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (58 bp):
CTGTATATGGCACATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAACCAC
Found at i:29058635 original size:48 final size:48
Alignment explanation
Indices: 29058564--29059045 Score: 813
Period size: 48 Copynumber: 10.0 Consensus size: 48
29058554 CAAGATAAAT
* * * *
29058564 ATATATATGTGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
29058612 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
29058660 ATATGTATCTGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
29058708 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGATAA-ATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGA-AATATGTATGAG
29058756 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
29058804 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
29058852 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAAATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
29058900 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
29058948 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
29058996 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
29059044 AT
1 AT
29059046 GTGTGTATAT
Statistics
Matches: 410, Mismatches: 22, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 2 0.00
48 406 0.99
49 2 0.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:29059287 original size:37 final size:37
Alignment explanation
Indices: 29059186--29059288 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
29059176 GGAAATATAT
*
29059186 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
29059223 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
29059260 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
29059289 GGACTATTCG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:29063932 original size:50 final size:49
Alignment explanation
Indices: 29063818--29063962 Score: 186
Period size: 50 Copynumber: 3.0 Consensus size: 49
29063808 TCGATGTTCT
* * *
29063818 CATATCGATGCCAATGCCAAGTCTCAGACATGGTTTTACATGGGAT-CA
1 CATATCGATGCCAATGCCAAGTCCCAAACATGGTCTTACATGGGATCCA
* * *
29063866 CATAACGATGCCAATGCCATGTCCCAAACATAGTCTTACATGGGATCACA
1 CATATCGATGCCAATGCCAAGTCCCAAACATGGTCTTACATGGGATC-CA
* *
29063916 CATATCGATGCCAATGCCACA-TCCCAAATATGGTCTTATATGGGATC
1 CATATCGATGCCAATGCCA-AGTCCCAAACATGGTCTTACATGGGATC
29063963 TCATCAACCC
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
48 40 0.48
50 43 0.52
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
CATATCGATGCCAATGCCAAGTCCCAAACATGGTCTTACATGGGATCCA
Found at i:29066916 original size:80 final size:80
Alignment explanation
Indices: 29066832--29066980 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
29066822 TATGGTAACC
* * * *
29066832 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
29066896 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
29066912 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
29066977 CCGG
66 CCGG
29066981 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:29066922 original size:40 final size:38
Alignment explanation
Indices: 29066873--29066980 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
29066863 ATCACGATTT
*
29066873 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
29066913 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
29066953 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
29066981 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:29075033 original size:80 final size:80
Alignment explanation
Indices: 29074949--29075097 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
29074939 TATGGTAACC
* * * *
29074949 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
29075013 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
29075029 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
29075094 CCGG
66 CCGG
29075098 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:29075039 original size:40 final size:38
Alignment explanation
Indices: 29074990--29075097 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
29074980 ATCACGATTT
*
29074990 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
29075030 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
29075070 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
29075098 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:29077140 original size:29 final size:29
Alignment explanation
Indices: 29077108--29077165 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
29077098 CCCAAAATGA
29077108 TAGCTTGATAGTGTGATAAGATCTCCGAC
1 TAGCTTGATAGTGTGATAAGATCTCCGAC
29077137 TAGCTTGATAGTGTGATAAGATCTCCGAC
1 TAGCTTGATAGTGTGATAAGATCTCCGAC
29077166 GATCTGCAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (29 bp):
TAGCTTGATAGTGTGATAAGATCTCCGAC
Found at i:29078100 original size:30 final size:30
Alignment explanation
Indices: 29078064--29078127 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
29078054 CTTACACGAA
* *
29078064 GTCTCATATCCATGATATATCCTAGATATT
1 GTCTCATATCCATGACATATCCCAGATATT
* *
29078094 GTCTCATATCGATGCCATATCCCAGATATT
1 GTCTCATATCCATGACATATCCCAGATATT
29078124 GTCT
1 GTCT
29078128 TATACATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (30 bp):
GTCTCATATCCATGACATATCCCAGATATT
Found at i:29080934 original size:14 final size:14
Alignment explanation
Indices: 29080915--29080943 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
29080905 CAAGTAAACT
29080915 TATCATTTAATGCA
1 TATCATTTAATGCA
29080929 TATCATTTAATGCA
1 TATCATTTAATGCA
29080943 T
1 T
29080944 GTAAACGTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (14 bp):
TATCATTTAATGCA
Found at i:29084633 original size:39 final size:39
Alignment explanation
Indices: 29084579--29084766 Score: 333
Period size: 39 Copynumber: 4.8 Consensus size: 39
29084569 TGTTCGGGTA
29084579 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
*
29084618 ATATCGGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
29084657 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
*
29084696 ATATCCGGGATAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
*
29084735 ATATCCGGGTTAAGTCCCGAAGGC-ATTGTGCG
1 ATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
29084767 GGCTACCATA
Statistics
Matches: 144, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
39 135 0.94
40 9 0.06
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
Found at i:29084785 original size:117 final size:118
Alignment explanation
Indices: 29084579--29084796 Score: 323
Period size: 117 Copynumber: 1.9 Consensus size: 118
29084569 TGTTCGGGTA
* *
29084579 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCGGGGCTAAGCCCGAAGGCAAT
1 ATATCCGGGATAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *** *
29084644 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTG
66 TGTGCGAGCTACCATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTGTG
*
29084696 ATATCCGGGATAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC-A
1 ATATCCGGGATAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAA
* *
29084760 TTGTGCGGGCTACCATAACCGGGCTATGTCCCGAAGG
65 TTGTGCGAGCTACCATAACCGGGCTAAGTCCCGAAGG
29084797 TGTTTGAACG
Statistics
Matches: 89, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
117 72 0.81
118 17 0.19
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.22
Consensus pattern (118 bp):
ATATCCGGGATAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
TGTGCGAGCTACCATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTGTG
Found at i:29091955 original size:31 final size:31
Alignment explanation
Indices: 29091917--29091979 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
29091907 GTAAATTTGT
29091917 GTCTTGGATGGTTATGAACACCTTGAGATTC
1 GTCTTGGATGGTTATGAACACCTTGAGATTC
29091948 GTCTTGGATGGTTATGAACACCTTGAGATTC
1 GTCTTGGATGGTTATGAACACCTTGAGATTC
29091979 G
1 G
29091980 GCCTTGCACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (31 bp):
GTCTTGGATGGTTATGAACACCTTGAGATTC
Found at i:29092860 original size:37 final size:37
Alignment explanation
Indices: 29092770--29092914 Score: 237
Period size: 37 Copynumber: 4.0 Consensus size: 37
29092760 TGTTCGGGTA
29092770 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
29092807 -TAT-CGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
29092842 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG-T-TG
29092881 ATATCCGGG-TAAGCCC-AAGGCAA-TGTGCGAGTTG
1 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
29092915 TGCCGGGTTA
Statistics
Matches: 104, Mismatches: 0, Indels: 11
0.90 0.00 0.10
Matches are distributed among these distances:
34 2 0.02
35 33 0.32
36 14 0.13
37 36 0.35
38 8 0.08
39 11 0.11
ACGTcount: A:0.24, C:0.21, G:0.33, T:0.22
Consensus pattern (37 bp):
ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
Found at i:29098240 original size:46 final size:46
Alignment explanation
Indices: 29098187--29098362 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
29098177 TATTTGGGCA
29098187 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
29098233 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
29098280 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
29098326 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
29098363 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:29098342 original size:93 final size:93
Alignment explanation
Indices: 29098183--29098354 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
29098173 GGGATATTTG
* *
29098183 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
29098248 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
29098276 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
29098341 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
29098355 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:29101486 original size:46 final size:46
Alignment explanation
Indices: 29101419--29101540 Score: 199
Period size: 46 Copynumber: 2.7 Consensus size: 46
29101409 CGCCCCTAAG
* * *
29101419 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
* *
29101465 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
29101511 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
29101541 TGCTCAACCA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
Found at i:29101559 original size:46 final size:45
Alignment explanation
Indices: 29101417--29101559 Score: 137
Period size: 46 Copynumber: 3.1 Consensus size: 45
29101407 CCCGCCCCTA
* ** *
29101417 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
* ** **
29101462 AAATGAACTCGGACTCAACTCAACGAGTTCGGACATT-TGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
*
29101508 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTC-ACCATCCT
29101555 AGTGA
1 AGTGA
29101560 CATGTCACTT
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
46 78 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCCT
Found at i:29108687 original size:19 final size:20
Alignment explanation
Indices: 29108663--29108700 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
29108653 GGTACCACCA
29108663 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
29108682 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
29108701 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:29108996 original size:46 final size:46
Alignment explanation
Indices: 29108929--29109099 Score: 200
Period size: 46 Copynumber: 3.7 Consensus size: 46
29108919 CGCCCCTAAG
* * *
29108929 TGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGTTAGCATCCATAAA
* * * **
29108975 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATCTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGATG-TTAGCATCCAT-AAA
* ** * *
29109022 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGTTAGCATCCATAAA
29109068 TGAACTCGGACTCAACTCAACGAGTTCGGATG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATG
29109100 CTCAACCATC
Statistics
Matches: 101, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
46 65 0.64
47 36 0.36
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGTTAGCATCCATAAA
Found at i:29109040 original size:93 final size:93
Alignment explanation
Indices: 29108930--29109100 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
29108920 GCCCCTAAGT
***
29108930 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
29108995 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
29109023 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
29109088 CGAGTTCGGATGC
66 CGAGTTCGGATGC
29109101 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:29118984 original size:40 final size:41
Alignment explanation
Indices: 29118932--29119028 Score: 119
Period size: 40 Copynumber: 2.4 Consensus size: 41
29118922 TATCTCGGTA
*
29118932 TCGCACACTTAGTGCC-TTATATAGCCTAAGCTA-TTCCAAC
1 TCGCACACTTAGTGCCATT-TATAGCCAAAGCTATTTCCAAC
* * **
29118972 TCGCACACTTAGTTCCATTTGTAGCCAAAGCTATTTTGAAC
1 TCGCACACTTAGTGCCATTTATAGCCAAAGCTATTTCCAAC
29119013 -CGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
29119029 AACATAGTCA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
40 42 0.86
41 7 0.14
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (41 bp):
TCGCACACTTAGTGCCATTTATAGCCAAAGCTATTTCCAAC
Found at i:29125849 original size:40 final size:40
Alignment explanation
Indices: 29125802--29125992 Score: 283
Period size: 40 Copynumber: 4.8 Consensus size: 40
29125792 TAACAACTCA
29125802 CACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAG
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAG
* * * *
29125842 CATAAATGCCTTCAGGACTTAGCCCGGATATAGTCGCTAG
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAG
* *
29125882 CACAAATGCCTTCGGGTCTTAGCCCGGATATAGTAACTCG
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAG
* *
29125922 CACAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTAG
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAG
* * *
29125962 CACAAAAGCCTTTGGGACTTAGCCCGGATAT
1 CACAAATGCCTTCGGGTCTTAGCCCGGATAT
29125993 CATTCGAATA
Statistics
Matches: 132, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 132 1.00
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAG
Found at i:29128754 original size:15 final size:15
Alignment explanation
Indices: 29128734--29128763 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
29128724 AAAAATAATG
29128734 GGCTGAAGAATTCGA
1 GGCTGAAGAATTCGA
29128749 GGCTGAAGAATTCGA
1 GGCTGAAGAATTCGA
29128764 AAACAAGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.20
Consensus pattern (15 bp):
GGCTGAAGAATTCGA
Found at i:29131112 original size:66 final size:63
Alignment explanation
Indices: 29131049--29131254 Score: 193
Period size: 63 Copynumber: 3.2 Consensus size: 63
29131039 CATCATGTGT
*
29131049 ACAAGAGAGCTACAAGACATTATATGTAGCTAGGTCACATGGGTGATACTATGTGACACCATGTA
1 ACAAGAGAGCTAC--GAGA-TATATGTAGCTAGGTCACATGGGTGATACTATGTGACACCATGTA
29131114 G
63 G
* * * * * * *
29131115 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCACATGGGT-GATACTA-TG--TGACACCATGT
29131180 AG
62 AG
* * * *
29131182 ACAAGAGAGCTACGAGATAAACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATATA-TGTAGCTAGGTCACATGGGTGATACTATGTG-ACACCATGTAG
29131244 TACAAGAGAGC
1 -ACAAGAGAGC
29131255 CGAACTATAT
Statistics
Matches: 115, Mismatches: 18, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
62 2 0.02
63 40 0.35
64 7 0.06
65 6 0.05
66 27 0.23
67 31 0.27
68 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (63 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCACATGGGTGATACTATGTGACACCATGTAG
Found at i:29132269 original size:15 final size:16
Alignment explanation
Indices: 29132251--29132280 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29132241 ATGGAAACTA
29132251 TGATAT-ATGAAATAT
1 TGATATAATGAAATAT
29132266 TGATATAATGAAATA
1 TGATATAATGAAATA
29132281 AATGATATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (16 bp):
TGATATAATGAAATAT
Found at i:29137349 original size:14 final size:15
Alignment explanation
Indices: 29137330--29137358 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
29137320 GATCTAGATG
29137330 TTTAAA-AATTGAAA
1 TTTAAATAATTGAAA
29137344 TTTAAATAATTGAAA
1 TTTAAATAATTGAAA
29137359 ACCATCTCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (15 bp):
TTTAAATAATTGAAA
Found at i:29139240 original size:29 final size:29
Alignment explanation
Indices: 29139164--29139233 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
29139154 AATCGTATTC
* * *
29139164 ATATGGCCCACTAGGCCCAAATCACCTAT
1 ATATGGCCCATTAGGCCCAAAGCACATAT
*
29139193 ATATGGCCCATTAGGCCCAAAGCACATCT
1 ATATGGCCCATTAGGCCCAAAGCACATAT
29139222 ATATGGCCCATT
1 ATATGGCCCATT
29139234 CAGCCCAGTC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAAGCACATAT
Found at i:29153426 original size:28 final size:28
Alignment explanation
Indices: 29153394--29153497 Score: 113
Period size: 29 Copynumber: 3.6 Consensus size: 28
29153384 CGGTGACAAG
29153394 GTTGGCACTAAGTGTGCGAGCTTGAAA-A
1 GTTGGCACTAAGTGTGCGAGCTT-AAATA
* *
29153422 GTTGGCACTAAGTGTGTGAACTTAAATTA
1 GTTGGCACTAAGTGTGCGAGCTTAAA-TA
*
29153451 -TATGGCACTATGTGTGCGAGCTTAAATCA
1 GT-TGGCACTAAGTGTGCGAGCTTAAAT-A
**
29153480 CATGGCACTAAGTGTGCG
1 GTTGGCACTAAGTGTGCG
29153498 TGATCGATTA
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
27 3 0.05
28 23 0.36
29 38 0.59
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (28 bp):
GTTGGCACTAAGTGTGCGAGCTTAAATA
Found at i:29161473 original size:29 final size:29
Alignment explanation
Indices: 29161431--29161504 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 29
29161421 GTGACAAGGT
* *
29161431 TGGCACTAAGTGTGCGAACTTAAATTATA
1 TGGCACTAAGTGTGCGAACTTAAATCACA
* *
29161460 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAACTTAAATCACA
29161489 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
29161505 TGATCGATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAACTTAAATCACA
Found at i:29163677 original size:180 final size:180
Alignment explanation
Indices: 29163400--29163761 Score: 494
Period size: 180 Copynumber: 2.0 Consensus size: 180
29163390 TAGCTGGAGC
* * ** * * *
29163400 TATGGAACTCCAAATTAATATCCGTTAACTTTCTCAAAAACTAGACTCACATATATTCTTTCCAT
1 TATGGAACTCCAAATTAAGAACCACTAACTTTCCCAAAAACTAGACTCACATATATTCTTACAAT
* * * * *
29163465 AAAATTTTTAGAATTTTTTGTTTAGCCAATTAGTATAGTTTTTTCATTAAAGT-TACCCCTATTT
66 AAAATTTTCAGAATTTTTAGTATAGCCAATTAGTACAGTTTATTCATTAAA-TATACCCCTATTT
* * *
29163529 CATTGTCCAACATTTCCGATATTTCTTCACTAACAA-TTATTTATCTCATGG
130 CACTGTCCAACAGTTCCGATATTTCTTCACTAA-AATTTATTCATCTCATGG
* *
29163580 TATGGGACTCCAAATTAAGAACCACTAATTTTCCCAAAAACTAGACTCACATATATTCTTACAAT
1 TATGGAACTCCAAATTAAGAACCACTAACTTTCCCAAAAACTAGACTCACATATATTCTTACAAT
*
29163645 AAAATTTTCAGAATTTTTAGTATAGCCAATTAGTACAGTTTATTCATTAAATATACCCCTGTTTC
66 AAAATTTTCAGAATTTTTAGTATAGCCAATTAGTACAGTTTATTCATTAAATATACCCCTATTTC
* * * *
29163710 ACTGTCCGATAGTTCTGATCTTTCTTCACTAAAATTTATTCATCTCATGG
131 ACTGTCCAACAGTTCCGATATTTCTTCACTAAAATTTATTCATCTCATGG
29163760 TA
1 TA
29163762 CAGATCTCAG
Statistics
Matches: 158, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
179 3 0.02
180 155 0.98
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (180 bp):
TATGGAACTCCAAATTAAGAACCACTAACTTTCCCAAAAACTAGACTCACATATATTCTTACAAT
AAAATTTTCAGAATTTTTAGTATAGCCAATTAGTACAGTTTATTCATTAAATATACCCCTATTTC
ACTGTCCAACAGTTCCGATATTTCTTCACTAAAATTTATTCATCTCATGG
Found at i:29164607 original size:299 final size:299
Alignment explanation
Indices: 29164069--29164667 Score: 1090
Period size: 299 Copynumber: 2.0 Consensus size: 299
29164059 CACACAACTG
* * *
29164069 CTGCTGTCCAAAACTGTTTTATTACTAAATTTCATTTTTACATAATTTCACTTACTCTATTCTAT
1 CTGCTGTCCAAAACTGTTTTATTACAAAATTTCATTTTTACATAAATTCACTTACTCCATTCTAT
*
29164134 CTTACTAAAAGATTCACTCAACTATCGAGCACATTGCTTACAACTTTTCACATTGATATACTTGC
66 CTTACTAAAAGATTCACTCAACTATCGAGCACATTGCTTACAACTTTTCACATCGATATACTTGC
* * *
29164199 ACTTATTCATCACATAGTCATGTACATTTGTGTTTTCACTTAGTAAATTTCCCGCTGAACTCATT
131 ACTTATTCATCACATAGTCATGTACATATGTATTTTCACTTAATAAATTTCCCGCTGAACTCATT
* * *
29164264 GAAATAATAACAAATACCCGGTGGCCTGTGCATATACCACCCTTGTAACCGAAGCTCTCTGGTAT
196 GAAATAATAACAAATACCCGATGGCCTATGCATATACCACCCTTGAAACCGAAGCTCTCTGGTAT
29164329 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAT
261 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAT
29164368 CTGCTGTCCAAAACTGTTTTATTACAAAATTTCATTTTTACATAAATTCACTTACTCCATTCTAT
1 CTGCTGTCCAAAACTGTTTTATTACAAAATTTCATTTTTACATAAATTCACTTACTCCATTCTAT
29164433 CTTACTAAAAGATTCACTCAACTATCGAGCACATTGCTTACAACTTTTCACATCGATATACTTGC
66 CTTACTAAAAGATTCACTCAACTATCGAGCACATTGCTTACAACTTTTCACATCGATATACTTGC
*
29164498 ACTTATTCATCACATAGTCATGTACATATGTATTTTCACTTAATAAATTTCCTGCTGAACTCATT
131 ACTTATTCATCACATAGTCATGTACATATGTATTTTCACTTAATAAATTTCCCGCTGAACTCATT
29164563 GAAATAATAACAAATACCCGATGGCCTATGCATATACCACCCTTGAAACCGAAGCTCTCTGGTAT
196 GAAATAATAACAAATACCCGATGGCCTATGCATATACCACCCTTGAAACCGAAGCTCTCTGGTAT
*
29164628 GCATAGTAGCCTGCACTTAGTACTACACATGCGACGTAT
261 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAT
29164667 C
1 C
29164668 AATCTGGAAC
Statistics
Matches: 288, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
299 288 1.00
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (299 bp):
CTGCTGTCCAAAACTGTTTTATTACAAAATTTCATTTTTACATAAATTCACTTACTCCATTCTAT
CTTACTAAAAGATTCACTCAACTATCGAGCACATTGCTTACAACTTTTCACATCGATATACTTGC
ACTTATTCATCACATAGTCATGTACATATGTATTTTCACTTAATAAATTTCCCGCTGAACTCATT
GAAATAATAACAAATACCCGATGGCCTATGCATATACCACCCTTGAAACCGAAGCTCTCTGGTAT
GCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAT
Found at i:29164717 original size:49 final size:50
Alignment explanation
Indices: 29164631--29164761 Score: 210
Period size: 49 Copynumber: 2.6 Consensus size: 50
29164621 CTGGTATGCA
* * *
29164631 TAGTAGCCTGCACTTAGTACTACACATGCGACGTATCAATCTGGAACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACGTATCAATCCGGAACACG
* *
29164681 TAGTAGCCTGCA-TTAGTACTACACACGTGACTTATCAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACGTATCAATCCGGAACACG
29164730 TAGTAGCCTGCACTTAGTACTACACACGTGAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC
29164762 CTTACCATCT
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
49 44 0.59
50 31 0.41
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACGTATCAATCCGGAACACG
Found at i:29164778 original size:50 final size:50
Alignment explanation
Indices: 29164631--29164784 Score: 197
Period size: 50 Copynumber: 3.1 Consensus size: 50
29164621 CTGGTATGCA
* * *
29164631 TAGTAGCCTGCACTTAGTACTACACATGCGACGTATCAATCTGGA-ACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTATCAATCT-GATACACG
* *
29164681 TAGTAGCCTGCA-TTAGTACTACACACGTGACTTATCAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTATCAATCTGATACACG
* * *
29164730 TAGTAGCCTGCACTTAGTACTACACACGTGACCTTA-CCATCTTATACACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CTTATCAATCTGATACACG
29164780 TAGTA
1 TAGTA
29164785 CTGCACACGT
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
48 1 0.01
49 42 0.46
50 44 0.48
51 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTTATCAATCTGATACACG
Found at i:29167184 original size:28 final size:29
Alignment explanation
Indices: 29167117--29167217 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
29167107 ATAGTGAATC
*
29167117 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
29167146 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
29167174 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
29167204 CGCACACTTAGTGC
1 CGCACACTTAGTGC
29167218 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:29182130 original size:180 final size:180
Alignment explanation
Indices: 29181881--29182216 Score: 532
Period size: 180 Copynumber: 1.9 Consensus size: 180
29181871 ATCTGTTAAT
* * * * *
29181881 TTTTCCCAGAAACTAGATTCACGTATATTCTTACCATAAAATTTTTAGAATTTTTGGTTTAGCCA
1 TTTTCCCAGAAACTAGACTCACATATATTCTTACCATAAAATGTTAAGAAGTTTTGGTTTAGCCA
* * * * *
29181946 ATTAGTACAGTTTATTCATTAAAGT-TACCTCTATTTCACTGTCCGACAGTTCCTATCTTTCTTC
66 ATTAGTACAGCTTATTCATTAAA-TATACCCCTATTTCACTATCCAACAGTTCCGATCTTTCTTC
29182010 ACTAAAAATTC-TTTATCTCATGGTACAAGACTCCAAATTAAGAACCGCTAA
130 ACTAAAAA-TCATTTATCTCATGGTACAAGACTCCAAATTAAGAACCGCTAA
29182061 TTTTCCCAGAAACTAGACTCACATATATTCTTACCATAAAATGTTAAGAAGTTTTGGTTTAGCCA
1 TTTTCCCAGAAACTAGACTCACATATATTCTTACCATAAAATGTTAAGAAGTTTTGGTTTAGCCA
* *
29182126 ATTAGTACCGCTTATTCATTAAATATACCCCTATTTCACTATCCAACAGTTTCGATCTTTCTTCA
66 ATTAGTACAGCTTATTCATTAAATATACCCCTATTTCACTATCCAACAGTTCCGATCTTTCTTCA
29182191 CTAAAAATCATTTATCTCATGGTACA
131 CTAAAAATCATTTATCTCATGGTACA
29182217 GATCTTGGAT
Statistics
Matches: 142, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
179 3 0.02
180 139 0.98
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.38
Consensus pattern (180 bp):
TTTTCCCAGAAACTAGACTCACATATATTCTTACCATAAAATGTTAAGAAGTTTTGGTTTAGCCA
ATTAGTACAGCTTATTCATTAAATATACCCCTATTTCACTATCCAACAGTTCCGATCTTTCTTCA
CTAAAAATCATTTATCTCATGGTACAAGACTCCAAATTAAGAACCGCTAA
Found at i:29183082 original size:51 final size:51
Alignment explanation
Indices: 29183022--29183145 Score: 221
Period size: 51 Copynumber: 2.4 Consensus size: 51
29183012 CTGATATACG
*
29183022 TAGTAGCCTGCACTTAGTACTATACACGTGATCGAAACTATCGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTATACACGTGATCGAAACTATCGGGTACGCA
*
29183073 TAGTAGCCTGCACTTAGTACTATACACGTGATTGAAACTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTATACACGTGATCGAAACTATCGGGTACGCA
*
29183124 TAGTAGCCTGCAATTAGTACTA
1 TAGTAGCCTGCACTTAGTACTA
29183146 CATATGCGAC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 70 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (51 bp):
TAGTAGCCTGCACTTAGTACTATACACGTGATCGAAACTATCGGGTACGCA
Found at i:29183468 original size:21 final size:21
Alignment explanation
Indices: 29183442--29183484 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
29183432 GAAATATTAT
29183442 TTACATACAAACTTACCCCGG
1 TTACATACAAACTTACCCCGG
*
29183463 TTACATACAAACTTACCTCGG
1 TTACATACAAACTTACCCCGG
29183484 T
1 T
29183485 GCAAAATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.30, G:0.09, T:0.28
Consensus pattern (21 bp):
TTACATACAAACTTACCCCGG
Found at i:29191018 original size:50 final size:50
Alignment explanation
Indices: 29190899--29191143 Score: 206
Period size: 50 Copynumber: 4.9 Consensus size: 50
29190889 ATTGTGAGAA
* * * *** * *
29190899 CACATGTGTAGTACTATGTACAGGCTACTATGTGTTTAAGATGATTTTAGGC
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-A-GTTAGGT
* *
29190951 CACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * ** *
29191001 CGCATGTGTAGTACTAAGTGCAAGCTACTACATGCATTAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * ** *
29191051 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTATACTGGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * *
29191100 TACATGTATAGTACCAAGTGCAGGCTACTA-TTCGTACCAGATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGT-GTACCAGATAG
29191144 CTTCAGTTAC
Statistics
Matches: 155, Mismatches: 37, Indels: 5
0.79 0.19 0.03
Matches are distributed among these distances:
48 1 0.01
49 35 0.23
50 82 0.53
51 1 0.01
52 36 0.23
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
Found at i:29191076 original size:100 final size:99
Alignment explanation
Indices: 29190945--29191129 Score: 253
Period size: 100 Copynumber: 1.9 Consensus size: 99
29190935 TAAGATGATT
* * *
29190945 TTAGGCCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGT
1 TTAGGCCACGTGTGTAGTACTAAGTACAGGCTACTACGTATACCAGATAGTT-GGTCACATGTAT
*
29191010 AGTACTAAGTGCAAGCTACTACATGCATTAGATGG
65 AGTACCAAGTGCAAGCTACTACATGCATTAGATGG
* ** ** * *
29191045 TTAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTATACTGGATTGTTGGTTACATGTATA
1 TTAGGCCACGTGTGTAGTACTAAGTACAGGCTACTACGTATACCAGATAGTTGGTCACATGTATA
*
29191110 GTACCAAGTGCAGGCTACTA
66 GTACCAAGTGCAAGCTACTA
29191130 TTCGTACCAG
Statistics
Matches: 73, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
99 28 0.38
100 45 0.62
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (99 bp):
TTAGGCCACGTGTGTAGTACTAAGTACAGGCTACTACGTATACCAGATAGTTGGTCACATGTATA
GTACCAAGTGCAAGCTACTACATGCATTAGATGG
Found at i:29197680 original size:35 final size:35
Alignment explanation
Indices: 29197625--29197725 Score: 100
Period size: 35 Copynumber: 2.9 Consensus size: 35
29197615 CCCTAATTAT
* **
29197625 TTCG-TCAGTTTATCCGACTAGCGCTGAGCACAGT
1 TTCGCTCAGTTTATCCAACTAGCGCTGAGCACACA
* * * *
29197659 TTC-CATCAGTTTATCTAACTAGTGTTGGGCACACA
1 TTCGC-TCAGTTTATCCAACTAGCGCTGAGCACACA
*
29197694 TTCGC-CAGTTTGTCCAACTAGCGCTGAGCACA
1 TTCGCTCAGTTTATCCAACTAGCGCTGAGCACA
29197726 AATATCATTG
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
34 25 0.48
35 26 0.50
36 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.30
Consensus pattern (35 bp):
TTCGCTCAGTTTATCCAACTAGCGCTGAGCACACA
Done.