Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 172 of 187
Found at i:52480422 original size:17 final size:18
Alignment explanation
Indices: 52480397--52480431 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
52480387 AGTACTCAAA
*
52480397 GCAACAATC-TCAAAAAC
1 GCAAAAATCATCAAAAAC
52480414 GCAAAAATCATCAAAAAC
1 GCAAAAATCATCAAAAAC
52480432 CAAGTTAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.57, C:0.26, G:0.06, T:0.11
Consensus pattern (18 bp):
GCAAAAATCATCAAAAAC
Found at i:52484102 original size:80 final size:81
Alignment explanation
Indices: 52483967--52484150 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
52483957 ATTTTACCCC
* * ** **
52483967 ACAAGGGTATCTCGGTAATTCTACCCTAGAGAGGTATTTTGATATTTCTGTCCTACAAGGGTATT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCAATATTTCTACCCTACAAGGGTATT
52484032 TCGATAATTC-ATCC-T
66 TCGATAATTCTA-CCTT
* *
52484047 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTT-TACCCTACAGGGGTAT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCAAT-ATTTCTACCCTACAAGGGTAT
*
52484111 TTCGGTAATTCTACCTT
65 TTCGATAATTCTACCTT
* *
52484128 ACAGGGGTATTTTGGTAATTCTA
1 ACAAGGGTATTTCGGTAATTCTA
52484151 TAACTTATCC
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
80 63 0.70
81 27 0.30
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (81 bp):
ACAAGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCAATATTTCTACCCTACAAGGGTATT
TCGATAATTCTACCTT
Found at i:52484148 original size:27 final size:27
Alignment explanation
Indices: 52483953--52484150 Score: 209
Period size: 27 Copynumber: 7.4 Consensus size: 27
52483943 GGGGCAAAAT
* * * *
52483953 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
52483980 GGTAATTCTACCCTAGAGAGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * ** *
52484007 GATATTTCTGTCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
52484034 GATAATTC-ATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
52484060 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
52484087 AATAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
52484114 GGTAATTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
52484141 GGTAATTCTA
1 GGTAATTCTA
52484151 TAACTTATCC
Statistics
Matches: 142, Mismatches: 28, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 24 0.17
27 118 0.83
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:52491444 original size:26 final size:27
Alignment explanation
Indices: 52491415--52491468 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
52491405 TCACACAAGT
*
52491415 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
52491441 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
52491468 T
1 T
52491469 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:52491499 original size:27 final size:27
Alignment explanation
Indices: 52491469--52491668 Score: 283
Period size: 27 Copynumber: 7.4 Consensus size: 27
52491459 GGGGCAAAAT
* * * *
52491469 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
52491496 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
52491523 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
52491550 GATAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
52491577 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
52491604 AATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
52491631 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
52491658 GGTAATTCTAC
1 GGTAATTCTAC
52491669 AACTTATCCA
Statistics
Matches: 152, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 152 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:52491581 original size:81 final size:81
Alignment explanation
Indices: 52491487--52491668 Score: 312
Period size: 81 Copynumber: 2.2 Consensus size: 81
52491477 TACCCCACAA
* * *
52491487 GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGA
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCGA
52491552 TAATTCTATCC-TACAG
66 TAATTCTA-CCTTACAG
*
52491568 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCGG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCGA
52491633 TAATTCTACCTTACAG
66 TAATTCTACCTTACAG
52491649 GGGTATTTCGGTAATTCTAC
1 GGGTATTTCGGTAATTCTAC
52491669 AACTTATCCA
Statistics
Matches: 96, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
80 2 0.02
81 94 0.98
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (81 bp):
GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCGA
TAATTCTACCTTACAG
Found at i:52537200 original size:47 final size:47
Alignment explanation
Indices: 52537126--52537297 Score: 210
Period size: 47 Copynumber: 3.7 Consensus size: 47
52537116 GGATGGTTGA
* *
52537126 GCATTCGAACTCGTTGAATTGAGTCCGAGTTCGTGAAATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
52537173 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-G
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACTAG
* *
52537216 CGAATGTCTGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
1 -GCA--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
52537266 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
52537298 ACTTATGGAT
Statistics
Matches: 104, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 31 0.30
47 61 0.59
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:52537238 original size:46 final size:46
Alignment explanation
Indices: 52537179--52537348 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
52537169 CTAGGCATCC
52537179 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* * * * *
52537225 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCT
*
52537272 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* *
52537317 CGAGCTCGTTGAGTTGATTCCGAGTTCACTTA
1 -GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
52537349 GGTGCGGGTT
Statistics
Matches: 101, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 4 0.04
46 55 0.54
47 28 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
Found at i:52537269 original size:93 final size:93
Alignment explanation
Indices: 52537130--52537343 Score: 376
Period size: 93 Copynumber: 2.3 Consensus size: 93
52537120 GGTTGAGCAT
*
52537130 TCGAACTCGTTGAATTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAACTCGTTGAGTTGA
1 TCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAACTCGTTGAGTTGA
*
52537195 GTCCGAGTTCACTTATGGATGCGAATG-
66 GTCCGAGTTCACTTATGGATGCGAACGC
52537222 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAACTCGTTGAGTTG
1 TC-GAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAACTCGTTGAGTTG
52537287 AGTCCGAGTTCACTTATGGATGCGAACGC
65 AGTCCGAGTTCACTTATGGATGCGAACGC
* *
52537316 TCGAGCTCGTTGAGTTGATTCCGAGTTC
1 TCGAACTCGTTGAGTTGAGTCCGAGTTC
52537344 ACTTAGGTGC
Statistics
Matches: 116, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
92 2 0.02
93 112 0.97
94 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
TCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAACTCGTTGAGTTGA
GTCCGAGTTCACTTATGGATGCGAACGC
Found at i:52539314 original size:42 final size:42
Alignment explanation
Indices: 52539267--52539362 Score: 99
Period size: 42 Copynumber: 2.3 Consensus size: 42
52539257 CCAGACGAGA
* *
52539267 TCTTACAAGTAATCA-ACTATCGATGCCACTGTCC-CGACAGGG
1 TCTTACAAGTAATCATA-T-TCGATGCCAATGTCCAAGACAGGG
* *
52539309 TCTTAC-ACTAAATCATATTCGATGCCAATGTCCAAGACATGG
1 TCTTACAAGT-AATCATATTCGATGCCAATGTCCAAGACAGGG
*
52539351 TCTTACACGTAA
1 TCTTACAAGTAA
52539363 ATCTCAAATC
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
41 16 0.36
42 26 0.59
43 2 0.05
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (42 bp):
TCTTACAAGTAATCATATTCGATGCCAATGTCCAAGACAGGG
Found at i:52539341 original size:41 final size:43
Alignment explanation
Indices: 52539286--52539365 Score: 119
Period size: 41 Copynumber: 1.9 Consensus size: 43
52539276 TAATCAACTA
* *
52539286 TCGATGCCACTGTCC-CGACAGGGTCTTACAC-TAAATCATAT
1 TCGATGCCAATGTCCAAGACAGGGTCTTACACGTAAATCATAT
*
52539327 TCGATGCCAATGTCCAAGACATGGTCTTACACGTAAATC
1 TCGATGCCAATGTCCAAGACAGGGTCTTACACGTAAATC
52539366 TCAAATCGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 14 0.41
42 14 0.41
43 6 0.18
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (43 bp):
TCGATGCCAATGTCCAAGACAGGGTCTTACACGTAAATCATAT
Found at i:52539380 original size:44 final size:41
Alignment explanation
Indices: 52539285--52539385 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 41
52539275 GTAATCAACT
* *
52539285 ATCGATGCCACTGTCCCGACAGGGTCTTACACTAAATCATA
1 ATCGATGCCAATGTCCAGACAGGGTCTTACACTAAATCATA
* *
52539326 TTCGATGCCAATGTCCAAGACATGGTCTTACACGTAAATC-TCAA
1 ATCGATGCCAATGTCC-AGACAGGGTCTTACAC-TAAATCAT--A
*
52539370 ATCGATGCCAACGTCC
1 ATCGATGCCAATGTCC
52539386 TAAAGGTGGT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
41 14 0.28
42 15 0.30
43 6 0.12
44 15 0.30
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (41 bp):
ATCGATGCCAATGTCCAGACAGGGTCTTACACTAAATCATA
Found at i:52541231 original size:29 final size:30
Alignment explanation
Indices: 52541191--52541258 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 30
52541181 CTCATTGACT
* * *
52541191 TGTGACACACGACCATGTCG-TAGGCCGTG
1 TGTGTCACACGACCATGTAGCAAGGCCGTG
* *
52541220 TGTGTCACACGACCGTGTAGCAAGGTCGTG
1 TGTGTCACACGACCATGTAGCAAGGCCGTG
52541250 TGTGTCACA
1 TGTGTCACA
52541259 TGGCCGTGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
29 17 0.52
30 16 0.48
ACGTcount: A:0.21, C:0.25, G:0.31, T:0.24
Consensus pattern (30 bp):
TGTGTCACACGACCATGTAGCAAGGCCGTG
Found at i:52547193 original size:47 final size:47
Alignment explanation
Indices: 52547139--52547687 Score: 546
Period size: 47 Copynumber: 11.6 Consensus size: 47
52547129 TATTTGAATA
* *
52547139 AATGTGAAAGTGCATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
52547186 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
*** * **
52547235 AATGTGAAAGTGTATATATATGTGATAA-GTATATTTGGATAATTGTGATGTG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGA-ATGGCCAA-TGTGA--TG
* * * * ***
52547287 AATACATGCAAA-TTTATAT-TTTGATTTA-G--G-AT--TTTATGTGATG
1 AAT--GTG-AAAGTGTATATATGTGA-TAAGGCCGAATGGCCAATGTGATG
* *
52547330 AATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
52547377 AATGTGAACA-TGCATATGTGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
52547424 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
52547471 AATGTGAAAGTGTATGTATGTGATAAGGCCGAATGACCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
52547518 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGACCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
52547567 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAACGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
52547614 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
52547661 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
52547688 TCCCAAAGGG
Statistics
Matches: 426, Mismatches: 52, Indels: 48
0.81 0.10 0.09
Matches are distributed among these distances:
40 2 0.00
41 10 0.02
42 4 0.01
43 5 0.01
44 1 0.00
45 7 0.02
46 4 0.01
47 251 0.59
48 4 0.01
49 109 0.26
50 6 0.01
51 4 0.01
52 13 0.03
54 3 0.01
55 3 0.01
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:52547516 original size:22 final size:22
Alignment explanation
Indices: 52547488--52547565 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
52547478 AAGTGTATGT
52547488 ATGTGATAAGGCCGAATGACCA
1 ATGTGATAAGGCCGAATGACCA
* * **
52547510 ATGTGATGAATG-TGAAAGTGTATATA
1 ATGTGAT-AAGGCCG-AA-TG-A-CCA
52547536 TATGTGATAAGGCCGAATGACCA
1 -ATGTGATAAGGCCGAATGACCA
52547559 ATGTGAT
1 ATGTGAT
52547566 GAATGTGAAC
Statistics
Matches: 41, Mismatches: 8, Indels: 14
0.65 0.13 0.22
Matches are distributed among these distances:
22 15 0.37
23 6 0.15
24 3 0.07
25 3 0.07
26 6 0.15
27 8 0.20
ACGTcount: A:0.36, C:0.10, G:0.27, T:0.27
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGACCA
Found at i:52547569 original size:190 final size:188
Alignment explanation
Indices: 52547322--52547687 Score: 563
Period size: 190 Copynumber: 1.9 Consensus size: 188
52547312 TTAGGATTTT
* *
52547322 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAATGTATATATATGAGATAAGGCCGAATGACCAATGTGATGAATGTGAACA
* * *
52547387 TGCATATGTGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATATGTGATAAG
66 TGCATATGTGAGATAAGGCCGAATGGCCAACGTGATGAATGTGAACA-TGCATATATGAGATAAG
* * **
52547451 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGACCA
130 GCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCCGAATGACCA
*
52547510 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAA
1 ATGTGATGAATGTG-AA-TGTATATATATGAGATAAGGCCGAATGACCAATGTGATGAATGTGAA
** *
52547575 CATGTGTATGTGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAACATGCATATATGAGATAA
64 CATGCATATGTGAGATAAGGCCGAATGGCCAACGTGATGAATGTGAACATGCATATATGAGATAA
* *
52547640 GGCCGAATGGCCAATGTGATGGATGTGGAAGTGTATAAATGTGATAAG
129 GGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAAATGTGATAAG
52547688 TCCCAAAGGG
Statistics
Matches: 160, Mismatches: 15, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
188 14 0.09
189 2 0.01
190 143 0.89
191 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.27
Consensus pattern (188 bp):
ATGTGATGAATGTGAATGTATATATATGAGATAAGGCCGAATGACCAATGTGATGAATGTGAACA
TGCATATGTGAGATAAGGCCGAATGGCCAACGTGATGAATGTGAACATGCATATATGAGATAAGG
CCGAATGGCCAATGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCCGAATGACCA
Found at i:52550093 original size:25 final size:23
Alignment explanation
Indices: 52550077--52550133 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
52550067 GAGCTGATGG
*
52550077 ACAGTAAGCTCTATTGAACTGAA
1 ACAGTAAGCTCTATTGAGCTGAA
**
52550100 ACAGTAAGCTCTAACGAGCTGAAA
1 ACAGTAAGCTCTATTGAGCTG-AA
*
52550124 ATAGTAAGCT
1 ACAGTAAGCT
52550134 TTTACGAGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 18 0.62
24 11 0.38
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (23 bp):
ACAGTAAGCTCTATTGAGCTGAA
Found at i:52550121 original size:23 final size:23
Alignment explanation
Indices: 52550077--52550145 Score: 75
Period size: 24 Copynumber: 3.0 Consensus size: 23
52550067 GAGCTGATGG
** *
52550077 ACAGTAAGCTCTATTGAACTGAA
1 ACAGTAAGCTCTAACGAGCTGAA
52550100 ACAGTAAGCTCTAACGAGCTGAAA
1 ACAGTAAGCTCTAACGAGCTG-AA
* * *
52550124 ATAGTAAGCTTTTACGAGCTGA
1 ACAGTAAGCTCTAACGAGCTGA
52550146 TGTATCGATA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 19 0.49
24 20 0.51
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (23 bp):
ACAGTAAGCTCTAACGAGCTGAA
Found at i:52560767 original size:40 final size:40
Alignment explanation
Indices: 52560712--52560885 Score: 246
Period size: 40 Copynumber: 4.4 Consensus size: 40
52560702 TGGTAACCGA
* * *
52560712 GCTAAGTCTCGAAGGCATTTGTGCTAGTGACTA-ATTCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGG
*
52560752 GCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
*
52560792 GCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
*
52560832 GCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-G
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGG
*
52560871 GCTAAATCCCGAAGG
1 GCTAAGTCCCGAAGG
52560886 TACTTGGTTT
Statistics
Matches: 124, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
39 17 0.14
40 106 0.85
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
Found at i:52561211 original size:209 final size:209
Alignment explanation
Indices: 52560851--52561271 Score: 815
Period size: 209 Copynumber: 2.0 Consensus size: 209
52560841 CGAAGGCATT
*
52560851 TGAGCGAGTAGCTATATCCGGCTAAATCCCGAAGGTACTTGGTTTGGGAATGAGCGGTCTTGCTG
1 TGAGCGAGTAGCTATATCCGGCTAAATCCCGAAGGTACTTGGTTTGGGAATGAGCGATCTTGCTG
*
52560916 TAATACTTTCAATTAATATGCTCGTAAAATCCCAACGATGAGGTATGTTTCGTATATGCATTGGA
66 TAATACTTTCAATTAATACGCTCGTAAAATCCCAACGATGAGGTATGTTTCGTATATGCATTGGA
52560981 ATAGTTGATTCCTTTTAAATAGTATTCGCTCAATCGATTAACAAGCTTCCGGCCTTTAGCCAAGT
131 ATAGTTGATTCCTTTTAAATAGTATTCGCTCAATCGATTAACAAGCTTCCGGCCTTTAGCCAAGT
52561046 TGATTCCTTATGTA
196 TGATTCCTTATGTA
*
52561060 TGAGCGAGTAGCTATATCCGGCTAAATCCCGAAGGTCCTTGGTTTGGGAATGAGCGATCTTGCTG
1 TGAGCGAGTAGCTATATCCGGCTAAATCCCGAAGGTACTTGGTTTGGGAATGAGCGATCTTGCTG
52561125 TAATACTTTCAATTAATACGCTCGTAAAATCCCAACGATGAGGTATGTTTCGTATATGCATTGGA
66 TAATACTTTCAATTAATACGCTCGTAAAATCCCAACGATGAGGTATGTTTCGTATATGCATTGGA
52561190 ATAGTTGATTCCTTTTAAATAGTATTCGCTCAATCGATTAACAAGCTTCCGGCCTTTAGCCAAGT
131 ATAGTTGATTCCTTTTAAATAGTATTCGCTCAATCGATTAACAAGCTTCCGGCCTTTAGCCAAGT
52561255 TGATTCCTTATGTA
196 TGATTCCTTATGTA
52561269 TGA
1 TGA
52561272 ATATAAGGGT
Statistics
Matches: 209, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
209 209 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.34
Consensus pattern (209 bp):
TGAGCGAGTAGCTATATCCGGCTAAATCCCGAAGGTACTTGGTTTGGGAATGAGCGATCTTGCTG
TAATACTTTCAATTAATACGCTCGTAAAATCCCAACGATGAGGTATGTTTCGTATATGCATTGGA
ATAGTTGATTCCTTTTAAATAGTATTCGCTCAATCGATTAACAAGCTTCCGGCCTTTAGCCAAGT
TGATTCCTTATGTA
Found at i:52568822 original size:40 final size:40
Alignment explanation
Indices: 52568767--52568982 Score: 287
Period size: 40 Copynumber: 5.4 Consensus size: 40
52568757 GATGGTAACC
* *
52568767 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCT
* * *
52568807 GGGCTAATTCCCGAAGGCATTTGTGCAAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
52568847 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT-T
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
52568886 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
1 -GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
* * *
52568927 AGGCTAAGTCTCGAAGGCATTTGAGCGAG-TAGCTATATC-
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCT
* *
52568966 CGGCTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
52568983 TACTTGGTTT
Statistics
Matches: 159, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
39 16 0.10
40 141 0.89
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
Found at i:52573235 original size:108 final size:108
Alignment explanation
Indices: 52573046--52573260 Score: 376
Period size: 108 Copynumber: 2.0 Consensus size: 108
52573036 CAACTCCAAG
*
52573046 TCCACCAACTAGGGCTCACCTGCAAGGATGGAAGAAAAAGGGGTGAGTTTGGGAAAACTCAGTGT
1 TCCACCAACTAGGGCTCACCTGCAAGGATGGAAGAAAAAGGGGTGAGTTTGGGAAAACTCAATGT
* *
52573111 ATATAGAAACCCATCCAAAGCCCAAATCAGCTTGAGCCCATTA
66 ATACAGAAACCCATCCAAAGCCCAAATCAGCTCGAGCCCATTA
* *
52573154 TCCACCAACTAGGGCTCACCTGCAAGTATGGAAGAAAAAGGGGTGAGTTTGGGGAAACTCAATGT
1 TCCACCAACTAGGGCTCACCTGCAAGGATGGAAGAAAAAGGGGTGAGTTTGGGAAAACTCAATGT
*
52573219 ATACAGAAACCCATCCAAAGCCCAAATTAGCTCGAGCCCATT
66 ATACAGAAACCCATCCAAAGCCCAAATCAGCTCGAGCCCATT
52573261 GGGCCTAAGC
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 101 1.00
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.19
Consensus pattern (108 bp):
TCCACCAACTAGGGCTCACCTGCAAGGATGGAAGAAAAAGGGGTGAGTTTGGGAAAACTCAATGT
ATACAGAAACCCATCCAAAGCCCAAATCAGCTCGAGCCCATTA
Found at i:52573704 original size:112 final size:112
Alignment explanation
Indices: 52573507--52573726 Score: 404
Period size: 112 Copynumber: 2.0 Consensus size: 112
52573497 CAGCCCTACA
* *
52573507 CTCCACAGTTGCAGCAACGCTGCTCAAATATTAGTAAGTTGAGGCAAAGCCTCCAGTATGTGGAT
1 CTCCACAGTTGCAGCAACGCTGCTCAAATATCAGTAAGTTGAGGCAAAGCCTCCAGTACGTGGAT
**
52573572 GAACCACTTTCAATACTTCCTCCATCAATACTGCAATCCCATGCATT
66 GAACCACTTTCAATACTTCCTCCATCAATACCACAATCCCATGCATT
52573619 CTCCACAGTTGCAGCAACGCTGCTCAAATATCAGTAAGTTGAGGCAAAGCCTCCAGTACGTGGAT
1 CTCCACAGTTGCAGCAACGCTGCTCAAATATCAGTAAGTTGAGGCAAAGCCTCCAGTACGTGGAT
52573684 GAACCACTTTCAATACTTCCTCCATCAATACCACAATCCCATG
66 GAACCACTTTCAATACTTCCTCCATCAATACCACAATCCCATG
52573727 GAACAGATAT
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
112 104 1.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (112 bp):
CTCCACAGTTGCAGCAACGCTGCTCAAATATCAGTAAGTTGAGGCAAAGCCTCCAGTACGTGGAT
GAACCACTTTCAATACTTCCTCCATCAATACCACAATCCCATGCATT
Found at i:52574166 original size:52 final size:52
Alignment explanation
Indices: 52574088--52574191 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 52
52574078 ATTCGCATAC
* *
52574088 TCACAAGCCCATGAAATGCCGAAATTTCAGCATTTCGGCTTTTGTCGAATTG
1 TCACAAGCCCATGAAATGCCCAAATTTCAGCATTTCGGCTTTTGCCGAATTG
**
52574140 TCACAAGCCCATGAAATGCCCAAATTTTGGCATTTCGGCTTTTGCCGAATTG
1 TCACAAGCCCATGAAATGCCCAAATTTCAGCATTTCGGCTTTTGCCGAATTG
52574192 AACTAAGAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (52 bp):
TCACAAGCCCATGAAATGCCCAAATTTCAGCATTTCGGCTTTTGCCGAATTG
Found at i:52576716 original size:41 final size:41
Alignment explanation
Indices: 52576671--52576752 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
52576661 CATTGTTACT
* * *
52576671 CTTTCCTACTTCCATAGCGGAATTTTCACAGGTTGCAGTAA
1 CTTTCCCACTTCCATAACGAAATTTTCACAGGTTGCAGTAA
52576712 CTTTCCCACTTCCATAACGAAATTTTCACAGGTTGCAGTAA
1 CTTTCCCACTTCCATAACGAAATTTTCACAGGTTGCAGTAA
52576753 TCCCGAAGGC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.33
Consensus pattern (41 bp):
CTTTCCCACTTCCATAACGAAATTTTCACAGGTTGCAGTAA
Found at i:52580433 original size:23 final size:23
Alignment explanation
Indices: 52580407--52580486 Score: 74
Period size: 23 Copynumber: 3.4 Consensus size: 23
52580397 TCTACAGTAT
*
52580407 TATTTCCAGTCCAGTTCCATAAA
1 TATTTACAGTCCAGTTCCATAAA
* * *
52580430 TATTTACAGTACTA-TCTACAGT-AT
1 TATTTACAGT-CCAGT-TCCA-TAAA
*
52580454 TATTTCCAGTCCAGTTCCATAAA
1 TATTTACAGTCCAGTTCCATAAA
52580477 TATTTACAGT
1 TATTTACAGT
52580487 ACTATCTACA
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
22 1 0.02
23 25 0.58
24 16 0.37
25 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (23 bp):
TATTTACAGTCCAGTTCCATAAA
Found at i:52580443 original size:47 final size:47
Alignment explanation
Indices: 52580389--52580508 Score: 240
Period size: 47 Copynumber: 2.6 Consensus size: 47
52580379 CTCTAAGGCT
52580389 CAGTACTATCTACAGTATTATTTCCAGTCCAGTTCCATAAATATTTA
1 CAGTACTATCTACAGTATTATTTCCAGTCCAGTTCCATAAATATTTA
52580436 CAGTACTATCTACAGTATTATTTCCAGTCCAGTTCCATAAATATTTA
1 CAGTACTATCTACAGTATTATTTCCAGTCCAGTTCCATAAATATTTA
52580483 CAGTACTATCTACAGTATTATTTCCA
1 CAGTACTATCTACAGTATTATTTCCA
52580509 TGTTTTTGTT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (47 bp):
CAGTACTATCTACAGTATTATTTCCAGTCCAGTTCCATAAATATTTA
Found at i:52584559 original size:231 final size:231
Alignment explanation
Indices: 52584156--52584609 Score: 872
Period size: 231 Copynumber: 2.0 Consensus size: 231
52584146 GTATATTCGG
52584156 CTTGTAGTTTTATAAATGGGATATGAGTTTTTTGTGCTGTAAATGAGTAGTAAGTATGTTAAGAA
1 CTTGTAGTTTTATAAATGGGATATGAGTTTTTTGTGCTGTAAATGAGTAGTAAGTATGTTAAGAA
52584221 TGGTTCTAAAATGTATATGGATGCCGTATGATTGTGTTTGATTGAGAACTAAATTGTTTGATTTA
66 TGGTTCTAAAATGTATATGGATGCCGTATGATTGTGTTTGATTGAGAACTAAATTGTTTGATTTA
52584286 GCTCAAGAGCTTAGAGGATCAAAGTTGGATAAGGGAAAGGAAAAAGTGGTCGAATAGCCGTTGAA
131 GCTCAAGAGCTTAGAGGATCAAAGTTGGATAAGGGAAAGGAAAAAGTGGTCGAATAGCCGTTGAA
52584351 ATCGTTCGACAACATCCGAGGTAAGTTTCCAAGTAT
196 ATCGTTCGACAACATCCGAGGTAAGTTTCCAAGTAT
*
52584387 CTTGTAGTTTTATAAATGTGATATGAGTTTTTTGTGCTGTAAATGAGTAGTAAGTATGTTAAGAA
1 CTTGTAGTTTTATAAATGGGATATGAGTTTTTTGTGCTGTAAATGAGTAGTAAGTATGTTAAGAA
*
52584452 TGGTTCTAAAATGTATATGGATGCCGTATGATTGTGTTTGATTGAGAAGTAAATTGTTTGATTTA
66 TGGTTCTAAAATGTATATGGATGCCGTATGATTGTGTTTGATTGAGAACTAAATTGTTTGATTTA
52584517 GCTCAAGAGCTTAGAGGATCAAAGTTGGATAAGGGAAAGGAAAAAGTGGTCGAATAGCCGTTGAA
131 GCTCAAGAGCTTAGAGGATCAAAGTTGGATAAGGGAAAGGAAAAAGTGGTCGAATAGCCGTTGAA
* *
52584582 ATCGTTTGACAACATTCGAGGTAAGTTT
196 ATCGTTCGACAACATCCGAGGTAAGTTT
52584610 TCGAGTAATG
Statistics
Matches: 219, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
231 219 1.00
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (231 bp):
CTTGTAGTTTTATAAATGGGATATGAGTTTTTTGTGCTGTAAATGAGTAGTAAGTATGTTAAGAA
TGGTTCTAAAATGTATATGGATGCCGTATGATTGTGTTTGATTGAGAACTAAATTGTTTGATTTA
GCTCAAGAGCTTAGAGGATCAAAGTTGGATAAGGGAAAGGAAAAAGTGGTCGAATAGCCGTTGAA
ATCGTTCGACAACATCCGAGGTAAGTTTCCAAGTAT
Found at i:52584965 original size:40 final size:40
Alignment explanation
Indices: 52584910--52584995 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 40
52584900 TATTCGGATG
* **
52584910 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
*
52584950 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
52584990 ATATCC
1 ATATCC
52584996 GGGAAGAAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.28
Consensus pattern (40 bp):
ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:52585345 original size:382 final size:382
Alignment explanation
Indices: 52584619--52585379 Score: 1443
Period size: 382 Copynumber: 2.0 Consensus size: 382
52584609 TTCGAGTAAT
52584619 GAAACTTAGTTTATGATTTGATTAAGTCATGACATATAAGCATAACAAATAAACGGTGATATAAT
1 GAAACTTAGTTTATGATTTGATTAAGTCATGACATATAAGCATAACAAATAAACGGTGATATAAT
52584684 GATTCTACTTGAATTGTATATTGAGGTGATTAGTTTATACCTATGATGGGTAGCCGAATGTGTAT
66 GATTCTACTTGAATTGTATATTGAGGTGATTAGTTTATACCTATGATGGGTAGCCGAATGTGTAT
52584749 AGAGATTATGTTATAAATCAAATCAAATCATGCTCTCTGTATGTGGCTATTGAGCCGAAAATGGT
131 AGAGATTATGTTATAAATCAAATCAAATCATGCTCTCTGTATGTGGCTATTGAGCCGAAAATGGT
52584814 AATGGTTGATAAGTGTCTTGTGTTTGAATTCTAGTTATGAAAATGAAATACAGATGTGTCATGAT
196 AATGGTTGATAAGTGTCTTGTGTTTGAATTCTAGTTATGAAAATGAAATACAGATGTGTCATGAT
52584879 TCATTGATATATGTGCTTGATTATTCGGATGATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
261 TCATTGATATATGTGCTTGATTATTCGGATGATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
** * * *
52584944 GTTCCTATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGAA
326 GTGACTACATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCCGGGAA
52585001 GAAACTTAGTTTATGATTTGATTAAGTCATGACATATAAGCATAACAAATAAACGGTGATATAAT
1 GAAACTTAGTTTATGATTTGATTAAGTCATGACATATAAGCATAACAAATAAACGGTGATATAAT
52585066 GATTCTACTTGAATTGTATATTGAGGTGATTAGTTTATACCTATGATGGGTAGCCGAATGTGTAT
66 GATTCTACTTGAATTGTATATTGAGGTGATTAGTTTATACCTATGATGGGTAGCCGAATGTGTAT
52585131 AGAGATTATGTTATAAATCAAATCAAATCATGCTCTCTGTATGTGGCTATTGAGCCGAAAATGGT
131 AGAGATTATGTTATAAATCAAATCAAATCATGCTCTCTGTATGTGGCTATTGAGCCGAAAATGGT
52585196 AATGGTTGATAAGTGTCTTGTGTTTGAATTCTAGTTATGAAAATGAAATACAGATGTGTCATGAT
196 AATGGTTGATAAGTGTCTTGTGTTTGAATTCTAGTTATGAAAATGAAATACAGATGTGTCATGAT
*
52585261 TCATTGATATATGTGCTTGATTATTCGGATGATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA
261 TCATTGATATATGTGCTTGATTATTCGGATGATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
*
52585326 GTGACTACATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGG
326 GTGACTACATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGG
52585380 CTAAAGCCCG
Statistics
Matches: 371, Mismatches: 7, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
382 369 0.99
383 2 0.01
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.34
Consensus pattern (382 bp):
GAAACTTAGTTTATGATTTGATTAAGTCATGACATATAAGCATAACAAATAAACGGTGATATAAT
GATTCTACTTGAATTGTATATTGAGGTGATTAGTTTATACCTATGATGGGTAGCCGAATGTGTAT
AGAGATTATGTTATAAATCAAATCAAATCATGCTCTCTGTATGTGGCTATTGAGCCGAAAATGGT
AATGGTTGATAAGTGTCTTGTGTTTGAATTCTAGTTATGAAAATGAAATACAGATGTGTCATGAT
TCATTGATATATGTGCTTGATTATTCGGATGATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
GTGACTACATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGAA
Found at i:52585393 original size:39 final size:40
Alignment explanation
Indices: 52585292--52585393 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 40
52585282 TATTCGGATG
* *
52585292 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
*
52585332 ACATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGACT
52585372 ATATCC-GGCTAA-AGCCCGAAGG
1 ATATCCGGGCTAAGA-CCCGAAGG
52585394 TACTTGGGTT
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 14 0.25
40 39 0.70
41 2 0.04
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
Found at i:52591901 original size:27 final size:27
Alignment explanation
Indices: 52591866--52592010 Score: 121
Period size: 27 Copynumber: 5.4 Consensus size: 27
52591856 GGACCCCTAT
* * *
52591866 AGTGCAAAATTATCGAAATACCCTTGA
1 AGTGTAAAATTACCAAAATACCCTTGA
** * *
52591893 AGTAAAAAATTATCAAAATACCCCT-A
1 AGTGTAAAATTACCAAAATACCCTTGA
* *
52591919 TAGTGTAAAATTACCGAAATACCCTTGT
1 -AGTGTAAAATTACCAAAATACCCTTGA
*
52591947 AGTGTAAAATTACCAAAATACCCTCGA
1 AGTGTAAAATTACCAAAATACCCTTGA
** * * * *
52591974 TTTGTGAAATTACCAAAATGCCCCTGT
1 AGTGTAAAATTACCAAAATACCCTTGA
*
52592001 AGGGTAAAAT
1 AGTGTAAAAT
52592011 GACTGAAATG
Statistics
Matches: 92, Mismatches: 24, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
26 1 0.01
27 91 0.99
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (27 bp):
AGTGTAAAATTACCAAAATACCCTTGA
Found at i:52591940 original size:54 final size:54
Alignment explanation
Indices: 52591858--52591969 Score: 170
Period size: 54 Copynumber: 2.1 Consensus size: 54
52591848 GGTCGTTAGG
* *
52591858 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCAAAAT
1 ACCCCTATAGTGCAAAATTACCGAAATACCCTTGAAGTAAAAAATTACCAAAAT
* * **
52591912 ACCCCTATAGTGTAAAATTACCGAAATACCCTTGTAGTGTAAAATTACCAAAAT
1 ACCCCTATAGTGCAAAATTACCGAAATACCCTTGAAGTAAAAAATTACCAAAAT
52591966 ACCC
1 ACCC
52591970 TCGATTTGTG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.26
Consensus pattern (54 bp):
ACCCCTATAGTGCAAAATTACCGAAATACCCTTGAAGTAAAAAATTACCAAAAT
Found at i:52591984 original size:54 final size:54
Alignment explanation
Indices: 52591858--52592010 Score: 164
Period size: 54 Copynumber: 2.8 Consensus size: 54
52591848 GGTCGTTAGG
* * * * ** *
52591858 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCAAAAT
1 ACCCCGATAGTGTAAAATTACCGAAATACCCTTGTAGTGTAAAATTACCAAAAT
*
52591912 ACCCCTATAGTGTAAAATTACCGAAATACCCTTGTAGTGTAAAATTACCAAAAT
1 ACCCCGATAGTGTAAAATTACCGAAATACCCTTGTAGTGTAAAATTACCAAAAT
* * * * * *
52591966 ACCCTCGAT-TTGTGAAATTACCAAAATGCCCCTGTAGGGTAAAAT
1 ACCC-CGATAGTGTAAAATTACCGAAATACCCTTGTAGTGTAAAAT
52592011 GACTGAAATG
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
54 82 0.96
55 3 0.04
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (54 bp):
ACCCCGATAGTGTAAAATTACCGAAATACCCTTGTAGTGTAAAATTACCAAAAT
Found at i:52592033 original size:27 final size:27
Alignment explanation
Indices: 52591989--52592042 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
52591979 GAAATTACCA
**
52591989 AAATGCCCCTGTAGGGTAAAATGACTG
1 AAATGCCCCTACAGGGTAAAATGACTG
* *
52592016 AAATGCCCCTACATGGTAAACTGACTG
1 AAATGCCCCTACAGGGTAAAATGACTG
52592043 TTTTGCCCCC
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:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (27 bp):
AAATGCCCCTACAGGGTAAAATGACTG
Found at i:52592503 original size:35 final size:33
Alignment explanation
Indices: 52592445--52592513 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 33
52592435 TATTTATATA
*
52592445 ACTACTTCTGTATTAAGATGGGCTTAGGCCCAG
1 ACTACTTCTGTACTAAGATGGGCTTAGGCCCAG
*
52592478 ACTACTTACTGTTACTAATATGGGCTTAGGCCCAG
1 ACTACTT-CTG-TACTAAGATGGGCTTAGGCCCAG
52592513 A
1 A
52592514 ATGTATTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 7 0.22
34 3 0.09
35 22 0.69
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (33 bp):
ACTACTTCTGTACTAAGATGGGCTTAGGCCCAG
Found at i:52594033 original size:27 final size:27
Alignment explanation
Indices: 52594002--52594054 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
52593992 GCTGCCAGAA
52594002 CAGTAAGTGTGGCAAAGCCACCAGTAT
1 CAGTAAGTGTGGCAAAGCCACCAGTAT
* *
52594029 CAGTAATTGTGGCATAGCCACCAGTA
1 CAGTAAGTGTGGCAAAGCCACCAGTA
52594055 ATAGTGAATG
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:0.32, C:0.23, G:0.25, T:0.21
Consensus pattern (27 bp):
CAGTAAGTGTGGCAAAGCCACCAGTAT
Found at i:52594254 original size:27 final size:27
Alignment explanation
Indices: 52594223--52594336 Score: 131
Period size: 27 Copynumber: 4.2 Consensus size: 27
52594213 GGCATAATCA
* * *
52594223 TCATTCTACCATACAGGGGTTTTATGG
1 TCATTTTACCATACAGGGGTATTACGG
* * *
52594250 TCATTTGT-CCCTACAGGGGCATTACAG
1 TCATTT-TACCATACAGGGGTATTACGG
*
52594277 TCATTTTACCATACTGGGGTATTACGG
1 TCATTTTACCATACAGGGGTATTACGG
* *
52594304 TCATTTTACCCTACAGGGGTATTTCGG
1 TCATTTTACCATACAGGGGTATTACGG
52594331 TCATTT
1 TCATTT
52594337 CATAAATCGA
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
26 1 0.01
27 70 0.97
28 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (27 bp):
TCATTTTACCATACAGGGGTATTACGG
Found at i:52594334 original size:54 final size:54
Alignment explanation
Indices: 52594223--52594336 Score: 149
Period size: 54 Copynumber: 2.1 Consensus size: 54
52594213 GGCATAATCA
* * *
52594223 TCATTCTACCATACAGGGGTTTTATGGTCATTTGTCCCTACAGGGGCATTACAG
1 TCATTTTACCATACAGGGGTATTACGGTCATTTGTCCCTACAGGGGCATTACAG
* * * *
52594277 TCATTTTACCATACTGGGGTATTACGGTCATTT-TACCCTACAGGGGTATTTCGG
1 TCATTTTACCATACAGGGGTATTACGGTCATTTGT-CCCTACAGGGGCATTACAG
52594331 TCATTT
1 TCATTT
52594337 CATAAATCGA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
53 1 0.02
54 51 0.98
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (54 bp):
TCATTTTACCATACAGGGGTATTACGGTCATTTGTCCCTACAGGGGCATTACAG
Found at i:52596390 original size:27 final size:27
Alignment explanation
Indices: 52596360--52596413 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
52596350 TGTCATGTGA
* *
52596360 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
52596387 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
52596414 GGTTGTATGA
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:52600487 original size:34 final size:34
Alignment explanation
Indices: 52600449--52600518 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 34
52600439 AGGCCTACAT
* *
52600449 TGATACTGTTACTG-TAATGGG-TTAAGGCCCATAC
1 TGATACTGCTACTGATAA-GGGCTT-AGGCCCAGAC
*
52600483 TGATATTGCTACTGATAAGGGCTTAGGCCCAGAC
1 TGATACTGCTACTGATAAGGGCTTAGGCCCAGAC
52600517 TG
1 TG
52600519 TTTACACTGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
34 26 0.84
35 5 0.16
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (34 bp):
TGATACTGCTACTGATAAGGGCTTAGGCCCAGAC
Found at i:52605589 original size:54 final size:53
Alignment explanation
Indices: 52605506--52605615 Score: 157
Period size: 54 Copynumber: 2.1 Consensus size: 53
52605496 GGAAGCATCA
**
52605506 TGGTGGCTATGCCACAACTATCTGATCTGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTATGCCACAACTATCTGATCTGGTAACTCTGCCACAT-TATCTGTTC
* * * *
52605560 TGGTGGCTCTGCCACAATTATCTGTTCTGGTAACTCTGTCACATTATCTGTTC
1 TGGTGGCTATGCCACAACTATCTGATCTGGTAACTCTGCCACATTATCTGTTC
52605613 TGG
1 TGG
52605616 CAGCTGTGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
53 12 0.24
54 38 0.76
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (53 bp):
TGGTGGCTATGCCACAACTATCTGATCTGGTAACTCTGCCACATTATCTGTTC
Found at i:52605612 original size:26 final size:26
Alignment explanation
Indices: 52605506--52605615 Score: 139
Period size: 27 Copynumber: 4.1 Consensus size: 26
52605496 GGAAGCATCA
* * *
52605506 TGGTGGCTATGCCACAACTATCTGATC
1 TGGTGGCTCTGCCAC-ATTATCTGTTC
52605533 TGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTCTGCCACAT-TATCTGTTC
52605560 TGGTGGCTCTGCCACAATTATCTGTTC
1 TGGTGGCTCTGCCAC-ATTATCTGTTC
** *
52605587 TGGTAACTCTGTCACATTATCTGTTC
1 TGGTGGCTCTGCCACATTATCTGTTC
52605613 TGG
1 TGG
52605616 CAGCTGTGCT
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 15 0.20
27 58 0.77
28 2 0.03
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGTTC
Found at i:52611918 original size:24 final size:24
Alignment explanation
Indices: 52611891--52611946 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
52611881 GTAAGGAGGG
52611891 GATAAGGGAGAAGATTTAGGAGCT
1 GATAAGGGAGAAGATTTAGGAGCT
*
52611915 GATAGGGGAGAAGATTTAGGAGCT
1 GATAAGGGAGAAGATTTAGGAGCT
52611939 GATCAAGG
1 GAT-AAGG
52611947 AGCAAGAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 26 0.90
25 3 0.10
ACGTcount: A:0.36, C:0.05, G:0.39, T:0.20
Consensus pattern (24 bp):
GATAAGGGAGAAGATTTAGGAGCT
Found at i:52614580 original size:43 final size:43
Alignment explanation
Indices: 52614476--52614623 Score: 129
Period size: 43 Copynumber: 3.4 Consensus size: 43
52614466 TATCCCGGAT
* * * * *
52614476 ATGGTCTTACATGTTATCACT-TATCGATGCCACTGTCCTAGAC
1 ATGGTCTTACACGTAATCA-TATAACGATGCCAATGTCCCAGAC
* * * **
52614519 AGGGTTTTATACAAAATCATATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCATATAACGATGCCAATGTCCCAGAC
* * *
52614562 ATGGTCTTACACGTAATCACA-ATACAATGCCAATGTCCCAAAC
1 ATGGTCTTACACGTAATCATATA-ACGATGCCAATGTCCCAGAC
* *
52614605 ATGGTATTACATGTAATCA
1 ATGGTCTTACACGTAATCA
52614624 CATCTCAGTA
Statistics
Matches: 83, Mismatches: 20, Indels: 4
0.78 0.19 0.04
Matches are distributed among these distances:
42 2 0.02
43 81 0.98
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCATATAACGATGCCAATGTCCCAGAC
Found at i:52618803 original size:25 final size:25
Alignment explanation
Indices: 52618773--52618900 Score: 238
Period size: 25 Copynumber: 5.1 Consensus size: 25
52618763 TGTGCCAAAG
52618773 ACTGCATTTAGAACAAGGTACAGAC
1 ACTGCATTTAGAACAAGGTACAGAC
*
52618798 ACTGCATTTAGAATAAGGTACAGAC
1 ACTGCATTTAGAACAAGGTACAGAC
52618823 ACTGCATTTAGAACAAGGTACAGAC
1 ACTGCATTTAGAACAAGGTACAGAC
*
52618848 ACTGCATTTAGAATAAGGTACAGAC
1 ACTGCATTTAGAACAAGGTACAGAC
52618873 ACTGCATTTAGAACAAGGTACAGAC
1 ACTGCATTTAGAACAAGGTACAGAC
52618898 ACT
1 ACT
52618901 ACGAACTTCT
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 99 1.00
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.22
Consensus pattern (25 bp):
ACTGCATTTAGAACAAGGTACAGAC
Found at i:52621527 original size:28 final size:28
Alignment explanation
Indices: 52621487--52621541 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
52621477 TCAAATAACA
52621487 ATGCCAATGTCCTTA-ACATGGTCTTACG
1 ATGCCAATGTCC-TAGACATGGTCTTACG
*
52621515 ATGCCAATGTCCTAGACATTGTCTTAC
1 ATGCCAATGTCCTAGACATGGTCTTAC
52621542 ATGTAATCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.08
28 23 0.92
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.33
Consensus pattern (28 bp):
ATGCCAATGTCCTAGACATGGTCTTACG
Found at i:52621575 original size:43 final size:43
Alignment explanation
Indices: 52621514--52621597 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
52621504 ATGGTCTTAC
* **
52621514 GATGCCAATGTCCTAGACATTGTCTTACATGTAATCACATAAT
1 GATGCCAATGTCCTAGACATGGTCTTACACATAATCACATAAT
52621557 GATGCCAATGTTCC-AGACATGGTCTTACACATAATCACATA
1 GATGCCAATG-TCCTAGACATGGTCTTACACATAATCACATA
52621598 TCGTTAATCC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 34 0.92
44 3 0.08
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (43 bp):
GATGCCAATGTCCTAGACATGGTCTTACACATAATCACATAAT
Found at i:52631284 original size:43 final size:43
Alignment explanation
Indices: 52630998--52631283 Score: 387
Period size: 43 Copynumber: 6.7 Consensus size: 43
52630988 ATATCGTACA
* *
52630998 ATGCCAGCGTCCCAGACATGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
* * *
52631041 ATG-CTACTGTCTCAGACAG-GGTCTTACATGTAATTACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCACATATCG
* *
52631084 ATGCTAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
* * *
52631127 ATGCCAACGTTCCAAATGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
**
52631170 ATGCCAACGTCTTAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
* * * *
52631213 ATTCCAACGTCCTAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
*
52631256 ATGCCAATGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
52631284 CACACACACA
Statistics
Matches: 211, Mismatches: 28, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
42 3 0.01
43 206 0.98
44 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
Found at i:52632839 original size:43 final size:41
Alignment explanation
Indices: 52632752--52632918 Score: 154
Period size: 43 Copynumber: 3.9 Consensus size: 41
52632742 AGCTCTTACA
* * * * *
52632752 ATGCCATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCATGTCCCAG-CATGGTCTTACACGTAATCACATAACG
* * *
52632794 ATGCCGATGGCCCAGCTATGGTCTTACACGAAATCAAATAACG
1 ATGCC-ATGTCCCAGC-ATGGTCTTACACGTAATCACATAACG
* * * *
52632837 ATGCCACTATCCCAAACATAGTCTTACACGTAATCACATAATG
1 ATGCCA-TGTCCC-AGCATGGTCTTACACGTAATCACATAACG
*
52632880 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACAT
1 ATGCC-ATGTCCCAG-CATGGTCTTACACGTAATCACAT
52632919 CTCGTTAATC
Statistics
Matches: 100, Mismatches: 19, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
42 7 0.07
43 90 0.90
44 3 0.03
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (41 bp):
ATGCCATGTCCCAGCATGGTCTTACACGTAATCACATAACG
Found at i:52632915 original size:86 final size:85
Alignment explanation
Indices: 52632752--52632908 Score: 210
Period size: 86 Copynumber: 1.8 Consensus size: 85
52632742 AGCTCTTACA
* * * * * *
52632752 ATGCCATATCCCAGATATGGTCTTACATGTTATCACATATCGATGCCGATGGCCCAGCTATGGTC
1 ATGCCATATCCCAAACATAGTCTTACACGTAATCACATATCGATGCCAATGGCCCAGCTATGGTC
52632817 TTACACGAAATCAAATAACG
66 TTACACGAAATCAAATAACG
*
52632837 ATGCCACTATCCCAAACATAGTCTTACACGTAATCACATAAT-GATGCCAATGTCCCAGAC-ATG
1 ATGCCA-TATCCCAAACATAGTCTTACACGTAATCACAT-ATCGATGCCAATGGCCCAG-CTATG
52632900 GTCTTACAC
63 GTCTTACAC
52632909 ATAATCACAT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
85 6 0.10
86 53 0.85
87 3 0.05
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (85 bp):
ATGCCATATCCCAAACATAGTCTTACACGTAATCACATATCGATGCCAATGGCCCAGCTATGGTC
TTACACGAAATCAAATAACG
Found at i:52636547 original size:42 final size:42
Alignment explanation
Indices: 52636482--52636619 Score: 169
Period size: 42 Copynumber: 3.4 Consensus size: 42
52636472 CAGTTATCTG
*
52636482 TGGCACTTAGTGTGCGATACGACATAGCTTCGGCTATATACA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATACA
* *
52636524 TGGCACTTAGTGTGCAATTCGACATAACTTCGGCTATAT--A
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATACA
* * * *
52636564 TGGCACTTAGTGTGCGATTTGAGATAG-TTTGGCTATGTAC-
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATACA
*
52636604 -GACACTTAGTGTGCGA
1 TGGCACTTAGTGTGCGA
52636620 GATATCGAGT
Statistics
Matches: 84, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
39 24 0.29
40 24 0.29
42 36 0.43
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATACA
Found at i:52636640 original size:28 final size:28
Alignment explanation
Indices: 52636600--52636658 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
52636590 GTTTGGCTAT
* *
52636600 GTACGACACTTAGTGTGCGAGATATCGA
1 GTACGAAACTTAGTGTGCGAGACATCGA
* *
52636628 GTACGAAACTTAGTGTGTGAGACATTGA
1 GTACGAAACTTAGTGTGCGAGACATCGA
52636656 GTA
1 GTA
52636659 TTCAACGGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.27
Consensus pattern (28 bp):
GTACGAAACTTAGTGTGCGAGACATCGA
Found at i:52638331 original size:43 final size:41
Alignment explanation
Indices: 52638283--52638372 Score: 126
Period size: 43 Copynumber: 2.1 Consensus size: 41
52638273 CCGGCATTAC
*
52638283 GCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCAAATACA-AT-ACCAGCACGAA
* * *
52638326 GCCTGCTAGGCACGAAGGCCCGAATATAATACCAGCACTAA
1 GCCTGCTAGGCACGAAGGCCCAAATACAATACCAGCACGAA
52638367 GCCTGC
1 GCCTGC
52638373 GAGATTTATC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 15 0.35
42 2 0.05
43 26 0.60
ACGTcount: A:0.31, C:0.33, G:0.23, T:0.12
Consensus pattern (41 bp):
GCCTGCTAGGCACGAAGGCCCAAATACAATACCAGCACGAA
Found at i:52638394 original size:38 final size:38
Alignment explanation
Indices: 52638344--52638446 Score: 143
Period size: 38 Copynumber: 2.7 Consensus size: 38
52638334 GGCACGAAGG
* * *
52638344 CCCGAATATAATACCAGCACTAAGCCTGCGAGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
*
52638382 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
** *
52638420 CCCGGATATTTTACTAGCACGAAGCCT
1 CCCGGATATAATACCAGCACGAAGCCT
52638447 ACGGGTCTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 58 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
Found at i:52641993 original size:33 final size:33
Alignment explanation
Indices: 52641951--52642037 Score: 120
Period size: 33 Copynumber: 2.6 Consensus size: 33
52641941 CAAATCGGTA
* * *
52641951 ACAGTCTGGGCCTGAGCCCTATTCAGTATCAGT
1 ACAGTCTGGGCCTTAGCCCTATACAGTATCAAT
52641984 ACAGTCTGGGCCTTAGCCCTATACAGTATCAAT
1 ACAGTCTGGGCCTTAGCCCTATACAGTATCAAT
* * *
52642017 GCAGACTAGGCCTTAGCCCTA
1 ACAGTCTGGGCCTTAGCCCTA
52642038 CATAGTAGTA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (33 bp):
ACAGTCTGGGCCTTAGCCCTATACAGTATCAAT
Found at i:52642442 original size:27 final size:27
Alignment explanation
Indices: 52642412--52642603 Score: 194
Period size: 27 Copynumber: 7.2 Consensus size: 27
52642402 GGCAAAATCA
* *
52642412 TCATTTTACCATATAAGGGTATTACAG
1 TCATTTTACCCTATAAGGGTATTACGG
* *
52642439 TCA---TACCCTATAGGGGTATTATGG
1 TCATTTTACCCTATAAGGGTATTACGG
* * *
52642463 TCATCTTACCCTATAGGGGCATTACGG
1 TCATTTTACCCTATAAGGGTATTACGG
52642490 TCATTTTACCCTATAAGGGTATTACGG
1 TCATTTTACCCTATAAGGGTATTACGG
* * *
52642517 TCATTTAACCCTA-CAGGGATATTATGG
1 TCATTTTACCCTATAAGGG-TATTACGG
* * * *
52642544 TCATTTAACCCTACAGGGGTATTACAG
1 TCATTTTACCCTATAAGGGTATTACGG
** *
52642571 TCATTTTAAGCTACAAGGGTATTACGG
1 TCATTTTACCCTATAAGGGTATTACGG
52642598 TCATTT
1 TCATTT
52642604 CACAAATCGA
Statistics
Matches: 139, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
24 20 0.14
26 4 0.03
27 112 0.81
28 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (27 bp):
TCATTTTACCCTATAAGGGTATTACGG
Found at i:52642472 original size:51 final size:52
Alignment explanation
Indices: 52642412--52642520 Score: 130
Period size: 51 Copynumber: 2.1 Consensus size: 52
52642402 GGCAAAATCA
* * * *
52642412 TCATTTTACCATATAAGGGTATTACAGTCA-TACCCTATAGGGGTATTATGG
1 TCATCTTACCATATAAGGGCATTACAGTCATTACCCTATAAGGGTATTACGG
* * *
52642463 TCATCTTACCCTATAGGGGCATTACGGTCATTTTACCCTATAAGGGTATTACGG
1 TCATCTTACCATATAAGGGCATTACAGTCA--TTACCCTATAAGGGTATTACGG
52642517 TCAT
1 TCAT
52642521 TTAACCCTAC
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
51 25 0.52
54 23 0.48
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (52 bp):
TCATCTTACCATATAAGGGCATTACAGTCATTACCCTATAAGGGTATTACGG
Found at i:52642562 original size:81 final size:80
Alignment explanation
Indices: 52642412--52642603 Score: 255
Period size: 81 Copynumber: 2.4 Consensus size: 80
52642402 GGCAAAATCA
* * * *
52642412 TCATTTTACCATATAAGGGTATTACAGTCA--TACCCTATAGGGGTATTATGGTCATCTTACCCT
1 TCATTTTACCCTATAAGGGTATTACGGTCATTTACCCTACAGGGATATTATGGTCATCTTACCCT
* *
52642475 ATAGGGGCATTACGG
66 ACAGGGGCATTACAG
52642490 TCATTTTACCCTATAAGGGTATTACGGTCATTTAACCCTACAGGGATATTATGGTCAT-TTAACC
1 TCATTTTACCCTATAAGGGTATTACGGTCATTT-ACCCTACAGGGATATTATGGTCATCTT-ACC
*
52642554 CTACAGGGGTATTACAG
64 CTACAGGGGCATTACAG
** *
52642571 TCATTTTAAGCTACAAGGGTATTACGGTCATTT
1 TCATTTTACCCTATAAGGGTATTACGGTCATTT
52642604 CACAAATCGA
Statistics
Matches: 100, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
78 28 0.28
80 3 0.03
81 69 0.69
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (80 bp):
TCATTTTACCCTATAAGGGTATTACGGTCATTTACCCTACAGGGATATTATGGTCATCTTACCCT
ACAGGGGCATTACAG
Found at i:52642642 original size:27 final size:27
Alignment explanation
Indices: 52642586--52642664 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
52642576 TTAAGCTACA
* *
52642586 AGGGTATTACGGTCATTTCACAAATCG
1 AGGGTATTTCGGTAATTTCACAAATCG
* *
52642613 AGGGTATTTCGGTAATTTTAC-AACCTG
1 AGGGTATTTCGGTAATTTCACAAATC-G
**
52642640 AGGGTATTTCAATAATTTCACAAAT
1 AGGGTATTTCGGTAATTTCACAAAT
52642665 TGGGGGTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.07
27 37 0.88
28 2 0.05
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTCACAAATCG
Found at i:52659750 original size:53 final size:54
Alignment explanation
Indices: 52659665--52659871 Score: 209
Period size: 53 Copynumber: 3.8 Consensus size: 54
52659655 TTTGGAATTA
* *
52659665 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * * *
52659718 AACTCACCATTGCCATTTCTTGGCATGGTCTTACATGGGATCTTTTCCTTATAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
52659772 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTTCTTGCCTTGTAA
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * *
52659827 AACTTACAAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
52659872 AAACCCTAAT
Statistics
Matches: 120, Mismatches: 32, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 45 0.38
54 36 0.30
55 39 0.32
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.39
Consensus pattern (54 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:52667096 original size:53 final size:54
Alignment explanation
Indices: 52667008--52667199 Score: 181
Period size: 55 Copynumber: 3.6 Consensus size: 54
52666998 CTTCCCATTT
* * * * *
52667008 CCATGTCTTGACATGGTCGTACGTGGTAT-TCTTGCCTTAT-GAACTCACCATTG
1 CCATGCCTTGACATGGTCTTACATGGTATCT-TTGCCTTATAGAACTTACCAATG
* * ** *
52667061 CCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGTAGTTTATCAATG
1 CCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAG-AACTTACCAATG
* * * * * * *
52667116 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACAAATG
1 CCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAGAACTTACCAATG
* *
52667170 CCATGCCTTGGCATGGTCTTACTTGGTATC
1 CCATGCCTTGACATGGTCTTACATGGTATC
52667200 CTTAAACCCT
Statistics
Matches: 109, Mismatches: 27, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
53 33 0.30
54 35 0.32
55 41 0.38
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (54 bp):
CCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAGAACTTACCAATG
Found at i:52672803 original size:41 final size:41
Alignment explanation
Indices: 52672666--52672850 Score: 216
Period size: 41 Copynumber: 4.6 Consensus size: 41
52672656 CGATTCTTAA
* * * *
52672666 CACTGGCTC-AAAGCCCTTTGAGACCAAGCTCGG--ATTAGG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G
* * * * *
52672705 CCACTGGCTCGAAGGCCCTTCGGAACTAAGTCCGGTTATGA-
1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
*
52672746 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCAGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
* *
52672787 CACTGGCTCAAAAGCCCTTCGTAATTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
52672828 CACTGGCTCAAAAGCCCTTCGAA
1 CACTGGCTCAAAAGCCCTTCGAA
52672851 CCCAAGCTCA
Statistics
Matches: 123, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
40 43 0.35
41 77 0.63
43 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (41 bp):
CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
Found at i:52677538 original size:40 final size:40
Alignment explanation
Indices: 52677438--52677609 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
52677428 GCTCCTCGTT
* * *
52677438 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
52677478 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
52677517 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
52677557 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
52677597 CAAATGCCTTCGG
1 CAAATGCCTTCGG
52677610 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:52687430 original size:12 final size:12
Alignment explanation
Indices: 52687408--52687440 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
52687398 CACAACATTC
52687408 TCTCACTCTCTCG
1 TCTC-CTCTCTCG
52687421 TCTCCTCTCTCG
1 TCTCCTCTCTCG
52687433 TCTCCTCT
1 TCTCCTCT
52687441 TTCACTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.03, C:0.48, G:0.06, T:0.42
Consensus pattern (12 bp):
TCTCCTCTCTCG
Found at i:52689165 original size:24 final size:24
Alignment explanation
Indices: 52689133--52689179 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
52689123 ATGGCAAGAG
52689133 TTAGCCGAAAGATTCCTCATGAAT
1 TTAGCCGAAAGATTCCTCATGAAT
52689157 TTAGCCGAAAGATTCCTCATGAA
1 TTAGCCGAAAGATTCCTCATGAA
52689180 GTATTTCTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (24 bp):
TTAGCCGAAAGATTCCTCATGAAT
Found at i:52694294 original size:15 final size:15
Alignment explanation
Indices: 52694274--52694329 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
52694264 TCAAGATAAG
*
52694274 GAAATCCATAACAGA
1 GAAATCCAGAACAGA
* *
52694289 GAAATCCAGAATATA
1 GAAATCCAGAACAGA
* *
52694304 GAAATCCA-ACATAAA
1 GAAATCCAGA-ACAGA
52694319 GAAATCCAGAA
1 GAAATCCAGAA
52694330 GAAAATATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
14 1 0.03
15 33 0.94
16 1 0.03
ACGTcount: A:0.55, C:0.18, G:0.12, T:0.14
Consensus pattern (15 bp):
GAAATCCAGAACAGA
Found at i:52699574 original size:14 final size:13
Alignment explanation
Indices: 52699553--52699589 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
52699543 TAATCAAAGT
52699553 TTTAATTAATTAA
1 TTTAATTAATTAA
52699566 TTATAATTATATTAA
1 TT-TAATTA-ATTAA
52699581 TTTAATTAA
1 TTTAATTAA
52699590 AGTATAAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.14
14 12 0.55
15 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTAATTAATTAA
Found at i:52700345 original size:19 final size:18
Alignment explanation
Indices: 52700316--52700354 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
52700306 ATTAAATTTT
52700316 TTTTATATTTGATTTGAGTA
1 TTTTATATTTG-TTTG-GTA
52700336 TTTT-TATTTGTTTGGTA
1 TTTTATATTTGTTTGGTA
52700353 TT
1 TT
52700355 AGTTTGAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 4 0.21
19 6 0.32
20 4 0.21
ACGTcount: A:0.18, C:0.00, G:0.15, T:0.67
Consensus pattern (18 bp):
TTTTATATTTGTTTGGTA
Found at i:52701893 original size:24 final size:24
Alignment explanation
Indices: 52701861--52701907 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
52701851 ATGGCAAGAG
52701861 TTAGCCGAAAGATTCCTCATGAAT
1 TTAGCCGAAAGATTCCTCATGAAT
52701885 TTAGCCGAAAGATTCCTCATGAA
1 TTAGCCGAAAGATTCCTCATGAA
52701908 GTATTTCTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (24 bp):
TTAGCCGAAAGATTCCTCATGAAT
Found at i:52707022 original size:15 final size:15
Alignment explanation
Indices: 52707002--52707057 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
52706992 TCAAGATAAG
*
52707002 GAAATCCATAACAGA
1 GAAATCCAGAACAGA
* *
52707017 GAAATCCAGAATATA
1 GAAATCCAGAACAGA
* *
52707032 GAAATCCA-ACATAAA
1 GAAATCCAGA-ACAGA
52707047 GAAATCCAGAA
1 GAAATCCAGAA
52707058 GAAAATATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
14 1 0.03
15 33 0.94
16 1 0.03
ACGTcount: A:0.55, C:0.18, G:0.12, T:0.14
Consensus pattern (15 bp):
GAAATCCAGAACAGA
Found at i:52712302 original size:14 final size:13
Alignment explanation
Indices: 52712281--52712317 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
52712271 TAATCAAAGT
52712281 TTTAATTAATTAA
1 TTTAATTAATTAA
52712294 TTATAATTATATTAA
1 TT-TAATTA-ATTAA
52712309 TTTAATTAA
1 TTTAATTAA
52712318 AGTATAAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.14
14 12 0.55
15 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTAATTAATTAA
Found at i:52713073 original size:19 final size:18
Alignment explanation
Indices: 52713044--52713082 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
52713034 ATTAAATTTT
52713044 TTTTATATTTGATTTGAGTA
1 TTTTATATTTG-TTTG-GTA
52713064 TTTT-TATTTGTTTGGTA
1 TTTTATATTTGTTTGGTA
52713081 TT
1 TT
52713083 AGTTTGAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 4 0.21
19 6 0.32
20 4 0.21
ACGTcount: A:0.18, C:0.00, G:0.15, T:0.67
Consensus pattern (18 bp):
TTTTATATTTGTTTGGTA
Found at i:52721431 original size:10 final size:10
Alignment explanation
Indices: 52721416--52721444 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
52721406 TCGAGCCTCA
52721416 ACCTGACCCG
1 ACCTGACCCG
52721426 ACCTGACCCG
1 ACCTGACCCG
52721436 ACCTGACCC
1 ACCTGACCC
52721445 ATTAACAATA
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:0.21, C:0.52, G:0.17, T:0.10
Consensus pattern (10 bp):
ACCTGACCCG
Found at i:52722819 original size:22 final size:21
Alignment explanation
Indices: 52722768--52722821 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
52722758 TTTTTTATTA
* *
52722768 GAATAAA-AAAGTCATTTTTG
1 GAATAAAGAAAGACATTTTAG
*
52722788 GGATAGAAGAAAGACATGTTTAG
1 GAATA-AAGAAAGACAT-TTTAG
52722811 GAATAAAGAAA
1 GAATAAAGAAA
52722822 AGTTTAAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 4 0.15
21 2 0.07
22 13 0.48
23 8 0.30
ACGTcount: A:0.50, C:0.04, G:0.22, T:0.24
Consensus pattern (21 bp):
GAATAAAGAAAGACATTTTAG
Found at i:52726764 original size:38 final size:38
Alignment explanation
Indices: 52726718--52726792 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
52726708 TCCTTATATG
52726718 ATAATTAAATCATTTGTTAAGTTAGTGGACAAAATGAT
1 ATAATTAAATCATTTGTTAAGTTAGTGGACAAAATGAT
52726756 ATAATTAAATCATTTGTTAAGTTAGTGGACAAAATGA
1 ATAATTAAATCATTTGTTAAGTTAGTGGACAAAATGA
52726793 ACATGGTGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.36
Consensus pattern (38 bp):
ATAATTAAATCATTTGTTAAGTTAGTGGACAAAATGAT
Found at i:52727750 original size:42 final size:42
Alignment explanation
Indices: 52727689--52727810 Score: 145
Period size: 43 Copynumber: 2.9 Consensus size: 42
52727679 TAAGGTTAGT
* *
52727689 TGAGATTACGTGTAGGACCATATCTGGGATATGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTAGGATATGGCATCGATA
* * * *
52727731 TGAGATTTCGTGTAAGACCATAGCTATGCTATTGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTAGGATA-TGGCATCGATA
* ** *
52727774 TGATATCCCATGTAAGACCATATCTAGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATCTAGGATATGGCAT
52727811 TGGTATGGTA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
42 31 0.47
43 35 0.53
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTAGGATATGGCATCGATA
Found at i:52727935 original size:20 final size:20
Alignment explanation
Indices: 52727894--52727941 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
52727884 CGGCAAAGTT
52727894 TAAGTTGTGAAAGACTAAGG
1 TAAGTTGTGAAAGACTAAGG
* * **
52727914 TATGTTGTGAAAGATTGTGG
1 TAAGTTGTGAAAGACTAAGG
52727934 TAAGTTGT
1 TAAGTTGT
52727942 AAGTTGGTAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.02, G:0.31, T:0.35
Consensus pattern (20 bp):
TAAGTTGTGAAAGACTAAGG
Found at i:52729643 original size:29 final size:29
Alignment explanation
Indices: 52729608--52729690 Score: 150
Period size: 29 Copynumber: 2.9 Consensus size: 29
52729598 TGAGTTATAC
52729608 TGATTTGGCTTCGGGCCATGAATATCGGT
1 TGATTTGGCTTCGGGCCATGAATATCGGT
*
52729637 TGATTTGGCTTCGGGCCATTAATATCGGT
1 TGATTTGGCTTCGGGCCATGAATATCGGT
52729666 TGATTTGGCTTCGGGCCATG-ATATC
1 TGATTTGGCTTCGGGCCATGAATATC
52729691 AATTTTCAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
28 5 0.10
29 47 0.90
ACGTcount: A:0.17, C:0.18, G:0.29, T:0.36
Consensus pattern (29 bp):
TGATTTGGCTTCGGGCCATGAATATCGGT
Found at i:52739210 original size:31 final size:31
Alignment explanation
Indices: 52739175--52739237 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
52739165 TGAACGCATG
52739175 GAGGAATATTCATTAATTCACCAATATATTT
1 GAGGAATATTCATTAATTCACCAATATATTT
52739206 GAGGAATATTCATTAATTCACCAATATATTT
1 GAGGAATATTCATTAATTCACCAATATATTT
52739237 G
1 G
52739238 TTATAATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (31 bp):
GAGGAATATTCATTAATTCACCAATATATTT
Found at i:52739910 original size:44 final size:44
Alignment explanation
Indices: 52739854--52739942 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 44
52739844 TGAAGTAAAG
* *
52739854 TAGAAGTAGTGATAATTATAC-TTATAAAAGTAATTATAATTTAA
1 TAGAAGTAGTGATAATTACACATT-TAAAAATAATTATAATTTAA
*
52739898 TAGAAGTTGTGATAATTACACATTTAAAAATAATTATAATTTAA
1 TAGAAGTAGTGATAATTACACATTTAAAAATAATTATAATTTAA
52739942 T
1 T
52739943 TTACCGATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 39 0.95
45 2 0.05
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.39
Consensus pattern (44 bp):
TAGAAGTAGTGATAATTACACATTTAAAAATAATTATAATTTAA
Found at i:52754337 original size:6 final size:6
Alignment explanation
Indices: 52754328--52754357 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
52754318 TTTGAAACTG
*
52754328 CATATA CATATA CATATA CATATA CTTATA
1 CATATA CATATA CATATA CATATA CATATA
52754358 GTTTTATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.37
Consensus pattern (6 bp):
CATATA
Found at i:52755026 original size:3 final size:3
Alignment explanation
Indices: 52755018--52755353 Score: 117
Period size: 3 Copynumber: 111.0 Consensus size: 3
52755008 TTTCTAACAA
* * *
52755018 TAT TAT TAT TAT TAT TAT TAT T-T CAT TAT TAT TGT T-T TTT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
** * *
52755062 TAT TAT T-T ATAT TAT GGT TGT CAT TAT TAT TAT TAT TAT TATT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
** * * * * *
52755108 CGT TAT TAT AAA TA- TAT TGT TTT TAT TCT TAT TAAT GTAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT -TAT TAT TAT
** * * * * *
52755154 TAT CGT T-T TCCAC T-T TAT TAT TAT TAC TAG TAT TAT CAT CA- TAT
1 TAT TAT TAT T--AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
52755198 TAT TA- GACT AAT TAAT T-T TA- TAT TGT TAT TAT TA- TAT TA- TAT
1 TAT TAT TA-T TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** *
52755240 ATAT TCT CTCCG TATT TACT TA- TAT TAT TACT TA- TAT TAT TAT TAC
1 -TAT TAT -T-AT TA-T TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT
* * *
52755286 TGT TAT CAT TAT TATT TAT TACCT TAT TAT TAT TAT TAT TAT TAT TAC
1 TAT TAT TAT TAT TA-T TAT TA--T TAT TAT TAT TAT TAT TAT TAT TAT
*
52755334 CAT TA- TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT
52755354 ATTTTTTACC
Statistics
Matches: 249, Mismatches: 52, Indels: 64
0.68 0.14 0.18
Matches are distributed among these distances:
2 25 0.10
3 187 0.75
4 31 0.12
5 6 0.02
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:52755501 original size:15 final size:15
Alignment explanation
Indices: 52755481--52755515 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
52755471 TTATTACTTG
52755481 TATTATTACCATTAA
1 TATTATTACCATTAA
* *
52755496 TATTATTATCATTAC
1 TATTATTACCATTAA
52755511 TATTA
1 TATTA
52755516 CTATTACTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.51
Consensus pattern (15 bp):
TATTATTACCATTAA
Found at i:52755502 original size:18 final size:18
Alignment explanation
Indices: 52755499--52755540 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
52755489 CCATTAATAT
*
52755499 TATTATCATTACTATTAC
1 TATTACCATTACTATTAC
*
52755517 TATTACTATTACTATTAC
1 TATTACCATTACTATTAC
52755535 TATTAC
1 TATTAC
52755541 TATCATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (18 bp):
TATTACCATTACTATTAC
Found at i:52755515 original size:6 final size:6
Alignment explanation
Indices: 52755506--52755543 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
52755496 TATTATTATC
52755506 ATTACT ATTACT ATTACT ATTACT ATTACT ATTACT AT
1 ATTACT ATTACT ATTACT ATTACT ATTACT ATTACT AT
52755544 CATTTTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTACT
Found at i:52762962 original size:29 final size:29
Alignment explanation
Indices: 52762899--52762966 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
52762889 TAATCAACCG
*
52762899 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
52762928 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
52762957 CGCACACTTA
1 CGCACACTTA
52762967 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:52763136 original size:29 final size:29
Alignment explanation
Indices: 52763073--52763140 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
52763063 TAATCAACCG
*
52763073 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
52763102 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
52763131 CGCACACTTA
1 CGCACACTTA
52763141 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:52763281 original size:29 final size:30
Alignment explanation
Indices: 52763242--52763320 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
52763232 CTTAATAATC
52763242 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
52763272 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
52763301 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
52763321 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:52763314 original size:174 final size:174
Alignment explanation
Indices: 52762788--52763289 Score: 959
Period size: 174 Copynumber: 2.9 Consensus size: 174
52762778 AACTCAAGGT
* *
52762788 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
52762853 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
52762918 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
52762962 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
52763027 GAAAATATATATTGGGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
52763092 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
52763136 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
52763201 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
52763266 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
52763290 TGTACAATTT
Statistics
Matches: 322, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 322 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:52766950 original size:17 final size:17
Alignment explanation
Indices: 52766924--52766957 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
52766914 AGGGTCAATA
*
52766924 TACCATATAAGGCCTTC
1 TACCACATAAGGCCTTC
52766941 TACCACATAAGGCCTTC
1 TACCACATAAGGCCTTC
52766958 CAACTATGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.26
Consensus pattern (17 bp):
TACCACATAAGGCCTTC
Found at i:52773405 original size:40 final size:40
Alignment explanation
Indices: 52773351--52773453 Score: 107
Period size: 40 Copynumber: 2.6 Consensus size: 40
52773341 TGTCTAACTG
* * ** *
52773351 CACATGCGTACCCCTGTTTGTACTTTGGTACCCCTAAATG
1 CACATACGTGCCCCTGTTTGTACTTCAGTACCCCTAAATA
* * * *
52773391 TACATACGTGCCCCTATTTATACTTCAGTACCCCTGAATA
1 CACATACGTGCCCCTGTTTGTACTTCAGTACCCCTAAATA
* *
52773431 CACATACGTGCCCTTGTTGGTAC
1 CACATACGTGCCCCTGTTTGTAC
52773454 CTCGGTACTC
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.32
Consensus pattern (40 bp):
CACATACGTGCCCCTGTTTGTACTTCAGTACCCCTAAATA
Found at i:52782829 original size:50 final size:50
Alignment explanation
Indices: 52782730--52782880 Score: 185
Period size: 50 Copynumber: 2.9 Consensus size: 50
52782720 AATGAGATGC
*
52782730 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCA
*
52782786 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCA
** * * *
52782836 CCCGTAAGACCGTGTCTGGGACATGGCATGGGCACCGATATGAGA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGA
52782881 ACTTCCATTG
Statistics
Matches: 88, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
50 50 0.57
53 3 0.03
55 1 0.01
56 34 0.39
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCA
Found at i:52783220 original size:20 final size:20
Alignment explanation
Indices: 52783182--52783220 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
52783172 TAAGCAAGCA
*
52783182 AGTAAGTAAACAAGTAAGTG
1 AGTAAGTAAACAAGAAAGTG
*
52783202 AGTAAGTAAAGAAGAAAGT
1 AGTAAGTAAACAAGAAAGT
52783221 AAAGATCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.26, T:0.18
Consensus pattern (20 bp):
AGTAAGTAAACAAGAAAGTG
Found at i:52789931 original size:50 final size:50
Alignment explanation
Indices: 52789825--52790017 Score: 190
Period size: 50 Copynumber: 3.7 Consensus size: 50
52789815 GGGAATGAGA
*
52789825 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAGA-TA--AGAGG
* * *
52789881 TCCCATGTAATACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAAGAGG
* * * * * **
52789931 TCCCCCGCAAGACCATGTCTGGGACATGGCA-TGGTCATCGATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGG-CACCGAGATAAGAGG
* * *
52789981 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
52790018 GTACAGGAAA
Statistics
Matches: 116, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
49 3 0.03
50 69 0.59
51 3 0.03
52 2 0.02
53 4 0.03
55 1 0.01
56 34 0.29
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATAAGAGG
Found at i:52791599 original size:40 final size:40
Alignment explanation
Indices: 52791550--52791795 Score: 316
Period size: 40 Copynumber: 6.1 Consensus size: 40
52791540 TAATTAATGT
* *
52791550 CTGAATGCACATATGTGCCCCTGTTTGTACTTTGGTACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* *
52791590 CT-AAGTGCACATACGTGCCCTTGTTTGTACTTCGATACCC
1 CTGAA-TGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * * *
52791630 TTGAATGCACATATGTGCCCTTGTTTGTACTTTGGTACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* *
52791670 CTAAATGCACATACATGCCCCTGTTTGTACTTCGGTACCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* *
52791710 CTGAATGCACATATGTGCCCCTATTTGTACTTCGGTACCCC
1 CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTA-CCC
* * *
52791751 CTGAATGCACATGCGTGCCCCTGTTAGTACCTTC-GTACTC
1 CTGAATGCACATACGTGCCCCTGTTTGTA-CTTCGGTACCC
52791791 CTGAA
1 CTGAA
52791796 GGCATATTCA
Statistics
Matches: 179, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.01
40 140 0.78
41 33 0.18
42 4 0.02
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.33
Consensus pattern (40 bp):
CTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
Found at i:52791644 original size:80 final size:79
Alignment explanation
Indices: 52791550--52791795 Score: 350
Period size: 80 Copynumber: 3.1 Consensus size: 79
52791540 TAATTAATGT
*
52791550 CTGAATGCACATATGTGCCCCTGTTTGTACTTTGGTACCCCTAAGTGCACATACGTGCCCTTGTT
1 CTGAATGCACATATGTGCCCCTGTTTGTACTTTGGTACCCCTAA-TGCACATACGTGCCCCTGTT
52791615 TGTACTTCGATACCC
65 TGTACTTCGATACCC
* * *
52791630 TTGAATGCACATATGTGCCCTTGTTTGTACTTTGGTACCCCTAAATGCACATACATGCCCCTGTT
1 CTGAATGCACATATGTGCCCCTGTTTGTACTTTGGTACCCCT-AATGCACATACGTGCCCCTGTT
*
52791695 TGTACTTCGGTACCC
65 TGTACTTCGATACCC
* * *
52791710 CTGAATGCACATATGTGCCCCTATTTGTACTTCGGTACCCCCTGAATGCACATGCGTGCCCCTGT
1 CTGAATGCACATATGTGCCCCTGTTTGTACTTTGGTA-CCCCT-AATGCACATACGTGCCCCTGT
* *
52791775 TAGTACCTTCG-TACTC
64 TTGTA-CTTCGATACCC
52791791 CTGAA
1 CTGAA
52791796 GGCATATTCA
Statistics
Matches: 149, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
80 105 0.70
81 39 0.26
82 5 0.03
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.33
Consensus pattern (79 bp):
CTGAATGCACATATGTGCCCCTGTTTGTACTTTGGTACCCCTAATGCACATACGTGCCCCTGTTT
GTACTTCGATACCC
Found at i:52791710 original size:20 final size:20
Alignment explanation
Indices: 52791687--52791750 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 20
52791677 CACATACATG
52791687 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
** * * ** *
52791707 CCCCTGAATGCACATATGTG
1 CCCCTGTTTGTACTTCGGTA
*
52791727 CCCCTATTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
52791747 CCCC
1 CCCC
52791751 CTGAATGCAC
Statistics
Matches: 29, Mismatches: 15, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.16, C:0.34, G:0.17, T:0.33
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:52793910 original size:20 final size:20
Alignment explanation
Indices: 52793850--52793923 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 20
52793840 TTGTACGAGA
* *
52793850 TTTGCACTTTGATGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
* *
52793870 GTTGCACTTCGTTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
52793890 TTTGCACTTCGGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
* *
52793910 TATACACTTCGGTG
1 TTTGCACTTCGGTG
52793924 TTCCTATCCG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.09, C:0.31, G:0.23, T:0.36
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCCCTG
Found at i:52798702 original size:50 final size:50
Alignment explanation
Indices: 52798595--52798774 Score: 171
Period size: 50 Copynumber: 3.5 Consensus size: 50
52798585 GGGAATGAGA
* * *
52798595 TCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCATTGAGATTGTAAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAGA-TG--AGAGG
52798651 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * * * * * **
52798701 TCCCCCGTAAGGCCATGTCTAGCACATGGCATGGGCACCGATATGGGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * *
52798751 TCCCATGTAAGACTATATCTGGGA
1 TCCCACGTAAGACCATGTCTGGGA
52798775 TATGACATCG
Statistics
Matches: 105, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
50 63 0.60
52 2 0.02
53 4 0.04
55 1 0.01
56 35 0.33
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:52803135 original size:18 final size:18
Alignment explanation
Indices: 52803114--52803154 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
52803104 GTTGATTAAA
52803114 GATTATGAGTTAGTGGTC
1 GATTATGAGTTAGTGGTC
52803132 GATTATGAGTTAGTGGTC
1 GATTATGAGTTAGTGGTC
52803150 GATTA
1 GATTA
52803155 CGACCCGGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.24, C:0.05, G:0.32, T:0.39
Consensus pattern (18 bp):
GATTATGAGTTAGTGGTC
Found at i:52805273 original size:96 final size:96
Alignment explanation
Indices: 52805101--52806115 Score: 1781
Period size: 96 Copynumber: 10.6 Consensus size: 96
52805091 TATACACTTC
* *
52805101 CACATCCATCACATTGGCCATTCGGCCTTATCAC--ATATATACACTTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATATACTTTCACATTCATCACATTG
52805164 GCCACTCGGCCTTATCTCATATATGCATGTT
66 GCCACTCGGCCTTATCTCATATATGCATGTT
52805195 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATATACTTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATATACTTTCACATTCATCACATTG
52805260 GCCACTCGGCCTTATCTCATATATGCATGTT
66 GCCACTCGGCCTTATCTCATATATGCATGTT
52805291 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATATACTTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATATACTTTCACATTCATCACATTG
52805356 GCCACTCGGCCTTATCTCATATATGCATGTT
66 GCCACTCGGCCTTATCTCATATATGCATGTT
52805387 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATATACTTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATATACTTTCACATTCATCACATTG
52805452 GCCACTCGGCCTTATCTCATATATGCATGTT
66 GCCACTCGGCCTTATCTCATATATGCATGTT
52805483 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATATACTTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATATACTTTCACATTCATCACATTG
52805548 GCCACTCGGCCTTATCTCATATATGCATGTT
66 GCCACTCGGCCTTATCTCATATATGCATGTT
52805579 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATATACTTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATATACTTTCACATTCATCACATTG
52805644 GCCACTCGGCCTTATCTCATATATGCATGTT
66 GCCACTCGGCCTTATCTCATATATGCATGTT
52805675 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATATACTTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATATACTTTCACATTCATCACATTG
52805740 GCCACTCGGCCTTATCTCATATATGCATGTT
66 GCCACTCGGCCTTATCTCATATATGCATGTT
52805771 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATATACTTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATATACTTTCACATTCATCACATTG
52805836 GCCACTCGGCCTTATCTCATATATGCATGTT
66 GCCACTCGGCCTTATCTCATATATGCATGTT
52805867 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATATACTTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATATACTTTCACATTCATCACATTG
* * * *
52805932 GCCATTAGGCCTTATCACATATATATACACT-TT
66 GCCACTCGGCCTTATCTC--ATATATGCA-TGTT
* * * *
52805965 CACATTCATCACATCGGCCATTAGGCCTTATTACATATATATACACTTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATATACTTTCACATTCATCACATTG
* * * *
52806030 GCCATTAGGCCTTATCACATATATATACACT-TT
66 GCCACTCGGCCTTATCTC--ATATATGCA-TGTT
* * *
52806063 CACATTCATCACATTGGCTATTAGGCCTTATCAC--ATATATACACTTTCACATT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATATACTTTCACATT
52806116 TGTTCAAATA
Statistics
Matches: 903, Mismatches: 13, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
94 33 0.04
96 734 0.81
98 135 0.15
99 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.10, T:0.35
Consensus pattern (96 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATATACTTTCACATTCATCACATTG
GCCACTCGGCCTTATCTCATATATGCATGTT
Found at i:52807630 original size:56 final size:56
Alignment explanation
Indices: 52807563--52807735 Score: 337
Period size: 56 Copynumber: 3.1 Consensus size: 56
52807553 TAGTTTATTA
*
52807563 CCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTG
1 CCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTG
52807619 CCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTG
1 CCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTG
52807675 CCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTG
1 CCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTG
52807731 CCCAT
1 CCCAT
52807736 CATCCCTTGT
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 116 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
CCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTG
Found at i:52817097 original size:23 final size:23
Alignment explanation
Indices: 52817028--52817105 Score: 104
Period size: 23 Copynumber: 3.4 Consensus size: 23
52817018 GAATAACATT
* *
52817028 AATCACTTTAATATTTAAGAACA
1 AATCACATTAATATTTAAGAATA
52817051 AATCACATTAATATTTAAGAATA
1 AATCACATTAATATTTAAGAATA
*
52817074 AATCTA-ATTAATATTTAAGCATA
1 AATC-ACATTAATATTTAAGAATA
*
52817097 AAGCACATT
1 AATCACATT
52817106 GACTTTTCAC
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.02
23 47 0.96
24 1 0.02
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.35
Consensus pattern (23 bp):
AATCACATTAATATTTAAGAATA
Found at i:52821019 original size:154 final size:150
Alignment explanation
Indices: 52820784--52821083 Score: 431
Period size: 154 Copynumber: 2.0 Consensus size: 150
52820774 ACCCTCCCAT
* *
52820784 TGTGACAAAGCACCCTACACTGTTGATCGTTTGCAGGTCTACTATTAGGAGTTGGTTCTAGAACC
1 TGTGACAAAGCACCCTACACTGTTGATAGTTTGCAGGTCTACTATTAAGAGTTGGTTCTAGAACC
* *
52820849 ATCTTCGTAGGATTTTATATATTTCCTGAAATTTCCTCGAGTACTTCTTTACTCCGAGGTTGGAA
66 ATCTTCGTAGGATTTTATATATTTCCTG----TTCCTCAAGTACTTCTTTACTCCGAGGTTGAAA
**
52820914 GTTGTTCATGTAATTTCCTCTTAC
127 GTCATTCATGTAATTTCCTCTTAC
* * * *
52820938 TGTGACAGAGCACCCTACGCTGTTGATAGTTTGCAGGTCTACTATTAAGAGTTGGTTTTAGAAGC
1 TGTGACAAAGCACCCTACACTGTTGATAGTTTGCAGGTCTACTATTAAGAGTTGGTTCTAGAACC
* * *
52821003 ATTTTCGTATGG-TTTTATATATTTCCTGTTCCTCAAGTACTTCTTTACTCTGAGGTTTAAAGTC
66 ATCTTCGTA-GGATTTTATATATTTCCTGTTCCTCAAGTACTTCTTTACTCCGAGGTTGAAAGTC
52821067 ATTCATGTAATTTCCTC
130 ATTCATGTAATTTCCTC
52821084 AAATAAAGTA
Statistics
Matches: 132, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
150 47 0.36
154 83 0.63
155 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (150 bp):
TGTGACAAAGCACCCTACACTGTTGATAGTTTGCAGGTCTACTATTAAGAGTTGGTTCTAGAACC
ATCTTCGTAGGATTTTATATATTTCCTGTTCCTCAAGTACTTCTTTACTCCGAGGTTGAAAGTCA
TTCATGTAATTTCCTCTTAC
Found at i:52828038 original size:13 final size:13
Alignment explanation
Indices: 52828020--52828046 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
52828010 TTTATAATTT
52828020 TTAATGATTAAAG
1 TTAATGATTAAAG
52828033 TTAATGATTAAAG
1 TTAATGATTAAAG
52828046 T
1 T
52828047 GCCTTTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (13 bp):
TTAATGATTAAAG
Found at i:52828075 original size:9 final size:9
Alignment explanation
Indices: 52828061--52828180 Score: 57
Period size: 10 Copynumber: 12.7 Consensus size: 9
52828051 TTTTGATGTA
52828061 TTTTATAAT
1 TTTTATAAT
52828070 TTTTATATAT
1 TTTTATA-AT
**
52828080 TTTTACGA-
1 TTTTATAAT
52828088 TTTTATATAT
1 TTTTATA-AT
52828098 TTTTAT-AT
1 TTTTATAAT
*
52828106 TTTTAATAAA
1 TTTT-ATAAT
52828116 TTTTA-AAT
1 TTTTATAAT
*
52828124 GCTTTTTTATAT
1 --TTTTATA-AT
*
52828136 TTTTATTAAAG
1 TTTTA-T-AAT
* *
52828147 TTTAAAAAT
1 TTTTATAAT
*
52828156 TTTTATAAC
1 TTTTATAAT
*
52828165 TTTTACTGAT
1 TTTTA-TAAT
52828175 TTTTAT
1 TTTTAT
52828181 TTTTTAATTT
Statistics
Matches: 82, Mismatches: 17, Indels: 24
0.67 0.14 0.20
Matches are distributed among these distances:
8 13 0.16
9 26 0.32
10 33 0.40
11 7 0.09
12 3 0.04
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:52828080 original size:18 final size:18
Alignment explanation
Indices: 52828059--52828110 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
52828049 CTTTTTGATG
52828059 TATTTTATA-ATTTTTATA
1 TATTTT-TACATTTTTATA
52828077 TATTTTTACGA-TTTTATA
1 TATTTTTAC-ATTTTTATA
*
52828095 TATTTTTATATTTTTA
1 TATTTTTACATTTTTA
52828111 ATAAATTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
17 3 0.10
18 26 0.87
19 1 0.03
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TATTTTTACATTTTTATA
Found at i:52828081 original size:10 final size:10
Alignment explanation
Indices: 52828061--52828141 Score: 57
Period size: 9 Copynumber: 8.6 Consensus size: 10
52828051 TTTTGATGTA
52828061 TTTTATA-AT
1 TTTTATATAT
52828070 TTTTATATAT
1 TTTTATATAT
**
52828080 TTTTA-CGA-
1 TTTTATATAT
52828088 TTTTATATAT
1 TTTTATATAT
52828098 TTTTATAT-T
1 TTTTATATAT
* *
52828107 TTTAATA-AA
1 TTTTATATAT
* *
52828116 TTTTAAATGCT
1 TTTTATAT-AT
52828127 TTTT-TATAT
1 TTTTATATAT
52828136 TTTTAT
1 TTTTAT
52828142 TAAAGTTTAA
Statistics
Matches: 53, Mismatches: 12, Indels: 13
0.68 0.15 0.17
Matches are distributed among these distances:
8 5 0.09
9 26 0.49
10 18 0.34
11 4 0.08
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTTATATAT
Found at i:52828460 original size:95 final size:92
Alignment explanation
Indices: 52828331--52828502 Score: 220
Period size: 95 Copynumber: 1.8 Consensus size: 92
52828321 AAACAAAAAC
* * *
52828331 TTAATTGTTTTTTTTTTAAAGTTTGATAGTATTTTT-AGTGTATTTTAACAATTCAAGTACTCAA
1 TTAATTGTTTTTTTTTAAAAGTTTGATAATATTTTTGA-TATATTTTAACAATTCAAGTACTCAA
*
52828395 TTGAGTGCAAAAAGACAACAACAGTGAT
65 TTGAATGCAAAAAGACAACAACAGTGAT
* * **
52828423 TTAATTGCTTTTTTTTTGAAAAAGTTTGATAATATTTTTGATATATTTTGACAGTTTGAGTACTC
1 TTAATTG-TTTTTTTTT--AAAAGTTTGATAATATTTTTGATATATTTTAACAATTCAAGTACTC
*
52828488 AATTGAATGTAAAAA
63 AATTGAATGCAAAAA
52828503 AACCATAATG
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
92 7 0.10
93 9 0.13
95 50 0.75
96 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (92 bp):
TTAATTGTTTTTTTTTAAAAGTTTGATAATATTTTTGATATATTTTAACAATTCAAGTACTCAAT
TGAATGCAAAAAGACAACAACAGTGAT
Found at i:52833168 original size:19 final size:19
Alignment explanation
Indices: 52833144--52833180 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
52833134 TTACTTTCTA
52833144 TTTTT-GTTGATTTTCTTGC
1 TTTTTGGTTG-TTTTCTTGC
52833163 TTTTTGGTTGTTTTCTTG
1 TTTTTGGTTGTTTTCTTG
52833181 TATGGTGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.03, C:0.08, G:0.19, T:0.70
Consensus pattern (19 bp):
TTTTTGGTTGTTTTCTTGC
Found at i:52834914 original size:18 final size:17
Alignment explanation
Indices: 52834888--52834921 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
52834878 TTTTGTTATA
52834888 TTTAATTTTCGATATGTC
1 TTTAATTTT-GATATGTC
*
52834906 TTTATTTTTGATATGT
1 TTTAATTTTGATATGT
52834922 TTCATTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.06, G:0.12, T:0.62
Consensus pattern (17 bp):
TTTAATTTTGATATGTC
Found at i:52846195 original size:51 final size:50
Alignment explanation
Indices: 52846060--52846354 Score: 317
Period size: 51 Copynumber: 5.8 Consensus size: 50
52846050 ACTTTTATCA
* * *
52846060 TTCGATACACGTAGTAACTTTCACATAGTACTACACACGTGATCAAG-TT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
* *
52846109 TTACGGTTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
1 TT-CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTT
* * * *
52846161 TTCGATACACATAGTAGCCTTCACTTAGTACTACACATGTGACC-ATCATT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TT
* * *
52846211 TATCGATTCACGTAGTAGCCTTCACACAGTACTACACACATGACCAAAGCTT
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTT
* * * * * * *
52846263 CTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACC-ATCATT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TT
* *
52846313 TATCGATACACGTAGTAGCCTTCACACAGTACTATACACGTG
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
52846355 TTCATCGATA
Statistics
Matches: 201, Mismatches: 36, Indels: 16
0.79 0.14 0.06
Matches are distributed among these distances:
49 6 0.03
50 42 0.21
51 145 0.72
52 6 0.03
53 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (50 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
Found at i:52846249 original size:102 final size:102
Alignment explanation
Indices: 52846060--52846354 Score: 430
Period size: 102 Copynumber: 2.9 Consensus size: 102
52846050 ACTTTTATCA
* * * * * * *** *
52846060 TTCGATACACGTAGTAACTTTCACATAGTACTACACACGTGATCAAGTTTTA-CGGTTCACGTAG
1 TTCGATACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
*
52846124 TAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
66 TAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
52846161 TTCGATACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
1 TTCGATACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
*
52846226 TAGCCTTCACACAGTACTACACACATGACCAAAGCTT
66 TAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
* * * *
52846263 CTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATACACGTAG
1 TTCGATACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
*
52846328 TAGCCTTCACACAGTACTATACACGTG
66 TAGCCTTCACACAGTACTACACACGTG
52846355 TTCATCGATA
Statistics
Matches: 175, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
101 43 0.25
102 132 0.75
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (102 bp):
TTCGATACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
TAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
Found at i:52846335 original size:153 final size:151
Alignment explanation
Indices: 52846061--52846346 Score: 369
Period size: 153 Copynumber: 1.9 Consensus size: 151
52846051 CTTTTATCAT
* * * * * * *
52846061 TCGATACACGTAGTAACTTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACGTAGTA
1 TCGATACACGTAGTAACCTTCACACAGTACTACACACATGACCAAGTTCTACGGTACACATAGTA
**
52846126 GCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGATACACATAGTAGCCTTCACTTAGTA
66 GCCTTCACATAGTACTACACACGTGACCAAA-CTTTTCGATACACATAGTAGCCTTCACACAGTA
52846191 CTACACATGTGACCATCATTTA
130 CTACACATGTGACCATCATTTA
* * *
52846213 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACATGACCAAAGCTTCT-CGGTACACATTG
1 TCGATACACGTAGTAACCTTCACACAGTACTACACACATGACC-AAG-TTCTACGGTACACATAG
* * * *
52846277 TAGCCTTCACTTAGTACTACACATGTGACC-ATCATTTATCGATACACGTAGTAGCCTTCACACA
64 TAGCCTTCACATAGTACTACACACGTGACCAAAC-TTT-TCGATACACATAGTAGCCTTCACACA
52846341 GTACTA
127 GTACTA
52846347 TACACGTGTT
Statistics
Matches: 114, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
151 1 0.01
152 41 0.36
153 69 0.61
154 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (151 bp):
TCGATACACGTAGTAACCTTCACACAGTACTACACACATGACCAAGTTCTACGGTACACATAGTA
GCCTTCACATAGTACTACACACGTGACCAAACTTTTCGATACACATAGTAGCCTTCACACAGTAC
TACACATGTGACCATCATTTA
Found at i:52847516 original size:249 final size:249
Alignment explanation
Indices: 52847075--52847562 Score: 895
Period size: 249 Copynumber: 2.0 Consensus size: 249
52847065 TTCCTAGCTT
* *
52847075 CATATTCTACCATAAAACAGCAAAATAAACATATTTCACCTATGGGTATTTTTCCAAATGTGAAC
1 CATATTCTACCATAAAACAGCAAAATAAAAACATTTCACCTATGGGTATTTTTCCAAATGTGAAC
* *
52847140 CCTAACATGAATTGATGGTAGAAATAGCTAAACCGAGCTTCGAGGATCTCAAAAATGCAAAGAAC
66 CCTAACATGAATTAATGGTAGAAATAGCTAAACCGAGCTACGAGGATCTCAAAAATGCAAAGAAC
* *
52847205 ATTAAAAACGGGGCTAAGATGCACTTACTATGAGCTTGAGAAAGTGAAGAAACCCTAGCTATGGT
131 ATTAAAAACGGGGCTAAGATGCACTTACTATGAGCTTAAGAAAGTGAAGAAACCCCAGCTATGGT
52847270 GTCTTCCAAAATTTGGCAGCAACTAATGAAGATGAACACCATTTCATATTCTAC
196 GTCTTCCAAAATTTGGCAGCAACTAATGAAGATGAACACCATTTCATATTCTAC
52847324 CATATTCTACCATAAAACAGCAAAATAAAAACATTTCACCTATGGGTATTTTTCCAAATGTGAAC
1 CATATTCTACCATAAAACAGCAAAATAAAAACATTTCACCTATGGGTATTTTTCCAAATGTGAAC
*
52847389 CCTAACATGAATTAATGGTAGAAATAGCTAAACCGAGCTACGGGGATCTCAAAAATGCAAAGAAC
66 CCTAACATGAATTAATGGTAGAAATAGCTAAACCGAGCTACGAGGATCTCAAAAATGCAAAGAAC
52847454 ATTAAAAACGGGGCTAAGATGCACTTACTATGAGCTTAAGAAAGTGAAGAAACCCCAGCTATGGT
131 ATTAAAAACGGGGCTAAGATGCACTTACTATGAGCTTAAGAAAGTGAAGAAACCCCAGCTATGGT
* *
52847519 GTCTTCCAAAATTTGGCAGCAACTAATGAAGATTAACATCATTT
196 GTCTTCCAAAATTTGGCAGCAACTAATGAAGATGAACACCATTT
52847563 TTTCATCTTT
Statistics
Matches: 230, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
249 230 1.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (249 bp):
CATATTCTACCATAAAACAGCAAAATAAAAACATTTCACCTATGGGTATTTTTCCAAATGTGAAC
CCTAACATGAATTAATGGTAGAAATAGCTAAACCGAGCTACGAGGATCTCAAAAATGCAAAGAAC
ATTAAAAACGGGGCTAAGATGCACTTACTATGAGCTTAAGAAAGTGAAGAAACCCCAGCTATGGT
GTCTTCCAAAATTTGGCAGCAACTAATGAAGATGAACACCATTTCATATTCTAC
Found at i:52851252 original size:40 final size:40
Alignment explanation
Indices: 52851048--52851252 Score: 236
Period size: 40 Copynumber: 5.1 Consensus size: 40
52851038 CGAAATTTAA
** *
52851048 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
52851088 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
52851128 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
52851168 CCGAATTTAGTAACCCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
52851208 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
52851248 CCGGA
1 CCGGA
52851253 CATCATTCAA
Statistics
Matches: 143, Mismatches: 18, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
39 4 0.03
40 129 0.90
41 10 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:52856182 original size:51 final size:51
Alignment explanation
Indices: 52856119--52856312 Score: 243
Period size: 51 Copynumber: 3.8 Consensus size: 51
52856109 CCAGTTCACA
* * *
52856119 TAGTAGCTTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTACACG
* * ** *
52856170 TAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCTGGTATGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCGGTACACG
* *
52856221 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGGTACACG
52856271 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATC
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATC
52856313 ACTTTCACAT
Statistics
Matches: 119, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
49 4 0.03
50 41 0.34
51 71 0.60
52 2 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTACACG
Found at i:52856285 original size:101 final size:102
Alignment explanation
Indices: 52856117--52856301 Score: 320
Period size: 101 Copynumber: 1.8 Consensus size: 102
52856107 TACCAGTTCA
* *
52856117 CATAGTAGCTTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
52856182 CATAGTACTACACACGTGATCGAAGCTATCTGGTATG
66 CATAGTACTACACACGTGATCGAAGCTATCTGGTATG
*
52856219 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCCGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGCCTGC
52856282 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
52856302 CCATCACTAT
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
101 41 0.52
102 34 0.43
103 4 0.05
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAGCTATCTGGTATG
Found at i:52856324 original size:101 final size:103
Alignment explanation
Indices: 52856113--52856335 Score: 287
Period size: 101 Copynumber: 2.2 Consensus size: 103
52856103 ATGATACCAG
* *
52856113 TTCACATAGTAGCTTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCC
1 TTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCC
* **
52856178 TGCACATAGTACTACACACGTGATCGAAGCTATCTGGT
66 TGCACATAGTACTACACACGTGATCCAAGCTATCTACT
* * *
52856216 AT-GCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCCGGTACACGTAGTAGC
1 TTCACATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGC
52856278 CTGCACATAGTACTACACACGTGA-CCATCA-CTATC-ACT
65 CTGCACATAGTACTACACACGTGATCCA--AGCTATCTACT
* *
52856316 TTCACATAGTGGCCTACACA
1 TTCACATAGTAGCCTGCACA
52856336 CAGTCCATGC
Statistics
Matches: 104, Mismatches: 12, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
100 4 0.04
101 60 0.58
102 35 0.34
103 5 0.05
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (103 bp):
TTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCC
TGCACATAGTACTACACACGTGATCCAAGCTATCTACT
Done.