Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 165 of 253
Found at i:53572536 original size:23 final size:22
Alignment explanation
Indices: 53572476--53572540 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
53572466 TTTGATCAGT
53572476 ATACGACACATAAGTGCCT-AA
1 ATACGACACATAAGTGCCTAAA
* * *
53572497 A-ACAACACACGAGGTGCCTAAA
1 ATACGACACA-TAAGTGCCTAAA
53572519 ATACGACACATAAAGTGCCTAA
1 ATACGACACAT-AAGTGCCTAA
53572541 TCGGCAAAGC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
20 7 0.21
21 8 0.24
22 3 0.09
23 16 0.47
ACGTcount: A:0.45, C:0.25, G:0.15, T:0.15
Consensus pattern (22 bp):
ATACGACACATAAGTGCCTAAA
Found at i:53574086 original size:23 final size:24
Alignment explanation
Indices: 53574057--53574116 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
53574047 TTATTTCCTA
53574057 TAATATAATATTTTAA-CTTTAAT
1 TAATATAATATTTTAAGCTTTAAT
* *
53574080 TAATATAAT-TTATAATGTTTTAAT
1 TAATATAATATTTTAA-GCTTTAAT
53574104 TAA-ATAATATTTT
1 TAATATAATATTTT
53574117 TATAATATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 5 0.16
23 14 0.45
24 12 0.39
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TAATATAATATTTTAAGCTTTAAT
Found at i:53574106 original size:28 final size:28
Alignment explanation
Indices: 53574060--53574124 Score: 78
Period size: 30 Copynumber: 2.3 Consensus size: 28
53574050 TTTCCTATAA
*
53574060 TATAATATTTTAACTTTAATTAATATAATT
1 TATAATATTTTAAC-TTAAATAATAT-ATT
* *
53574090 TATAATGTTTTAA-TTAAATAATATTTT
1 TATAATATTTTAACTTAAATAATATATT
53574117 TATAATAT
1 TATAATAT
53574125 AAATAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 9 0.29
28 10 0.32
30 12 0.39
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (28 bp):
TATAATATTTTAACTTAAATAATATATT
Found at i:53575399 original size:7 final size:8
Alignment explanation
Indices: 53575371--53575399 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
53575361 TTGAAACTTG
53575371 ATTTTTAT
1 ATTTTTAT
53575379 ATTTTTAT
1 ATTTTTAT
53575387 ATTTTT-T
1 ATTTTTAT
53575394 ATTTTT
1 ATTTTT
53575400 CTCCATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
ATTTTTAT
Found at i:53577752 original size:13 final size:13
Alignment explanation
Indices: 53577734--53577786 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
53577724 AATAAATATG
53577734 ATTTAATCAATTA
1 ATTTAATCAATTA
*
53577747 ATTTAATTAATTA
1 ATTTAATCAATTA
* *
53577760 AATTAACTAAATTA
1 ATTTAA-TCAATTA
*
53577774 ATTT-CTCAATTA
1 ATTTAATCAATTA
53577786 A
1 A
53577787 GTAATCTTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
12 7 0.21
13 17 0.52
14 9 0.27
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTTAATCAATTA
Found at i:53577756 original size:9 final size:9
Alignment explanation
Indices: 53577742--53577776 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
53577732 TGATTTAATC
*
53577742 AATTAATTT
1 AATTAATTA
53577751 AATTAATTA
1 AATTAATTA
*
53577760 AATTAACTA
1 AATTAATTA
53577769 AATTAATT
1 AATTAATT
53577777 TCTCAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (9 bp):
AATTAATTA
Found at i:53582828 original size:68 final size:68
Alignment explanation
Indices: 53582749--53582905 Score: 183
Period size: 68 Copynumber: 2.3 Consensus size: 68
53582739 CTTAAAATTA
* * * *
53582749 AGCTGTTCGAATGTGTTAGATTCACTATTCAAAGCA-TCATCATTTATGCTATTTTATTTGGTAA
1 AGCTGTCCGAATGTGTTAGATTCACTATTCAAAGCACT-ACCATATATGCTATTTTATTTAGTAA
53582813 AAGT
65 AAGT
* * * * * *
53582817 AGCTGTCCGAATGTGTTAAATTCATTGTTCGATGCACTACCATATATGCTGTTTTATTTAGTAAA
1 AGCTGTCCGAATGTGTTAGATTCACTATTCAAAGCACTACCATATATGCTATTTTATTTAGTAAA
*
53582882 TGT
66 AGT
*
53582885 AGCTGTCCGAATCTGTT-GATT
1 AGCTGTCCGAATGTGTTAGATT
53582906 TCACAGTTAA
Statistics
Matches: 75, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
67 3 0.04
68 71 0.95
69 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.41
Consensus pattern (68 bp):
AGCTGTCCGAATGTGTTAGATTCACTATTCAAAGCACTACCATATATGCTATTTTATTTAGTAAA
AGT
Found at i:53586130 original size:34 final size:34
Alignment explanation
Indices: 53586082--53586155 Score: 112
Period size: 34 Copynumber: 2.1 Consensus size: 34
53586072 TCTAGCTTTC
* *
53586082 AACTGAATGCCATTCTTCGCTATTCTCATACCATG
1 AACT-AATGCCATTCTCCGCTATTCTCATACCACG
*
53586117 AACTAATGCCATTCTCCGCTATTCTCGTACCACG
1 AACTAATGCCATTCTCCGCTATTCTCATACCACG
53586151 AACTA
1 AACTA
53586156 CTCTCAAACT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
34 32 0.89
35 4 0.11
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.31
Consensus pattern (34 bp):
AACTAATGCCATTCTCCGCTATTCTCATACCACG
Found at i:53588362 original size:66 final size:65
Alignment explanation
Indices: 53588292--53588428 Score: 150
Period size: 66 Copynumber: 2.1 Consensus size: 65
53588282 CTGATGACAT
* * *
53588292 GCCCGTGTGCCAGACCGTGTAAAAATT-GGAGGGTGTACTGACTTATGCAACACGGCCATGTCAC
1 GCCCGTGTGCCAGACCATGTAAAAATTAGG-GGGTATACTGACTTATACAACACGGCCA-GTCAC
53588356 AA
64 AA
* * *** * * *
53588358 GCCCGTGTGCTAGGCCATGTGCCAATTAGGGGGTATACTGACTTGTACTACACGGCCAGTCACAC
1 GCCCGTGTGCCAGACCATGTAAAAATTAGGGGGTATACTGACTTATACAACACGGCCAGTCACAA
53588423 GCCCGT
1 GCCCGT
53588429 ACGTGAGATC
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
65 12 0.20
66 45 0.76
67 2 0.03
ACGTcount: A:0.23, C:0.27, G:0.28, T:0.22
Consensus pattern (65 bp):
GCCCGTGTGCCAGACCATGTAAAAATTAGGGGGTATACTGACTTATACAACACGGCCAGTCACAA
Found at i:53598328 original size:43 final size:43
Alignment explanation
Indices: 53598260--53598431 Score: 163
Period size: 43 Copynumber: 4.0 Consensus size: 43
53598250 AAAGCTCGTA
* *
53598260 CAATGCCATCGTCTCAGATGTGGTCTTACATGTAATCAAATAT
1 CAATGCCATCGTCCCAGATGTGGTCTTACACGTAATCAAATAT
* **
53598303 CAATGCCATTGTCCCAGACTG-GGTCTTACACAAAATCAAATAT
1 CAATGCCATCGTCCCAGA-TGTGGTCTTACACGTAATCAAATAT
* ** *
53598346 -GATGCCGAT-GTCCCAGACATGGTCTTACACGTAAATCCCAA-AT
1 CAATGCC-ATCGTCCCAGATGTGGTCTTACACGT-AAT-CAAATAT
* * * *
53598389 CGATGCCAACGTCCCAGATGTGGTCTTACACGAAATCACATAT
1 CAATGCCATCGTCCCAGATGTGGTCTTACACGTAATCAAATAT
53598432 GGAAAATCCT
Statistics
Matches: 104, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
42 25 0.24
43 48 0.46
44 31 0.30
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (43 bp):
CAATGCCATCGTCCCAGATGTGGTCTTACACGTAATCAAATAT
Found at i:53598370 original size:42 final size:40
Alignment explanation
Indices: 53598293--53598432 Score: 120
Period size: 42 Copynumber: 3.3 Consensus size: 40
53598283 TCTTACATGT
*
53598293 AATCAAATATCAATGCCATTGTCCCAGACTGGGTCTTACACAA
1 AATCAAATAT-GATGCCA-TGTCCCAGACT-GGTCTTACACAA
*
53598336 AATCAAATATGATGCCGATGTCCCAGACATGGTCTTACACGTA
1 AATCAAATATGATGCC-ATGTCCCAGAC-TGGTCTTACAC-AA
* * * *
53598379 AATCCCAAAT-CGATGCCAACGTCCCAGATGTGGTCTTACACGA
1 AAT--CAAATATGATGCC-ATGTCCCAGA-CTGGTCTTACACAA
*
53598422 AATCACATATG
1 AATCAAATATG
53598433 GAAAATCCTA
Statistics
Matches: 81, Mismatches: 9, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
41 4 0.05
42 26 0.32
43 20 0.25
44 26 0.32
45 5 0.06
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (40 bp):
AATCAAATATGATGCCATGTCCCAGACTGGTCTTACACAA
Found at i:53604413 original size:43 final size:42
Alignment explanation
Indices: 53604326--53604495 Score: 119
Period size: 43 Copynumber: 4.0 Consensus size: 42
53604316 AAAAAGCTTG
* * ** * *
53604326 TACAATGCCAACGTTCCCAGACGTGGTCTTACATGTAATCAAA
1 TACAATGCCGATG-TCCCAGACAAGGTCTTACACGAAATCAAA
** * *
53604369 TATTGATGCC-ACTGTCTCAGACAAGGTCTTACACGAAATGAAA
1 TA-CAATGCCGA-TGTCCCAGACAAGGTCTTACACGAAATCAAA
*
53604412 TACAATGCCGATGTCCCAGACATGGTCTTACACGTAAATCTTAAA
1 TACAATGCCGATGTCCCAGACAAGGTCTTACACG-AAATC--AAA
* * * ***
53604457 T-CGATGCCAACGTCCCAGATGTGGTCTTACACGAAATCA
1 TACAATGCCGATGTCCCAGACAAGGTCTTACACGAAATCA
53604496 CATATCGAAA
Statistics
Matches: 102, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
41 1 0.01
42 26 0.25
43 38 0.37
44 33 0.32
45 4 0.04
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
TACAATGCCGATGTCCCAGACAAGGTCTTACACGAAATCAAA
Found at i:53604475 original size:44 final size:43
Alignment explanation
Indices: 53604330--53604494 Score: 140
Period size: 44 Copynumber: 3.8 Consensus size: 43
53604320 AGCTTGTACA
* * * *
53604330 ATGCCAACGTTCCCAGACGTGGTCTTACATGTAATC-AAATATTG
1 ATGCCAACG-TCCCAGACATGGTCTTACACGAAATCTAAA-ATCG
* * * *
53604374 ATGCC-ACTGTCTCAGACAAGGTCTTACACGAAA--TGAAATACA
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCTAAAAT-CG
* * *
53604416 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCTTAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AAATCTAAAATCG
**
53604460 ATGCCAACGTCCCAGATGTGGTCTTACACGAAATC
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATC
53604495 ACATATCGAA
Statistics
Matches: 97, Mismatches: 17, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
41 2 0.02
42 27 0.28
43 30 0.31
44 33 0.34
45 5 0.05
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCTAAAATCG
Found at i:53608916 original size:20 final size:20
Alignment explanation
Indices: 53608891--53608957 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
53608881 GTTTTGATAT
53608891 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
53608911 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
53608931 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
53608951 ACATGAT
1 ACATGAT
53608958 GTATTCATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
20 44 0.96
21 2 0.04
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:53608918 original size:11 final size:11
Alignment explanation
Indices: 53608902--53608957 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
53608892 CATGATTGAT
53608902 ATGATATGCAC
1 ATGATATGCAC
*
53608913 ATGATATG--T
1 ATGATATGCAC
53608922 ATGATATGCAC
1 ATGATATGCAC
*
53608933 ATGATATG--T
1 ATGATATGCAC
53608942 ATGATATGCAC
1 ATGATATGCAC
53608953 ATGAT
1 ATGAT
53608958 GTATTCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.34
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:53608971 original size:40 final size:39
Alignment explanation
Indices: 53608891--53608971 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 39
53608881 GTTTTGATAT
*
53608891 ACATGATTGATATGATATGCACATGATATGTATGATATGC
1 ACATGATTGATATGATATGCACATGA-ATGTATCATATGC
53608931 ACATGATATG-TATGATATGCACATG-ATGTATTCATAATGC
1 ACATGAT-TGATATGATATGCACATGAATGTA-TCAT-ATGC
53608971 A
1 A
53608972 TTGGGTTGGG
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
38 5 0.14
39 3 0.08
40 27 0.73
41 2 0.05
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.35
Consensus pattern (39 bp):
ACATGATTGATATGATATGCACATGAATGTATCATATGC
Found at i:53609099 original size:24 final size:24
Alignment explanation
Indices: 53609005--53609112 Score: 139
Period size: 25 Copynumber: 4.4 Consensus size: 24
53608995 AGGAAGTGCA
*
53609005 AAAAGGGCTATGCCCCAGTTTACTGT
1 AAAAGGGCTTTGCCCCAGTTTA-T-T
53609031 -AAAGGGCTTTTGCCCCAGTTTATT
1 AAAAGGGC-TTTGCCCCAGTTTATT
*
53609055 AAAAGGGCTTTCGCCCCAGTTTATC
1 AAAAGGGCTTT-GCCCCAGTTTATT
53609080 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATT
53609103 AAAAGAGGCT
1 AAAAG-GGCT
53609113 AGGCCTCCAG
Statistics
Matches: 75, Mismatches: 3, Indels: 10
0.85 0.03 0.11
Matches are distributed among these distances:
23 9 0.12
24 15 0.20
25 38 0.51
26 13 0.17
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATT
Found at i:53609123 original size:49 final size:50
Alignment explanation
Indices: 53609005--53609124 Score: 147
Period size: 49 Copynumber: 2.4 Consensus size: 50
53608995 AGGAAGTGCA
* **
53609005 AAAAGGGCTATGCCCCAGTTTACTGTAAAGGGCTTTTGCCCCAGTTTATT
1 AAAAGGGCTACGCCCCAGTTTACTCAAAAGGGCTTTTGCCCCAGTTTATT
*
53609055 AAAAGGGCTTTCGCCCCAGTTTA-TCAAAAGGGC-TTTGCCCCAG-TTATT
1 AAAAGGGC-TACGCCCCAGTTTACTCAAAAGGGCTTTTGCCCCAGTTTATT
*
53609103 AAAAGAGGCTAGGCCTCCAGTT
1 AAAAG-GGCTACGCC-CCAGTT
53609125 ATATGATAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
48 14 0.23
49 19 0.31
50 16 0.26
51 12 0.20
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (50 bp):
AAAAGGGCTACGCCCCAGTTTACTCAAAAGGGCTTTTGCCCCAGTTTATT
Found at i:53609362 original size:31 final size:31
Alignment explanation
Indices: 53609321--53609384 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
53609311 CATTTACAGT
*
53609321 AAAGGCTTCGG-CCTAGTAATATGAAATATGA
1 AAAGACTTCGGTCC-AGTAATATGAAATATGA
**
53609352 AAAGACTTCGGTCCAGTGTTATGAAATATGA
1 AAAGACTTCGGTCCAGTAATATGAAATATGA
53609383 AA
1 AA
53609385 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 27 0.93
32 2 0.07
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (31 bp):
AAAGACTTCGGTCCAGTAATATGAAATATGA
Found at i:53612662 original size:118 final size:119
Alignment explanation
Indices: 53612481--53612702 Score: 299
Period size: 118 Copynumber: 1.9 Consensus size: 119
53612471 TCCTCGTTCA
*
53612481 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
53612546 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * **
53612600 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
53612662 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
53612703 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
117 4 0.04
118 66 0.73
119 20 0.22
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:53612702 original size:40 final size:40
Alignment explanation
Indices: 53612479--53612702 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
53612469 GCTCCTCGTT
* *
53612479 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
53612519 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
53612559 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
53612599 C-AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
53612637 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
53612678 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
53612703 CATCATTCAA
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
38 24 0.15
39 21 0.13
40 107 0.65
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:53620609 original size:118 final size:120
Alignment explanation
Indices: 53620396--53620619 Score: 285
Period size: 118 Copynumber: 1.9 Consensus size: 120
53620386 GCTCCTCGTT
**
53620396 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
53620461 ATTTAGTAACTCGCACAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTAGCACAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
53620516 CAAATGCCTTCGGG-CTTAGCCCGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* * * * *
53620578 GATATGGTCACTTAGCACAAA-GCCTTTGGGACTTAGCCCGGA
65 GATATAGTAAC-TAGCACAAATGCCATCGGGACTTAACCCGGA
53620620 CATCATTCAA
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
117 3 0.03
118 55 0.62
119 17 0.19
120 14 0.16
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCACAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:53620619 original size:40 final size:40
Alignment explanation
Indices: 53620396--53620619 Score: 276
Period size: 40 Copynumber: 5.7 Consensus size: 40
53620386 GCTCCTCGTT
* *
53620396 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
53620436 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
53620476 CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
53620516 CAAATGCCTTCGGG-CTTAGCCCGAAT-TAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
53620554 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
*
53620595 CAAA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
53620620 CATCATTCAA
Statistics
Matches: 162, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
37 2 0.01
38 22 0.14
39 20 0.12
40 107 0.66
41 11 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:53637320 original size:40 final size:40
Alignment explanation
Indices: 53637276--53637546 Score: 361
Period size: 40 Copynumber: 6.8 Consensus size: 40
53637266 TAACCACAAG
53637276 CACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCA
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCA
*
53637316 CACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACT-A
1 CACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTCA
* * * * *
53637355 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCG
1 -CACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCA
*
53637396 CACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCA
*
53637436 CACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACT-A
1 CACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTCA
* * * * *
53637475 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCG
1 -CACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCA
53637516 CACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 CACAAATGCCTTCGGGTCTTAGCCCGGATAT
53637547 CATTCAAATG
Statistics
Matches: 201, Mismatches: 22, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
39 7 0.03
40 186 0.93
41 8 0.04
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCA
Found at i:53637488 original size:120 final size:120
Alignment explanation
Indices: 53637275--53637546 Score: 535
Period size: 120 Copynumber: 2.3 Consensus size: 120
53637265 ATAACCACAA
53637275 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCACACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCACACAAATGCCTTCGGGTCTTAGCC
53637340 CGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
66 CGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
*
53637395 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCACACAAATGCCTTCGGGTCTTAGCC
53637460 CGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
66 CGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
53637515 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
53637547 CATTCAAATG
Statistics
Matches: 151, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 151 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (120 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCACACAAATGCCTTCGGGTCTTAGCC
CGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
Found at i:53639338 original size:40 final size:40
Alignment explanation
Indices: 53639271--53639435 Score: 208
Period size: 40 Copynumber: 4.2 Consensus size: 40
53639261 GGACTAAGAT
* ***
53639271 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAAAC
* * * *
53639311 CCGAAGTCATTTATGCTAG-TGATTATATCTGGGCTAAAAC
1 CCGAAGGCATTTGTGCGAGTTG-TTATATCCGGGCTAAAAC
* *
53639351 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGAC
1 CCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAAAC
*
53639391 CCGAAGGCATTTGTGCGAGTTGTTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAAAC
53639430 CCGAAG
1 CCGAAG
53639436 ATACTTGGGT
Statistics
Matches: 106, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
39 15 0.14
40 89 0.84
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAAAC
Found at i:53639417 original size:80 final size:79
Alignment explanation
Indices: 53639271--53639435 Score: 242
Period size: 80 Copynumber: 2.1 Consensus size: 79
53639261 GGACTAAGAT
* * * *
53639271 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGTCATTTATGCTAGTGATTA
1 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTA
*
53639336 TATCTGGGCTAAAAC
66 TATC-CGGCTAAAAC
*
53639351 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TT
1 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGATT
*
53639415 ATATCCGGCTAAATC
65 ATATCCGGCTAAAAC
53639430 CCGAAG
1 CCGAAG
53639436 ATACTTGGGT
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
79 14 0.18
80 61 0.79
81 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTA
TATCCGGCTAAAAC
Found at i:53639703 original size:22 final size:22
Alignment explanation
Indices: 53639663--53639704 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
53639653 GAATGTGCAT
*
53639663 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
53639685 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
53639705 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:53641536 original size:41 final size:40
Alignment explanation
Indices: 53641491--53641652 Score: 127
Period size: 41 Copynumber: 3.9 Consensus size: 40
53641481 TCTTAGCACC
53641491 GGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAGACTATT
1 GGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAGACTA-T
* * * *
53641532 GGCTCGAAGGCCCTTCGGAACTAAG-TCCGG-TTATGAC-ACT
1 GGCTCAAAAGCCCTTCGAAACCAAGCT-CGGATTA-GACTA-T
* * *
53641572 GGCTCTAAAAAGCCTTTCGAAACTAAGTTCGGTTATTAGCACTA-
1 GGCTC--AAAAGCCCTTCGAAACCAAGCTCGG--ATTAG-ACTAT
*
53641616 -GCTCAAAAGCCCTTCGAGACCAAGCTCGGATTTAGAC
1 GGCTCAAAAGCCCTTCGAAACCAAGCTCGGA-TTAGAC
53641653 CCCGATTAGC
Statistics
Matches: 97, Mismatches: 13, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
39 3 0.03
40 15 0.15
41 48 0.49
42 19 0.20
43 5 0.05
44 1 0.01
45 5 0.05
46 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (40 bp):
GGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAGACTAT
Found at i:53650752 original size:49 final size:49
Alignment explanation
Indices: 53650686--53650873 Score: 218
Period size: 49 Copynumber: 3.8 Consensus size: 49
53650676 TAGACAAGGC
* *
53650686 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
* * *
53650735 TATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG-ATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA--TGCAACCAA-T
** * * *
53650786 TAT-TGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGATCAAT
1 TATCT-GGTACACGTAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
* *
53650835 TATCCGGTACACGTAGTAGCCTGTACTTAGTACTACACA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
53650874 CGTGACCTCA
Statistics
Matches: 115, Mismatches: 18, Indels: 12
0.79 0.12 0.08
Matches are distributed among these distances:
49 72 0.63
50 7 0.06
51 36 0.31
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
Found at i:53650826 original size:100 final size:100
Alignment explanation
Indices: 53650691--53650878 Score: 322
Period size: 100 Copynumber: 1.9 Consensus size: 100
53650681 AAGGCTATCT
*
53650691 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCTGATACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGATACACGTAGTAGCC
53650756 TGCACTTAGTACTACACACGTGATCGAAGTTATTG
66 TGCACTTAGTACTACACACGTGATCGAAGTTATTG
* * * *
53650791 GGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGATCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGATACACGTAGTAGCC
*
53650856 TGTACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
53650879 CCTCACAATA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGATACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCGAAGTTATTG
Found at i:53662501 original size:51 final size:49
Alignment explanation
Indices: 53662380--53662566 Score: 248
Period size: 49 Copynumber: 3.8 Consensus size: 49
53662370 AGGTCACGTT
*
53662380 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTGGTCGCATG
* * * * *
53662429 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACATG
1 TGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAA-T-TGGTCGCATG
* * * *
53662480 TGTAGTACTAAGTGTAGGCTACTACGTGTACGGGATTATTGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTGGTCGCATG
* *
53662529 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA
1 TGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAA
53662567 CTTCGGCTAC
Statistics
Matches: 115, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 74 0.64
50 2 0.02
51 39 0.34
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (49 bp):
TGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTGGTCGCATG
Found at i:53662553 original size:100 final size:100
Alignment explanation
Indices: 53662380--53662560 Score: 335
Period size: 100 Copynumber: 1.8 Consensus size: 100
53662370 AGGTCACGTT
53662380 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGTGCA
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGTGCA
53662445 GGCTACTATGCGTACCCGAAAACTGTGATCACATG
66 GGCTACTATGCGTACCCGAAAACTGTGATCACATG
* * *
53662480 TGTAGTACTAAGTGTAGGCTACTACGTGTACGGGATTATTGGTCGCATGTGTAGTACTAAGTGCA
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGTGCA
53662545 GGCTACTATGCGTACC
66 GGCTACTATGCGTACC
53662561 AGATAACTTC
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 78 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (100 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGTGCA
GGCTACTATGCGTACCCGAAAACTGTGATCACATG
Found at i:53665047 original size:37 final size:37
Alignment explanation
Indices: 53664934--53665120 Score: 93
Period size: 37 Copynumber: 5.2 Consensus size: 37
53664924 ATTTACTTTG
53664934 GTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGT
1 GTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGT
** * * ******
53664971 GTAAATCAAAATTTATTCAGA-ACTA-GTCTTCTTTA--
1 GTAAAT-TGAA-TTACTCAGATACAAGGTCGAGAAAAGT
53665006 GTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGT
1 GTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGT
*** * * ******
53665043 GTAAACCAAAATTTATTCAGA-ACTA-GTCTTCTTTA--
1 GTAAA-TTGAA-TTACTCAGATACAAGGTCGAGAAAAGT
53665078 GTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGT
1 GTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGT
53665115 GTAAAT
1 GTAAAT
53665121 CAAAATTTAT
Statistics
Matches: 96, Mismatches: 42, Indels: 24
0.59 0.26 0.15
Matches are distributed among these distances:
33 16 0.17
34 10 0.10
35 19 0.20
37 25 0.26
38 10 0.10
39 16 0.17
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (37 bp):
GTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGT
Found at i:53665183 original size:72 final size:72
Alignment explanation
Indices: 53664929--53665151 Score: 428
Period size: 72 Copynumber: 3.1 Consensus size: 72
53664919 AATGAATTTA
*
53664929 CTTTGGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
1 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
53664994 TAGTCTT
66 TAGTCTT
*
53665001 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAACCAAAATTTATTCAGAAC
1 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
53665066 TAGTCTT
66 TAGTCTT
53665073 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
1 CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
53665138 TAGTCTT
66 TAGTCTT
53665145 CTTTAGT
1 CTTTAGT
53665152 GAAAAGTAAT
Statistics
Matches: 148, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 148 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (72 bp):
CTTTAGTAAATTGAATTACTCAGATACAAGGTCGAGAAAAGTGTAAATCAAAATTTATTCAGAAC
TAGTCTT
Found at i:53665685 original size:15 final size:15
Alignment explanation
Indices: 53665665--53665727 Score: 67
Period size: 15 Copynumber: 4.2 Consensus size: 15
53665655 CATAGTATCG
*
53665665 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTT
53665680 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
*
53665695 TAT-TCTGGGTTT-TT
1 TATCT-TGGATTTCTT
*
53665709 CTACCTTGGATTTCTT
1 -TATCTTGGATTTCTT
53665725 TAT
1 TAT
53665728 TCGGTTTTCT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
14 3 0.08
15 33 0.85
16 3 0.08
ACGTcount: A:0.11, C:0.14, G:0.16, T:0.59
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:53665706 original size:30 final size:31
Alignment explanation
Indices: 53665670--53665738 Score: 99
Period size: 30 Copynumber: 2.3 Consensus size: 31
53665660 TATCGTATCT
*
53665670 TGGGTTTCTT-TATCTTGGATTTCTTTATTC
1 TGGGTTTCTTCTACCTTGGATTTCTTTATTC
53665700 TGGGTTT-TTCTACCTTGGATTTCTTTATTC
1 TGGGTTTCTTCTACCTTGGATTTCTTTATTC
*
53665730 -GGTTTTCTT
1 TGGGTTTCTT
53665739 GTTATCTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 7 0.20
30 28 0.80
ACGTcount: A:0.09, C:0.14, G:0.17, T:0.59
Consensus pattern (31 bp):
TGGGTTTCTTCTACCTTGGATTTCTTTATTC
Found at i:53671421 original size:43 final size:42
Alignment explanation
Indices: 53671316--53671433 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 42
53671306 GAGTTATAAT
* *
53671316 TTACGTGTAAGACCATGTCTGGGACA-TCGACATCGTATTTGA
1 TTACGTGTAAGACCACGTCTGGGACAGT-GGCATCGTATTTGA
*
53671358 TTTCGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATTTGA
1 TTACGTGTAAGACCAC-GTCTGGGACAGTGGCATCG-TATTTGA
* *
53671401 TTACATGTAAAACCACGTCTGGGAC-GTTGGCAT
1 TTACGTGTAAGACCACGTCTGGGACAG-TGGCAT
53671434 TGTGTGAGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
42 30 0.46
43 34 0.52
44 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
TTACGTGTAAGACCACGTCTGGGACAGTGGCATCGTATTTGA
Found at i:53675283 original size:42 final size:43
Alignment explanation
Indices: 53675169--53675334 Score: 126
Period size: 44 Copynumber: 3.9 Consensus size: 43
53675159 AAAGCTCGTA
* *
53675169 CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATAT
* * * *
53675212 CAATGCCACTGTCTCATACA-GG-CGTTACACGAAATCATATA-
1 CAATGCCAATGTCCCAGACATGGTC-TTACACGAAATCAAATAT
* * * *
53675253 CGATTCTAATGTCCCAGACATGGTCTTACACACAAAT-AACA-AGT
1 CAATGCCAATGTCCCAGACATGGTCTTACAC-GAAATCAA-ATA-T
* * * * *
53675297 CGATGCCAACGTCCCAGACGTGGTCTGACACGATATCA
1 CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCA
53675335 CACCTCGAAA
Statistics
Matches: 94, Mismatches: 21, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
41 15 0.16
42 26 0.28
43 26 0.28
44 27 0.29
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATAT
Found at i:53677951 original size:28 final size:28
Alignment explanation
Indices: 53677863--53678000 Score: 109
Period size: 28 Copynumber: 5.0 Consensus size: 28
53677853 AAAGGTAGCC
* *
53677863 CTTTT-AGAGTTTGCCACAAAGGCTTTT
1 CTTTTCAGAGTTTGCCACAAATGCTATT
* * *
53677890 GTTTTCAAAGTTTGCCGCACAA-GCTATT
1 CTTTTCAGAGTTTGCCACA-AATGCTATT
* * *
53677918 CTTTTCAGAGTTTGCCACACATGTTTTT
1 CTTTTCAGAGTTTGCCACAAATGCTATT
* * ** *
53677946 CCTTTCACAGTTCACCACAAATGTTATT
1 CTTTTCAGAGTTTGCCACAAATGCTATT
* * *
53677974 CTTTTCAGAGTTCGCCATAAAGGCTAT
1 CTTTTCAGAGTTTGCCACAAATGCTAT
53678001 CCTAACTGTC
Statistics
Matches: 86, Mismatches: 22, Indels: 5
0.76 0.19 0.04
Matches are distributed among these distances:
27 5 0.06
28 79 0.92
29 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.38
Consensus pattern (28 bp):
CTTTTCAGAGTTTGCCACAAATGCTATT
Found at i:53677952 original size:56 final size:56
Alignment explanation
Indices: 53677863--53677998 Score: 141
Period size: 56 Copynumber: 2.4 Consensus size: 56
53677853 AAAGGTAGCC
** ** *
53677863 CTTTT-AGAGTTTGCCACAAAGGCTTTTGTTTTCAAAGTTTGCCGCACAA-GCTATT
1 CTTTTCAGAGTTTGCCACAAAGGCTTTTCCTTTCAAAGTTCACCACA-AATGCTATT
* * * * *
53677918 CTTTTCAGAGTTTGCCACACATGTTTTTCCTTTCACAGTTCACCACAAATGTTATT
1 CTTTTCAGAGTTTGCCACAAAGGCTTTTCCTTTCAAAGTTCACCACAAATGCTATT
* *
53677974 CTTTTCAGAGTTCGCCATAAAGGCT
1 CTTTTCAGAGTTTGCCACAAAGGCT
53677999 ATCCTAACTG
Statistics
Matches: 64, Mismatches: 15, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
55 7 0.11
56 57 0.89
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (56 bp):
CTTTTCAGAGTTTGCCACAAAGGCTTTTCCTTTCAAAGTTCACCACAAATGCTATT
Found at i:53681923 original size:27 final size:27
Alignment explanation
Indices: 53681870--53681937 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 27
53681860 GGTGGCCCTG
* * * *
53681870 CCACAAATATCTATTTCTGGTGGCTCTA
1 CCAC-AATATCTGTATCTAGTGACTCTA
* *
53681898 CCATAATATCTGTATCTAGTGACTCTG
1 CCACAATATCTGTATCTAGTGACTCTA
*
53681925 TCACAATATCTGT
1 CCACAATATCTGT
53681938 TCTGGCAGCC
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
27 29 0.91
28 3 0.09
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (27 bp):
CCACAATATCTGTATCTAGTGACTCTA
Found at i:53686565 original size:27 final size:27
Alignment explanation
Indices: 53686535--53686733 Score: 163
Period size: 27 Copynumber: 7.4 Consensus size: 27
53686525 TTTAGTTTAC
*
53686535 TAAAATTACCGAAATACCTATAG-TTTG
1 TAAAATTACCGAAATACCT-TCGATTTG
* *
53686562 TAAAATTACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCTTCGATTTG
* *
53686589 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACCGAAATACCTTCGATTTG
* ** * *
53686616 TAAAATTACC-AAAGCACCCCCGGTTTA
1 TAAAATTACCGAAA-TACCTTCGATTTG
* * *
53686643 TAAAATTACCAAAATACCATCGA-TTA
1 TAAAATTACCGAAATACCTTCGATTTG
** * *
53686669 TAAAATTACTAAAATGCCTTCAATTTG
1 TAAAATTACCGAAATACCTTCGATTTG
* *
53686696 TAAAATTACC-AAAGTACCCTCGATTTA
1 TAAAATTACCGAAA-TACCTTCGATTTG
*
53686723 CAAAATTACCG
1 TAAAATTACCG
53686734 TTTTACCCTC
Statistics
Matches: 139, Mismatches: 27, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
26 30 0.22
27 106 0.76
28 3 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
TAAAATTACCGAAATACCTTCGATTTG
Found at i:53686603 original size:54 final size:54
Alignment explanation
Indices: 53686535--53686713 Score: 184
Period size: 54 Copynumber: 3.3 Consensus size: 54
53686525 TTTAGTTTAC
* * *
53686535 TAAAATTACCGAAATACCTATAGTTTGTAAAATTACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCTATCGATTGTAAAATTACTAAAATACCCTCGATTTG
* * ** * * *
53686589 TAAAATTACTGAAATACCT-TCGACTTGTAAAATTACCAAAGCACCCCCGGTTTA
1 TAAAATTACCGAAATACCTATCGA-TTGTAAAATTACTAAAATACCCTCGATTTG
* * * * *
53686643 TAAAATTACCAAAATACC-ATCGATTATAAAATTACTAAAATGCCTTCAATTTG
1 TAAAATTACCGAAATACCTATCGATTGTAAAATTACTAAAATACCCTCGATTTG
53686696 TAAAATTACC-AAAGTACC
1 TAAAATTACCGAAA-TACC
53686714 CTCGATTTAC
Statistics
Matches: 100, Mismatches: 22, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
52 3 0.03
53 36 0.36
54 61 0.61
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
TAAAATTACCGAAATACCTATCGATTGTAAAATTACTAAAATACCCTCGATTTG
Found at i:53686706 original size:80 final size:81
Alignment explanation
Indices: 53686557--53686732 Score: 228
Period size: 80 Copynumber: 2.2 Consensus size: 81
53686547 AATACCTATA
* ** * * * *
53686557 GTTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACCTTCGACTTGTAAAAT
1 GTTTATAAAATTACCAAAATACCATCGATTTATAAAATTACTAAAATACCTTCAACTTGTAAAAT
53686622 TACCAAAGCACCCCCG
66 TACCAAAGCACCCCCG
* *
53686638 GTTTATAAAATTACCAAAATACCATCGA-TTATAAAATTACTAAAATGCCTTCAATTTGTAAAAT
1 GTTTATAAAATTACCAAAATACCATCGATTTATAAAATTACTAAAATACCTTCAACTTGTAAAAT
* *
53686702 TACCAAAGTACCCTCG
66 TACCAAAGCACCCCCG
* *
53686718 ATTTACAAAATTACC
1 GTTTATAAAATTACC
53686733 GTTTTACCCT
Statistics
Matches: 82, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
80 58 0.71
81 24 0.29
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
GTTTATAAAATTACCAAAATACCATCGATTTATAAAATTACTAAAATACCTTCAACTTGTAAAAT
TACCAAAGCACCCCCG
Found at i:53686740 original size:27 final size:27
Alignment explanation
Indices: 53686710--53686838 Score: 177
Period size: 27 Copynumber: 4.8 Consensus size: 27
53686700 ATTACCAAAG
* *
53686710 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
53686737 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
53686764 TACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * **
53686791 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
53686818 TACCCTCGATTTACAGAATTA
1 TACCCTCGATTTACAGAATTA
53686839 ACTGCGACAA
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:53686758 original size:54 final size:54
Alignment explanation
Indices: 53686688--53686812 Score: 142
Period size: 54 Copynumber: 2.3 Consensus size: 54
53686678 TAAAATGCCT
** * *
53686688 TCAATTTGTAAAATTACCAAAGTACCCTCGATTTACAAAATTACCGTTTTACCC
1 TCAATTTACAAAATTACCAAAGTACCCTCAATTTACAAAATTACCATTTTACCC
* *** * *
53686742 TCGATTTACAAAATTACCATTTTACCCTCAATTTATAGAATTACCATTTTACCC
1 TCAATTTACAAAATTACCAAAGTACCCTCAATTTACAAAATTACCATTTTACCC
* *
53686796 TCAATTTATAGAATTAC
1 TCAATTTACAAAATTAC
53686813 TGTTTTACCC
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.35, C:0.22, G:0.06, T:0.37
Consensus pattern (54 bp):
TCAATTTACAAAATTACCAAAGTACCCTCAATTTACAAAATTACCATTTTACCC
Found at i:53688783 original size:27 final size:27
Alignment explanation
Indices: 53688722--53688799 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
53688712 GGAGGAAGCG
53688722 TTCTGGTGGCTCTGCCACAAATATCTAT
1 TTCTGGTGGCTCTGCCAC-AATATCTAT
* *
53688750 TTCTGGTGGCTTTGCCACAATATCTGT
1 TTCTGGTGGCTCTGCCACAATATCTAT
* *
53688777 ATT-TGGTGACTCTGTCACAATAT
1 -TTCTGGTGGCTCTGCCACAATAT
53688800 TTGTTCTGGC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (27 bp):
TTCTGGTGGCTCTGCCACAATATCTAT
Found at i:53691181 original size:26 final size:27
Alignment explanation
Indices: 53691093--53691185 Score: 136
Period size: 27 Copynumber: 3.5 Consensus size: 27
53691083 CCCTAATCGA
*
53691093 TAAAATGATTGTTTTTCCCTTATATGG
1 TAAAATGATTGTTTTGCCCTTATATGG
* *
53691120 TAAAATGACTATTTTGCCCTTATATGG
1 TAAAATGATTGTTTTGCCCTTATATGG
53691147 TAAAATGATTGTTTTGCCC-TATGA-GG
1 TAAAATGATTGTTTTGCCCTTAT-ATGG
53691173 TAAAATGATTGTT
1 TAAAATGATTGTT
53691186 AGAAGTACGC
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
26 18 0.30
27 42 0.70
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (27 bp):
TAAAATGATTGTTTTGCCCTTATATGG
Found at i:53695650 original size:39 final size:39
Alignment explanation
Indices: 53695553--53695664 Score: 152
Period size: 39 Copynumber: 2.8 Consensus size: 39
53695543 CCAGACATAT
* * * *
53695553 TTCCAGCACGTAGCCTGCGAACCTTAAGTCCGGTTATAA
1 TTCCAGCACATAGCCTGCGGACTTTAAGTCCGGGTATAA
53695592 TTCCAGCACATAGCCTGCGGACTTTAAGTCCGGGTATAA
1 TTCCAGCACATAGCCTGCGGACTTTAAGTCCGGGTATAA
* * *
53695631 TTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGG
1 TTCCAGCACATAGCCTGC-GGACTTTAAGTCCGG
53695665 ATACACATCA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 52 0.80
40 13 0.20
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACTTTAAGTCCGGGTATAA
Found at i:53699491 original size:37 final size:37
Alignment explanation
Indices: 53699441--53699552 Score: 170
Period size: 37 Copynumber: 3.0 Consensus size: 37
53699431 ACCTTTAGCT
* ** *
53699441 CAGACGAAATCTCCACACAAAGTTATCGGGTCTTACC
1 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
53699478 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* *
53699515 CGGACATAATCTCCACACGTAGTCATCGGGTCTTACC
1 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
53699552 C
1 C
53699553 GAAATATATT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (37 bp):
CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:53699827 original size:48 final size:48
Alignment explanation
Indices: 53699696--53699885 Score: 265
Period size: 48 Copynumber: 3.9 Consensus size: 48
53699686 TATACGCACG
* *
53699696 TCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* ** * *
53699744 TCTCATATATATATTTCACATT-GACCATTTAGCTTTACCACGTATGCATA
1 TCTC--ATACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATA
*
53699794 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATT
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
53699842 TCTCATACATTTTTCACATTAGCCATTCGGCTTTACCACATATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATA
53699886 TGCATGTTCA
Statistics
Matches: 124, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
48 83 0.67
49 2 0.02
50 39 0.31
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.37
Consensus pattern (48 bp):
TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
Found at i:53699890 original size:98 final size:98
Alignment explanation
Indices: 53699696--53699884 Score: 285
Period size: 98 Copynumber: 1.9 Consensus size: 98
53699686 TATACGCACG
* *
53699696 TCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTC
1 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATATTTC
* *
53699761 ACATTGACCATTTAGCTTTACCACGTATGCATA
66 ACATTGACCATTCAGCTTTACCACATATGCATA
* *
53699794 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCATACAT-T-TTTC
1 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATATTTC
*
53699857 ACATT-AGCCATTCGGCTTTACCACATAT
66 ACATTGA-CCATTCAGCTTTACCACATAT
53699885 ATGCATGTTC
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
95 1 0.01
96 27 0.33
97 1 0.01
98 54 0.65
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.38
Consensus pattern (98 bp):
TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATATTTC
ACATTGACCATTCAGCTTTACCACATATGCATA
Found at i:53699934 original size:47 final size:47
Alignment explanation
Indices: 53699807--53700048 Score: 290
Period size: 47 Copynumber: 5.1 Consensus size: 47
53699797 CATACATATT
* * * * **
53699807 TCACATTAGCCATTCGGCTTTACCACATATA--CATTTCTCATACATTTT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGT-TC--ACATTCA
* * * *
53699855 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
53699902 CCACATTGGCCATTCGGCCTTATCACACATATGCGTGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
53699949 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
53699996 TCACATTGGCCATTCGGCCTTATCTCATATATGCACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
53700043 TCACAT
1 TCACAT
53700049 AAAATCCTAA
Statistics
Matches: 173, Mismatches: 19, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
47 136 0.79
48 31 0.18
49 2 0.01
50 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:53699975 original size:22 final size:22
Alignment explanation
Indices: 53699948--53700019 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
53699938 GCTCACATTC
53699948 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
53699970 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
53699994 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
53700017 ATC
1 ATC
53700020 TCATATATGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:53700049 original size:25 final size:25
Alignment explanation
Indices: 53699970--53700049 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
53699960 ATTCGGCCTT
**
53699970 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
53699995 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
*
53700017 ATCTCATATATGCACATTCACATTC
1 ATCACATATATGCACATTCACATTC
53700042 ATCACATA
1 ATCACATA
53700050 AAATCCTAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
22 9 0.22
23 6 0.15
24 6 0.15
25 19 0.47
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:53704044 original size:19 final size:19
Alignment explanation
Indices: 53704008--53704046 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
53703998 TTTTCACCAT
* *
53704008 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
53704027 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
53704046 A
1 A
53704047 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:53704566 original size:27 final size:28
Alignment explanation
Indices: 53704509--53704578 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
53704499 GTGACAGAGT
** *
53704509 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATATTACGTGGCAGGGC
53704538 CACCAGAACAGATA-TACGTGGCAGGGC
1 CACCAGAACAGATATTACGTGGCAGGGC
53704565 CACCAGAACAGATA
1 CACCAGAACAGATA
53704579 ATTTGTAGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 24 0.63
28 7 0.18
29 7 0.18
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.17
Consensus pattern (28 bp):
CACCAGAACAGATATTACGTGGCAGGGC
Found at i:53704747 original size:28 final size:28
Alignment explanation
Indices: 53704704--53704768 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
53704694 AAATTAACCC
53704704 TAGGGGTATAACGGTAATTTTGCATACA
1 TAGGGGTATAACGGTAATTTTGCATACA
*
53704732 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAACGGTAATTTTGCATACA
53704760 TAGGGGTAT
1 TAGGGGTAT
53704769 TCTAGTACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAACGGTAATTTTGCATACA
Found at i:53711466 original size:19 final size:19
Alignment explanation
Indices: 53711430--53711468 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
53711420 TTTTCATCAT
* *
53711430 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
53711449 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
53711468 A
1 A
53711469 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:53711972 original size:55 final size:56
Alignment explanation
Indices: 53711907--53712011 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 56
53711897 AGCATGGCTG
* * *
53711907 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGTGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCAGTGCCA
* * *
53711963 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCA
53712012 TAGCCACTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
55 21 0.50
56 21 0.50
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCAGTGCCA
Found at i:53711989 original size:27 final size:28
Alignment explanation
Indices: 53711932--53712001 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
53711922 GTGACAGAGT
** *
53711932 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATATTACGTGGCAGGGC
53711961 CACCAGAACAGATA-TACGTGGCAGGGC
1 CACCAGAACAGATATTACGTGGCAGGGC
53711988 CACCAGAACAGATA
1 CACCAGAACAGATA
53712002 ATTTGTGGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 24 0.63
28 7 0.18
29 7 0.18
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.17
Consensus pattern (28 bp):
CACCAGAACAGATATTACGTGGCAGGGC
Found at i:53712018 original size:28 final size:27
Alignment explanation
Indices: 53711932--53712018 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 27
53711922 GTGACAGAGT
*
53711932 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
53711961 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
53711988 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
53712016 CAC
1 CAC
53712019 TAGGACGCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
27 23 0.47
28 19 0.39
29 7 0.14
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:53712172 original size:28 final size:28
Alignment explanation
Indices: 53712127--53712191 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
53712117 AAATTAACCC
*
53712127 TAGGGGTATAACGATAATTTTGCATACA
1 TAGGGGTATAACGATAATTTTACATACA
* *
53712155 TAGGGGTATAATGGTAATTTTACATACA
1 TAGGGGTATAACGATAATTTTACATACA
53712183 TAGGGGTAT
1 TAGGGGTAT
53712192 TCTAGTACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.34, C:0.08, G:0.25, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAACGATAATTTTACATACA
Found at i:53714654 original size:39 final size:39
Alignment explanation
Indices: 53714585--53714729 Score: 166
Period size: 39 Copynumber: 3.7 Consensus size: 39
53714575 GGACTTTTTC
* * *
53714585 CCGGACATATTTCCAGCACGTA-CCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
*
53714623 CCGGTTATAATTCCAGCACATAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
* * * * * *
53714662 CCGGGTATAATTCCAGCATATAACCTGCAGGTCTTTAAGC
1 CCGGATATAATTCCAGCACATAGCCTGC-GGACCTTAAGT
* *
53714702 CCGGATATAATTCCAGAATATAGCCTGC
1 CCGGATATAATTCCAGCACATAGCCTGC
53714730 AGGTCTTTAA
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 18 0.20
39 41 0.45
40 33 0.36
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
Found at i:53714711 original size:40 final size:40
Alignment explanation
Indices: 53714617--53714742 Score: 164
Period size: 40 Copynumber: 3.2 Consensus size: 40
53714607 CCTGCGGACC
* * * * *
53714617 TTAAGTCCGGTTATAATTCCAGCACATAGCCTGC-GGACC
1 TTAAGCCCGGATATAATTCCAGCATATAGCCTGCAGGTCT
* * *
53714656 TTAAGTCCGGGTATAATTCCAGCATATAACCTGCAGGTCT
1 TTAAGCCCGGATATAATTCCAGCATATAGCCTGCAGGTCT
*
53714696 TTAAGCCCGGATATAATTCCAGAATATAGCCTGCAGGTCT
1 TTAAGCCCGGATATAATTCCAGCATATAGCCTGCAGGTCT
53714736 TTAAGCC
1 TTAAGCC
53714743 AATATACACA
Statistics
Matches: 77, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 31 0.40
40 46 0.60
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (40 bp):
TTAAGCCCGGATATAATTCCAGCATATAGCCTGCAGGTCT
Found at i:53716611 original size:42 final size:43
Alignment explanation
Indices: 53716564--53716674 Score: 109
Period size: 43 Copynumber: 2.6 Consensus size: 43
53716554 TGTTTTCATA
***
53716564 TAAGACCATGTCTGGGACGTTGGCATC-ATATTTGATTTTGTG
1 TAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTACATG
* * * *
53716606 TAAGACCCTATCTAGGATAG-TGGCATCGATATTTGATTACATG
1 TAAGACCATGTCTGGGA-CGTTGGCATCGATATTTGATTACATG
* * *
53716649 TAAGACCACGTCTGAGACATTGGCAT
1 TAAGACCATGTCTGGGACGTTGGCAT
53716675 TGTATGAGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
42 21 0.40
43 31 0.60
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTACATG
Found at i:53722221 original size:14 final size:15
Alignment explanation
Indices: 53722193--53722222 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
53722183 GTTATATGTG
53722193 TTAATTTTTCGTGTT
1 TTAATTTTTCGTGTT
53722208 TTAATTTTTC-TGTT
1 TTAATTTTTCGTGTT
53722222 T
1 T
53722223 GAATGTCGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.13, C:0.07, G:0.10, T:0.70
Consensus pattern (15 bp):
TTAATTTTTCGTGTT
Found at i:53726547 original size:55 final size:53
Alignment explanation
Indices: 53726427--53726824 Score: 347
Period size: 55 Copynumber: 7.5 Consensus size: 53
53726417 ATAAGGATAT
* * *
53726427 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAAGAAAT-
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAG--GTC
**
53726481 CATGTAAGACCATATCAAGACATGGCATTGATGAGTTGCTATAAGGCAAAGGTC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGCAAAGGTC
* * *
53726535 CAATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGAC-AAGGATAC
1 C-ATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGG-T-C
**** *** *
53726589 CATGTAAGACCATGTTTGGAACATGGCATT--TG-GTAAGATAAGG-ATA--T-
1 CATGTAAGACCATGCCAAG-ACATGGCATTGATGAGTTCTATAAGGCAAAGGTC
* * *
53726636 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTTTATAAGGC-AAGGAAAT-
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGG---TC
* *
53726690 CATGTAAGACCATGTCAAGACATGGCATTTATGAGTTACTATAAGGCAAAGGTCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGCAAAGGT-C
* *
53726745 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGG-AAAGGTTAC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGG-T-C
* *
53726798 CACGTAAGACCATGTCAAGACATGGCA
1 CATGTAAGACCATGCCAAGACATGGCA
53726825 ATGGTAAGTT
Statistics
Matches: 280, Mismatches: 42, Indels: 45
0.76 0.11 0.12
Matches are distributed among these distances:
46 9 0.03
47 15 0.05
48 1 0.00
49 10 0.04
51 2 0.01
52 17 0.06
53 55 0.20
54 81 0.29
55 86 0.31
56 4 0.01
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (53 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAGGTC
Found at i:53726726 original size:209 final size:209
Alignment explanation
Indices: 53726366--53726812 Score: 797
Period size: 209 Copynumber: 2.1 Consensus size: 209
53726356 GCATTGGCAC
*
53726366 TAAGACAAGGATACCATATAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
53726431 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAAGAAATCATGTAAGACCATAT
66 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAAGAAATCATGTAAGACCATAT
*
53726496 CAAGACATGGCATTGATGAGTTGCTATAAGGCAAAGGTCCAATGTAAGACCATGCCAAGGCATGG
131 CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCAATGTAAGACCATGCCAAGGCATGG
53726561 CATTGGTGAGTTCA
196 CATTGGTGAGTTCA
53726575 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
* * *
53726640 TAAGACCATGCCAAGGCATGGCATTGATAAGTTTTATAAGGCAAGGAAATCATGTAAGACCATGT
66 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAAGAAATCATGTAAGACCATAT
* *
53726705 CAAGACATGGCATTTATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGG
131 CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCAATGTAAGACCATGCCAAGGCATGG
53726770 CATTGGTGAGTTCA
196 CATTGGTGAGTTCA
* *
53726784 TAAGGA-AAGGTTACCACGTAAGACCATGT
1 TAA-GACAAGGATACCATGTAAGACCATGT
53726813 CAAGACATGG
Statistics
Matches: 228, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
209 226 0.99
210 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (209 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAAGAAATCATGTAAGACCATAT
CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCAATGTAAGACCATGCCAAGGCATGG
CATTGGTGAGTTCA
Found at i:53726850 original size:108 final size:109
Alignment explanation
Indices: 53726636--53726846 Score: 264
Period size: 108 Copynumber: 2.0 Consensus size: 109
53726626 ATAAGGATAT
* * * *
53726636 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTTTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTTCATAAGGAAAGGAAACCACGTAAGACC
* * * * * **
53726701 ATGTCAAGACATGGCATTTATGAGTTACTATAAGGCAAAGGTCC
66 ATGTCAAGACATGGCAATGATAAGTTACAAAAAGAAAAAGGTCC
* * **
53726745 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGAAAGGTTACCACGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTTCATAAGGAAAGGAAACCACGTAAGACC
*
53726809 ATGTCAAGACATGGCAATGGTAAGTT-CAAAAAGAAAAA
66 ATGTCAAGACATGGCAATGATAAGTTACAAAAAGAAAAA
53726847 AGGTTCCTGA
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
107 8 0.09
108 45 0.52
109 33 0.38
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (109 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTTCATAAGGAAAGGAAACCACGTAAGACC
ATGTCAAGACATGGCAATGATAAGTTACAAAAAGAAAAAGGTCC
Found at i:53738726 original size:27 final size:27
Alignment explanation
Indices: 53738702--53738875 Score: 138
Period size: 27 Copynumber: 6.5 Consensus size: 27
53738692 TTGCCACTAG
* ***
53738702 GGCTTCCTTTACATGGTTAGGCACTTT
1 GGCTTCCTTTACATGGATAGGCACAAA
*
53738729 GGCTTCCTTTACATTGATAGGCACAAA
1 GGCTTCCTTTACATGGATAGGCACAAA
* * * *
53738756 AGCTTCTTTTACATGGGTA-GCGAGAAA
1 GGCTTCCTTTACATGGATAGGC-ACAAA
* *
53738783 GGCTTCCTTTACATGAATA-GCAATAAA
1 GGCTTCCTTTACATGGATAGGC-ACAAA
* * * * *
53738810 GGCTTCTTTTATA-GGGTAGCCAAAAA
1 GGCTTCCTTTACATGGATAGGCACAAA
*
53738836 GGCTTCCTTTACATGGATAGCCACAAA
1 GGCTTCCTTTACATGGATAGGCACAAA
* *
53738863 GGCTCCCATTACA
1 GGCTTCCTTTACA
53738876 GAGATTGCCA
Statistics
Matches: 116, Mismatches: 28, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
26 20 0.17
27 96 0.83
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (27 bp):
GGCTTCCTTTACATGGATAGGCACAAA
Found at i:53738787 original size:54 final size:54
Alignment explanation
Indices: 53738729--53738866 Score: 169
Period size: 53 Copynumber: 2.6 Consensus size: 54
53738719 TAGGCACTTT
* *
53738729 GGCTTCCTTTACATTGATAGGCACAAAA-GCTTCTTTTACATGGGTAGCGAGAAA
1 GGCTTCCTTTACATTGATAGGCACAAAAGGCTTCTTTTACA-GGGTAGCCAAAAA
*
53738783 GGCTTCCTTTACA-TGAATA-GCA-ATAAAGGCTTCTTTTATAGGGTAGCCAAAAA
1 GGCTTCCTTTACATTG-ATAGGCACA-AAAGGCTTCTTTTACAGGGTAGCCAAAAA
* *
53738836 GGCTTCCTTTACATGGATAGCCAC-AAAGGCT
1 GGCTTCCTTTACATTGATAGGCACAAAAGGCT
53738867 CCCATTACAG
Statistics
Matches: 73, Mismatches: 5, Indels: 13
0.80 0.05 0.14
Matches are distributed among these distances:
52 1 0.01
53 42 0.58
54 30 0.41
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (54 bp):
GGCTTCCTTTACATTGATAGGCACAAAAGGCTTCTTTTACAGGGTAGCCAAAAA
Found at i:53742495 original size:27 final size:27
Alignment explanation
Indices: 53742457--53742509 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
53742447 AAGTGTATTA
*
53742457 TACTGGTGGCTTTGCCACATATACTGC
1 TACTAGTGGCTTTGCCACATATACTGC
*
53742484 TACTAGTGGCTTTGCTACATATACTG
1 TACTAGTGGCTTTGCCACATATACTG
53742510 ATTCTGGCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (27 bp):
TACTAGTGGCTTTGCCACATATACTGC
Found at i:53742522 original size:27 final size:27
Alignment explanation
Indices: 53742465--53742526 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
53742455 TATACTGGTG
* * **
53742465 GCTTTGCCACATATACTGCTACTAGTG
1 GCTTTGCTACATATACTGATACTAGCA
* *
53742492 GCTTTGCTACATATACTGATTCTGGCA
1 GCTTTGCTACATATACTGATACTAGCA
53742519 GCTTTGCT
1 GCTTTGCT
53742527 GCGATACTGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.37
Consensus pattern (27 bp):
GCTTTGCTACATATACTGATACTAGCA
Found at i:53750498 original size:11 final size:11
Alignment explanation
Indices: 53750450--53750501 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
53750440 ATTAGATAAA
53750450 TATTATTTTAT
1 TATTATTTTAT
*
53750461 TAATATTTTAAT
1 TATTATTTT-AT
* * *
53750473 AATACACTTTAT
1 TAT-TATTTTAT
53750485 TATTATTTTAT
1 TATTATTTTAT
53750496 TATTAT
1 TATTAT
53750502 ATAAAGAAAG
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
11 20 0.65
12 7 0.23
13 4 0.13
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:53752696 original size:46 final size:46
Alignment explanation
Indices: 53752629--53752902 Score: 363
Period size: 46 Copynumber: 6.0 Consensus size: 46
53752619 AGTGTGCTCT
** *
53752629 CTGATATGAAATGTGTAAGACCATGGTTGAGAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
**
53752675 CTGATATGAAATGTTTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
*
53752721 CTGATATGAAATGAATAAGACAATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
53752767 GTGATACGAAATGAATAACACCATGGTTGAAAGATA-CATTGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCA-TGGCAAC
* * *
53752813 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
53752859 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGATACTATGGCA
1 CTGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
53752903 TCATGTCAAA
Statistics
Matches: 207, Mismatches: 18, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
45 3 0.01
46 202 0.98
47 2 0.01
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:53754247 original size:22 final size:22
Alignment explanation
Indices: 53754222--53754282 Score: 106
Period size: 22 Copynumber: 2.8 Consensus size: 22
53754212 TTCTAAAGCA
53754222 TGTAAAAGTATTATGCGAAAGG
1 TGTAAAAGTATTATGCGAAAGG
53754244 TGTAAAAGTATTATGCGAAAGG
1 TGTAAAAGTATTATGCGAAAGG
53754266 TGTAAAAGTGA-TATGCG
1 TGTAAAAGT-ATTATGCG
53754283 CACATGAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
22 37 0.97
23 1 0.03
ACGTcount: A:0.39, C:0.05, G:0.28, T:0.28
Consensus pattern (22 bp):
TGTAAAAGTATTATGCGAAAGG
Found at i:53754532 original size:11 final size:11
Alignment explanation
Indices: 53754516--53754544 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
53754506 GGCCTCTGCT
53754516 AAGTAAAAAAA
1 AAGTAAAAAAA
53754527 AAGTAAAAAAA
1 AAGTAAAAAAA
53754538 AAGTAAA
1 AAGTAAA
53754545 CAATTTTCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (11 bp):
AAGTAAAAAAA
Found at i:53756076 original size:11 final size:11
Alignment explanation
Indices: 53756028--53756079 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
53756018 ATTAGATAAA
53756028 TATTATTTTAT
1 TATTATTTTAT
*
53756039 TAATATTTTAAT
1 TATTATTTT-AT
* *
53756051 AATACATTTTAT
1 TAT-TATTTTAT
53756063 TATTATTTTAT
1 TATTATTTTAT
53756074 TATTAT
1 TATTAT
53756080 ATAAAGAAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
11 21 0.64
12 7 0.21
13 5 0.15
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:53758203 original size:46 final size:46
Alignment explanation
Indices: 53758151--53758470 Score: 399
Period size: 46 Copynumber: 7.0 Consensus size: 46
53758141 AGTGTGCTCT
*
53758151 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
53758197 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATTCTATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
53758243 CTGATATGAAATGCGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
53758289 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCGTGGCAGC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
53758335 GTGATACGAAATGAATAAGACCATGTTTGGAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
53758381 GTGACATGAAAAGAATAATACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
53758427 ATGACA-GAAAATGAGTAAGACCATAGCTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
53758471 TCATGTCAAA
Statistics
Matches: 244, Mismatches: 29, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
45 1 0.00
46 243 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:53758576 original size:13 final size:13
Alignment explanation
Indices: 53758558--53758614 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
53758548 ATCAGATGAC
53758558 AAATGGTTATATG
1 AAATGGTTATATG
* *
53758571 AAATGGTTGTGTG
1 AAATGGTTATATG
* * *
53758584 AAATGTTTACAAG
1 AAATGGTTATATG
*
53758597 AACTGGTTATATGG
1 AAATGGTTATAT-G
53758611 AAAT
1 AAAT
53758615 ATATATACAA
Statistics
Matches: 31, Mismatches: 12, Indels: 1
0.70 0.27 0.02
Matches are distributed among these distances:
13 27 0.87
14 4 0.13
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.35
Consensus pattern (13 bp):
AAATGGTTATATG
Found at i:53760843 original size:89 final size:90
Alignment explanation
Indices: 53760717--53760912 Score: 322
Period size: 89 Copynumber: 2.2 Consensus size: 90
53760707 TCCATCAACA
* *
53760717 TAAACCAATTACCTTACAGGGACTTACAGTCAGATGAATTCATCTATGTTCAGATC-ATATTCAA
1 TAAACAAATTACCTTACAGAGACTTACAGTCAGATGAATTCATCTATGTTCAGATCAATATTCAA
* *
53760781 TAAATAACAAATCTTTCAAATTCAT
66 CAAATAAAAAATCTTTCAAATTCAT
* * *
53760806 TAAACAAATTACCTTACCGAGATTTACAGTCAGATGAATTCATTTATGTTCAGATCAATATTCAA
1 TAAACAAATTACCTTACAGAGACTTACAGTCAGATGAATTCATCTATGTTCAGATCAATATTCAA
53760871 CAAATAAAAAATCTTTCAAATTCAT
66 CAAATAAAAAATCTTTCAAATTCAT
53760896 TAAACAAATTACCTTAC
1 TAAACAAATTACCTTAC
53760913 TAAGATTTTC
Statistics
Matches: 99, Mismatches: 7, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
89 51 0.52
90 48 0.48
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (90 bp):
TAAACAAATTACCTTACAGAGACTTACAGTCAGATGAATTCATCTATGTTCAGATCAATATTCAA
CAAATAAAAAATCTTTCAAATTCAT
Found at i:53760919 original size:90 final size:88
Alignment explanation
Indices: 53760717--53760920 Score: 309
Period size: 90 Copynumber: 2.3 Consensus size: 88
53760707 TCCATCAACA
* * * *
53760717 TAAACCAATTACCTTACAGGGACTTACAGTCAGATGAATTCATCTATGTTCAGATCATATTCAAT
1 TAAACAAATTACCTTACA-AGATTTACAGTCAGATGAATTCATCTATGTTCAGATCATATTCAAC
*
53760782 AAATAACAAATCTTTCAAATTCAT
65 AAATAAAAAATCTTTCAAATTCAT
* *
53760806 TAAACAAATTACCTTACCGAGATTTACAGTCAGATGAATTCATTTATGTTCAGATCAATATTCAA
1 TAAACAAATTACCTTA-CAAGATTTACAGTCAGATGAATTCATCTATGTTCAGATC-ATATTCAA
53760871 CAAATAAAAAATCTTTCAAATTCAT
64 CAAATAAAAAATCTTTCAAATTCAT
53760896 TAAACAAATTACCTTACTAAGATTT
1 TAAACAAATTACCTTAC-AAGATTT
53760921 TCCATTTGAA
Statistics
Matches: 104, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
89 50 0.48
90 54 0.52
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (88 bp):
TAAACAAATTACCTTACAAGATTTACAGTCAGATGAATTCATCTATGTTCAGATCATATTCAACA
AATAAAAAATCTTTCAAATTCAT
Found at i:53763480 original size:10 final size:10
Alignment explanation
Indices: 53763465--53763493 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
53763455 ACTCAGTGTG
53763465 TAACAAAATA
1 TAACAAAATA
53763475 TAACAAAATA
1 TAACAAAATA
53763485 TAACAAAAT
1 TAACAAAAT
53763494 TCGAGCCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (10 bp):
TAACAAAATA
Found at i:53764004 original size:24 final size:25
Alignment explanation
Indices: 53763977--53764070 Score: 149
Period size: 24 Copynumber: 3.9 Consensus size: 25
53763967 CTACTCCTTG
*
53763977 ATCAGCTCCTAAATCTTCTCCT-TT
1 ATCAGCTCCTAAATCCTCTCCTCTT
53764001 ATCAGCTCCTAAATCCTCT-CTCTT
1 ATCAGCTCCTAAATCCTCTCCTCTT
53764025 ATCAGCTCCTAAATCCTCT-CTCTT
1 ATCAGCTCCTAAATCCTCTCCTCTT
*
53764049 ATCAGCTCCTAAATCTTCTCCT
1 ATCAGCTCCTAAATCCTCTCCT
53764071 GACAGCCTTT
Statistics
Matches: 66, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
23 2 0.03
24 62 0.94
25 2 0.03
ACGTcount: A:0.21, C:0.36, G:0.04, T:0.38
Consensus pattern (25 bp):
ATCAGCTCCTAAATCCTCTCCTCTT
Found at i:53774200 original size:25 final size:25
Alignment explanation
Indices: 53774172--53774221 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
53774162 CAATCGGCTT
*
53774172 TCCTTGAGTAATTTATTGCTTCCTA
1 TCCTTGAGTAATTCATTGCTTCCTA
*
53774197 TCCTTGAGTAATTCCTTGCTTCCTA
1 TCCTTGAGTAATTCATTGCTTCCTA
53774222 CTCTTCATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.18, C:0.24, G:0.12, T:0.46
Consensus pattern (25 bp):
TCCTTGAGTAATTCATTGCTTCCTA
Found at i:53784574 original size:27 final size:27
Alignment explanation
Indices: 53784533--53784586 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
53784523 TGTCATGTGA
* *
53784533 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
53784560 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
53784587 GGTTGTACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:53786818 original size:22 final size:23
Alignment explanation
Indices: 53786779--53786821 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
53786769 GAAGTCCTAC
*
53786779 CCGTCCATCCTCTACACTCCACT
1 CCGTCCAGCCTCTACACTCCACT
53786802 CCGTCCAGCC-CTACACTCCA
1 CCGTCCAGCCTCTACACTCCA
53786822 TGTGGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.19, C:0.53, G:0.07, T:0.21
Consensus pattern (23 bp):
CCGTCCAGCCTCTACACTCCACT
Found at i:53793564 original size:46 final size:45
Alignment explanation
Indices: 53793463--53793556 Score: 136
Period size: 46 Copynumber: 2.1 Consensus size: 45
53793453 TGTAACCCGC
* * *
53793463 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA-ATGCGCAA
*
53793509 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGG-ATGCTCAA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGAATGCGCAA
53793553 CCAT
1 CCAT
53793557 CCTAGTGACA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 9 0.20
46 35 0.80
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGAATGCGCAA
Found at i:53797119 original size:34 final size:34
Alignment explanation
Indices: 53797080--53797152 Score: 110
Period size: 34 Copynumber: 2.1 Consensus size: 34
53797070 GTAACAATCA
* *
53797080 AGTATCAGTGTGGGCCTTAGCCCATAACAGCAGC
1 AGTATCAATGTGGGCCTTAGCCCATAACAGCAAC
* *
53797114 AGTATCAATGTGGGCCTTAGCCCATTACAGTAAC
1 AGTATCAATGTGGGCCTTAGCCCATAACAGCAAC
53797148 AGTAT
1 AGTAT
53797153 TAGTAATGCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (34 bp):
AGTATCAATGTGGGCCTTAGCCCATAACAGCAAC
Found at i:53803428 original size:29 final size:29
Alignment explanation
Indices: 53803358--53803470 Score: 126
Period size: 29 Copynumber: 3.9 Consensus size: 29
53803348 ACTCCTACAA
* *
53803358 ACATGTATATGACCCA-CTAGGCCCAA-T-
1 ACATTTATATGGCCCATC-AGGCCCAATTC
53803385 ATCATTTATATGGCCCATGCA-GCCCAATTC
1 A-CATTTATATGGCCCAT-CAGGCCCAATTC
*
53803415 ACGTTTATATGGCCCATCAGGCCCAATTC
1 ACATTTATATGGCCCATCAGGCCCAATTC
* *
53803444 ACATTCATATGGCCCATTAGGCCCAAT
1 ACATTTATATGGCCCATCAGGCCCAAT
53803471 CTCATTATAT
Statistics
Matches: 74, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
27 1 0.01
28 21 0.28
29 50 0.68
30 2 0.03
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
ACATTTATATGGCCCATCAGGCCCAATTC
Found at i:53811137 original size:29 final size:29
Alignment explanation
Indices: 53811071--53811145 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
53811061 ATGACCCACT
53811071 AGGCCCAATCTCACTT-ATATGGCCCATCC
1 AGGCCCAAT-TCACTTCATATGGCCCATCC
* *
53811100 A-ACCAAATTCACGTTCATATGGCCCAT-C
1 AGGCCCAATTCAC-TTCATATGGCCCATCC
53811128 AGGCCCAATTCACATTCA
1 AGGCCCAATTCAC-TTCA
53811146 AATTTTCTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 4 0.11
28 9 0.24
29 25 0.66
ACGTcount: A:0.29, C:0.35, G:0.12, T:0.24
Consensus pattern (29 bp):
AGGCCCAATTCACTTCATATGGCCCATCC
Found at i:53821204 original size:93 final size:93
Alignment explanation
Indices: 53821045--53821271 Score: 409
Period size: 93 Copynumber: 2.4 Consensus size: 93
53821035 TGTAACCCGC
*
53821045 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTTGAACTCGGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGGAC
*
53821110 TCAACTCAATGAGTTCAGACATTCGCAT
66 TCAACTCAACGAGTTCAGACATTCGCAT
53821138 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGGAC
* *
53821203 TCAACTCAACGAGTTCGGACATTTGCAT
66 TCAACTCAACGAGTTCAGACATTCGCAT
*
53821231 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCC
53821272 CAAATATCCT
Statistics
Matches: 129, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 129 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (93 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCGGAC
TCAACTCAACGAGTTCAGACATTCGCAT
Found at i:53821266 original size:46 final size:48
Alignment explanation
Indices: 53821045--53821267 Score: 220
Period size: 46 Copynumber: 4.8 Consensus size: 48
53821035 TGTAACCCGC
*
53821045 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTTACAT
* * *
53821095 CTC-T---TGAACTCGGACTCAACTCAATGAGTTCAGA-C-A-TTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTT-ACAT
*
53821138 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTTACAT
* * *
53821188 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGA-C-ATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
53821231 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
53821268 TGCCCAAATA
Statistics
Matches: 144, Mismatches: 13, Indels: 36
0.75 0.07 0.19
Matches are distributed among these distances:
42 4 0.03
43 14 0.10
44 2 0.01
46 56 0.39
47 55 0.38
49 1 0.01
50 8 0.06
51 4 0.03
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (48 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
Found at i:53823742 original size:93 final size:93
Alignment explanation
Indices: 53823583--53823753 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
53823573 CCGCCCATAA
* *
53823583 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53823648 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
53823676 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
53823741 CGAGTTCGGATGC
66 CGAGCTCGGATGC
53823754 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:53823750 original size:46 final size:46
Alignment explanation
Indices: 53823583--53823750 Score: 200
Period size: 46 Copynumber: 3.6 Consensus size: 46
53823573 CCGCCCATAA
* *
53823583 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGT
* * *
53823629 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCATCCATAAGT
*
53823676 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGT
*
53823722 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
53823751 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 9, Indels: 18
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 57 0.55
47 28 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGT
Found at i:53831125 original size:46 final size:46
Alignment explanation
Indices: 53831058--53831186 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
53831048 TGTAACCCGC
* * *
53831058 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
53831104 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
53831150 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
53831187 TGCTCAACCA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:53832660 original size:225 final size:223
Alignment explanation
Indices: 53832244--53832689 Score: 664
Period size: 225 Copynumber: 2.0 Consensus size: 223
53832234 AATATTCAAA
* * *
53832244 AATTTCATACTAAAAACTTCTAGAATGCAAATTTTGCAACTTATTCGATTTAGTCCCTACTTTAA
1 AATTTCATACTAAAAACTTCTAGAATGCAAATTTTACAAATTATTCGATTTAGTCCCTAATTTAA
*
53832309 TTTAAGCACTCGTTAGGCATAGAATTTCATCACGAAATTTCACACAATCATGCATCATATCATAA
66 TTTAAGCACTC-TTAGGCATAAAATTTCATCACGAAATTTCACACAATCATGCATCATATCATAA
* * *
53832374 CCTCAAAATAATTATAAAATAATTATTTCTATCTCGGATTTGTGGTCACAAAACCACTATTCTGA
130 CCTCAAAATAATCATAAAATAATTATTTCTATCTCGAATTTGTGGTCACAAAA-CACTATTCCGA
* * * *
53832439 TTAGGCCCTAATTCGGGATATTACAAAAAC
194 CTAGGCCCAAAATCAGGATATTACAAAAAC
* *
53832469 AATTTCATACTAGAAACTTCTAGAATGCAAGTTTTACAAATTATTCGATTTAGTCCCTAATTTCA
1 AATTTCATACTAAAAACTTCTAGAATGCAAATTTTACAAATTATTCGATTTAGTCCCTAATTT-A
* *
53832534 ATTTAAGCACT-TTATGC-TAAAATTTCTTCACGAAATTTTCACACAATCATGCAATCATATCAT
65 ATTTAAGCACTCTTAGGCATAAAATTTCATCACGAAA-TTTCACACAATCATGC-ATCATATCAT
*
53832597 AGACCTCAAAATAATCATAAAATAATTATTTCTATCTCGAATTTTGTGGTCACGAAA-ACTATTC
128 A-ACCTCAAAATAATCATAAAATAATTATTTCTATCTCGAA-TTTGTGGTCACAAAACACTATTC
53832661 CGACTAGGCCCAAAATCAGGATATTACAA
191 CGACTAGGCCCAAAATCAGGATATTACAA
53832690 CTCTCCCCCT
Statistics
Matches: 200, Mismatches: 16, Indels: 10
0.88 0.07 0.04
Matches are distributed among these distances:
223 16 0.08
224 21 0.10
225 100 0.50
226 49 0.25
227 14 0.07
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (223 bp):
AATTTCATACTAAAAACTTCTAGAATGCAAATTTTACAAATTATTCGATTTAGTCCCTAATTTAA
TTTAAGCACTCTTAGGCATAAAATTTCATCACGAAATTTCACACAATCATGCATCATATCATAAC
CTCAAAATAATCATAAAATAATTATTTCTATCTCGAATTTGTGGTCACAAAACACTATTCCGACT
AGGCCCAAAATCAGGATATTACAAAAAC
Found at i:53836861 original size:46 final size:46
Alignment explanation
Indices: 53836718--53836861 Score: 125
Period size: 46 Copynumber: 3.1 Consensus size: 46
53836708 CCCGCCCATA
* * *
53836718 AGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--AACATC-CT
* * * **
53836767 --CGAACTCGGACTCAATTCAACGAGTTCGGA--CATTCACATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAAACATCC-T
* *
53836810 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAAACATCCT
53836857 AGTGA
1 AGTGA
53836862 TATGTCACTT
Statistics
Matches: 75, Mismatches: 14, Indels: 15
0.72 0.13 0.14
Matches are distributed among these distances:
42 1 0.01
43 6 0.08
45 2 0.03
46 33 0.44
47 27 0.36
48 6 0.08
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAAACATCCT
Found at i:53846289 original size:7 final size:7
Alignment explanation
Indices: 53846277--53846306 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
53846267 TATATTTGTT
53846277 AACCCTA
1 AACCCTA
53846284 AACCCTA
1 AACCCTA
53846291 AACCCTA
1 AACCCTA
53846298 AACCCTA
1 AACCCTA
53846305 AA
1 AA
53846307 TTAGTGTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.47, C:0.40, G:0.00, T:0.13
Consensus pattern (7 bp):
AACCCTA
Found at i:53850010 original size:56 final size:56
Alignment explanation
Indices: 53849924--53850043 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
53849914 ACAAGGGATG
53849924 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
53849980 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
53850036 ATGGGCAA
1 ATGGGCAA
53850044 TAAACAAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:53851689 original size:47 final size:47
Alignment explanation
Indices: 53851638--53851907 Score: 407
Period size: 47 Copynumber: 5.7 Consensus size: 47
53851628 TTAGGATTCT
* * * *
53851638 ATGTGATGGATGTGAACA-TGCATATATGAGATAGGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
*
53851685 ATGTGATGAATGTGAAAGTGTATATATTTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
53851732 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
53851779 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
53851826 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
53851873 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
53851908 TCCCGAAGGG
Statistics
Matches: 206, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 205 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:53852067 original size:37 final size:37
Alignment explanation
Indices: 53852026--53852104 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
53852016 CCGAGCTCTA
* * *
53852026 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
53852063 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
53852100 AAGAC
1 AAGAC
53852105 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:53856566 original size:47 final size:47
Alignment explanation
Indices: 53856449--53856873 Score: 703
Period size: 47 Copynumber: 9.1 Consensus size: 47
53856439 CCCTTCGGGA
* * * * * * *
53856449 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
53856496 C-CGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53856542 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53856589 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53856636 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53856683 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53856730 CTTA--ACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53856775 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53856822 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATA-TATACACTTTCACATTCATCACATCGGCCATTAGGC
53856870 CTTA
1 CTTA
53856874 CTATCATTTC
Statistics
Matches: 357, Mismatches: 17, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
45 43 0.12
46 37 0.10
47 237 0.66
48 40 0.11
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:53856702 original size:141 final size:141
Alignment explanation
Indices: 53856449--53856873 Score: 703
Period size: 139 Copynumber: 3.0 Consensus size: 141
53856439 CCCTTCGGGA
* * * * * * * **
53856449 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCC-CGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
53856513 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
53856578 GGCCATTAGGC
131 GGCCATTAGGC
53856589 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
53856654 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
53856719 GGCCATTAGGC
131 GGCCATTAGGC
* * *
53856730 CTTA--ACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
53856793 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATTATACACTTTCACATTCATCACAT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA-TATACACTTTCACATTCATCACAT
53856858 CGGCCATTAGGC
130 CGGCCATTAGGC
53856870 CTTA
1 CTTA
53856874 CTATCATTTC
Statistics
Matches: 269, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
139 95 0.35
140 81 0.30
141 93 0.35
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:53860340 original size:40 final size:38
Alignment explanation
Indices: 53860290--53860454 Score: 134
Period size: 40 Copynumber: 4.1 Consensus size: 38
53860280 CTTCGGGATC
53860290 TAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACT
1 TAGC-CGGATATATCACTAGCACGAATGC-CTTCGGAACT
* * * *
53860330 TAGCCAGGATACATCACTAGCATGAATACTCTTCGGGACT
1 TAGCC-GGATATATCACTAGCACGAATGC-CTTCGGAACT
* * * * *
53860370 TAGCCCGGATTTAGTAACTCGCACCAATGCCTTCGGATCT
1 TAG-CCGGATATA-TCACTAGCACGAATGCCTTCGGAACT
* * *
53860410 TAGTCCGGATATGGTCACTTAGCAC-AAAGCCTTCGGGACT
1 TAG-CCGGATAT-ATCAC-TAGCACGAATGCCTTCGGAACT
53860450 TAGCC
1 TAGCC
53860455 CGGACATCAT
Statistics
Matches: 99, Mismatches: 21, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
39 3 0.03
40 78 0.79
41 18 0.18
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (38 bp):
TAGCCGGATATATCACTAGCACGAATGCCTTCGGAACT
Found at i:53860367 original size:80 final size:80
Alignment explanation
Indices: 53860263--53860420 Score: 187
Period size: 80 Copynumber: 2.0 Consensus size: 80
53860253 CGAATACACG
* * * *
53860263 TCACCAGCATGATTGCTCTTCGGGA-TCTAGCACGGATATA-TCACTAGCACGAATGCTCTTCGG
1 TCACCAGCATGAATACTCTTCGGGACT-TAGCACGGATATAGTAACTAGCACCAATGC-CTTCGG
53860326 AACTTAG-CCAGGATACA
64 AACTTAGTCC-GGATACA
* * * * *
53860343 TCACTAGCATGAATACTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGCCTTCGGAT
1 TCACCAGCATGAATACTCTTCGGGACTTAGCACGGATATAGTAACTAGCACCAATGCCTTCGGAA
53860408 CTTAGTCCGGATA
66 CTTAGTCCGGATA
53860421 TGGTCACTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
80 50 0.76
81 16 0.24
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (80 bp):
TCACCAGCATGAATACTCTTCGGGACTTAGCACGGATATAGTAACTAGCACCAATGCCTTCGGAA
CTTAGTCCGGATACA
Found at i:53860859 original size:43 final size:43
Alignment explanation
Indices: 53860798--53860897 Score: 200
Period size: 43 Copynumber: 2.3 Consensus size: 43
53860788 ACTTTAAACT
53860798 CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCC
1 CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCC
53860841 CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCC
1 CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCC
53860884 CGCACACTTAGTGC
1 CGCACACTTAGTGC
53860898 TGAAAACCAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (43 bp):
CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCC
Found at i:53862962 original size:47 final size:47
Alignment explanation
Indices: 53862884--53863357 Score: 768
Period size: 47 Copynumber: 10.1 Consensus size: 47
53862874 CCCTTCGGGA
** * * * * * *
53862884 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*** *
53862931 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53862978 CTTATAACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53863025 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53863072 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
53863119 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53863166 CTTATCACACATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53863213 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
53863260 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53863307 TTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
53863354 CTTA
1 CTTA
53863358 CTATCATTTC
Statistics
Matches: 402, Mismatches: 25, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 402 1.00
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:53869274 original size:40 final size:40
Alignment explanation
Indices: 53869126--53869338 Score: 234
Period size: 40 Copynumber: 5.3 Consensus size: 40
53869116 CATTTGAATG
* * *
53869126 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* * * * *
53869166 TTATCTGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
53869206 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
*
53869246 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* * * ** *
53869286 ATACCCGGGTTAAGACCCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCGAGTGATT
53869327 ATATCC-GGCTAA
1 ATATCCGGGCTAA
53869339 ATACCGAAGA
Statistics
Matches: 154, Mismatches: 15, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
40 128 0.83
41 26 0.17
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:53869346 original size:120 final size:120
Alignment explanation
Indices: 53869126--53869347 Score: 261
Period size: 120 Copynumber: 1.9 Consensus size: 120
53869116 CATTTGAATG
* * * * * * *
53869126 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCTGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGCCCCGAAGGCA
* * *
53869191 TTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
66 ATTATGCTAGTGATTATATCCGGGCTAAGAACCGAAGGCATTTGTGCGAGTTGAT
* *
53869246 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATACCCGGGCTAAG-CCCCGAAGG
* * *
53869310 CAATTGTGCTTGTGGTTATATCC-GGCTAA-ATACCGAAG
64 CAATTATGCTAGTGATTATATCCGGGCTAAGA-ACCGAAG
53869348 AAACTTGGGT
Statistics
Matches: 84, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
119 1 0.01
120 55 0.65
121 28 0.33
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (120 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGCCCCGAAGGCA
ATTATGCTAGTGATTATATCCGGGCTAAGAACCGAAGGCATTTGTGCGAGTTGAT
Found at i:53881492 original size:85 final size:85
Alignment explanation
Indices: 53881349--53881527 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
53881339 GGCCGGCCAT
53881349 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
53881414 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
53881434 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
53881499 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
53881519 GGGCATGGG
1 GAGCATGGG
53881528 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:53883767 original size:47 final size:47
Alignment explanation
Indices: 53883714--53884002 Score: 391
Period size: 47 Copynumber: 6.1 Consensus size: 47
53883704 TTAGGATTTT
*
53883714 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
53883761 CA-GTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGACCA
1 -ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* **
53883808 ATGTGGTGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
*
53883859 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
53883906 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAGTGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
53883953 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
53884000 ATG
1 ATG
53884003 CGAAACGTGT
Statistics
Matches: 215, Mismatches: 21, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
46 1 0.00
47 170 0.79
48 1 0.00
49 2 0.01
51 41 0.19
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:53883854 original size:98 final size:94
Alignment explanation
Indices: 53883714--53883995 Score: 386
Period size: 98 Copynumber: 3.0 Consensus size: 94
53883704 TTAGGATTTT
* * *
53883714 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCACA-GTGATGGATGTGAAC
1 ATGTGATGAATGTGAACATACATATGTGTGATAAGGCCGAATGGCCA-ATGTGATGAATGTGAAC
53883778 ATGCGTATGTGTGATAAGGCCGAATGACCA
65 ATGCGTATGTGTGATAAGGCCGAATGACCA
* *
53883808 ATGTGGTGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAA--C--ATACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
*
53883873 AACATGCGTATGTGTGATAAGGCCGAATGGCCA
62 AACATGCGTATGTGTGATAAGGCCGAATGACCA
* * * *
53883906 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAGTGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
** * *
53883971 TGAATATATGTGGTAAGGCCGAATG
66 TGCGTATGTGTGATAAGGCCGAATG
53883996 GCTAATGCGA
Statistics
Matches: 167, Mismatches: 16, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
94 79 0.47
96 2 0.01
97 1 0.01
98 85 0.51
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.26
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCGTATGTGTGATAAGGCCGAATGACCA
Found at i:53883863 original size:24 final size:24
Alignment explanation
Indices: 53883835--53883910 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
53883825 CCGTATATAT
53883835 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
53883859 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
53883882 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
53883906 ATGTG
1 ATGTG
53883911 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:53883871 original size:145 final size:141
Alignment explanation
Indices: 53883714--53884002 Score: 436
Period size: 145 Copynumber: 2.0 Consensus size: 141
53883704 TTAGGATTTT
*
53883714 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCACA-GTGATGGATGTGAAC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA-ATGTGATGAATGTGAAC
* * * * *
53883778 ATGCGTATGTGTGATAAGGCCGAATGACCAATGTGGTGAATGTGAACCCGTATATATATGTGTGA
65 ATGCATATATGAGATAAGGCCGAATGACCAATGTGATGAATGTGAACACG-A-ATATATGTG-G-
53883843 TAAGGCCGAATGGCCA
126 TAAGGCCGAATGGCCA
53883859 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
53883924 TGCATATATGAGATAAGGCCGAGTGGCCAATGTGATGAATGTGAACATGAATATATGTGGTAAGG
66 TGCATATATGAGATAAGGCCGAATGACCAATGTGATGAATGTGAACACGAATATATGTGGTAAGG
*
53883989 CCGAATGGCTA
131 CCGAATGGCCA
53884000 ATG
1 ATG
53884003 CGAAACGTGT
Statistics
Matches: 133, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
141 18 0.14
142 1 0.01
143 9 0.07
144 2 0.02
145 103 0.77
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.26
Consensus pattern (141 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATATATGAGATAAGGCCGAATGACCAATGTGATGAATGTGAACACGAATATATGTGGTAAGG
CCGAATGGCCA
Found at i:53884065 original size:46 final size:46
Alignment explanation
Indices: 53883976--53884066 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
53883966 GAACATGAAT
* * * *
53883976 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
53884022 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
53884067 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:53884315 original size:37 final size:37
Alignment explanation
Indices: 53884213--53884321 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
53884203 GGAAATATAT
* * *
53884213 TCCGGATAAGACCCGATGACTACGTGTAGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
53884250 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
53884287 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
53884322 CGTCTGAGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:53894886 original size:45 final size:45
Alignment explanation
Indices: 53894766--53894926 Score: 204
Period size: 45 Copynumber: 3.6 Consensus size: 45
53894756 TCGACATTTT
* * *
53894766 GCCTGCTAGGCTCGAA-GCCCG-ATA-TAATTTTACCGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCTCACCGGCATTATA
** *
53894809 GCCTGCTA-GCTTGAAGGCTCGAATAGTATCTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
*
53894853 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATCATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
* *
53894898 GCCTGCTAGGTTCAAAGGCCAGAATAGTA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTA
53894927 CCGTACGATA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
42 6 0.06
43 12 0.12
44 26 0.25
45 60 0.58
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (45 bp):
GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
Done.