Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 297 of 352
Found at i:97417339 original size:40 final size:40
Alignment explanation
Indices: 97417285--97417413 Score: 177
Period size: 40 Copynumber: 3.2 Consensus size: 40
97417275 GCGTTTGATA
** * *
97417285 AAAAACGCTGCTATAGATCGAGCATTAGCGGCGCTTTTTG
1 AAAAACGCCACTATAGATCGAGCATTAGTGACGCTTTTTG
*
97417325 AAAAACGCCACTATAGATCGAGAATTAGTGACGCTTTTTG
1 AAAAACGCCACTATAGATCGAGCATTAGTGACGCTTTTTG
* * * *
97417365 AGAAACACCACTATAGGTCGATCATTAGTGACGCTTTTTG
1 AAAAACGCCACTATAGATCGAGCATTAGTGACGCTTTTTG
97417405 AAAAACGCC
1 AAAAACGCC
97417414 GCAAAAAAAG
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 77 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (40 bp):
AAAAACGCCACTATAGATCGAGCATTAGTGACGCTTTTTG
Found at i:97417595 original size:114 final size:114
Alignment explanation
Indices: 97417440--97417651 Score: 270
Period size: 114 Copynumber: 1.9 Consensus size: 114
97417430 CAACGCTGCC
** ** *
97417440 GTTTTATGTTGAGCTTTAGTGGTTCTAGGAGAGCTTTTTGAAAATTACCGCTATAGATCGAG-TA
1 GTTTTATGTTGAGCTTTAGTGCATCTAGGAGAGCTTTTTGAAAAACACCGCTATAGATCAAGCT-
* *
97417504 TTAGTGGCGGTTT-TTGAAAAACGCAGCAAAAAATTCAATAAGGCGCAGTA
65 TTAGCGGCGCTTTATT-AAAAACGCAGCAAAAAATTCAATAAGGCGCAGTA
* *
97417554 GTTTTATGTTGAGCTTTAGTGACAT-TA-GAGACGCTTTTTGAAAAACGCCGCTGTAGATCAAGC
1 GTTTTATGTTGAGCTTTAGTG-CATCTAGGAGA-GCTTTTTGAAAAACACCGCTATAGATCAAGC
*
97417617 TTTAGCGGCGCTTTATTAAAAACGCCGCAAAAAAT
64 TTTAGCGGCGCTTTATTAAAAACGCAGCAAAAAAT
97417652 ATTTTTACAT
Statistics
Matches: 84, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
113 4 0.05
114 76 0.90
115 4 0.05
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.32
Consensus pattern (114 bp):
GTTTTATGTTGAGCTTTAGTGCATCTAGGAGAGCTTTTTGAAAAACACCGCTATAGATCAAGCTT
TAGCGGCGCTTTATTAAAAACGCAGCAAAAAATTCAATAAGGCGCAGTA
Found at i:97417971 original size:14 final size:14
Alignment explanation
Indices: 97417952--97417997 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
97417942 TTATCACATA
97417952 GTTTAGGGTTTATG
1 GTTTAGGGTTTATG
* *
97417966 GTTTAGAGTATATG
1 GTTTAGGGTTTATG
* *
97417980 GTTTAAGGTTTAAG
1 GTTTAGGGTTTATG
97417994 GTTT
1 GTTT
97417998 TGGAGTTACT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:97418055 original size:7 final size:7
Alignment explanation
Indices: 97418042--97418084 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
97418032 TTAAGGGTTG
97418042 GGGTTTA
1 GGGTTTA
*
97418049 AGGTTTA
1 GGGTTTA
*
97418056 GGGGTTA
1 GGGTTTA
97418063 GGGGTTTA
1 -GGGTTTA
97418071 GGGTTTAA
1 GGGTTT-A
97418079 GGGTTT
1 GGGTTT
97418085 GGTTTTATGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
7 17 0.57
8 13 0.43
ACGTcount: A:0.16, C:0.00, G:0.44, T:0.40
Consensus pattern (7 bp):
GGGTTTA
Found at i:97418060 original size:21 final size:22
Alignment explanation
Indices: 97418036--97418130 Score: 79
Period size: 21 Copynumber: 4.4 Consensus size: 22
97418026 GATGGATTAA
97418036 GGGTT-GGGGTTTAAGGTTTAG
1 GGGTTAGGGGTTTAAGGTTTAG
* *
97418057 GGGTTAGGGGTTTAGGGTTTAA
1 GGGTTAGGGGTTTAAGGTTTAG
* * * *
97418079 GGGTT-TGGTTTTATGATTTAG
1 GGGTTAGGGGTTTAAGGTTTAG
* * *
97418100 AGGTTAGGGG-ATAAGGGTTAG
1 GGGTTAGGGGTTTAAGGTTTAG
97418121 GGGTTTAGGG
1 GGG-TTAGGG
97418131 CTTAGATTAA
Statistics
Matches: 56, Mismatches: 15, Indels: 5
0.74 0.20 0.07
Matches are distributed among these distances:
21 29 0.52
22 27 0.48
ACGTcount: A:0.18, C:0.00, G:0.45, T:0.37
Consensus pattern (22 bp):
GGGTTAGGGGTTTAAGGTTTAG
Found at i:97418061 original size:15 final size:15
Alignment explanation
Indices: 97418032--97418080 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 15
97418022 AGATGATGGA
*
97418032 TTAAGGGTT-GGGGT
1 TTAAGGTTTAGGGGT
97418046 TTAAGGTTTAGGGG-
1 TTAAGGTTTAGGGGT
*
97418060 TTAGGGGTTTA-GGGT
1 TTA-AGGTTTAGGGGT
97418075 TTAAGG
1 TTAAGG
97418081 GTTTGGTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
14 16 0.55
15 13 0.45
ACGTcount: A:0.18, C:0.00, G:0.45, T:0.37
Consensus pattern (15 bp):
TTAAGGTTTAGGGGT
Found at i:97418079 original size:43 final size:43
Alignment explanation
Indices: 97418032--97418118 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
97418022 AGATGATGGA
* * * *
97418032 TTAAGGGTTGGGGTTTAAGGTTTAGGGGTTAGGGGTTTAGGGT
1 TTAAGGGTTGGGGTTTAAGATTTAGAGGTTAGGGGATAAGGGT
* * *
97418075 TTAAGGGTTTGGTTTTATGATTTAGAGGTTAGGGGATAAGGGT
1 TTAAGGGTTGGGGTTTAAGATTTAGAGGTTAGGGGATAAGGGT
97418118 T
1 T
97418119 AGGGGTTTAG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (43 bp):
TTAAGGGTTGGGGTTTAAGATTTAGAGGTTAGGGGATAAGGGT
Found at i:97418091 original size:14 final size:15
Alignment explanation
Indices: 97418032--97418084 Score: 65
Period size: 15 Copynumber: 3.7 Consensus size: 15
97418022 AGATGATGGA
*
97418032 TTAAGGG-TTGGGGT
1 TTAAGGGTTTAGGGT
*
97418046 TTAA-GGTTTAGGGG
1 TTAAGGGTTTAGGGT
*
97418060 TTAGGGGTTTAGGGT
1 TTAAGGGTTTAGGGT
97418075 TTAAGGGTTT
1 TTAAGGGTTT
97418085 GGTTTTATGA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
13 2 0.06
14 12 0.38
15 18 0.56
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (15 bp):
TTAAGGGTTTAGGGT
Found at i:97418130 original size:14 final size:14
Alignment explanation
Indices: 97418050--97418135 Score: 59
Period size: 14 Copynumber: 5.9 Consensus size: 14
97418040 TGGGGTTTAA
97418050 GGTTTAGGGGTTAGG
1 GGTTTA-GGGTTAGG
*
97418065 GGTTTAGGGTTTAAG
1 GGTTTAGGG-TTAGG
* *
97418080 GGTTT-GGTTTTA-T
1 GGTTTAGG-GTTAGG
*
97418093 GATTTAGAGGTTAGG
1 GGTTTAG-GGTTAGG
* *
97418108 GGATAAGGGTTAGG
1 GGTTTAGGGTTAGG
97418122 GGTTTAGGGCTTAG
1 GGTTTAGGG-TTAG
97418136 ATTAATTAGT
Statistics
Matches: 54, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
13 4 0.07
14 26 0.48
15 24 0.44
ACGTcount: A:0.19, C:0.01, G:0.43, T:0.37
Consensus pattern (14 bp):
GGTTTAGGGTTAGG
Found at i:97418311 original size:16 final size:16
Alignment explanation
Indices: 97418290--97418321 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
97418280 ACGTTTGGTT
*
97418290 GGCTGTAGTGGAATAG
1 GGCTGTAATGGAATAG
97418306 GGCTGTAATGGAATAG
1 GGCTGTAATGGAATAG
97418322 AGTTGTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.06, G:0.41, T:0.25
Consensus pattern (16 bp):
GGCTGTAATGGAATAG
Found at i:97418328 original size:16 final size:16
Alignment explanation
Indices: 97418291--97418330 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
97418281 CGTTTGGTTG
* *
97418291 GCTGTAGTGGAATAGG
1 GCTGTAATGGAATAGA
97418307 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
97418323 GTTGTAAT
1 GCTGTAAT
97418331 AAGTAATTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.30, C:0.05, G:0.35, T:0.30
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:97418405 original size:44 final size:46
Alignment explanation
Indices: 97418312--97418405 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 46
97418302 ATAGGGCTGT
*
97418312 AATGGAATAGAGTTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAATTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
***
97418358 AATGGAATAGAATTGTAAT-AGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAATTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
97418402 AATG
1 AATG
97418406 ATGTTGTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 23 0.52
45 3 0.07
46 18 0.41
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (46 bp):
AATGGAATAGAATTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
Found at i:97418603 original size:17 final size:17
Alignment explanation
Indices: 97418581--97418613 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
97418571 AATTATTATT
97418581 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
97418598 AAATATAATTTAATAA
1 AAATATAATTTAATAA
97418614 CATTCTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:97422764 original size:32 final size:32
Alignment explanation
Indices: 97422723--97422787 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
97422713 TTGCAATTTG
97422723 TTTTATATTTGCCCTTACCCTTTACATCTATC
1 TTTTATATTTGCCCTTACCCTTTACATCTATC
** *
97422755 TTTTATATTTGCCCTTGGCTTTTACATCTATC
1 TTTTATATTTGCCCTTACCCTTTACATCTATC
97422787 T
1 T
97422788 CGTCATCTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.17, C:0.25, G:0.06, T:0.52
Consensus pattern (32 bp):
TTTTATATTTGCCCTTACCCTTTACATCTATC
Found at i:97423006 original size:12 final size:12
Alignment explanation
Indices: 97422989--97423015 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
97422979 TAGATTTATG
97422989 CAAAACAATACC
1 CAAAACAATACC
97423001 CAAAACAATACC
1 CAAAACAATACC
97423013 CAA
1 CAA
97423016 TAATTATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.33, G:0.00, T:0.07
Consensus pattern (12 bp):
CAAAACAATACC
Found at i:97427390 original size:114 final size:115
Alignment explanation
Indices: 97427190--97427422 Score: 272
Period size: 114 Copynumber: 2.0 Consensus size: 115
97427180 ATAGCGGTAC
* * *
97427190 AAAAACACCGCAAAAATCATTTTGTTTTAATAAAAACGGCGCCATTCTATTGGATTTCTTAGTTA
1 AAAAACACCGCAAAAATCATTTTGTTTTAATAAAAACGACACCATTCTATTGGATTTCTTAGTGA
* * *
97427255 CATTTTAGGTGAAATGCCGCAATATGTCAGGCTTTAGCGGCGCTA-GTGA
66 CATTTTAGGTAAAATGCCGCAATAGGTCAGGCTTCAGCGGCGCTAGGTGA
* * * * * * *
97427304 AAAAACACCGCAAAAAGTTATTTTGTTTTAATCAAAATGACACCGTTTTATT-TATTTTTTAGTG
1 AAAAACACCGCAAAAA-TCATTTTGTTTTAATAAAAACGACACCATTCTATTGGATTTCTTAGTG
* * * * * *
97427368 GCGTTTTTGTTAAAATGCCGCAATAGGTCGGGCTTCAGCGGTGCTAGGTGA
65 ACATTTTAGGTAAAATGCCGCAATAGGTCAGGCTTCAGCGGCGCTAGGTGA
97427419 AAAA
1 AAAA
97427423 TGCCGCAAAA
Statistics
Matches: 98, Mismatches: 19, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
114 62 0.63
115 36 0.37
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (115 bp):
AAAAACACCGCAAAAATCATTTTGTTTTAATAAAAACGACACCATTCTATTGGATTTCTTAGTGA
CATTTTAGGTAAAATGCCGCAATAGGTCAGGCTTCAGCGGCGCTAGGTGA
Found at i:97427548 original size:28 final size:27
Alignment explanation
Indices: 97427490--97427547 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 27
97427480 AATTTTGTAA
97427490 CCCAACCTTTTTTCCTTTACTTTTTTTC
1 CCCAACCTTTTTT-CTTTACTTTTTTTC
97427518 CCCAACCTTTTCTT-TTTACTTTTTTTC
1 CCCAACCTTTT-TTCTTTACTTTTTTTC
97427545 CCC
1 CCC
97427548 CCGAAATCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
27 16 0.55
28 11 0.38
29 2 0.07
ACGTcount: A:0.10, C:0.34, G:0.00, T:0.55
Consensus pattern (27 bp):
CCCAACCTTTTTTCTTTACTTTTTTTC
Found at i:97429295 original size:36 final size:36
Alignment explanation
Indices: 97429248--97429323 Score: 152
Period size: 36 Copynumber: 2.1 Consensus size: 36
97429238 TGCTGGCTTC
97429248 GCCCTTGGTTGTTTGGTACTTATGCTAGATGGCACT
1 GCCCTTGGTTGTTTGGTACTTATGCTAGATGGCACT
97429284 GCCCTTGGTTGTTTGGTACTTATGCTAGATGGCACT
1 GCCCTTGGTTGTTTGGTACTTATGCTAGATGGCACT
97429320 GCCC
1 GCCC
97429324 CTTGACTACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.13, C:0.22, G:0.28, T:0.37
Consensus pattern (36 bp):
GCCCTTGGTTGTTTGGTACTTATGCTAGATGGCACT
Found at i:97434860 original size:22 final size:23
Alignment explanation
Indices: 97434833--97434877 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
97434823 GGGTATCTAC
*
97434833 AAATCAAATC-TCTATGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
97434855 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
97434878 TATCATATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.33
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:97434881 original size:17 final size:17
Alignment explanation
Indices: 97434859--97434909 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 17
97434849 ATTACAAAAT
97434859 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
*
97434876 CATATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTA
*
97434895 CATATCTTCGAAGAT
1 CATATCTTCTAAGAT
97434910 CATGTTTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 13 0.43
18 2 0.07
19 15 0.50
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:97434882 original size:22 final size:22
Alignment explanation
Indices: 97434830--97434887 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
97434820 AAAGGGTATC
* *
97434830 TACAAATCAAATC-TCTATGAT
1 TACAAATCATATCTTCTAAGAT
97434851 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
97434874 TACATATCATATCT
1 TACAAATCATATCT
97434888 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.59
23 10 0.31
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:97438408 original size:42 final size:42
Alignment explanation
Indices: 97438330--97438693 Score: 373
Period size: 43 Copynumber: 8.5 Consensus size: 42
97438320 AATATTTTTT
**
97438330 TAAAGGTCATGTTCTTTAGCGGTATTTGTGAGAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTG-GAAAAGCGCCGC
* * *
97438373 TAAAGGT-TTGTT-TTATAGTGGTGTTTGTGGCAAAAGCG-CGAC
1 TAAAGGTCATGTTCTT-TAGCGGCGTTTGTGG-AAAAGCGCCG-C
*
97438415 TAAAGGTC-TGTT-TTATAGAGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGTTCTT-TAGCGGCGTTTGT-GGAAAAGCGCCGC
*
97438457 TAAAGGTCATGTTCTTTAGCGGCGTTTGTAGGAAAAGTGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGT-GGAAAAGCGCCGC
* * * *
97438500 TAAAGGTCATGTTCTTTAGCTGTGATTGTGGGAAAAG-GGCGAC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGT-GGAAAAGCGCCG-C
* * *
97438543 TAAAGATCATGTTCTTTAGCGGCGTTTGTGGTAAAGCGCCAC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGAAAAGCGCCGC
* *
97438585 TAAAGGTCATGTTCTATAGCGGTG-TTGATGGAAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTG-TGG-AAAAGCGCCGC
* * * * *
97438628 TAAAGGTCATGTTCTATAGCGGCATTTGTAGAAAAAGTGCCAC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGT-GGAAAAGCGCCGC
*
97438671 TAAAGGTCATGTTCTATAGCGGC
1 TAAAGGTCATGTTCTTTAGCGGC
97438694 CTTTTTTTAC
Statistics
Matches: 277, Mismatches: 30, Indels: 28
0.83 0.09 0.08
Matches are distributed among these distances:
41 8 0.03
42 99 0.36
43 164 0.59
44 6 0.02
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (42 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGAAAAGCGCCGC
Found at i:97438599 original size:128 final size:129
Alignment explanation
Indices: 97438330--97438693 Score: 417
Period size: 128 Copynumber: 2.8 Consensus size: 129
97438320 AATATTTTTT
* *
97438330 TAAAGGTCATGTTCTTTAGCGGTATTTGT-GAGAAAAGCGCCGCTAAAGGT-TTGTT-TTATAG-
1 TAAAGGTCATGTTCTTTAGCGGTGTTTGTAG-GAAAAGCGCCGCTAAAGGTCATGTTCTT-TAGC
* * *
97438391 TGGTGTTTGTGGCAAAAGCGCGACTAAAGGTC-TGTT-TTATAGAGGCGTTTGTGGGAAAAGCGC
64 T-GTGATTGTGGAAAAAGCGCGACTAAAGGTCATGTTCTT-TAGCGGCGTTTGTGGGAAAAGCGC
*
97438454 CGC
127 CAC
* *
97438457 TAAAGGTCATGTTCTTTAGCGGCGTTTGTAGGAAAAGTGCCGCTAAAGGTCATGTTCTTTAGCTG
1 TAAAGGTCATGTTCTTTAGCGGTGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCTG
* * * *
97438522 TGATTGTGGGAAAAGGGCGACTAAAGATCATGTTCTTTAGCGGCGTTTGT-GGTAAAGCGCCAC
66 TGATTGTGGAAAAAGCGCGACTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCAC
* *
97438585 TAAAGGTCATGTTCTATAGCGGTG-TTG-ATGGAAAAAGCGCCGCTAAAGGTCATGTTCTATAGC
1 TAAAGGTCATGTTCTTTAGCGGTGTTTGTA-GG-AAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
* * * *
97438648 -G-GCATTTGTAGAAAAAGTGCCACTAAAGGTCATGTTCTATAGCGGC
64 TGTG-A-TTGTGGAAAAAGCGCGACTAAAGGTCATGTTCTTTAGCGGC
97438694 CTTTTTTTAC
Statistics
Matches: 206, Mismatches: 21, Indels: 19
0.84 0.09 0.08
Matches are distributed among these distances:
126 2 0.01
127 52 0.25
128 131 0.64
129 19 0.09
130 2 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (129 bp):
TAAAGGTCATGTTCTTTAGCGGTGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCTG
TGATTGTGGAAAAAGCGCGACTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCAC
Found at i:97438650 original size:171 final size:170
Alignment explanation
Indices: 97438330--97438692 Score: 475
Period size: 171 Copynumber: 2.1 Consensus size: 170
97438320 AATATTTTTT
* * * *
97438330 TAAAGGTCATGTTCTTTAGCGGTATTTGTGAGAAAAGCGCCGCTAAAGGTTTGTTTTATAGTGGT
1 TAAAGGTCATGTTCTTTAGCGGTATTTGTGAGAAAAGCGCCGCTAAAGATATGTTTTATAGCGGC
* * *
97438395 GTTTGTGGCAAAAGCGCGACTAAAGGTCTGTTTTATAGAGGCGTTTGTGGGAAAAGCGCCGCTAA
66 GTTTGTGGCAAAAGCGCCACTAAAGGTCTGTTCTATAGAGGCGTTTGTGGAAAAAGCGCCGCTAA
* * * *
97438460 AGGTCATGTTCTTTAGCGGCGTTTGTAGGAAAAGTGCCGC
131 AGGTCATGTTCTATAGCGGCATTTGTAGAAAAAGTGCCAC
* * *
97438500 TAAAGGTCATGTTCTTTAGCTGTGA-TTGTGGGAAAAG-GGCGACTAAAGATCATGTTCTT-TAG
1 TAAAGGTCATGTTCTTTAGCGGT-ATTTGTGAGAAAAGCGCCG-CTAAAGAT-ATGTT-TTATAG
* * *
97438562 CGGCGTTTGTGG-TAAAGCGCCACTAAAGGTCATGTTCTATAGCGGTG-TTGATGGAAAAAGCGC
62 CGGCGTTTGTGGCAAAAGCGCCACTAAAGGTC-TGTTCTATAGAGGCGTTTG-TGGAAAAAGCGC
97438625 CGCTAAAGGTCATGTTCTATAGCGGCATTTGTAGAAAAAGTGCCAC
125 CGCTAAAGGTCATGTTCTATAGCGGCATTTGTAGAAAAAGTGCCAC
*
97438671 TAAAGGTCATGTTCTATAGCGG
1 TAAAGGTCATGTTCTTTAGCGG
97438693 CCTTTTTTTA
Statistics
Matches: 168, Mismatches: 19, Indels: 11
0.85 0.10 0.06
Matches are distributed among these distances:
169 3 0.02
170 60 0.36
171 103 0.61
172 2 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (170 bp):
TAAAGGTCATGTTCTTTAGCGGTATTTGTGAGAAAAGCGCCGCTAAAGATATGTTTTATAGCGGC
GTTTGTGGCAAAAGCGCCACTAAAGGTCTGTTCTATAGAGGCGTTTGTGGAAAAAGCGCCGCTAA
AGGTCATGTTCTATAGCGGCATTTGTAGAAAAAGTGCCAC
Found at i:97440240 original size:22 final size:23
Alignment explanation
Indices: 97440215--97440257 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
97440205 TAAAGAAATC
97440215 AAATACTAAATTT-TATTATTTT
1 AAATACTAAATTTATATTATTTT
**
97440237 AAATTTTAAATTTATATTATT
1 AAATACTAAATTTATATTATT
97440258 ATTTAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (23 bp):
AAATACTAAATTTATATTATTTT
Found at i:97440267 original size:23 final size:22
Alignment explanation
Indices: 97440221--97440282 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
97440211 AATCAAATAC
97440221 TAAATTTTATTATTTTAAATTT
1 TAAATTTTATTATTTTAAATTT
*
97440243 TAAATTTATATTATTATTTAATTT
1 TAAATTT-TATTATT-TTAAATTT
*
97440267 AAATATTTTA-TATTTT
1 TAA-ATTTTATTATTTT
97440283 TACCTGAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 9 0.26
23 11 0.31
24 11 0.31
25 4 0.11
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TAAATTTTATTATTTTAAATTT
Found at i:97454676 original size:25 final size:25
Alignment explanation
Indices: 97454613--97454776 Score: 219
Period size: 25 Copynumber: 6.7 Consensus size: 25
97454603 TTATTATGCA
* *
97454613 CTAATGAA-CAGAGAACACTGAAGTG
1 CTAAT-AATCAGAGAGCACTGACGTG
*
97454638 CT-AT-A-CAGAGAGCACTGGCGTG
1 CTAATAATCAGAGAGCACTGACGTG
**
97454660 CTAATAATCAGAGAGCACTGGTGTG
1 CTAATAATCAGAGAGCACTGACGTG
**
97454685 CTAATGTTCAGAGAGCACTGACGTG
1 CTAATAATCAGAGAGCACTGACGTG
97454710 CTAATAATCAGAGAGCACTGACGTG
1 CTAATAATCAGAGAGCACTGACGTG
*
97454735 CTAATATTCAGAGAGCACTGACGTG
1 CTAATAATCAGAGAGCACTGACGTG
97454760 CTAATAATCAGAGAGCA
1 CTAATAATCAGAGAGCA
97454777 TGCTGAGGTC
Statistics
Matches: 124, Mismatches: 12, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
22 17 0.14
23 2 0.02
24 3 0.02
25 102 0.82
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.21
Consensus pattern (25 bp):
CTAATAATCAGAGAGCACTGACGTG
Found at i:97460275 original size:3 final size:3
Alignment explanation
Indices: 97460269--97460327 Score: 82
Period size: 3 Copynumber: 19.7 Consensus size: 3
97460259 AATCATCATC
* * *
97460269 ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT GTT GTT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
97460317 ATT ATC ATT AT
1 ATT ATT ATT AT
97460328 CATCATCATT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:97462025 original size:45 final size:47
Alignment explanation
Indices: 97461933--97462061 Score: 165
Period size: 45 Copynumber: 2.8 Consensus size: 47
97461923 GTGTGAATAA
* *
97461933 TACCTTGATTTAGCTACGGGCCATGGTATAGGTATTTTGTGAGAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTTGTGAGAAGT
* * *
97461980 TACCTTGATTTGGCTA-TGG-CACGGTATAGGTACTTTG-GAATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTTGTG-AGAAGT
* *
97462025 TATCTTGACTTGGCTACGGGCCATGGTATAGGTACTT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTT
97462062 ATCGAATGTG
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
44 1 0.01
45 35 0.50
46 4 0.06
47 30 0.43
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.36
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTTGTGAGAAGT
Found at i:97469451 original size:47 final size:47
Alignment explanation
Indices: 97469400--97469524 Score: 162
Period size: 47 Copynumber: 2.7 Consensus size: 47
97469390 GTGTGAATAA
* * *
97469400 TACCTTGATTTGGCTACGGGCCATGGTATAGATAT-TTTGTGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGAT-TCTCTGGGAGAAGT
* *
97469447 TACCTTGATTTGGCTACGGGCCATGGTATAGGTTCTCTGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGATTCTCTGGGAGAAGT
** *
97469494 TATATTGACTTGGCTACGGGCCATGGTATAG
1 TACCTTGATTTGGCTACGGGCCATGGTATAG
97469525 GTACTTATCG
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
46 1 0.01
47 68 0.99
ACGTcount: A:0.21, C:0.15, G:0.30, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGATTCTCTGGGAGAAGT
Found at i:97474204 original size:3 final size:3
Alignment explanation
Indices: 97474196--97474228 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
97474186 CATAAGTCTT
97474196 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
97474229 AGTTTTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:97475627 original size:30 final size:30
Alignment explanation
Indices: 97475582--97475642 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
97475572 GGGAGTGGGA
* *
97475582 TGGGAGGGTAGTAAAAGTTTTGAGGGGGAAG
1 TGGGAGGGTAGTAAAAGTATTG-GGGGAAAG
97475613 TGGGAGGG-AGTAAAAGTATTGGGGGAAAG
1 TGGGAGGGTAGTAAAAGTATTGGGGGAAAG
97475642 T
1 T
97475643 AAAGATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 8 0.29
30 12 0.43
31 8 0.29
ACGTcount: A:0.31, C:0.00, G:0.48, T:0.21
Consensus pattern (30 bp):
TGGGAGGGTAGTAAAAGTATTGGGGGAAAG
Found at i:97477999 original size:14 final size:16
Alignment explanation
Indices: 97477980--97478011 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
97477970 GGTAAAACTT
97477980 AGTTGATA-GT-TAAA
1 AGTTGATATGTGTAAA
97477994 AGTTGATATGTGTAAA
1 AGTTGATATGTGTAAA
97478010 AG
1 AG
97478012 AGTAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.41, C:0.00, G:0.25, T:0.34
Consensus pattern (16 bp):
AGTTGATATGTGTAAA
Found at i:97481078 original size:11 final size:11
Alignment explanation
Indices: 97481064--97481094 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
97481054 TATTTTTTTA
97481064 AAAATAAAAAT
1 AAAATAAAAAT
*
97481075 AAAACAAAAAT
1 AAAATAAAAAT
97481086 AAAATAAAA
1 AAAATAAAA
97481095 TCCCAATGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.13
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:97481078 original size:230 final size:232
Alignment explanation
Indices: 97480651--97481100 Score: 667
Period size: 229 Copynumber: 1.9 Consensus size: 232
97480641 TCAATTGGAA
* * *
97480651 CAAAAGCAAAGACCAATTGAAACAAAAGTCAAAATTCAAGAAAACGGGAAGGAGCCTTTTCTTTT
1 CAAAAGCAAAGACCAATTGAAACAAAAGCCAAAATTCAAGAAAAAGGAAAGGAGCC--TTCTTTT
* * * *
97480716 GTTTTTTTTTTTCCTTTACTGTAAGTGCCAAAAAAATCACAGGAATAGACAATTGAACATGAGAT
64 GTTATTTTTTTTCCTTCACTGGAAGTGCCAAAAAAATCACAGGAATAGACAATGGAACATGAGAT
* *
97480781 AAAAAAGGTGAAAAGTGGGAAACAAACCTTTTAATTTAATTAATATTTTTCTAAAGATAAAAATA
129 AAAAAACGTGAAAAGTGGGAAACAAACCTTTTAATTTAATTAATATTTTTCTAAAAATAAAAATA
97480846 AAACAAAACA-AAAACAAAATCCCAACCATCCACTACTCT
194 AAACAAAA-ATAAAACAAAATCCCAACCATCCACTACTCT
* *
97480885 CAAAAGTAAAGACCTATTGAAACAAAAGCCAAAATTCAAGAAAAAGGAAAGGAGCC-T-TTTT-T
1 CAAAAGCAAAGACCAATTGAAACAAAAGCCAAAATTCAAGAAAAAGGAAAGGAGCCTTCTTTTGT
* * * *
97480947 TATTTTTTTTCCTTCACTGGAAGTGCCAAAAATATCACGGGAATGGACAATGGAACGTGAGA-AA
66 TATTTTTTTTCCTTCACTGGAAGTGCCAAAAAAATCACAGGAATAGACAATGGAACATGAGATAA
*
97481011 GAAAACGTGAAAAGTGGGAAACAAAACCTTTTAATTTAATTAATATTTTTTTAAAAATAAAAATA
131 -AAAACGTGAAAAGTGGGAAAC-AAACCTTTTAATTTAATTAATATTTTTCTAAAAATAAAAATA
*
97481076 AAACAAAAATAAAATAAAATCCCAA
194 AAACAAAAATAAAACAAAATCCCAA
97481101 TGACATAAAC
Statistics
Matches: 196, Mismatches: 17, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
228 2 0.01
229 76 0.39
230 66 0.34
231 1 0.01
234 51 0.26
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.26
Consensus pattern (232 bp):
CAAAAGCAAAGACCAATTGAAACAAAAGCCAAAATTCAAGAAAAAGGAAAGGAGCCTTCTTTTGT
TATTTTTTTTCCTTCACTGGAAGTGCCAAAAAAATCACAGGAATAGACAATGGAACATGAGATAA
AAAACGTGAAAAGTGGGAAACAAACCTTTTAATTTAATTAATATTTTTCTAAAAATAAAAATAAA
ACAAAAATAAAACAAAATCCCAACCATCCACTACTCT
Found at i:97481472 original size:23 final size:23
Alignment explanation
Indices: 97481436--97481479 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
97481426 TTGTGTTTTT
* *
97481436 ATATATATATTATAAAATTATAG
1 ATATAGATAATATAAAATTATAG
*
97481459 ATATAGATAATATAAGATTAT
1 ATATAGATAATATAAAATTAT
97481480 TTTATATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (23 bp):
ATATAGATAATATAAAATTATAG
Found at i:97481944 original size:36 final size:35
Alignment explanation
Indices: 97481903--97481973 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
97481893 TACTTTGGGA
*
97481903 TTCCTACTTT-AATTCGGAATTGGATTATTCTCTTTT
1 TTCCTA-TTTCAATT-GGAATTGAATTATTCTCTTTT
* *
97481939 TTCCTATTTCCATTGGAATTGAATTATTTTCTTTT
1 TTCCTATTTCAATTGGAATTGAATTATTCTCTTTT
97481974 CTCTTTCAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 22 0.71
36 9 0.29
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.55
Consensus pattern (35 bp):
TTCCTATTTCAATTGGAATTGAATTATTCTCTTTT
Found at i:97482222 original size:25 final size:24
Alignment explanation
Indices: 97482161--97482222 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
97482151 TATAACACTC
* *
97482161 ATTTCAAATTTTTATACATTATTT
1 ATTTCAAATTTTCATACATTATAT
*
97482185 ACTTT-AATATTTTCATATATTATAT
1 A-TTTCAA-ATTTTCATACATTATAT
97482210 ATTTCAAACTTTT
1 ATTTCAAA-TTTT
97482223 TTTTACACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 7 0.23
25 24 0.77
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (24 bp):
ATTTCAAATTTTCATACATTATAT
Found at i:97487294 original size:13 final size:11
Alignment explanation
Indices: 97487251--97487290 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
97487241 TAGCAGTTTC
97487251 AAAAA-AAAGG
1 AAAAAGAAAGG
*
97487261 AAAAACAAA--
1 AAAAAGAAAGG
97487270 AAAAAGAAAGG
1 AAAAAGAAAGG
97487281 AAAAAGAAAG
1 AAAAAGAAAG
97487291 AGGAGAGGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
9 8 0.31
10 5 0.19
11 13 0.50
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAGG
Found at i:97488805 original size:178 final size:178
Alignment explanation
Indices: 97488502--97488916 Score: 668
Period size: 178 Copynumber: 2.3 Consensus size: 178
97488492 CGGTGAATTC
* *
97488502 ACAAGTCTTATCTTCTTAAGGTAGCAAGGAAGTAGACTGAAAATTACAGATCTTATCTCCACGTA
1 ACAAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCACGTA
** *
97488567 TCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATTTCCATGTATCGGCTGTAGAGCAGATTTT
66 TCGGCTATGGAGCAGATAAAAAATGGCGAGTCTTATTTCCATGTATCGGCTATAGAGCAGATTTT
* *
97488632 AGCCATCGGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
131 AGCCACCGGCCTTATCTCTCTGAGGTAGCAAAAGAGCAGGTTGAAGAT
* * * *
97488680 ACAAGTCTTATCTTCCTGAGGTAGCAAAGAAGCAGACTGAAAATTATAGATCTTATCTCCATGTA
1 ACAAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCACGTA
* *
97488745 TCGGCTATGGAGCAGATAAAAAATGGCGAGTCTTATTTCTATGTATCGGCTATGGAGCAGATTTT
66 TCGGCTATGGAGCAGATAAAAAATGGCGAGTCTTATTTCCATGTATCGGCTATAGAGCAGATTTT
*
97488810 AGCCACCGGCCTTATCTCTCTGAGGTAGCAAAAGAGCAGGTTGAATAT
131 AGCCACCGGCCTTATCTCTCTGAGGTAGCAAAAGAGCAGGTTGAAGAT
* * * *
97488858 ACAAGTCTTATTTTCCTAAGGCAGCAAGGAAGCAGGCTGAAGATTACAGATCTTATCTC
1 ACAAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTC
97488917 TCTAAGCAGT
Statistics
Matches: 216, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
178 216 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (178 bp):
ACAAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCACGTA
TCGGCTATGGAGCAGATAAAAAATGGCGAGTCTTATTTCCATGTATCGGCTATAGAGCAGATTTT
AGCCACCGGCCTTATCTCTCTGAGGTAGCAAAAGAGCAGGTTGAAGAT
Found at i:97489018 original size:84 final size:83
Alignment explanation
Indices: 97488918--97490087 Score: 1478
Period size: 84 Copynumber: 13.8 Consensus size: 83
97488908 TCTTATCTCT
* * ** *
97488918 CTAAGCAGTAGTGGAGCGGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACTGGC
1 CTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGC
*
97488983 TGAAGAATACAAATCTCCC
66 TGAA-AATACAGATCTCCC
* * *
97489002 CTAAACAGTAGTGGAGCAGATCAAAGATAGCAAGCCTTAACCCCCTAAGCAGTCGGGTAACAGGC
1 CTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGC
97489067 TAGAAAATACAGATCTCCC
66 T-GAAAATACAGATCTCCC
* * *
97489086 CTAAACAGTAGTGGGGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGTAATAGGGTAACAGGC
1 CTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGC
*
97489151 TAGAAAATACAGATCTCTC
66 T-GAAAATACAGATCTCCC
* *
97489170 TTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCTCTAAGCAGTAGGGTAACAGGC
1 CTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGC
*
97489235 TGGAAAATACATATCTCCC
66 T-GAAAATACAGATCTCCC
* * * *
97489254 CTAAATAATAGTGGAGCAGATCGAAGACAACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGC
1 CTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGC
97489319 TAGAAAATACAGATCTCCC
66 T-GAAAATACAGATCTCCC
* * * *
97489338 CTAAACAGTAGTGGAGCAGATTGAAGATAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGC
1 CTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGC
97489403 TGAAAAATACAGATCTCCC
66 TG-AAAATACAGATCTCCC
* ** * *
97489422 CTAAACAGTAGTGGAGCAGATTGAAGACAGTGAGCCTTAACCCCCAAAGCAGTAGGGTAACAAGC
1 CTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGC
* *
97489487 TGAAAATACAGATTTTATCC
66 TGAAAATACAGA-TCT-CCC
* ** * * *
97489507 CT-AACTAGTAGTGGAACAGATTAAAGACAGTAAGCCTTAACCCTCTAAGCAGTAGGGTAAGAGG
1 CTAAAC-AGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGG
* *
97489571 CTAAAAATACAGATCTTATCC
65 CTGAAAATACAGATC-T-CCC
* * * * *
97489592 CTAAACAATAGTGGAACAGATCGAAGACAGCGAGCCTTAACCCTCTAAACAGTAGGGTAACAGGC
1 CTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGC
* *
97489657 TGGAAATACAGATCTTATCC
66 TGAAAATACAGATC-T-CCC
* ** * * *
97489677 CTAAATAGTAGTTCAGCAGATCGAAGACAACTAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGT
1 CTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGC
*
97489742 TGAAAAATACAGATCTTATCC
66 TG-AAAATACAGATC-T-CCC
* * *
97489763 CTAAACAGTAGTGGAGCAGATAGAAGACAGCGAGCCTTAACCCCTTAAGCAGTAGGGTAACAGGC
1 CTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGC
* *
97489828 TGGAAAATACAAATCTTATCC
66 T-GAAAATACAGATC-T-CCC
* * *
97489849 CTAAACAGTAGTGGAGTAGATCGAAGACAGCAAGCCTTAACCCCCTAAGTAGCAGGGTAACAGGC
1 CTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGC
*
97489914 TGGAAAATACAGATCTTATCC
66 T-GAAAATACAGATC-T-CCC
* * * *
97489935 CTAAACAGTAGTAGAGCAGATCGAAGATAGCTAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGC
1 CTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGC
97490000 TGAAAATACAGATCTTCTCC
66 TGAAAATACAGATC-TC-CC
* * * * *
97490020 CTAAACAGTAGTGGAACAGATCGAAGACAGTAAGCCTTAGCCCTCTAAGCAGTAGGGTTACAGGC
1 CTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGC
97490085 TGA
66 TGA
97490088 GTTACAGACC
Statistics
Matches: 971, Mismatches: 105, Indels: 19
0.89 0.10 0.02
Matches are distributed among these distances:
83 11 0.01
84 446 0.46
85 280 0.29
86 233 0.24
87 1 0.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (83 bp):
CTAAACAGTAGTGGAGCAGATCGAAGACAGCAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGC
TGAAAATACAGATCTCCC
Found at i:97489341 original size:40 final size:39
Alignment explanation
Indices: 97489295--97489432 Score: 104
Period size: 40 Copynumber: 3.4 Consensus size: 39
97489285 AAGCCTTAAC
*
97489295 CCCCTAAGCAGTAGGGTAACAAGCTAGAAAATACAGATCT
1 CCCCTAAACAGTAGGGTAACAAGCT-GAAAATACAGATCT
* * *
97489335 CCCCTAAACAGTAGTGG-AGC-AGATTGAAGATAGTA-AG-CCTT
1 CCCCTAAACAGTAG-GGTAACAAG-CTGAA-A-A-TACAGATC-T
*
97489376 AACCCCCTAAGCAGTAGGGTAACAAGCTGAAAAATACAGATCT
1 ---CCCCTAAACAGTAGGGTAACAAGCTG-AAAATACAGATCT
97489419 CCCCTAAACAGTAG
1 CCCCTAAACAGTAG
97489433 TGGAGCAGAT
Statistics
Matches: 75, Mismatches: 9, Indels: 28
0.67 0.08 0.25
Matches are distributed among these distances:
39 5 0.07
40 31 0.41
41 6 0.08
42 4 0.05
43 6 0.08
44 19 0.25
45 4 0.05
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.18
Consensus pattern (39 bp):
CCCCTAAACAGTAGGGTAACAAGCTGAAAATACAGATCT
Found at i:97489384 original size:44 final size:43
Alignment explanation
Indices: 97489335--97489476 Score: 111
Period size: 44 Copynumber: 3.3 Consensus size: 43
97489325 ATACAGATCT
97489335 CCCCTAAACAGTAGTGGAGCAGATTGAAGATAGTAAGCCTTAAC
1 CCCCTAAACAGTAGTGGAGCAGATTGAAGA-AGTAAGCCTTAAC
* * * * *
97489379 CCCCTAAGCAGTAG-GGTAACA-AGCTGAA-AAATACAG----ATC
1 CCCCTAAACAGTAGTGG-AGCAGA-TTGAAGAAGTA-AGCCTTAAC
*
97489418 TCCCCTAAACAGTAGTGGAGCAGATTGAAGACAGTGAGCCTTAAC
1 -CCCCTAAACAGTAGTGGAGCAGATTGAAGA-AGTAAGCCTTAAC
97489463 CCCC-AAAGCAGTAG
1 CCCCTAAA-CAGTAG
97489477 GGTAACAAGC
Statistics
Matches: 74, Mismatches: 11, Indels: 26
0.67 0.10 0.23
Matches are distributed among these distances:
39 2 0.03
40 20 0.27
41 6 0.08
42 5 0.07
43 9 0.12
44 30 0.41
45 2 0.03
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.18
Consensus pattern (43 bp):
CCCCTAAACAGTAGTGGAGCAGATTGAAGAAGTAAGCCTTAAC
Found at i:97490038 original size:41 final size:42
Alignment explanation
Indices: 97489907--97490038 Score: 110
Period size: 41 Copynumber: 3.1 Consensus size: 42
97489897 GTAGCAGGGT
* * *
97489907 AACAGGCTGGAAAATACAGATCTTATCCCTAAACAGTAGTAG
1 AACAGGCTCGAAAATACAGATCTTCTCCCTAAACAGTAGTGG
* * * * * *
97489949 AGCA-GATCGAAGATAGCTAG-CCTTAACCCCCTAAGCAGTAG-GG
1 AACAGGCTCGAAAATA-C-AGATCTT--CTCCCTAAACAGTAGTGG
97489992 AAACAGGCT-GAAAATACAGATCTTCTCCCTAAACAGTAGTGG
1 -AACAGGCTCGAAAATACAGATCTTCTCCCTAAACAGTAGTGG
97490034 AACAG
1 AACAG
97490039 ATCGAAGACA
Statistics
Matches: 67, Mismatches: 15, Indels: 17
0.68 0.15 0.17
Matches are distributed among these distances:
41 26 0.39
42 11 0.16
43 7 0.10
44 21 0.31
45 2 0.03
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (42 bp):
AACAGGCTCGAAAATACAGATCTTCTCCCTAAACAGTAGTGG
Found at i:97491221 original size:15 final size:15
Alignment explanation
Indices: 97491201--97491266 Score: 66
Period size: 15 Copynumber: 4.5 Consensus size: 15
97491191 TCTAATACTG
97491201 TTATTATTTATCTAA
1 TTATTATTTATCTAA
*
97491216 TTATTATTTATCTAT
1 TTATTATTTATCTAA
*
97491231 TTA-TATTTCTACT-A
1 TTATTATTTAT-CTAA
*
97491245 TTATTATATT-TCTAT
1 TTATTAT-TTATCTAA
97491260 TTATTAT
1 TTATTAT
97491267 ATTTTTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
14 11 0.26
15 30 0.70
16 2 0.05
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.64
Consensus pattern (15 bp):
TTATTATTTATCTAA
Found at i:97491237 original size:29 final size:29
Alignment explanation
Indices: 97491205--97491263 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
97491195 ATACTGTTAT
97491205 TATTTAT-CTAATTATTAT-TTATCTATTTA
1 TATTTATACT-ATTATTATATT-TCTATTTA
*
97491234 TATTTCTACTATTATTATATTTCTATTTA
1 TATTTATACTATTATTATATTTCTATTTA
97491263 T
1 T
97491264 TATATTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 23 0.85
30 4 0.15
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (29 bp):
TATTTATACTATTATTATATTTCTATTTA
Found at i:97491267 original size:15 final size:15
Alignment explanation
Indices: 97491231--97491276 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
97491221 ATTTATCTAT
97491231 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
97491248 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
97491263 TTATATTTTTATTT
1 TTATATTTCTATTT
97491277 CTATTTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:97491474 original size:25 final size:24
Alignment explanation
Indices: 97491413--97491474 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
97491403 TATAACGCTC
* *
97491413 ATTTCAAATTTTTATACATTATTT
1 ATTTCAAATTTTCATACATTATAT
*
97491437 ACTTT-AATATTTTCATATATTATAT
1 A-TTTCAA-ATTTTCATACATTATAT
97491462 ATTTCAAACTTTT
1 ATTTCAAA-TTTT
97491475 TTTTACACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 7 0.23
25 24 0.77
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (24 bp):
ATTTCAAATTTTCATACATTATAT
Found at i:97491846 original size:125 final size:125
Alignment explanation
Indices: 97491624--97491853 Score: 293
Period size: 125 Copynumber: 1.8 Consensus size: 125
97491614 AAAACCTCTC
* ** *
97491624 AAAATAAGGAAATATTTCGTGTTTGGAAATTCGAGAAATTGTGCCTTACTGTGCTGGGTTTTGAT
1 AAAATAAGGAAATATTTCGTGTTTGGAAATTCGAGAAATAGTGCCCAACTGTGCTGGGTTTTGAC
*** **
97491689 TTTTGGTTCAACCGAATAACTGAATATCCTTTTGAAATTTTGTCCATGTTTTCTTAAATT
66 TTACCGTTCAACCGAATAACCAAATATCCTTTTGAAATTTTGTCCATGTTTTCTTAAATT
* * *
97491749 AAAATGAGGCAATATTTTGTGTTTGGAAATTCGAGAAATAGTGCCCAA-TCGTGCTGGGTTTTGA
1 AAAATAAGGAAATATTTCGTGTTTGGAAATTCGAGAAATAGTGCCCAACT-GTGCTGGGTTTTGA
** *
97491813 CTTACCGTTTGACC-ACATAGCCAAATATCCTTTTGAAATTT
65 CTTACCGTTCAACCGA-ATAACCAAATATCCTTTTGAAATTT
97491854 CAAATGCATA
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
124 2 0.02
125 86 0.98
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (125 bp):
AAAATAAGGAAATATTTCGTGTTTGGAAATTCGAGAAATAGTGCCCAACTGTGCTGGGTTTTGAC
TTACCGTTCAACCGAATAACCAAATATCCTTTTGAAATTTTGTCCATGTTTTCTTAAATT
Found at i:97494770 original size:20 final size:20
Alignment explanation
Indices: 97494747--97494795 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
97494737 ATTAAAAACA
* *
97494747 TAAAAAATATTAAAATTTAT
1 TAAAAAATATGAAAAATTAT
*
97494767 TAAAAATTA-GAAAAATTAT
1 TAAAAAATATGAAAAATTAT
*
97494786 AAAAAAATAT
1 TAAAAAATAT
97494796 AACTAATAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
TAAAAAATATGAAAAATTAT
Found at i:97494955 original size:39 final size:39
Alignment explanation
Indices: 97494887--97495003 Score: 119
Period size: 39 Copynumber: 3.0 Consensus size: 39
97494877 ACTTTCAATA
* * * * *
97494887 CACTGGCACACAGCCTGCTAGACAGATAGCCCAAATAAT
1 CACTAGCACACAGCCTACTAGGCACATAGCCCGAATAAT
* *
97494926 CACCTA-CACATAGCCTACTAGGCACATAGCCCGTATAAT
1 CA-CTAGCACACAGCCTACTAGGCACATAGCCCGAATAAT
* ** *
97494965 TACTAGCACACATTCTACTAGGCACAAAGCCCGAATAAT
1 CACTAGCACACAGCCTACTAGGCACATAGCCCGAATAAT
97495004 TACTGAATTT
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
38 3 0.05
39 58 0.92
40 2 0.03
ACGTcount: A:0.36, C:0.31, G:0.15, T:0.19
Consensus pattern (39 bp):
CACTAGCACACAGCCTACTAGGCACATAGCCCGAATAAT
Found at i:97499172 original size:14 final size:14
Alignment explanation
Indices: 97499133--97499173 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
97499123 CATTTATTGA
*
97499133 ATTTTTATTTTGTG
1 ATTTTTATTTTTTG
97499147 ATTTTTATTTTTTG
1 ATTTTTATTTTTTG
*
97499161 ATTTCTATTTTTT
1 ATTTTTATTTTTT
97499174 TGGATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.15, C:0.02, G:0.07, T:0.76
Consensus pattern (14 bp):
ATTTTTATTTTTTG
Found at i:97499626 original size:174 final size:173
Alignment explanation
Indices: 97499332--97500066 Score: 870
Period size: 174 Copynumber: 4.2 Consensus size: 173
97499322 CTAACGGCTT
* * * * * * * *
97499332 AAATCTGCTCTATTGCCGATACATAGA-ATTAAGATTCGCCATCATTGATCCGCTCCGCAACTGC
1 AAATCTGCTCCATTGCCGATACATGGAGA-TAAGATTCACCATC---GATCTGATCCACTACTAC
* * *
97499396 TTTAGGGAAAT-AGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGGCTAAA
62 -TTAGGGAAATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTAAA
* *
97499460 ATCGCCAACTTGCTCCCTTGCTACCTCAGAGAGATAAGACTAGTGGCTA
126 ATCGCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGACTAGTGG-TA
* * ** * *
97499509 AAATCTGCTCCATTGCTGGTACATGGAGATAAGATTTGCCATCGATCTGTTCCACTACTGCTTAG
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCGATCTGATCCACTACTACTTAG
* * *
97499574 GGAGATAATATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAAAAAGATAAGACTAAAATCGC
66 GGAAATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTAAAATCGC
* *
97499639 CAACCTGCTCTCTTGCTACCTCAAAGAGATAAGGCTAGTGGCTA
131 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGACTAGTGG-TA
* * *
97499683 AAATCTGCTCCATTGCCGGTACATGGAGATAAGATTCACCATCGATCTGCTCCAATACTACTTAG
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCGATCTGATCCACTACTACTTAG
* * * * **
97499748 GGAGATAATATCTTCAATCTTTAGTCTGTTTTCTTGCTACCTTTGAAAGATAAGACTAAAATCGC
66 GGAAATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTAAAATCGC
* * * *
97499813 CAACCTGCTCTCTTGCTGCCTCAGAAAGATAAGGCTAGCGGTA
131 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGACTAGTGGTA
* * *
97499856 AAATCTGCTCCATTACCGATACATGGAGATAAGATTCACCATCTTCGATCT-ATCCGCT-GTAAC
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCA---TCGATCTGATCCACTACT-AC
* * *
97499919 TTCAGGGAAATAAGATCTTCAATATTCAGTCTACTTTCTTGCTACC-CTAGAAAGATAAGACT-C
62 TT-AGGGAAATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTC-AGAAAGATAAGACTAA
* *** *
97499982 ATTTTTCAACCTGCTCTCTTGCTATCTCAGAGAGATAAGACTAGTGGTA
125 AATCGCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGACTAGTGGTA
*
97500031 AAATCTGCTCCATTGCTGATACATGGAGATAAGATT
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATT
97500067 TACTATTTTC
Statistics
Matches: 490, Mismatches: 60, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
173 50 0.10
174 264 0.54
175 82 0.17
176 57 0.12
177 36 0.07
178 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (173 bp):
AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCGATCTGATCCACTACTACTTAG
GGAAATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTAAAATCGC
CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGACTAGTGGTA
Found at i:97500587 original size:64 final size:64
Alignment explanation
Indices: 97500411--97500592 Score: 258
Period size: 64 Copynumber: 2.8 Consensus size: 64
97500401 ATGTTTATAC
** ** * * *
97500411 CAAATAATTAGGATGCTATGATTGAAATGAGCCCAATGCTCCTAACTAAATGAGATATTGATGT
1 CAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTGATATTGATGT
* * *
97500475 CAAATAATTAGGACGCTATGATCAAAATAAATCAAATGCTCCTAACTAGATGTGATGCTT-ATGT
1 CAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTGAT-ATTGATGT
97500539 CAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
1 CAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
97500593 TTATGAATGA
Statistics
Matches: 105, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
64 103 0.98
65 2 0.02
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (64 bp):
CAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTGATATTGATGT
Found at i:97500653 original size:17 final size:16
Alignment explanation
Indices: 97500623--97500655 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
97500613 CAAAAAATGA
97500623 AAATGATCTTTTTTTT
1 AAATGATCTTTTTTTT
97500639 AAATGATCTTTTTTTT
1 AAATGATCTTTTTTTT
97500655 A
1 A
97500656 TATGCTCAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (16 bp):
AAATGATCTTTTTTTT
Found at i:97502325 original size:28 final size:28
Alignment explanation
Indices: 97502286--97502349 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 28
97502276 TCACTATGAC
97502286 CTTTGTTTTATTATTTG-CTTTT-TCTTTT
1 CTTT-TTTTATT-TTTGACTTTTGTCTTTT
*
97502314 CTTTTTTCTATTTTTGAACTTTTGTTTTTT
1 CTTTTTT-TATTTTTG-ACTTTTGTCTTTT
97502344 CTTTTT
1 CTTTTT
97502350 GGATGCCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
27 7 0.23
28 8 0.26
29 5 0.16
30 11 0.35
ACGTcount: A:0.08, C:0.11, G:0.06, T:0.75
Consensus pattern (28 bp):
CTTTTTTTATTTTTGACTTTTGTCTTTT
Found at i:97504188 original size:48 final size:44
Alignment explanation
Indices: 97504108--97504228 Score: 154
Period size: 47 Copynumber: 2.6 Consensus size: 44
97504098 GAGGCCGATA
*
97504108 CATGTCCCAGACATGTCTTACACTAGCACTCATCTCAATGT-CGATG
1 CATGTCCCAGACATGTCTTACACTAGCACTCA--T-AATGTGCAATG
*
97504154 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCAATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCACTCATAATGT-G-CAATG
97504202 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
97504229 CTACAATAAT
Statistics
Matches: 68, Mismatches: 2, Indels: 9
0.86 0.03 0.11
Matches are distributed among these distances:
45 5 0.07
46 14 0.21
47 28 0.41
48 21 0.31
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.27
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCATAATGTGCAATG
Found at i:97505950 original size:22 final size:22
Alignment explanation
Indices: 97505925--97505968 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
97505915 GTACTTTCAT
97505925 TTACTATCTGATTTGCAAGTTG
1 TTACTATCTGATTTGCAAGTTG
*
97505947 TTACTGTCTGATTTGCAAGTTG
1 TTACTATCTGATTTGCAAGTTG
97505969 CCCGCTCCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.14, G:0.20, T:0.45
Consensus pattern (22 bp):
TTACTATCTGATTTGCAAGTTG
Found at i:97509496 original size:18 final size:18
Alignment explanation
Indices: 97509473--97509523 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
97509463 GAAGTCTAGG
97509473 AAATAAAAATAAATAGAA
1 AAATAAAAATAAATAGAA
*
97509491 AAAT-AAAATAAA-ATAA
1 AAATAAAAATAAATAGAA
97509507 AAATGAAAAATATAATA
1 AAAT-AAAAATA-AATA
97509524 AAATAGACTC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 7 0.25
17 8 0.29
18 10 0.36
19 2 0.07
20 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (18 bp):
AAATAAAAATAAATAGAA
Found at i:97509517 original size:7 final size:6
Alignment explanation
Indices: 97509473--97509518 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
97509463 GAAGTCTAGG
* *
97509473 AAATAA AAATAA ATAGAA AAAT-A AAAT-A AAATAA AAATGAA AAATA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAAT-AA AAATA
97509519 TAATAAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
5 10 0.29
6 18 0.53
7 6 0.18
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:97509527 original size:23 final size:22
Alignment explanation
Indices: 97509473--97509528 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 22
97509463 GAAGTCTAGG
*
97509473 AAATAAAAATAAATAGAAAAATA
1 AAAT-AAAATAAAAAGAAAAATA
97509496 AAATAAAATAAAAATGAAAAATA
1 AAATAAAATAAAAA-GAAAAATA
*
97509519 TAATAAAATA
1 AAATAAAATA
97509529 GACTCAATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 9 0.30
23 21 0.70
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.20
Consensus pattern (22 bp):
AAATAAAATAAAAAGAAAAATA
Found at i:97511231 original size:5 final size:5
Alignment explanation
Indices: 97511217--97511280 Score: 80
Period size: 5 Copynumber: 13.4 Consensus size: 5
97511207 CAAGATTAGT
* *
97511217 AAAT- AAATA AAAT- AAATA AAATA AAACA AAATA AAACA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA
*
97511265 AAAT- AAAGA AAATA AA
1 AAATA AAATA AAATA AA
97511281 TCAAATGGGG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
4 11 0.22
5 40 0.78
ACGTcount: A:0.80, C:0.03, G:0.02, T:0.16
Consensus pattern (5 bp):
AAATA
Found at i:97511231 original size:9 final size:9
Alignment explanation
Indices: 97511217--97511286 Score: 77
Period size: 9 Copynumber: 7.4 Consensus size: 9
97511207 CAAGATTAGT
97511217 AAATAAATA
1 AAATAAATA
97511226 AAATAAATA
1 AAATAAATA
*
97511235 AAATAAAACA
1 AAAT-AAATA
*
97511245 AAATAAAACA
1 AAAT-AAATA
97511255 AAATAAAATA
1 AAAT-AAATA
*
97511265 AAATAAAGA
1 AAATAAATA
*
97511274 AAATAAATC
1 AAATAAATA
97511283 AAAT
1 AAAT
97511287 GGGGGAAACT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
9 28 0.51
10 27 0.49
ACGTcount: A:0.77, C:0.04, G:0.01, T:0.17
Consensus pattern (9 bp):
AAATAAATA
Found at i:97523431 original size:92 final size:92
Alignment explanation
Indices: 97523295--97523488 Score: 286
Period size: 92 Copynumber: 2.1 Consensus size: 92
97523285 TTGATTTTAG
* *
97523295 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
*
97523359 TAT-TAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
97523386 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
97523451 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
97523479 CAAATTCATA
1 TAAATTCATA
97523489 AACTATAATC
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
91 17 0.18
92 43 0.46
93 30 0.32
94 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:97523536 original size:48 final size:52
Alignment explanation
Indices: 97523466--97523564 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 52
97523456 AATAATTATT
97523466 ATTTTAAATTATACAAATTCATA-AACT-A-T-AATCATATTAGTTATAATA
1 ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
* * **
97523514 ATTTTAAATTTTATTAAA-TCATATATTTAATTAAATCATATTAGTTATAAT
1 ATTTTAAATTATA-CAAATTCATATAACTAATTAAATCATATTAGTTATAAT
97523565 CATATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
48 17 0.40
49 5 0.12
50 1 0.02
51 1 0.02
52 18 0.43
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (52 bp):
ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
Found at i:97523546 original size:17 final size:17
Alignment explanation
Indices: 97523521--97523554 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
97523511 ATAATTTTAA
*
97523521 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
97523538 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
97523555 TAGTTATAAT
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:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:97523571 original size:17 final size:16
Alignment explanation
Indices: 97523526--97523573 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
97523516 TTTAAATTTT
97523526 ATTAAATCATATATTTA
1 ATTAAATCATATA-TTA
97523543 ATTAAATC--ATATTA
1 ATTAAATCATATATTA
*
97523557 GTTATAATCATATATTA
1 ATTA-AATCATATATTA
97523574 TGATTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
17 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAAATCATATATTA
Found at i:97523645 original size:18 final size:17
Alignment explanation
Indices: 97523614--97523648 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
97523604 ATTATTAAGA
97523614 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
97523631 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
97523649 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:97523714 original size:129 final size:130
Alignment explanation
Indices: 97523561--97523794 Score: 416
Period size: 129 Copynumber: 1.8 Consensus size: 130
97523551 ATATTAGTTA
*
97523561 TAATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 TAATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
* *
97523626 TATATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTTACAGTATCATATT
66 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTATTTTATATTTTACAGTATCATATT
*
97523691 TAATAATA-ATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 TAATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
*
97523755 TATATATTTTAATTAAAATATATTTAATAGTAATTATGTT
66 TATATATTTTAATTAAAATATATTTAATAATAATTATGTT
97523795 TAAATATGAT
Statistics
Matches: 99, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
129 92 0.93
130 7 0.07
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (130 bp):
TAATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
TATATATTTTAATTAAAATATATTTAATAATAATTATGTTATTTTATATTTTACAGTATCATATT
Found at i:97523771 original size:18 final size:17
Alignment explanation
Indices: 97523743--97523777 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
97523733 ATTATTAAGA
*
97523743 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
97523760 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
97523778 TTAATAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:97523898 original size:124 final size:127
Alignment explanation
Indices: 97523752--97523982 Score: 396
Period size: 124 Copynumber: 1.8 Consensus size: 127
97523742 AATTTTATTA
* *
97523752 AATTATATATTTTAATTAAAATATATTTAATAGTAATTATGTTTAAATATGATTAAATTATTTAT
1 AATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAAATATGATTAAATTATTTAT
97523817 TATTGAT-AT-TAATCTTATTAAAATTTAAATAA-AATAATTTACCAAAACAAATTTCTGCT
66 TATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTACCAAAACAAATTTCTGCT
97523876 AATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAAATATGATTAAATTATTTAT
1 AATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAAATATGATTAAATTATTTAT
*
97523941 TTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 TATTGATAAT--ATAATCTTATTAAAATTTAAATAACAATAA
97523983 CAATAATCAT
Statistics
Matches: 99, Mismatches: 3, Indels: 5
0.93 0.03 0.05
Matches are distributed among these distances:
124 69 0.70
125 2 0.02
128 23 0.23
129 5 0.05
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (127 bp):
AATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAAATATGATTAAATTATTTAT
TATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTACCAAAACAAATTTCTGCT
Found at i:97524112 original size:44 final size:45
Alignment explanation
Indices: 97524063--97524157 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
97524053 TTACACCTCT
* *
97524063 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
97524107 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
97524152 ATTACA
1 ATTACA
97524158 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:97524157 original size:16 final size:16
Alignment explanation
Indices: 97524138--97524205 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
97524128 GATTTGCTAT
* *
97524138 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
97524154 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
97524170 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
97524186 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
97524202 TACA
1 TACA
97524206 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:97525239 original size:18 final size:16
Alignment explanation
Indices: 97525197--97525234 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
97525187 TATGTCTCAA
97525197 ATTTTTCAAAAATTAT
1 ATTTTTCAAAAATTAT
*
97525213 ATTTTTCAAAAATTAC
1 ATTTTTCAAAAATTAT
97525229 ATTTTT
1 ATTTTT
97525235 TTCAATAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTTTCAAAAATTAT
Found at i:97533018 original size:12 final size:13
Alignment explanation
Indices: 97533001--97533029 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
97532991 TAATCATACC
97533001 AAAAATA-AAAAT
1 AAAAATATAAAAT
97533013 AAAAATATAAAAT
1 AAAAATATAAAAT
97533026 AAAA
1 AAAA
97533030 CCTTCGTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAATATAAAAT
Found at i:97540078 original size:18 final size:18
Alignment explanation
Indices: 97540057--97540092 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
97540047 ATTCGGGTAA
97540057 AACCGAAAAAATTCGATT
1 AACCGAAAAAATTCGATT
**
97540075 AACCGACCAAATTCGATT
1 AACCGAAAAAATTCGATT
97540093 TATCAGTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.22
Consensus pattern (18 bp):
AACCGAAAAAATTCGATT
Found at i:97540317 original size:18 final size:18
Alignment explanation
Indices: 97540294--97540329 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
97540284 TAATATATAT
97540294 TAACCCAAGTACCCAACC
1 TAACCCAAGTACCCAACC
*
97540312 TAACCCAATTACCCAACC
1 TAACCCAAGTACCCAACC
97540330 CAATCATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.44, G:0.03, T:0.14
Consensus pattern (18 bp):
TAACCCAAGTACCCAACC
Found at i:97540446 original size:18 final size:18
Alignment explanation
Indices: 97540397--97540447 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
97540387 TTTTATACAA
*
97540397 ATAATTCAGTTAATTCAG
1 ATAATTCGGTTAATTCAG
* * * *
97540415 TTAATTTGGGTAATTCGG
1 ATAATTCGGTTAATTCAG
97540433 ATAATTCGGTTAATT
1 ATAATTCGGTTAATT
97540448 TTATACTTAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (18 bp):
ATAATTCGGTTAATTCAG
Found at i:97543208 original size:312 final size:313
Alignment explanation
Indices: 97542631--97543214 Score: 757
Period size: 312 Copynumber: 1.9 Consensus size: 313
97542621 TTACAAATTT
* * * *
97542631 ACTCAACACCAACTTAGGATTGATGATCACACCTTGATACATAATTGTATTCATTTAGTGATCAT
1 ACTCAACACCAACTTAGAATTGATGATCACACATTGATAAATAATTGTATTAATTTAGTGATCAT
** * * *
97542696 AATCTGATGTATTCACATGTTTACGTTTTATTTTACTTATAATTTACTCTATTGTTTATTTTAAT
66 AATCTGATGTATTCACATGTTTAAATTTCATTTTACTTACAATTAACTCTATTGTTTATTTTAAT
* * *
97542761 ATCGTACGTATTTCATGTGTTGTTATTGTTAATTAGTTTCAAATCATACATTTTATTATTTATTG
131 ATCATACATATTTCA-GTGTTGTTATTATTAATTAGTTTCAAATCATACATTTTATTATTTATTG
* * * * * * *** *
97542826 TATGTTATTTTTAAATACAAATTTGTGTTCTAAATATATGATTTCCACACGCATACGTTTGTGAT
195 TATGTTATTTTCAAACACAAATTTATATTCTAAATACATGATTTCCACACACATACACGTATGAT
*
97542891 AGAGTTTTTAGTATAGATTAATAATGTTGTTGATTGAGATGGTGTCATAGATAA
260 AGAGTTTCTAGTATAGATTAATAATGTTGTTGATTGAGATGGTGTCATAGATAA
* * *
97542945 ACTCAAGACCAACTTAGAATTGATGA-CAACACATTGATAAATAATTGTTTTAATTTAGTGATCT
1 ACTCAACACCAACTTAGAATTGATGATC-ACACATTGATAAATAATTGTATTAATTTAGTGATCA
* * * * * *
97543009 TATTTTGATGTATTCGA-GTGTTTAAATTTCGTTTTACTTACAACTTAAGCT-TTTTTTTTATTT
65 TAATCTGATGTATTC-ACATGTTTAAATTTCATTTTACTTACAA-TTAA-CTCTATTGTTTATTT
*
97543072 TAATATCATATATATTTCA-TG-TGTTATTATTAATTAGTTTCAAATCATACATTTTATTATTTA
127 TAATATCATACATATTTCAGTGTTGTTATTATTAATTAGTTTCAAATCATACATTTTATTATTTA
*
97543135 TTGTATGTTATTTTCAAACACAAATTTATATTCTAAATACATTG-TTTCCTCACACATACACGTA
192 TTGTATGTTATTTTCAAACACAAATTTATATTCTAAATACA-TGATTTCCACACACATACACGTA
*
97543199 TGCTAGAGTTTCTAGT
256 TGATAGAGTTTCTAGT
97543215 TTTCACTAAA
Statistics
Matches: 230, Mismatches: 35, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
312 105 0.46
313 5 0.02
314 88 0.38
315 30 0.13
316 2 0.01
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (313 bp):
ACTCAACACCAACTTAGAATTGATGATCACACATTGATAAATAATTGTATTAATTTAGTGATCAT
AATCTGATGTATTCACATGTTTAAATTTCATTTTACTTACAATTAACTCTATTGTTTATTTTAAT
ATCATACATATTTCAGTGTTGTTATTATTAATTAGTTTCAAATCATACATTTTATTATTTATTGT
ATGTTATTTTCAAACACAAATTTATATTCTAAATACATGATTTCCACACACATACACGTATGATA
GAGTTTCTAGTATAGATTAATAATGTTGTTGATTGAGATGGTGTCATAGATAA
Found at i:97545618 original size:3 final size:3
Alignment explanation
Indices: 97545610--97545642 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
97545600 TGTGTTATTT
97545610 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
97545643 AACATAAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:97547661 original size:48 final size:48
Alignment explanation
Indices: 97547596--97547697 Score: 204
Period size: 48 Copynumber: 2.1 Consensus size: 48
97547586 ACTAGCCAAT
97547596 TTTGTAATTTGATGGAAATTTTATTTATGTTGCGTTTTGTATAATTTC
1 TTTGTAATTTGATGGAAATTTTATTTATGTTGCGTTTTGTATAATTTC
97547644 TTTGTAATTTGATGGAAATTTTATTTATGTTGCGTTTTGTATAATTTC
1 TTTGTAATTTGATGGAAATTTTATTTATGTTGCGTTTTGTATAATTTC
97547692 TTTGTA
1 TTTGTA
97547698 TATAAATTGT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.23, C:0.04, G:0.17, T:0.57
Consensus pattern (48 bp):
TTTGTAATTTGATGGAAATTTTATTTATGTTGCGTTTTGTATAATTTC
Found at i:97553119 original size:77 final size:77
Alignment explanation
Indices: 97553031--97553185 Score: 301
Period size: 77 Copynumber: 2.0 Consensus size: 77
97553021 AATAGAGAAT
97553031 GACTAAAGTATTTGATTTTAAAGAATATAATAATTAAATTAAAAAAATTATAATTAAGTGACTAA
1 GACTAAAGTATTTGATTTTAAAGAATATAATAATTAAATTAAAAAAATTATAATTAAGTGACTAA
*
97553096 AATAGAATGAAA
66 AATAGAAGGAAA
97553108 GACTAAAGTATTTGATTTTAAAGAATATAATAATTAAATTAAAAAAATTATAATTAAGTGACTAA
1 GACTAAAGTATTTGATTTTAAAGAATATAATAATTAAATTAAAAAAATTATAATTAAGTGACTAA
97553173 AATAGAAGGAAA
66 AATAGAAGGAAA
97553185 G
1 G
97553186 TAATAATTTA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.54, C:0.03, G:0.12, T:0.32
Consensus pattern (77 bp):
GACTAAAGTATTTGATTTTAAAGAATATAATAATTAAATTAAAAAAATTATAATTAAGTGACTAA
AATAGAAGGAAA
Found at i:97561395 original size:34 final size:34
Alignment explanation
Indices: 97561352--97561464 Score: 181
Period size: 34 Copynumber: 3.3 Consensus size: 34
97561342 TATACGAATC
**
97561352 TCAAATCAGAATGTCATATTACCAGAAACATATA
1 TCAAATCAGAATGTCATATTTTCAGAAACATATA
97561386 TCAAATCAGAATGTCATATTTTCAGAAACATATA
1 TCAAATCAGAATGTCATATTTTCAGAAACATATA
* *
97561420 CCAGATCAGAATGTCATATTTTCAGAAACATATA
1 TCAAATCAGAATGTCATATTTTCAGAAACATATA
*
97561454 TCATATCAGAA
1 TCAAATCAGAA
97561465 CAAATCCTAC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 73 1.00
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (34 bp):
TCAAATCAGAATGTCATATTTTCAGAAACATATA
Found at i:97562416 original size:33 final size:33
Alignment explanation
Indices: 97562379--97562445 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
97562369 AAGTACTTAA
97562379 GTAAAAATTATTCCCTAATTAGTATAGTGGGAC
1 GTAAAAATTATTCCCTAATTAGTATAGTGGGAC
97562412 GTAAAAATTATTCCCTAATTAGTATAGTGGGAC
1 GTAAAAATTATTCCCTAATTAGTATAGTGGGAC
97562445 G
1 G
97562446 GCAATTTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (33 bp):
GTAAAAATTATTCCCTAATTAGTATAGTGGGAC
Found at i:97563341 original size:38 final size:38
Alignment explanation
Indices: 97563290--97563371 Score: 130
Period size: 38 Copynumber: 2.2 Consensus size: 38
97563280 AGAAACGCGG
* *
97563290 TGATATTCGGGCTCCGTGCTTAGCAAGCTTTGTGCCGA
1 TGATATTCGGGCTCCATGCCTAGCAAGCTTTGTGCCGA
*
97563328 TGATATTCGGGCTCCATGCCTAGCAGGCTTTGTGCCGA
1 TGATATTCGGGCTCCATGCCTAGCAAGCTTTGTGCCGA
97563366 TG-TATT
1 TGATATT
97563372 ATATCAAACT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 4 0.10
38 37 0.90
ACGTcount: A:0.16, C:0.23, G:0.28, T:0.33
Consensus pattern (38 bp):
TGATATTCGGGCTCCATGCCTAGCAAGCTTTGTGCCGA
Found at i:97563461 original size:41 final size:41
Alignment explanation
Indices: 97563300--97563463 Score: 172
Period size: 41 Copynumber: 4.1 Consensus size: 41
97563290 TGATATTCGG
* * * * **
97563300 GCTCCGTGCTTAGCAAGCTTTGTGCCGATG-A-TAT-TCGG
1 GCTCCATGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAA
*
97563338 GCTCCATGCCTAGCAGGCTTTGTGCCGATGTATTATATCAA
1 GCTCCATGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAA
* * * **
97563379 ACTTCATGCCTAGCAGGATTTGTAACGGTGTATTATATCAA
1 GCTCCATGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAA
* * *
97563420 GCTCCCTGCCTAGCAGGCTTCGTGCCGGTGTGTTATATCAA
1 GCTCCATGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAA
97563461 GCT
1 GCT
97563464 TTGAGCGTAG
Statistics
Matches: 104, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
38 27 0.26
39 1 0.01
40 3 0.03
41 73 0.70
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (41 bp):
GCTCCATGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAA
Found at i:97563926 original size:21 final size:21
Alignment explanation
Indices: 97563900--97563940 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
97563890 ATATGTGAGA
97563900 AATTTA-CTTAAGTTATGGATG
1 AATTTATC-TAAGTTATGGATG
*
97563921 AATTTATCTAGGTTATGGAT
1 AATTTATCTAAGTTATGGAT
97563941 AAATACACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.44
Consensus pattern (21 bp):
AATTTATCTAAGTTATGGATG
Found at i:97566870 original size:49 final size:49
Alignment explanation
Indices: 97566817--97566991 Score: 251
Period size: 49 Copynumber: 3.5 Consensus size: 49
97566807 CTGGTACGCA
97566817 TAGTAGCCTGCACTTAGTACTACACATGCGAACAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGAACAATTATCCGGTACACG
* * * * * *
97566866 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGAAC-AA-TTATCCGGTACACG
* *
97566917 TAGTAGCCTGCACTTAGTACCACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGAACAATTATCCGGTACACG
*
97566966 TAGTACCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
97566992 CGGGACCTCA
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 65 0.60
50 4 0.04
51 40 0.37
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGAACAATTATCCGGTACACG
Found at i:97566944 original size:100 final size:100
Alignment explanation
Indices: 97566804--97566993 Score: 344
Period size: 100 Copynumber: 1.9 Consensus size: 100
97566794 TAGATAAGGC
* *
97566804 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGAACAATTATCCGGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACCACACATGCGAACAATTATCCGGTACACGTAG
*
97566869 TAGCCTGCACTTAGTACTACACACGTGATCGAAGT
66 TACCCTGCACTTAGTACTACACACGTGATCGAAGT
*
97566904 TATCGGGTACGCATAGTAGCCTGCACTTAGTACCACACATGCGACCAATTATCCGGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACCACACATGCGAACAATTATCCGGTACACGTAG
97566969 TACCCTGCACTTAGTACTACACACG
66 TACCCTGCACTTAGTACTACACACG
97566994 GGACCTCACA
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 86 1.00
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (100 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAGTACCACACATGCGAACAATTATCCGGTACACGTAG
TACCCTGCACTTAGTACTACACACGTGATCGAAGT
Found at i:97569298 original size:22 final size:22
Alignment explanation
Indices: 97569270--97569313 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
97569260 ACATCAAGTT
97569270 TACCATTC-TCTGCAATCTTGGA
1 TACCATTCAT-TGCAATCTTGGA
97569292 TACCATTCATTGCAATCTTGGA
1 TACCATTCATTGCAATCTTGGA
97569314 CACTAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (22 bp):
TACCATTCATTGCAATCTTGGA
Found at i:97570123 original size:41 final size:40
Alignment explanation
Indices: 97570020--97570134 Score: 128
Period size: 41 Copynumber: 2.9 Consensus size: 40
97570010 CCTCATCGGA
* * **
97570020 TAATTCGAAGTAATAAATTGACACCCAGTTTCTCATCGGC
1 TAATCCGAAGTAATAAATTGACACCCAGTGTCTCATCAAC
* * * *
97570060 TAAACCGAAG---TAAATTGGCACCCAGTGCCTCATCAAAT
1 TAATCCGAAGTAATAAATTGACACCCAGTGTCTCATC-AAC
97570098 TAATCCGAAGTAATAAATTGACACCCAGTGTCTCATC
1 TAATCCGAAGTAATAAATTGACACCCAGTGTCTCATC
97570135 GACTCAAAGT
Statistics
Matches: 60, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
37 21 0.35
38 9 0.15
40 8 0.13
41 22 0.37
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (40 bp):
TAATCCGAAGTAATAAATTGACACCCAGTGTCTCATCAAC
Found at i:97570977 original size:21 final size:20
Alignment explanation
Indices: 97570953--97571002 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 20
97570943 GCTTTTCTCC
97570953 TTCTTTCTTTCTCTTCTTCT-T
1 TTCTTTCTTTC-CTTC-TCTGT
97570974 TTCTTTCTTTCCTTCTCTGT
1 TTCTTTCTTTCCTTCTCTGT
97570994 TTCGTTTCT
1 TTC-TTTCT
97571003 ACATTTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.11
20 8 0.30
21 16 0.59
ACGTcount: A:0.00, C:0.28, G:0.04, T:0.68
Consensus pattern (20 bp):
TTCTTTCTTTCCTTCTCTGT
Found at i:97570988 original size:17 final size:18
Alignment explanation
Indices: 97570950--97570989 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
97570940 CTAGCTTTTC
97570950 TCCTTC-TTTCTTTCTCT
1 TCCTTCTTTTCTTTCTCT
97570967 T-CTTCTTTTCTTTCT-T
1 TCCTTCTTTTCTTTCTCT
97570983 TCCTTCT
1 TCCTTCT
97570990 CTGTTTCGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (18 bp):
TCCTTCTTTTCTTTCTCT
Found at i:97571001 original size:25 final size:25
Alignment explanation
Indices: 97570953--97571002 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
97570943 GCTTTTCTCC
* *
97570953 TTCTTTCTTTCTCTTCTTCTTTTCT
1 TTCTTTCCTTCTCTTCTTCGTTTCT
97570978 TTCTTTCCTTCTCTGT-TTCGTTTCT
1 TTCTTTCCTTCTCT-TCTTCGTTTCT
97571003 ACATTTGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.00, C:0.28, G:0.04, T:0.68
Consensus pattern (25 bp):
TTCTTTCCTTCTCTTCTTCGTTTCT
Found at i:97571029 original size:12 final size:12
Alignment explanation
Indices: 97571014--97571041 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
97571004 CATTTGTTTC
97571014 TTTTTCTATTTA
1 TTTTTCTATTTA
97571026 TTTTTCTATTTA
1 TTTTTCTATTTA
97571038 TTTT
1 TTTT
97571042 GTTTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTCTATTTA
Found at i:97571041 original size:11 final size:11
Alignment explanation
Indices: 97571015--97571061 Score: 53
Period size: 10 Copynumber: 4.3 Consensus size: 11
97571005 ATTTGTTTCT
97571015 TTTTCTATTTA
1 TTTTCTATTTA
97571026 TTTTTCTATTTA
1 -TTTTCTATTTA
*
97571038 TTTTGT-TTTA
1 TTTTCTATTTA
97571048 TTTT-TATTTCA
1 TTTTCTATTT-A
97571059 TTT
1 TTT
97571062 ACTTATTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
9 1 0.03
10 11 0.34
11 9 0.28
12 11 0.34
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTTCTATTTA
Found at i:97577840 original size:23 final size:23
Alignment explanation
Indices: 97577814--97577868 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
97577804 ATTTTCATAT
97577814 AATCATATATACATATAAATTCA
1 AATCATATATACATATAAATTCA
97577837 AATCATATATACATATAAATTCA
1 AATCATATATACATATAAATTCA
*
97577860 ACTCA-ATAT
1 AATCATATAT
97577869 TAAAATGTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 4 0.13
23 27 0.87
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.35
Consensus pattern (23 bp):
AATCATATATACATATAAATTCA
Found at i:97578546 original size:21 final size:20
Alignment explanation
Indices: 97578520--97578569 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 20
97578510 ACTTTTCTCC
97578520 TTCTTTCTTTCTCATTTTCT-T
1 TTCTTTCTTTC-C-TTTTCTAT
97578541 TTCTTTCTTTCCTTTTCTAT
1 TTCTTTCTTTCCTTTTCTAT
97578561 TTCATTTCT
1 TTC-TTTCT
97578570 ACATTTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.22
20 5 0.19
21 16 0.59
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.70
Consensus pattern (20 bp):
TTCTTTCTTTCCTTTTCTAT
Found at i:97579406 original size:25 final size:25
Alignment explanation
Indices: 97579340--97579451 Score: 95
Period size: 25 Copynumber: 4.6 Consensus size: 25
97579330 AGCACTCTCT
97579340 TGAGCCATATAACGGGAAGCTCATG
1 TGAGCCATATAACGGGAAGCTCATG
* * *
97579365 TGATCCATGTAATGGGAAGCTCAT-
1 TGAGCCATATAACGGGAAGCTCATG
* * *
97579389 TCGGGCTATATAACGGGAAGCTCATA
1 T-GAGCCATATAACGGGAAGCTCATG
* * * **
97579415 AGAGCCATA-ATCAGGAAGCTTGTG
1 TGAGCCATATAACGGGAAGCTCATG
97579439 TGAGCCAT-TAACG
1 TGAGCCATATAACG
97579452 AGTAGCTCCG
Statistics
Matches: 65, Mismatches: 19, Indels: 7
0.71 0.21 0.08
Matches are distributed among these distances:
24 20 0.31
25 45 0.69
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (25 bp):
TGAGCCATATAACGGGAAGCTCATG
Found at i:97579555 original size:26 final size:25
Alignment explanation
Indices: 97579525--97579594 Score: 77
Period size: 27 Copynumber: 2.7 Consensus size: 25
97579515 AGCCATATCG
*
97579525 GGAAGCTCACAAAGAGCCTTTAATC
1 GGAAGCTCACAAAGAGCCTTTAAAC
* *
97579550 AGGAAGTTCATGAAAGAGCCTTTAAAC
1 -GGAAGCTCA-CAAAGAGCCTTTAAAC
*
97579577 GAAAAGCTCACAAAGAGC
1 G-GAAGCTCACAAAGAGC
97579595 TAAGGTGTGC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
26 16 0.44
27 20 0.56
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.17
Consensus pattern (25 bp):
GGAAGCTCACAAAGAGCCTTTAAAC
Found at i:97580058 original size:21 final size:21
Alignment explanation
Indices: 97580034--97580075 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
97580024 GAATTTAGCA
97580034 TCAATTCAATACAATTCACAT
1 TCAATTCAATACAATTCACAT
* * *
97580055 TCAATTCCATTCATTTCACAT
1 TCAATTCAATACAATTCACAT
97580076 CTTAGGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.26, G:0.00, T:0.38
Consensus pattern (21 bp):
TCAATTCAATACAATTCACAT
Found at i:97585798 original size:34 final size:35
Alignment explanation
Indices: 97585740--97585806 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
97585730 CAAACACCAG
* * *
97585740 AAAATATTTTCCTGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
97585775 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
97585807 TATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:97587530 original size:4 final size:4
Alignment explanation
Indices: 97587523--97587572 Score: 100
Period size: 4 Copynumber: 12.5 Consensus size: 4
97587513 ACATACATTA
97587523 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
97587571 AT
1 AT
97587573 AGAGGAGTGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:97594735 original size:29 final size:29
Alignment explanation
Indices: 97594669--97594735 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 29
97594659 ACCTAATCAT
* * *
97594669 AATTATATTTATAATTTATTTATTATTACA
1 AATTAT-TTTATAATTAAGTAATTATTACA
* *
97594699 AATATATTTTATAATTAAGTAATTTTTAGA
1 AAT-TATTTTATAATTAAGTAATTATTACA
97594729 AATTATT
1 AATTATT
97594736 ATTTTTATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 4 0.13
30 24 0.77
31 3 0.10
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (29 bp):
AATTATTTTATAATTAAGTAATTATTACA
Found at i:97609577 original size:14 final size:14
Alignment explanation
Indices: 97609558--97609587 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
97609548 AATCAAATTC
97609558 TTTTTTTTCTTTTT
1 TTTTTTTTCTTTTT
*
97609572 TTTTTTTTGTTTTT
1 TTTTTTTTCTTTTT
97609586 TT
1 TT
97609588 CATGTATAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.03, G:0.03, T:0.93
Consensus pattern (14 bp):
TTTTTTTTCTTTTT
Found at i:97612388 original size:3 final size:3
Alignment explanation
Indices: 97612380--97612410 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
97612370 TGGCCATTGG
97612380 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
97612411 CTCACTATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:97617300 original size:22 final size:21
Alignment explanation
Indices: 97617272--97617321 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
97617262 TGTATAAAAT
97617272 TATAAATA-TTAAAATAATATAA
1 TATAAATATTTAAAA-AA-ATAA
97617294 TATAAATATTTTAAAAAAATAA
1 TATAAATA-TTTAAAAAAATAA
97617316 TATAAA
1 TATAAA
97617322 ATGGGCATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 18 0.69
23 2 0.08
24 6 0.23
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
TATAAATATTTAAAAAAATAA
Found at i:97619996 original size:54 final size:55
Alignment explanation
Indices: 97619882--97619985 Score: 158
Period size: 54 Copynumber: 1.9 Consensus size: 55
97619872 GAAGTTGGGG
* *
97619882 CACACGGTCGTG-CCCTAGCCCGTGTCTCTACCCGTGTAACTCATTGACTTAAGA
1 CACACAGTCGTGTCCCTAGCCCGTGTCTCTACCCGTGTAACTCACTGACTTAAGA
* *
97619936 CACACAGTCGTGTCCC-AGCCCGTGTCTCTACTCGTTTAACTCACTGACTT
1 CACACAGTCGTGTCCCTAGCCCGTGTCTCTACCCGTGTAACTCACTGACTT
97619986 GGGTTACACA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
54 42 0.93
55 3 0.07
ACGTcount: A:0.19, C:0.35, G:0.18, T:0.28
Consensus pattern (55 bp):
CACACAGTCGTGTCCCTAGCCCGTGTCTCTACCCGTGTAACTCACTGACTTAAGA
Found at i:97624983 original size:23 final size:23
Alignment explanation
Indices: 97624951--97625001 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
97624941 AAGTTATGAG
*
97624951 TCTGGTAATGCCTCTTAACCTAT
1 TCTGGGAATGCCTCTTAACCTAT
97624974 TCTGGGAATGCCTCTTAACCTAT
1 TCTGGGAATGCCTCTTAACCTAT
97624997 TCTGG
1 TCTGG
97625002 CAACGGATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (23 bp):
TCTGGGAATGCCTCTTAACCTAT
Found at i:97626675 original size:2 final size:2
Alignment explanation
Indices: 97626668--97626702 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
97626658 CTTTATATCT
97626668 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
97626703 ATAACTATAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:97627023 original size:5 final size:5
Alignment explanation
Indices: 97627015--97627086 Score: 85
Period size: 5 Copynumber: 14.4 Consensus size: 5
97627005 TTTATTTATA
* *
97627015 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT TTAAA AT-AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
*
97627064 GAT-AT AATAAT ATAAT TTAAT AT
1 -ATAAT -ATAAT ATAAT ATAAT AT
97627087 TTAACCAACA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
4 1 0.02
5 55 0.95
6 2 0.03
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (5 bp):
ATAAT
Found at i:97627046 original size:25 final size:25
Alignment explanation
Indices: 97627015--97627086 Score: 94
Period size: 25 Copynumber: 2.9 Consensus size: 25
97627005 TTTATTTATA
*
97627015 ATAATATAATATAATATAATATAAT-
1 ATAATATAATATAATTTAATAT-ATG
*
97627040 ATAATATAATATAATTTAAAATATG
1 ATAATATAATATAATTTAATATATG
97627065 AT-ATAATAATATAATTTAATAT
1 ATAAT-ATAATATAATTTAATAT
97627087 TTAACCAACA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
24 4 0.10
25 38 0.90
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (25 bp):
ATAATATAATATAATTTAATATATG
Found at i:97631618 original size:48 final size:48
Alignment explanation
Indices: 97631554--97631672 Score: 115
Period size: 47 Copynumber: 2.5 Consensus size: 48
97631544 TACAATATAT
*
97631554 TACCAT-C-CGGAGTGGCCTGACAA-TGATGGTCTCTCTATTTCAAT-ATTC
1 TACCATCCTCGGA-TGGCCTGACAACT-ATGG-CTCTCTAATTCAATCA-TC
* * *
97631602 TATCA-CCTCGGATGGCCCGACAACTATGGGTCTCTAATTCAATCATC
1 TACCATCCTCGGATGGCCTGACAACTATGGCTCTCTAATTCAATCATC
*
97631649 TACCATCCT-GTATGGCCTGACAAC
1 TACCATCCTCGGATGGCCTGACAAC
97631673 GATAGCTTTC
Statistics
Matches: 59, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
47 31 0.53
48 23 0.39
49 5 0.08
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (48 bp):
TACCATCCTCGGATGGCCTGACAACTATGGCTCTCTAATTCAATCATC
Found at i:97632870 original size:26 final size:26
Alignment explanation
Indices: 97632841--97632894 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
97632831 AGGTGAAACT
97632841 AGTTTAATTCAAAGTAATTAGTAAAA
1 AGTTTAATTCAAAGTAATTAGTAAAA
*
97632867 AGTTTAATTCAGAGTAATTAGTAAAA
1 AGTTTAATTCAAAGTAATTAGTAAAA
97632893 AG
1 AG
97632895 GACTAGATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.48, C:0.04, G:0.15, T:0.33
Consensus pattern (26 bp):
AGTTTAATTCAAAGTAATTAGTAAAA
Found at i:97632907 original size:26 final size:25
Alignment explanation
Indices: 97632853--97632909 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
97632843 TTTAATTCAA
**
97632853 AGTAATTAGTAAAAAGTTTAATTCAG
1 AGTAATTAGTAAAAAGACTAATT-AG
97632879 AGTAATTAGTAAAAAGGACTAGATT-G
1 AGTAATTAGTAAAAA-GACTA-ATTAG
97632905 AGTAA
1 AGTAA
97632910 AGGTTAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 21 0.78
27 3 0.11
28 3 0.11
ACGTcount: A:0.47, C:0.04, G:0.19, T:0.30
Consensus pattern (25 bp):
AGTAATTAGTAAAAAGACTAATTAG
Found at i:97633948 original size:17 final size:18
Alignment explanation
Indices: 97633928--97633961 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
97633918 TAAAAGAGTT
*
97633928 AATTA-GGATTAAATTGG
1 AATTAGGGAATAAATTGG
97633945 AATTAGGGAATAAATTG
1 AATTAGGGAATAAATTG
97633962 AATAAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (18 bp):
AATTAGGGAATAAATTGG
Found at i:97634520 original size:27 final size:27
Alignment explanation
Indices: 97634462--97634521 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
97634452 AATGCTTTAT
*
97634462 TGGTGTGTTTGGGAGGATATGATATAC
1 TGGTGTATTTGGGAGGATATGATATAC
*
97634489 CGGTGTATTTGGGA-GACTAT-ATTATAC
1 TGGTGTATTTGGGAGGA-TATGA-TATAC
97634516 TGGTGT
1 TGGTGT
97634522 GTTATGGAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.11
27 25 0.89
ACGTcount: A:0.22, C:0.07, G:0.33, T:0.38
Consensus pattern (27 bp):
TGGTGTATTTGGGAGGATATGATATAC
Found at i:97640796 original size:19 final size:20
Alignment explanation
Indices: 97640732--97640805 Score: 89
Period size: 20 Copynumber: 3.6 Consensus size: 20
97640722 CTCTTTCAAC
97640732 AAAAATTACAAAATAATTT-T
1 AAAAATT-CAAAATAATTTAT
*
97640752 CAAAAATTCAAAATAATTTTT
1 -AAAAATTCAAAATAATTTAT
*
97640773 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTTAT
97640792 AAAAATTCCAAAAT
1 AAAAATT-CAAAAT
97640806 TTATATTTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.23
20 29 0.60
21 8 0.17
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTAT
Found at i:97640840 original size:8 final size:9
Alignment explanation
Indices: 97640815--97640850 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
97640805 TTTATATTTT
97640815 TTTTAAAAA
1 TTTTAAAAA
97640824 TTTTAAAAA
1 TTTTAAAAA
*
97640833 TTTTAAAAT
1 TTTTAAAAA
97640842 TTTCTAAAA
1 TTT-TAAAA
97640851 TAAATATTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 20 0.80
10 5 0.20
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:97646949 original size:18 final size:19
Alignment explanation
Indices: 97646926--97646971 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
97646916 TTTTCTTTAT
*
97646926 ATTTTATACTTTTAA-ATA
1 ATTTTAAACTTTTAATATA
*
97646944 ATTTTAAAATTTTTAATATA
1 ATTTT-AAACTTTTAATATA
97646964 ATTTTAAA
1 ATTTTAAA
97646972 AAAAATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.21
19 11 0.46
20 8 0.33
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTAAACTTTTAATATA
Done.