Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 116 of 185
Found at i:36071811 original size:65 final size:64
Alignment explanation
Indices: 36071742--36071929 Score: 159
Period size: 64 Copynumber: 2.9 Consensus size: 64
36071732 ATGAATTATA
* * * * *
36071742 TATATATGCACATATGGTTCGAATATATATATT-TAAAG-TTCTTGAGCTGTATTTAATGTATGA
1 TATATATACACATATGGTTC-AA-ATATAGATTACAAAGTTTC-TGAGCGGAATTTAATGTATGA
36071805 AT
63 AT
* * *
36071807 TATATATACATATGTGGTTCAAATATAGGTTACAAAGTTTCTGAGCGGAATTTAATGTATGAAT
1 TATATATACACATATGGTTCAAATATAGATTACAAAGTTTCTGAGCGGAATTTAATGTATGAAT
* * * * * * *
36071871 TTTACATACATATGTGGTT-AGAATATAGGTTACAAA-TTCTTTGAGCTGAAATTTAATGT
1 TATATATACACATATGGTTCA-AATATAGATTACAAAGTT-TCTGAGC-GGAATTTAATGT
36071930 TGTAAATTAT
Statistics
Matches: 106, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
63 10 0.09
64 65 0.61
65 31 0.29
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (64 bp):
TATATATACACATATGGTTCAAATATAGATTACAAAGTTTCTGAGCGGAATTTAATGTATGAAT
Found at i:36071863 original size:64 final size:66
Alignment explanation
Indices: 36071780--36071956 Score: 214
Period size: 64 Copynumber: 2.8 Consensus size: 66
36071770 ATATTTAAAG
*
36071780 TTCT-TGAGCTG-TATTTAATGTATGAATTATATATACATATGTGGTTCA-AATATAGGTTACAA
1 TTCTCTGAGCTGAAATTTAATGTATGAATTATATATACATATGTGGTTCAGAATATAGGTTACAA
36071842 A
66 A
* * *
36071843 GTT-TCTGAGC-GGAATTTAATGTATGAATTTTACATACATATGTGGTT-AGAATATAGGTTACA
1 -TTCTCTGAGCTGAAATTTAATGTATGAATTATATATACATATGTGGTTCAGAATATAGGTTACA
36071905 AA
65 AA
*
36071907 TTCTTTGAGCTGAAATTTAATGT-TGTAA--AT-TATACATATGTGGTTC-GAAT
1 TTCTCTGAGCTGAAATTTAATGTATG-AATTATATATACATATGTGGTTCAGAAT
36071957 GTTTGTTTGC
Statistics
Matches: 99, Mismatches: 7, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
62 18 0.18
63 6 0.06
64 62 0.63
65 13 0.13
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (66 bp):
TTCTCTGAGCTGAAATTTAATGTATGAATTATATATACATATGTGGTTCAGAATATAGGTTACAA
A
Found at i:36072959 original size:21 final size:20
Alignment explanation
Indices: 36072917--36072959 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 20
36072907 TTATGCTTGA
36072917 ATTTGACTACATTTGATCATG
1 ATTTGACTACATTTGA-CATG
36072938 ATTTGAGCTTACATTTGA-ATG
1 ATTTGA-C-TACATTTGACATG
36072959 A
1 A
36072960 GATATTCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 10 0.50
22 1 0.05
23 9 0.45
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (20 bp):
ATTTGACTACATTTGACATG
Found at i:36074629 original size:56 final size:57
Alignment explanation
Indices: 36074485--36074612 Score: 215
Period size: 56 Copynumber: 2.3 Consensus size: 57
36074475 GTAACAGTAC
*
36074485 AGTGTGGGCCTTAGCCCAATACAGAATCAGTG-TGAGCCTTAGCCCAATACAGAATT
1 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTTGAGCCTTAGCCCAATACAAAATT
* *
36074541 AGTGTTGGCCTTAGCCCAATACAGAATTAGTGTTG-GCCTTAGCCCAATACAAAATT
1 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTTGAGCCTTAGCCCAATACAAAATT
36074597 AGTGTGGGCCTTAGCC
1 AGTGTGGGCCTTAGCC
36074613 TCACACAGTA
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
56 65 0.97
57 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (57 bp):
AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTTGAGCCTTAGCCCAATACAAAATT
Found at i:36074631 original size:28 final size:28
Alignment explanation
Indices: 36074484--36074612 Score: 195
Period size: 28 Copynumber: 4.6 Consensus size: 28
36074474 AGTAACAGTA
36074484 CAGTGTGGGCCTTAGCCCAATACAGAAT
1 CAGTGTGGGCCTTAGCCCAATACAGAAT
*
36074512 CAGTGTGAGCCTTAGCCCAATACAGAAT
1 CAGTGTGGGCCTTAGCCCAATACAGAAT
* *
36074540 TAGTGTTGGCCTTAGCCCAATACAGAAT
1 CAGTGTGGGCCTTAGCCCAATACAGAAT
* * *
36074568 TAGTGTTGGCCTTAGCCCAATACAAAAT
1 CAGTGTGGGCCTTAGCCCAATACAGAAT
*
36074596 TAGTGTGGGCCTTAGCC
1 CAGTGTGGGCCTTAGCC
36074613 TCACACAGTA
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 95 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (28 bp):
CAGTGTGGGCCTTAGCCCAATACAGAAT
Found at i:36075097 original size:27 final size:27
Alignment explanation
Indices: 36075067--36075127 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
36075057 TATAATCGTT
* *
36075067 ATTTTACCC-TACGGGGGTATTTCGGTA
1 ATTTTACCCAT-CGAGGGTATTTCGATA
36075094 ATTTTACCCATCGAGGGTATTTCGATA
1 ATTTTACCCATCGAGGGTATTTCGATA
36075121 ATTTTAC
1 ATTTTAC
36075128 AACCTTTCCC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (27 bp):
ATTTTACCCATCGAGGGTATTTCGATA
Found at i:36096913 original size:21 final size:21
Alignment explanation
Indices: 36096884--36096936 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
36096874 GTACAACTTA
* *
36096884 AAGTGGAGGCAGCAGCGAGGG
1 AAGTAGAGGCAGCAGCAAGGG
*
36096905 AAGTAGAGGCGGCAGCAAGGG
1 AAGTAGAGGCAGCAGCAAGGG
* *
36096926 TAGCAGAGGCA
1 AAGTAGAGGCA
36096937 ACAAGAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.32, C:0.15, G:0.47, T:0.06
Consensus pattern (21 bp):
AAGTAGAGGCAGCAGCAAGGG
Found at i:36097416 original size:43 final size:43
Alignment explanation
Indices: 36097367--36097546 Score: 200
Period size: 43 Copynumber: 4.2 Consensus size: 43
36097357 CATATTCTTT
** *
36097367 CGGCGTTTGTAATAAAAGTC-TCGCTAAATATCATGTTCTATAG
1 CGGCGTTTGTAGGAAAAG-CATCGCTAAAGATCATGTTCTATAG
* *** *
36097410 TGGCGTTTGTAGGAAAAGTGCCGCTAAAAATCATGTTCTATAG
1 CGGCGTTTGTAGGAAAAGCATCGCTAAAGATCATGTTCTATAG
* * *
36097453 CGGTGTTTGTAGGAAAAGCACCGCGAAAGATCATGTTCTATAG
1 CGGCGTTTGTAGGAAAAGCATCGCTAAAGATCATGTTCTATAG
* * * *
36097496 CGGCATTTGTAGGTAAAGCGTTGCTAAAGATCATGTTCTATAG
1 CGGCGTTTGTAGGAAAAGCATCGCTAAAGATCATGTTCTATAG
*
36097539 CGGTGTTT
1 CGGCGTTT
36097547 TCCACATAAA
Statistics
Matches: 115, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
43 115 1.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (43 bp):
CGGCGTTTGTAGGAAAAGCATCGCTAAAGATCATGTTCTATAG
Found at i:36097432 original size:83 final size:86
Alignment explanation
Indices: 36097326--36097546 Score: 216
Period size: 86 Copynumber: 2.6 Consensus size: 86
36097316 CAACTCTCTT
* ** * * *
36097326 GCGGCACTTGTAAAAAAAATGCCGCTAAAAA-CATATTCT-T-TCGGCGTTTGTAATAAAAGTC-
1 GCGGCATTTGTAGGAAAAGTGCCGCTAAAAATCATATTCTATAGCGGCGTTTGTAAGAAAAG-CA
* * *
36097387 TCGCTAAATATCATGTTCTATA
65 CCGCGAAAGATCATGTTCTATA
* * * * *
36097409 GTGGCGTTTGTAGGAAAAGTGCCGCTAAAAATCATGTTCTATAGCGGTGTTTGTAGGAAAAGCAC
1 GCGGCATTTGTAGGAAAAGTGCCGCTAAAAATCATATTCTATAGCGGCGTTTGTAAGAAAAGCAC
36097474 CGCGAAAGATCATGTTCTATA
66 CGCGAAAGATCATGTTCTATA
* * ** * * *
36097495 GCGGCATTTGTAGGTAAAGCGTTGCTAAAGATCATGTTCTATAGCGGTGTTT
1 GCGGCATTTGTAGGAAAAGTGCCGCTAAAAATCATATTCTATAGCGGCGTTT
36097547 TCCACATAAA
Statistics
Matches: 113, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
83 25 0.22
84 7 0.06
85 2 0.02
86 79 0.70
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (86 bp):
GCGGCATTTGTAGGAAAAGTGCCGCTAAAAATCATATTCTATAGCGGCGTTTGTAAGAAAAGCAC
CGCGAAAGATCATGTTCTATA
Found at i:36098155 original size:25 final size:24
Alignment explanation
Indices: 36098121--36098167 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
36098111 AAAAAAAAAT
*
36098121 TATAATATTTTTATGAATATATAAG
1 TATAATATTTTTAT-AACATATAAG
*
36098146 TATATTATTTTTATAACATATA
1 TATAATATTTTTATAACATATA
36098168 GCGTGAACAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (24 bp):
TATAATATTTTTATAACATATAAG
Found at i:36100030 original size:21 final size:21
Alignment explanation
Indices: 36099975--36100014 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
36099965 TGTCCCTATC
36099975 CCACACGGGT-GTGTGCCTCAT
1 CCACAC-GGTCGTGTGCCTCAT
36099996 CCACACGGTCGTGTGCCTC
1 CCACACGGTCGTGTGCCTC
36100015 CTCCGCACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.12, C:0.38, G:0.28, T:0.23
Consensus pattern (21 bp):
CCACACGGTCGTGTGCCTCAT
Found at i:36102243 original size:123 final size:124
Alignment explanation
Indices: 36102110--36102358 Score: 295
Period size: 124 Copynumber: 2.0 Consensus size: 124
36102100 ATTTCTTAAC
* * ** * * *
36102110 AAAAATTTCACTCAATGTTACTATCATGTTGTAGACATTAAAATAATA-TAAAATAATTATTTTG
1 AAAAAATTCACACAATCATACTATCATGCTATAAACATTAAAATAATATTAAAATAATTATTTTG
** *** *
36102174 A-CTTTGGATTTATAGTTTTGAAACCACTGTTATGATTTGACTAAAAACGGGCTGTTACA
66 ACCTCAGG-TTTATAGTCCCGAAACCACTGTTACGATTTGACTAAAAACGGGCTGTTACA
* *
36102233 AAAAAATTCACACAATCATATTATCATGCTATAAATATTAAAATAATATTAAAATAATTATTTTG
1 AAAAAATTCACACAATCATACTATCATGCTATAAACATTAAAATAATATTAAAATAATTATTTTG
* * * * *
36102298 ACCTCAGGTTTGTGGTCCCGAAACCACTGTTCCGGTTTGACTAAAAACGGGTTGTTACA
66 ACCTCAGGTTTATAGTCCCGAAACCACTGTTACGATTTGACTAAAAACGGGCTGTTACA
36102357 AA
1 AA
36102359 CATGTGACAA
Statistics
Matches: 104, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
123 39 0.38
124 61 0.59
125 4 0.04
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (124 bp):
AAAAAATTCACACAATCATACTATCATGCTATAAACATTAAAATAATATTAAAATAATTATTTTG
ACCTCAGGTTTATAGTCCCGAAACCACTGTTACGATTTGACTAAAAACGGGCTGTTACA
Found at i:36102294 original size:12 final size:11
Alignment explanation
Indices: 36102266--36102290 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
36102256 TCATGCTATA
36102266 AATATTAAAAT
1 AATATTAAAAT
36102277 AATATTAAAAT
1 AATATTAAAAT
36102288 AAT
1 AAT
36102291 TATTTTGACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATATTAAAAT
Found at i:36106247 original size:16 final size:15
Alignment explanation
Indices: 36106222--36106251 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
36106212 AGAATTGGGT
36106222 AAAAAATTTATATAA
1 AAAAAATTTATATAA
36106237 AAAAAAGTTTATATA
1 AAAAAA-TTTATATA
36106252 TGAATCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
AAAAAATTTATATAA
Found at i:36107734 original size:20 final size:20
Alignment explanation
Indices: 36107711--36107789 Score: 76
Period size: 20 Copynumber: 4.0 Consensus size: 20
36107701 TTTTAGAATT
36107711 TATTTTGAAATTTTTATAAA
1 TATTTTGAAATTTTTATAAA
*
36107731 TATTTTG-AA-TTTTAAAAA
1 TATTTTGAAATTTTTATAAA
36107749 TCATTTT-AAATTTTTGA-AAA
1 T-ATTTTGAAATTTTT-ATAAA
*
36107769 TTATTTTGAATTATTTTATAA
1 -TATTTTGAAAT-TTTTATAA
36107790 TTTTTGTTGA
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
18 9 0.18
19 9 0.18
20 19 0.39
21 6 0.12
22 6 0.12
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.54
Consensus pattern (20 bp):
TATTTTGAAATTTTTATAAA
Found at i:36107743 original size:19 final size:18
Alignment explanation
Indices: 36107711--36107780 Score: 77
Period size: 20 Copynumber: 3.6 Consensus size: 18
36107701 TTTTAGAATT
36107711 TATTTTGAAATTTTTATAAA
1 TATTTTG-AATTTTTA-AAA
*
36107731 TATTTTGAATTTTAAAAA
1 TATTTTGAATTTTTAAAA
*
36107749 TCATTTTAAATTTTTGAAAA
1 T-ATTTTGAATTTTT-AAAA
36107769 TTATTTTGAATT
1 -TATTTTGAATT
36107781 ATTTTATAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
18 4 0.09
19 18 0.42
20 20 0.47
21 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.54
Consensus pattern (18 bp):
TATTTTGAATTTTTAAAA
Found at i:36108098 original size:22 final size:22
Alignment explanation
Indices: 36108070--36108113 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
36108060 AAAATATGTA
36108070 TGAAGCATAAGAATTTTTTTGT
1 TGAAGCATAAGAATTTTTTTGT
36108092 TGAAGCATAAGAATTTTTTTGT
1 TGAAGCATAAGAATTTTTTTGT
36108114 CACCCATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (22 bp):
TGAAGCATAAGAATTTTTTTGT
Found at i:36108121 original size:21 final size:22
Alignment explanation
Indices: 36108075--36108121 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
36108065 ATGTATGAAG
* *
36108075 CATAAGAATTTTTTTGTTGAAG
1 CATAAGAATTTTTTTGTTCAAC
*
36108097 CATAAGAATTTTTTTG-TCACC
1 CATAAGAATTTTTTTGTTCAAC
36108118 CATA
1 CATA
36108122 TAGTGAAGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.43
Consensus pattern (22 bp):
CATAAGAATTTTTTTGTTCAAC
Found at i:36108263 original size:31 final size:31
Alignment explanation
Indices: 36108225--36108286 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
36108215 CTATGTTTGC
36108225 ATCCATACAACAAAGTTCATTATTGATTTTA
1 ATCCATACAACAAAGTTCATTATTGATTTTA
36108256 ATCCATACAACAAAGTTCATTATTGATTTTA
1 ATCCATACAACAAAGTTCATTATTGATTTTA
36108287 TTCTCTCTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (31 bp):
ATCCATACAACAAAGTTCATTATTGATTTTA
Found at i:36109911 original size:42 final size:42
Alignment explanation
Indices: 36109847--36109935 Score: 153
Period size: 42 Copynumber: 2.1 Consensus size: 42
36109837 ACACTCCGAA
*
36109847 TCAACCACTGTACTCTTTAGATCATCATCATTCTGCAAATTT
1 TCAACCACTGTACTCTTGAGATCATCATCATTCTGCAAATTT
36109889 TCAACCAAC-GTACTCTTGAGATCATCATCATTCTGCAAATTT
1 TCAACC-ACTGTACTCTTGAGATCATCATCATTCTGCAAATTT
36109931 TCAAC
1 TCAAC
36109936 TTCCTCATAA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
42 43 0.96
43 2 0.04
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (42 bp):
TCAACCACTGTACTCTTGAGATCATCATCATTCTGCAAATTT
Found at i:36116186 original size:29 final size:29
Alignment explanation
Indices: 36116153--36116212 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
36116143 GTTTTAGTAA
36116153 TAGTTTCATGTCTATTTTGATTATTTGAG
1 TAGTTTCATGTCTATTTTGATTATTTGAG
36116182 TAGTTTCATGTCTATTTTGATTATTTGAG
1 TAGTTTCATGTCTATTTTGATTATTTGAG
36116211 TA
1 TA
36116213 TGAAAATGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.22, C:0.07, G:0.17, T:0.55
Consensus pattern (29 bp):
TAGTTTCATGTCTATTTTGATTATTTGAG
Found at i:36116221 original size:29 final size:29
Alignment explanation
Indices: 36116160--36116221 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
36116150 TAATAGTTTC
***
36116160 ATGTCTATTTTGATTATTTGAGTAGTTTC
1 ATGTCTATTTTGATTATTTGAGTAGTAAA
36116189 ATGTCTATTTTGATTATTTGAGTA-TGAAA
1 ATGTCTATTTTGATTATTTGAGTAGT-AAA
36116218 ATGT
1 ATGT
36116222 TGTAGATGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 1 0.03
29 28 0.97
ACGTcount: A:0.26, C:0.05, G:0.18, T:0.52
Consensus pattern (29 bp):
ATGTCTATTTTGATTATTTGAGTAGTAAA
Found at i:36125755 original size:93 final size:93
Alignment explanation
Indices: 36125596--36125967 Score: 735
Period size: 93 Copynumber: 4.0 Consensus size: 93
36125586 TTACGTTAGG
36125596 AGTTTCGGTAAACTATGATAGTATGACTTTGGAAGATTATACACTTAACTAATCTTTGTGATGAA
1 AGTTTCGGTAAACTATGATAGTATGACTTTGGAAGATTATACACTTAACTAATCTTTGTGATGAA
36125661 TATTATGCGAAGCACAGTTTTGTATGAT
66 TATTATGCGAAGCACAGTTTTGTATGAT
36125689 AGTTTCGGTAAACTATGATAGTATGACTTTGGAAGATTATACACTTAACTAATCTTTGTGATGAA
1 AGTTTCGGTAAACTATGATAGTATGACTTTGGAAGATTATACACTTAACTAATCTTTGTGATGAA
36125754 TATTATGCGAAGCACAGTTTTGTATGAT
66 TATTATGCGAAGCACAGTTTTGTATGAT
36125782 AGTTTCGGTAAACTATGATAGTATGACTTTGGAAGATTATACACTTAACTAATCTTTGTGATGAA
1 AGTTTCGGTAAACTATGATAGTATGACTTTGGAAGATTATACACTTAACTAATCTTTGTGATGAA
36125847 TATTATGCGAAGCACAGTTTTGTATGAT
66 TATTATGCGAAGCACAGTTTTGTATGAT
36125875 AGTTTCGGTAAACTATGATAGTATGACTTTGGAAGATTATACACTTAACTAATCTTTGTGATGAA
1 AGTTTCGGTAAACTATGATAGTATGACTTTGGAAGATTATACACTTAACTAATCTTTGTGATGAA
*
36125940 TATTATGCGAAGCATAGTTTTGTATGAT
66 TATTATGCGAAGCACAGTTTTGTATGAT
36125968 TGTGTTATTT
Statistics
Matches: 278, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 278 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.38
Consensus pattern (93 bp):
AGTTTCGGTAAACTATGATAGTATGACTTTGGAAGATTATACACTTAACTAATCTTTGTGATGAA
TATTATGCGAAGCACAGTTTTGTATGAT
Found at i:36126935 original size:47 final size:47
Alignment explanation
Indices: 36126854--36127039 Score: 250
Period size: 47 Copynumber: 4.0 Consensus size: 47
36126844 AACCCTGTTT
* * ** *
36126854 TGGACAGCAAT-AATATGCTCTAAA-TGGACAGCATTATACATCGAAT
1 TGGACAGC-ATCAATATACTCAAAATTGGACAGCATTATACATTAAAA
* * *
36126900 TAGACAGCTTAAATATACTCAAAATTGGACAGCATTATACATTAAAA
1 TGGACAGCATCAATATACTCAAAATTGGACAGCATTATACATTAAAA
*
36126947 TGGACAACATCAATATACTCAAAATTGGACAGCATTATACATTAAAA
1 TGGACAGCATCAATATACTCAAAATTGGACAGCATTATACATTAAAA
* *
36126994 TGGACAGCATCAATATACTTAAAATTTGACAGCATTATACATTAAA
1 TGGACAGCATCAATATACTCAAAATTGGACAGCATTATACATTAAA
36127040 TTTATAACAC
Statistics
Matches: 124, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
45 1 0.01
46 18 0.15
47 105 0.85
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.27
Consensus pattern (47 bp):
TGGACAGCATCAATATACTCAAAATTGGACAGCATTATACATTAAAA
Found at i:36126950 original size:22 final size:22
Alignment explanation
Indices: 36126875--36127039 Score: 120
Period size: 22 Copynumber: 7.1 Consensus size: 22
36126865 AATATGCTCT
**
36126875 AAATGGACAGCATTATACATCG
1 AAATGGACAGCATTATACATTA
* * * *
36126897 AATTAGACAGC-TTAAATATACTCA
1 AAATGGACAGCATT--ATACA-TTA
36126921 AAATTGGACAGCATTATACATTA
1 AAA-TGGACAGCATTATACATTA
* *
36126944 AAATGGACAACATCAATATAC-TCA
1 AAATGGACAGCAT---TATACATTA
36126968 AAATTGGACAGCATTATACATTA
1 AAA-TGGACAGCATTATACATTA
36126991 AAATGGACAGCATCAATATAC-TTA
1 AAATGGACAGCAT---TATACATTA
*
36127015 AAATTTGACAGCATTATACATTA
1 AAA-TGGACAGCATTATACATTA
36127038 AA
1 AA
36127040 TTTATAACAC
Statistics
Matches: 115, Mismatches: 13, Indels: 29
0.73 0.08 0.18
Matches are distributed among these distances:
21 2 0.02
22 38 0.33
23 19 0.17
24 19 0.17
25 35 0.30
26 2 0.02
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (22 bp):
AAATGGACAGCATTATACATTA
Found at i:36126975 original size:25 final size:24
Alignment explanation
Indices: 36126853--36127028 Score: 129
Period size: 25 Copynumber: 7.5 Consensus size: 24
36126843 CAACCCTGTT
*
36126853 TTGGACAGCAATAATATGCTCT-AAA
1 TTGGACAGC-ATAATATACT-TAAAA
* **
36126878 -TGGACAGCAT--TATACATCGAA
1 TTGGACAGCATAATATACTTAAAA
* * *
36126899 TTAGACAGCTTAAATATACTCAAAA
1 TTGGACAGCAT-AATATACTTAAAA
36126924 TTGGACAGCAT--TATACATTAAAA
1 TTGGACAGCATAATATAC-TTAAAA
* *
36126947 -TGGACAACATCAATATACTCAAAA
1 TTGGACAGCAT-AATATACTTAAAA
36126971 TTGGACAGCAT--TATACATTAAAA
1 TTGGACAGCATAATATAC-TTAAAA
36126994 -TGGACAGCATCAATATACTTAAAA
1 TTGGACAGCAT-AATATACTTAAAA
*
36127018 TTTGACAGCAT
1 TTGGACAGCAT
36127029 TATACATTAA
Statistics
Matches: 119, Mismatches: 17, Indels: 30
0.72 0.10 0.18
Matches are distributed among these distances:
20 1 0.01
21 6 0.05
22 37 0.31
23 12 0.10
24 19 0.16
25 44 0.37
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.27
Consensus pattern (24 bp):
TTGGACAGCATAATATACTTAAAA
Found at i:36128006 original size:28 final size:27
Alignment explanation
Indices: 36127974--36128072 Score: 103
Period size: 28 Copynumber: 3.6 Consensus size: 27
36127964 TTAATAAGCA
*
36127974 CGCACACTTAGTGCTTAATAATCAAACT
1 CGCACACTTAGTGCTT-ATAATTAAACT
* *
36128002 CGCACACTTAGTGCTT-TACCCTTATACT
1 CGCACACTTAGTGCTTATA--ATTAAACT
36128030 CGCACACTTAGTGCATT-TCAATTAAACT
1 CGCACACTTAGTGC-TTAT-AATTAAACT
*
36128058 CTCACACTTAGTGCT
1 CGCACACTTAGTGCT
36128073 AATCTCATTA
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
26 2 0.03
27 1 0.02
28 54 0.89
29 3 0.05
30 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.32
Consensus pattern (27 bp):
CGCACACTTAGTGCTTATAATTAAACT
Found at i:36134460 original size:23 final size:23
Alignment explanation
Indices: 36134434--36134511 Score: 95
Period size: 23 Copynumber: 3.4 Consensus size: 23
36134424 TAGCACTTGA
*
36134434 GAATTTAGCACTTCGGTGCTCCT
1 GAATTTAGCACTTTGGTGCTCCT
*
36134457 GAATTTAACACTTTGGTGCTCCT
1 GAATTTAGCACTTTGGTGCTCCT
** * *
36134480 GAAACTACCATTTTGGTGCTCCT
1 GAATTTAGCACTTTGGTGCTCCT
36134503 -AATTTAGCA
1 GAATTTAGCA
36134512 GTTATGTGCT
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
22 6 0.13
23 40 0.87
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (23 bp):
GAATTTAGCACTTTGGTGCTCCT
Found at i:36135888 original size:23 final size:23
Alignment explanation
Indices: 36135862--36135960 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
36135852 ATAAGTGCCA
*
36135862 CACTGATATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
36135885 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
36135908 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
36135931 CATTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
36135954 CTCTGAT
1 CACTGAT
36135961 CAATAACACT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 68 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:36138274 original size:27 final size:27
Alignment explanation
Indices: 36138236--36138290 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
36138226 CATTCCAACA
36138236 TATGAAGAGAAAAGAAAGAAAGAAACT
1 TATGAAGAGAAAAGAAAGAAAGAAACT
36138263 TATGAAGAGAAAAGAAAGAAAGAAACT
1 TATGAAGAGAAAAGAAAGAAAGAAACT
36138290 T
1 T
36138291 TCTTTTCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.62, C:0.04, G:0.22, T:0.13
Consensus pattern (27 bp):
TATGAAGAGAAAAGAAAGAAAGAAACT
Found at i:36142477 original size:32 final size:32
Alignment explanation
Indices: 36142409--36142582 Score: 217
Period size: 32 Copynumber: 5.5 Consensus size: 32
36142399 AGATGGCTAC
* *
36142409 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
36142440 AAGCCATCAGTAGCAGTGATGTGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
36142472 TAGCCATCAGTATCGGTAATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
36142504 AAGCCATCAGTAAC-GATAATATGACCAGCACA
1 AAGCCATCAGTAACAG-TAATATGATCGGCACA
* *
36142536 AAGCCGTCAGTAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
36142568 AAGCCATCAGTAACA
1 AAGCCATCAGTAACA
36142583 TCGTAGTAAA
Statistics
Matches: 121, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
31 11 0.09
32 109 0.90
33 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:36142653 original size:27 final size:27
Alignment explanation
Indices: 36142623--36142686 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
36142613 AGCAAAGCTG
*
36142623 CCAGTAATAGT-ATATGTGGCCAAGCCA
1 CCAGTAACAGTGAT-TGTGGCCAAGCCA
**
36142650 CCAGTAACAGTGATTGTGGCGGAGCCA
1 CCAGTAACAGTGATTGTGGCCAAGCCA
36142677 CCAGT-ACAGT
1 CCAGTAACAGT
36142687 ACTTCCTCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.15
27 26 0.79
28 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTGATTGTGGCCAAGCCA
Found at i:36142792 original size:24 final size:24
Alignment explanation
Indices: 36142765--36142813 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
36142755 AGTCATACAA
* *
36142765 ATCACAGACAAATTAGTCATTTAC
1 ATCACAGACAAATCAATCATTTAC
**
36142789 ATCATGGACAAATCAATCATTTAC
1 ATCACAGACAAATCAATCATTTAC
36142813 A
1 A
36142814 CTCGAGGGGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (24 bp):
ATCACAGACAAATCAATCATTTAC
Found at i:36142873 original size:27 final size:27
Alignment explanation
Indices: 36142830--36143082 Score: 287
Period size: 27 Copynumber: 9.4 Consensus size: 27
36142820 GGGCAAAATA
36142830 GTCA-TTTACCCT-CTAGGGGCATTACG
1 GTCATTTTACCCTAC-AGGGGCATTACG
* * *
36142856 GTCATTTTACCCAATAGGGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
36142883 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
36142910 ATCATTTTATCCTA-TGGGAGTATTACG
1 GTCATTTTACCCTACAGGG-GCATTACG
* * *
36142937 GTCATTTTATCCTACAGGGGTATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
* *
36142964 GTCATTTTATCCTACAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
36142991 GTCTTTTTACCCTACAGGGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
36143018 TTCATTTTACCCTACAAGGACATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
36143045 GTCATTTTACCCTATAAGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
36143072 GTCATTATACC
1 GTCATTTTACC
36143083 TATTTTAGGG
Statistics
Matches: 194, Mismatches: 29, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
26 7 0.04
27 184 0.95
28 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:36145099 original size:18 final size:17
Alignment explanation
Indices: 36145076--36145110 Score: 61
Period size: 17 Copynumber: 2.0 Consensus size: 17
36145066 ACTTATTTAA
36145076 AATTTTAATTTTAATTTT
1 AATTTTAA-TTTAATTTT
36145094 AATTTTAATTTAATTTT
1 AATTTTAATTTAATTTT
36145111 GGTTGGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
AATTTTAATTTAATTTT
Found at i:36145128 original size:6 final size:6
Alignment explanation
Indices: 36145076--36145110 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
36145066 ACTTATTTAA
36145076 AATTTT AATTTT AATTTT AATTTT AA-TTT AATTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT
36145111 GGTTGGAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
AATTTT
Found at i:36154515 original size:15 final size:17
Alignment explanation
Indices: 36154490--36154522 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
36154480 TGGGTAGGAC
36154490 TTGTATACTATA-TAAT
1 TTGTATACTATACTAAT
36154506 TTGT-TACTATACTAAT
1 TTGTATACTATACTAAT
36154522 T
1 T
36154523 ATTATTGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (17 bp):
TTGTATACTATACTAAT
Found at i:36159499 original size:3 final size:3
Alignment explanation
Indices: 36159491--36159520 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
36159481 TTTTTCCCCG
*
36159491 TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
36159521 CCTCAACCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:36162642 original size:34 final size:34
Alignment explanation
Indices: 36162602--36162671 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
36162592 TAAGTTTTGA
36162602 TTACATGAGTTACATATTGTTTTAAGCATCTCAT
1 TTACATGAGTTACATATTGTTTTAAGCATCTCAT
* *
36162636 TTACATGGGTTACATATTGTTTTAAGCATCTTAT
1 TTACATGAGTTACATATTGTTTTAAGCATCTCAT
36162670 TT
1 TT
36162672 GTTCATGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (34 bp):
TTACATGAGTTACATATTGTTTTAAGCATCTCAT
Found at i:36164232 original size:76 final size:78
Alignment explanation
Indices: 36164103--36164245 Score: 193
Period size: 76 Copynumber: 1.9 Consensus size: 78
36164093 TTGGACGTGG
* *
36164103 TTAAAGGTATGAATGTTATATATATGTATATGTGAGTTGGAACATATATGTATACT-CATGAATA
1 TTAAAGGTATGAATGTTATATATATGTATATGTAAGTTCGAACATATATGTATA-TACATGAATA
36164167 AGTCTTGAATATAT
65 AGTCTTGAATATAT
* * * * *
36164181 TTAAAGGTATGAATG-T-TATGTATGTATATGTAATTTCGAATATGTATGTATATACATGTATAA
1 TTAAAGGTATGAATGTTATATATATGTATATGTAAGTTCGAACATATATGTATATACATGAATAA
36164244 GT
66 GT
36164246 TTTTGTATTG
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
75 1 0.02
76 40 0.70
77 1 0.02
78 15 0.26
ACGTcount: A:0.36, C:0.04, G:0.18, T:0.41
Consensus pattern (78 bp):
TTAAAGGTATGAATGTTATATATATGTATATGTAAGTTCGAACATATATGTATATACATGAATAA
GTCTTGAATATAT
Found at i:36164559 original size:91 final size:91
Alignment explanation
Indices: 36164455--36164818 Score: 719
Period size: 91 Copynumber: 4.0 Consensus size: 91
36164445 AAGTTATATA
36164455 TATATATGTGAGTGTTCGGATGTATAATTAAATTATTTAGCTGAATTTGGTATTTGATCTTTACA
1 TATATATGTGAGTGTTCGGATGTATAATTAAATTATTTAGCTGAATTTGGTATTTGATCTTTACA
36164520 TATCTATGTGGTTTAAAGATATAGTT
66 TATCTATGTGGTTTAAAGATATAGTT
36164546 TATATATGTGAGTGTTCGGATGTATAATTAAATTATTTAGCTGAATTTGGTATTTGATCTTTACA
1 TATATATGTGAGTGTTCGGATGTATAATTAAATTATTTAGCTGAATTTGGTATTTGATCTTTACA
36164611 TATCTATGTGGTTTAAAGATATAGTT
66 TATCTATGTGGTTTAAAGATATAGTT
36164637 TATATATGTGAGTGTTCGGATGTATAATTAAATTATTTAGCTGAATTTGGTATTTGATCTTTACA
1 TATATATGTGAGTGTTCGGATGTATAATTAAATTATTTAGCTGAATTTGGTATTTGATCTTTACA
36164702 TATCTATGTGGTTTAAAGATATAGTT
66 TATCTATGTGGTTTAAAGATATAGTT
*
36164728 TATATATGTGAGTGTTCGGATGTATAATTAAATTATTTAGCTGAATTTGGTATTTGATCTTTATA
1 TATATATGTGAGTGTTCGGATGTATAATTAAATTATTTAGCTGAATTTGGTATTTGATCTTTACA
36164793 TATCTATGTGGTTTAAAGATATAGTT
66 TATCTATGTGGTTTAAAGATATAGTT
36164819 AATAAATTAT
Statistics
Matches: 272, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 272 1.00
ACGTcount: A:0.30, C:0.05, G:0.19, T:0.46
Consensus pattern (91 bp):
TATATATGTGAGTGTTCGGATGTATAATTAAATTATTTAGCTGAATTTGGTATTTGATCTTTACA
TATCTATGTGGTTTAAAGATATAGTT
Found at i:36164945 original size:15 final size:15
Alignment explanation
Indices: 36164925--36164953 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
36164915 AGTGCCTATT
36164925 AGGTTTATTGTCAGC
1 AGGTTTATTGTCAGC
36164940 AGGTTTATTGTCAG
1 AGGTTTATTGTCAG
36164954 TGAAATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.10, G:0.28, T:0.41
Consensus pattern (15 bp):
AGGTTTATTGTCAGC
Found at i:36165037 original size:41 final size:39
Alignment explanation
Indices: 36165004--36165080 Score: 91
Period size: 41 Copynumber: 1.9 Consensus size: 39
36164994 ATGAAACATT
* *
36165004 TCAGACTATATGTCTAGCAGGCTAAGTGCCGATGTACAAAA
1 TCAGACTATAAGCCTAGCAGGCTAAGTGCCGATG-A-AAAA
* * *
36165045 TCAGGCTTTAAGCCTAGCAGGCTAAGTGCCGGTGAA
1 TCAGACTATAAGCCTAGCAGGCTAAGTGCCGATGAA
36165081 TCTGTTTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.03
40 1 0.03
41 29 0.94
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (39 bp):
TCAGACTATAAGCCTAGCAGGCTAAGTGCCGATGAAAAA
Found at i:36171475 original size:23 final size:22
Alignment explanation
Indices: 36171423--36171475 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
36171413 TCCACGTCTT
*
36171423 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
36171445 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
36171468 TTTCTTTT
1 TTTCTTTT
36171476 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:36173853 original size:6 final size:6
Alignment explanation
Indices: 36173842--36173867 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
36173832 ATAAATAAAT
36173842 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
36173868 CTTTACAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:36175876 original size:127 final size:126
Alignment explanation
Indices: 36175717--36175991 Score: 317
Period size: 126 Copynumber: 2.2 Consensus size: 126
36175707 AAAGGTGAGA
* * *
36175717 AGTAAAAGTTTAGAGGG-AAAATAAAAAATTTTGAAGGTTGAGGGAGTAAAATTTAGGGGGGAGA
1 AGTAAAAGTTTTGGGGGAAAAATAAAAAATTTTGAAGGTTGAGGGAGTAAAATTT-GGGGGGAAA
* * *** *
36175781 ATATT-TAAAA-AAATTAGGGAGGGGGGGAGGGTTTGGGGTAG-AAGGAGG-TGGGATGAGAGGG
65 ATATTCAAAAAGAAAAT-GGGAGGAAAGGA--GTTTGGGGTAGAAAGG-GGTTGGGATGAGAGGA
36175842 G
126 G
* * * *
36175843 AGTAAAAGTTTTGGGGGAAAAATAAGAAGTTTTGACGGTTGAGGGAGTAAAATTTTGGGGGAAAA
1 AGTAAAAGTTTTGGGGGAAAAATAAAAAATTTTGAAGGTTGAGGGAGTAAAATTTGGGGGGAAAA
* * *
36175908 TATTCAAAAAGAAAATGGGAGGAAATGAGTTTGTGGTAGAAAGGGGTTGGGATGTGAGGAG
66 TATTCAAAAAGAAAATGGGAGGAAAGGAGTTTGGGGTAGAAAGGGGTTGGGATGAGAGGAG
*
36175969 AATAAAAGTTTTGGGGGAAAAAT
1 AGTAAAAGTTTTGGGGGAAAAAT
36175992 GGGAGGGAGT
Statistics
Matches: 127, Mismatches: 17, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
125 12 0.09
126 65 0.51
127 46 0.36
128 4 0.03
ACGTcount: A:0.38, C:0.01, G:0.38, T:0.23
Consensus pattern (126 bp):
AGTAAAAGTTTTGGGGGAAAAATAAAAAATTTTGAAGGTTGAGGGAGTAAAATTTGGGGGGAAAA
TATTCAAAAAGAAAATGGGAGGAAAGGAGTTTGGGGTAGAAAGGGGTTGGGATGAGAGGAG
Found at i:36176090 original size:18 final size:18
Alignment explanation
Indices: 36176067--36176105 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
36176057 ATTATAGTTT
36176067 ATTATTCG-GTTTATTCGA
1 ATTATTCGAG-TTATTCGA
36176085 ATTATTCGAGTTATTCGA
1 ATTATTCGAGTTATTCGA
36176103 ATT
1 ATT
36176106 CGAAAATCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 19 0.95
19 1 0.05
ACGTcount: A:0.26, C:0.10, G:0.15, T:0.49
Consensus pattern (18 bp):
ATTATTCGAGTTATTCGA
Found at i:36177662 original size:38 final size:37
Alignment explanation
Indices: 36177609--36177704 Score: 111
Period size: 37 Copynumber: 2.6 Consensus size: 37
36177599 ACCACTCCGA
* * **
36177609 CCACCCTACATACCACAATTGTGCTATGGTAGGCCCGT
1 CCACCCTACACACCACAATAG-GCTATAATAGGCCCGT
* * *
36177647 CCACCCTGCACACCACAATAGGCTATAATATGCTCGT
1 CCACCCTACACACCACAATAGGCTATAATAGGCCCGT
*
36177684 CCACCCTACACAGCACAATAG
1 CCACCCTACACACCACAATAG
36177705 TGGGTCTAAG
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
37 31 0.63
38 18 0.37
ACGTcount: A:0.29, C:0.36, G:0.15, T:0.20
Consensus pattern (37 bp):
CCACCCTACACACCACAATAGGCTATAATAGGCCCGT
Found at i:36179430 original size:18 final size:18
Alignment explanation
Indices: 36179394--36179431 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
36179384 TGCCATATGC
*
36179394 ATGTATTTGAGTATTATA
1 ATGTATTTGAGAATTATA
36179412 ATGTATTTG-GAATTGATA
1 ATGTATTTGAGAATT-ATA
36179430 AT
1 AT
36179432 TTTACTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (18 bp):
ATGTATTTGAGAATTATA
Found at i:36182541 original size:20 final size:19
Alignment explanation
Indices: 36182511--36182549 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
36182501 TTATGTACTC
*
36182511 CGATGTCATGTTTGCACTT
1 CGATGTCATGTATGCACTT
36182530 CGATGCTCATGTATGCACTT
1 CGATG-TCATGTATGCACTT
36182550 TCGTACCCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (19 bp):
CGATGTCATGTATGCACTT
Found at i:36188866 original size:19 final size:19
Alignment explanation
Indices: 36188834--36188915 Score: 58
Period size: 19 Copynumber: 4.2 Consensus size: 19
36188824 TTTACTAATC
36188834 TTTTTACAAA-TTTTAATAA
1 TTTTT-CAAATTTTTAATAA
*
36188853 TTTTTCAAATTTTTTTTATAA
1 TTTTTCAAA--TTTTTAATAA
*** *
36188874 TTATTTGGTATTTTTAATAT
1 TT-TTTCAAATTTTTAATAA
* *
36188894 TTTTTAAAATTTCTAATAA
1 TTTTTCAAATTTTTAATAA
36188913 TTT
1 TTT
36188916 ATTATATTTT
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
18 4 0.08
19 20 0.42
20 10 0.21
21 10 0.21
22 4 0.08
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTTTCAAATTTTTAATAA
Found at i:36188896 original size:9 final size:9
Alignment explanation
Indices: 36188882--36188954 Score: 60
Period size: 9 Copynumber: 7.8 Consensus size: 9
36188872 AATTATTTGG
36188882 TATTTTTAA
1 TATTTTTAA
36188891 TATTTTTTAA
1 TA-TTTTTAA
* *
36188901 AATTTCTAA
1 TATTTTTAA
36188910 TAATTTATT-A
1 T-ATTT-TTAA
36188920 TATTTTATAA
1 TATTTT-TAA
36188930 T-TTTTATAA
1 TATTTT-TAA
*
36188939 TATTTATAA
1 TATTTTTAA
36188948 TATTTTT
1 TATTTTT
36188955 CGGCAAAATT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
8 1 0.02
9 31 0.60
10 19 0.37
11 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTTAA
Found at i:36188941 original size:19 final size:19
Alignment explanation
Indices: 36188882--36188953 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
36188872 AATTATTTGG
* *
36188882 TATTTTTAATATTTTTTAA
1 TATTTATAATATTTTATAA
* * * *
36188901 AATTTCTAATAATTTATTA
1 TATTTATAATATTTTATAA
36188920 TATTTTATAAT-TTTTATAA
1 TA-TTTATAATATTTTATAA
36188939 TATTTATAATATTTT
1 TATTTATAATATTTT
36188954 TCGGCAAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
18 8 0.19
19 27 0.64
20 7 0.17
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTTATAATATTTTATAA
Found at i:36197574 original size:60 final size:59
Alignment explanation
Indices: 36197492--36197603 Score: 138
Period size: 58 Copynumber: 1.9 Consensus size: 59
36197482 TTTAGTAAAA
* * * *
36197492 AAATTGCAGGTACTTAATTGAGATTATAAAAAGCT-TAAGTACCAAATTAAACATTGAAATC
1 AAATTGCAGATACTTAACTGAGA-CA-AAAAA-ATATAAGTACCAAATTAAACATTGAAATC
*
36197553 AAATT-CAGATACTTAACTGAGACAAAAAAATATAAGTATCAAATTAAACAT
1 AAATTGCAGATACTTAACTGAGACAAAAAAATATAAGTACCAAATTAAACAT
36197604 CAAAGCTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
57 1 0.02
58 23 0.51
59 1 0.02
60 15 0.33
61 5 0.11
ACGTcount: A:0.50, C:0.12, G:0.11, T:0.28
Consensus pattern (59 bp):
AAATTGCAGATACTTAACTGAGACAAAAAAATATAAGTACCAAATTAAACATTGAAATC
Found at i:36198953 original size:22 final size:21
Alignment explanation
Indices: 36198911--36198953 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
36198901 TATAGTCTTG
*
36198911 TATCGATACCAAATGCCAAAT
1 TATCGATACCAAATGCAAAAT
*
36198932 TATCGATACCTAAATTCAAAAT
1 TATCGATACC-AAATGCAAAAT
36198954 GGTAAAATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (21 bp):
TATCGATACCAAATGCAAAAT
Found at i:36209556 original size:45 final size:45
Alignment explanation
Indices: 36209458--36210624 Score: 1039
Period size: 45 Copynumber: 25.8 Consensus size: 45
36209448 TCATAGCGAT
* * * * **
36209458 TCTTATCCCCCTGAAGTTGCAGTGAAGCATATTAAAGCCA-CAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * *
36209502 TCTTATCTCCCTGAAGTTGGAATAGAGCAGATTGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * * * * **
36209547 TCTTGTCTCCCTGAAGTTGTAGTGGAGTAAATTAAAGCCA-CAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * *
36209591 TCTTATCTCCCTGAAGTTGGAATAGAGCAGATTGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * * * * **
36209636 TCTTGTCTCCCTGAAGTTGTAGTGGAGTAAATTAAAGCCA-CAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * *
36209680 TCTTATCTCCCTGAAGTTGGAATAGAGCAGATTGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * * * * **
36209725 TCTTGTCTCCCTGAAGTTGTAGTGGAGTAAATTAAAGCCA-CAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
36209769 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * * *
36209814 TCTTAACTTCCTGAAGTTGCAGTGGAGCAAATTGAAGATAGTAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * * * * * *
36209859 TCTTATCTCTCTAAAGTTACAATAGAGCAGATT-AAAACT-CCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TAGCAAA
* * * **
36209903 TCTTATCTCTCTGAAGTTGTAGTGGAGCAAATTGAAGATAGTGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * ***
36209948 TCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGATAATGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * * **
36209993 TCTTATTTCTCTGAAGTTGCAGTGGAGTAGATTGAAGATAGTGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * * * * * *
36210038 TCTTATTTCCCTGAAATTGCAGTAGAACAGATTAAAGTTA-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* ** *
36210082 TCTTATCTCCTTGAAGTTGCAGTGGAATAGATTGAAGTTA-CAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * *
36210126 TCTTATCTCCCGGAAGTTGTAGTGGAGCAGATTGAAGTTA-CAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
*
36210170 TCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* ** * * *
36210215 TCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTACAAGTTATGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--A-TAG-CA--AA
*
36210266 TCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* ** * * *
36210311 TCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTACAAGTTATGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--A-TAG-CA--AA
*
36210362 TCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* ** * * *
36210407 TCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTACAAGTTATGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--A-TAG-CA--AA
* * *
36210458 TCTTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAGCTA-CAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * * *
36210502 TC--ATCTCCTTGAAGTTGCAATGGAGTAGATTGAAGATA-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
** * * * *
36210544 TCTTATCTCTTTGAAGTTGCAGTAGAGCAGATTAAAGCT-GCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
* * * *
36210588 TCTAATCTCCCTAAAGTTGCAGTAGAGTAGATTGAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
36210625 CAGCAAGCAC
Statistics
Matches: 909, Mismatches: 185, Indels: 58
0.79 0.16 0.05
Matches are distributed among these distances:
42 35 0.04
44 353 0.39
45 396 0.44
46 1 0.00
47 5 0.01
48 11 0.01
49 5 0.01
51 103 0.11
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
Found at i:36209581 original size:89 final size:89
Alignment explanation
Indices: 36209458--36210624 Score: 962
Period size: 89 Copynumber: 12.9 Consensus size: 89
36209448 TCATAGCGAT
* * * * * ** *
36209458 TCTTATCCCCCTGAAGTTGCAGTGAAGCATATTAAAGCCACAAATCTTATCTCCCTGAAGTTGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAAATTGAAGATACAAATCTTATCTCCCTGAAGTTGCA
36209523 ATAGAGCAGATTGAAGATAGCAAA
66 ATAGAGCAGATTGAAGATAGCAAA
* * * ** *
36209547 TCTTGTCTCCCTGAAGTTGTAGTGGAGTAAATTAAAGCCACAAATCTTATCTCCCTGAAGTTGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAAATTGAAGATACAAATCTTATCTCCCTGAAGTTGCA
36209612 ATAGAGCAGATTGAAGATAGCAAA
66 ATAGAGCAGATTGAAGATAGCAAA
* * * ** *
36209636 TCTTGTCTCCCTGAAGTTGTAGTGGAGTAAATTAAAGCCACAAATCTTATCTCCCTGAAGTTGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAAATTGAAGATACAAATCTTATCTCCCTGAAGTTGCA
36209701 ATAGAGCAGATTGAAGATAGCAAA
66 ATAGAGCAGATTGAAGATAGCAAA
* * * **
36209725 TCTTGTCTCCCTGAAGTTGTAGTGGAGTAAATTAAAGCCACAAATCTTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAAATTGAAGATACAAATCTTATCTCCCTGAAGTTGCA
* *
36209790 GTGGAGCAGATTGAAGATAGCAAA
66 ATAGAGCAGATTGAAGATAGCAAA
* * * * * * *
36209814 TCTTAACTTCCTGAAGTTGCAGTGGAGCAAATTGAAGATAGTAAATCTTATCTCTCTAAAGTTAC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAAATTGAAGATA-CAAATCTTATCTCCCTGAAGTTGC
* *
36209879 AATAGAGCAGATT-AAAACT-CCAAA
65 AATAGAGCAGATTGAAGA-TAGCAAA
* * * **
36209903 TCTTATCTCTCTGAAGTTGTAGTGGAGCAAATTGAAGATAGTGAATCTTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAAATTGAAGATA-CAAATCTTATCTCCCTGAAGTTGC
* * ***
36209968 AGTAGAACAGATTGAAGATAATGAA
65 AATAGAGCAGATTGAAGATAGCAAA
* * * ** * *
36209993 TCTTATTTCTCTGAAGTTGCAGTGGAGTAGATTGAAGATAGTGAATCTTATTTCCCTGAAATTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAAATTGAAGATA-CAAATCTTATCTCCCTGAAGTTGC
* * * * *
36210058 AGTAGAACAGATTAAAGTTA-CAAG
65 AATAGAGCAGATTGAAGATAGCAAA
* * * * * *
36210082 TCTTATCTCCTTGAAGTTGCAGTGGAATAGATTGAAGTTACAAATCTTATCTCCCGGAAGTTGTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAAATTGAAGATACAAATCTTATCTCCCTGAAGTTGCA
* * *
36210147 GTGGAGCAGATTGAAGTTA-CAAA
66 ATAGAGCAGATTGAAGATAGCAAA
* * * *
36210170 TCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAAATTGAAGATA-CAAATCTTATCTCCCTGAAGTTGC
* * ** * * *
36210235 AGTGGAATAGATTAAAGCTACAAGTTATGAA
65 AATAGAGCAGATTGAAG--A-TAG-CA--AA
* * * *
36210266 TCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAAATTGAAGATA-CAAATCTTATCTCCCTGAAGTTGC
* * ** * * *
36210331 AGTGGAATAGATTAAAGCTACAAGTTATGAA
65 AATAGAGCAGATTGAAG--A-TAG-CA--AA
* * * *
36210362 TCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAAATTGAAGATA-CAAATCTTATCTCCCTGAAGTTGC
* * ** * * *
36210427 AGTGGAATAGATTAAAGCTACAAGTTATGAA
65 AATAGAGCAGATTGAAG--A-TAG-CA--AA
* * * * * *
36210458 TCTTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAGCTACAAATC--ATCTCCTTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAAATTGAAGATACAAATCTTATCTCCCTGAAGTTGCA
* * *
36210521 ATGGAGTAGATTGAAGATA-CAAG
66 ATAGAGCAGATTGAAGATAGCAAA
** * * * * * * * * *
36210544 TCTTATCTCTTTGAAGTTGCAGTAGAGCAGATTAAAGCTGCAAGTCTAATCTCCCTAAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAAATTGAAGATACAAATCTTATCTCCCTGAAGTTGCA
* *
36210609 GTAGAGTAGATTGAAG
66 ATAGAGCAGATTGAAG
36210625 CAGCAAGCAC
Statistics
Matches: 965, Mismatches: 99, Indels: 29
0.88 0.09 0.03
Matches are distributed among these distances:
86 41 0.04
88 103 0.11
89 437 0.45
90 115 0.12
91 1 0.00
92 1 0.00
93 28 0.03
94 1 0.00
95 6 0.01
96 232 0.24
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (89 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGTAAATTGAAGATACAAATCTTATCTCCCTGAAGTTGCA
ATAGAGCAGATTGAAGATAGCAAA
Found at i:36210290 original size:96 final size:96
Alignment explanation
Indices: 36209901--36210544 Score: 751
Period size: 96 Copynumber: 7.0 Consensus size: 96
36209891 TAAAACTCCA
* * * * ** *
36209901 AATCTTATCTCTCTGAAGTTGTAGTGGAGCAAATTGAAGATAGTGAATCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTT
* * * *
36209966 GCAGTAGAACAGATTGAAG-----A-TAATG
66 GCAGTGGAATAGATTAAAGCTACAAGTTATG
* * * * ** *
36209991 AATCTTATTTCTCTGAAGTTGCAGTGGAGTAGATTGAAGATAGTGAATCTTATTTCCCTGAAATT
1 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTT
* * *
36210056 GCAGTAGAACAGATTAAAGTTAC-A---A-G
66 GCAGTGGAATAGATTAAAGCTACAAGTTATG
* * ** * * *
36210082 --TCTTATCTCCTTGAAGTTGCAGTGGAATAGATTGAAGTTA-CAAATCTTATCTCCCGGAAGTT
1 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTT
* ** **
36210144 GTAGTGGAGCAGATT---G----AAGTTACA
66 GCAGTGGAATAGATTAAAGCTACAAGTTATG
36210168 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTT
1 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTT
36210233 GCAGTGGAATAGATTAAAGCTACAAGTTATG
66 GCAGTGGAATAGATTAAAGCTACAAGTTATG
36210264 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTT
1 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTT
36210329 GCAGTGGAATAGATTAAAGCTACAAGTTATG
66 GCAGTGGAATAGATTAAAGCTACAAGTTATG
36210360 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTT
1 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTT
36210425 GCAGTGGAATAGATTAAAGCTACAAGTTATG
66 GCAGTGGAATAGATTAAAGCTACAAGTTATG
* * * *
36210456 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAGCTA-CAAATC--ATCTCCTTGAAGTT
1 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTT
* * * *
36210518 GCAATGGAGTAGATTGAAGATACAAGT
66 GCAGTGGAATAGATTAAAGCTACAAGT
36210545 CTTATCTCTT
Statistics
Matches: 494, Mismatches: 41, Indels: 35
0.87 0.07 0.06
Matches are distributed among these distances:
82 1 0.00
85 2 0.00
88 64 0.13
89 67 0.14
90 77 0.16
91 1 0.00
92 2 0.00
93 35 0.07
94 1 0.00
95 6 0.01
96 238 0.48
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (96 bp):
AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTT
GCAGTGGAATAGATTAAAGCTACAAGTTATG
Found at i:36210526 original size:42 final size:43
Alignment explanation
Indices: 36210456--36210625 Score: 162
Period size: 44 Copynumber: 3.9 Consensus size: 43
36210446 ACAAGTTATG
* *
36210456 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAGCTACA
1 AATC-TATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * *
36210500 AATC-ATCTCCTTGAAGTTGCAATGGAGTAGATTGAAGATACA
1 AATCTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * *
36210542 AGTCTTATCTCTTTGAAGTTGCAGTAGAGCAGATTAAAGCTGCA
1 AATC-TATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * * *
36210586 AGTCTAATCTCCCTAAAGTTGCAGTAGAGTAGATTGAAGC
1 AATCT-ATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGC
36210626 AGCAAGCACA
Statistics
Matches: 104, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
42 35 0.34
43 1 0.01
44 68 0.65
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (43 bp):
AATCTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
Found at i:36213667 original size:22 final size:22
Alignment explanation
Indices: 36213642--36213689 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
36213632 CAACATTCAA
*
36213642 TTCAATCGTAAGAATTTCATGG
1 TTCAATCATAAGAATTTCATGG
*
36213664 TTCAATCATAAGCATTTCATGG
1 TTCAATCATAAGAATTTCATGG
36213686 TTCA
1 TTCA
36213690 CTATACTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.38
Consensus pattern (22 bp):
TTCAATCATAAGAATTTCATGG
Found at i:36214364 original size:44 final size:44
Alignment explanation
Indices: 36214291--36214379 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
36214281 GCTTAATGAC
* * *
36214291 AAATTTGGCCACTAACGTTTACATGTTTTGTCAAAATAGCCCTA
1 AAATTTGGCCACTAACATTTACATATTTTGTCAAAATAACCCTA
* * *
36214335 AAATTTGGTCACTAATATTTTCATATTTTGTCAAAATAACCCTA
1 AAATTTGGCCACTAACATTTACATATTTTGTCAAAATAACCCTA
36214379 A
1 A
36214380 TTGTATTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (44 bp):
AAATTTGGCCACTAACATTTACATATTTTGTCAAAATAACCCTA
Found at i:36214625 original size:21 final size:20
Alignment explanation
Indices: 36214584--36214627 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
36214574 TTACATTTAT
*
36214584 TTTTTTTAAATTAAGAGTTA
1 TTTTTTTAAATTAAGAATTA
* *
36214604 TTTTTTTAACTTCATGAATTA
1 TTTTTTTAAATT-AAGAATTA
36214625 TTT
1 TTT
36214628 ATTCTATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.59
Consensus pattern (20 bp):
TTTTTTTAAATTAAGAATTA
Found at i:36222583 original size:18 final size:19
Alignment explanation
Indices: 36222536--36222573 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
36222526 TGAACAAAAA
*
36222536 AAAAAAGTAATAACAGAATT
1 AAAAAA-TAAAAACAGAATT
36222556 AAAAAATAAAAACAGAAT
1 AAAAAATAAAAACAGAAT
36222574 AAATTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.71, C:0.05, G:0.08, T:0.16
Consensus pattern (19 bp):
AAAAAATAAAAACAGAATT
Found at i:36224564 original size:26 final size:25
Alignment explanation
Indices: 36224501--36224564 Score: 58
Period size: 26 Copynumber: 2.5 Consensus size: 25
36224491 TTATATATTT
*
36224501 TTATTTTT-ATTAAAATATATTTAA
1 TTATTTTTAATTAAAATATATTAAA
* ***
36224525 TAAGAATTATATTAAAATATAATTAAA
1 TTATTTTTA-ATTAAAATAT-ATTAAA
36224552 TTATTTTTAATTA
1 TTATTTTTAATTA
36224565 TTATCTTATT
Statistics
Matches: 28, Mismatches: 9, Indels: 4
0.68 0.22 0.10
Matches are distributed among these distances:
24 4 0.14
26 14 0.50
27 10 0.36
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TTATTTTTAATTAAAATATATTAAA
Found at i:36225268 original size:20 final size:20
Alignment explanation
Indices: 36225243--36225280 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
36225233 GGTGAGAAGT
*
36225243 AAAAGTTTTGGGGAATAATA
1 AAAAGTTTTGAGGAATAATA
36225263 AAAAGTTTTGAGGAATAA
1 AAAAGTTTTGAGGAATAA
36225281 AAGTTTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29
Consensus pattern (20 bp):
AAAAGTTTTGAGGAATAATA
Found at i:36229769 original size:62 final size:59
Alignment explanation
Indices: 36229692--36229818 Score: 193
Period size: 62 Copynumber: 2.1 Consensus size: 59
36229682 ATAATAATAT
* *
36229692 TTTAAT-AGATTTAATATTAAATTTAATTTAATATTTATCTTGTTAAAAAATATTCTATTAA
1 TTTAATAAGATTTAATATTAAATTTAATATAATATTTATCTTG---AAAAATATTATATTAA
*
36229753 TTTAATAAGATTTAATATTAAATTTAATATAATATTTATCTTGATAAATATTATATTAA
1 TTTAATAAGATTTAATATTAAATTTAATATAATATTTATCTTGAAAAATATTATATTAA
36229812 TTTAATA
1 TTTAATA
36229819 TTAAAGTGAT
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
59 21 0.34
61 6 0.10
62 35 0.56
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.50
Consensus pattern (59 bp):
TTTAATAAGATTTAATATTAAATTTAATATAATATTTATCTTGAAAAATATTATATTAA
Found at i:36229782 original size:38 final size:37
Alignment explanation
Indices: 36229740--36229821 Score: 87
Period size: 38 Copynumber: 2.2 Consensus size: 37
36229730 CTTGTTAAAA
*
36229740 AATATTCTATTAAT-TTAATAAGAT-TTAATATTAAATTT
1 AATATTATATTAATCTTAATAA-ATATT-ATATT-AATTT
* * *
36229778 AATATAATATTTATCTTGATAAATATTATATTAATTT
1 AATATTATATTAATCTTAATAAATATTATATTAATTT
36229815 AATATTA
1 AATATTA
36229822 AAGTGATTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
37 11 0.30
38 18 0.49
39 8 0.22
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (37 bp):
AATATTATATTAATCTTAATAAATATTATATTAATTT
Found at i:36231409 original size:17 final size:18
Alignment explanation
Indices: 36231387--36231424 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
36231377 CAACCTAATT
36231387 ACCCAACCCAATTA-CCA
1 ACCCAACCCAATTACCCA
*
36231404 ACCCAACCGAATTACCCA
1 ACCCAACCCAATTACCCA
36231422 ACC
1 ACC
36231425 GAATAAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.39, C:0.47, G:0.03, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAATTACCCA
Found at i:36231420 original size:13 final size:13
Alignment explanation
Indices: 36231374--36231428 Score: 56
Period size: 13 Copynumber: 3.9 Consensus size: 13
36231364 AAATTATCTA
*
36231374 ACCCAACCTAATT
1 ACCCAACCGAATT
*
36231387 ACCCAACCCAATT
1 ACCCAACCGAATT
36231400 ACCAACCCAACCGAATT
1 ----ACCCAACCGAATT
36231417 ACCCAACCGAAT
1 ACCCAACCGAAT
36231429 AAAACTAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
13 24 0.67
17 12 0.33
ACGTcount: A:0.40, C:0.42, G:0.04, T:0.15
Consensus pattern (13 bp):
ACCCAACCGAATT
Found at i:36231468 original size:38 final size:39
Alignment explanation
Indices: 36231413--36231486 Score: 123
Period size: 38 Copynumber: 1.9 Consensus size: 39
36231403 AACCCAACCG
* *
36231413 AATTACCCAACCGAATAAAACTAAAACTAAAGTCTACCC
1 AATTACCCAACCCAATAAAAATAAAACTAAAGTCTACCC
36231452 AATTA-CCAACCCAATAAAAATAAAACTAAAGTCTA
1 AATTACCCAACCCAATAAAAATAAAACTAAAGTCTA
36231487 ACTCTAAGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
38 28 0.85
39 5 0.15
ACGTcount: A:0.53, C:0.24, G:0.04, T:0.19
Consensus pattern (39 bp):
AATTACCCAACCCAATAAAAATAAAACTAAAGTCTACCC
Found at i:36231639 original size:17 final size:17
Alignment explanation
Indices: 36231619--36231681 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
36231609 TAATTTCAAG
36231619 AATTATGTAATGTTTTT
1 AATTATGTAATGTTTTT
* ***
36231636 AATTATGTAGTGATTCAA
1 AATTATGTAATG-TTTTT
36231654 AGACTTATGTAATGTTTTT
1 A-A-TTATGTAATGTTTTT
36231673 AATTATGTA
1 AATTATGTA
36231682 GTGATTCAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
17 18 0.51
18 4 0.11
19 4 0.11
20 9 0.26
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.49
Consensus pattern (17 bp):
AATTATGTAATGTTTTT
Found at i:36231640 original size:37 final size:37
Alignment explanation
Indices: 36231599--36231690 Score: 125
Period size: 37 Copynumber: 2.5 Consensus size: 37
36231589 CTTACATTTC
36231599 AATTATGT-GTTAATTTC-AAGAATTATGTAATGTTTTT
1 AATTATGTAG-TAA-TTCAAAGAATTATGTAATGTTTTT
* *
36231636 AATTATGTAGTGATTCAAAGACTTATGTAATGTTTTT
1 AATTATGTAGTAATTCAAAGAATTATGTAATGTTTTT
*
36231673 AATTATGTAGTGATTCAA
1 AATTATGTAGTAATTCAA
36231691 TTCGGGTAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
36 3 0.06
37 47 0.92
38 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (37 bp):
AATTATGTAGTAATTCAAAGAATTATGTAATGTTTTT
Found at i:36231703 original size:9 final size:9
Alignment explanation
Indices: 36231689--36231719 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
36231679 GTAGTGATTC
*
36231689 AATTCGGGT
1 AATTCGGTT
36231698 AATTCGGTT
1 AATTCGGTT
36231707 AATTCGGTT
1 AATTCGGTT
36231716 AATT
1 AATT
36231720 TTTAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:36237080 original size:16 final size:16
Alignment explanation
Indices: 36237059--36237089 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36237049 TTTATATATT
36237059 TGTATATATGTACATG
1 TGTATATATGTACATG
*
36237075 TGTATATATTTACAT
1 TGTATATATGTACAT
36237090 ATTTTAACGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.48
Consensus pattern (16 bp):
TGTATATATGTACATG
Found at i:36242858 original size:360 final size:360
Alignment explanation
Indices: 36242197--36242922 Score: 1452
Period size: 360 Copynumber: 2.0 Consensus size: 360
36242187 GGAAGATAGA
36242197 TATGGGAGAAAGTAGTAGAAGGTCAACCTCGAAGAAAAAGGAAAACGAGGTCAATAATGCCAGTT
1 TATGGGAGAAAGTAGTAGAAGGTCAACCTCGAAGAAAAAGGAAAACGAGGTCAATAATGCCAGTT
36242262 ATTCAAAGATGATTACGGTGAATCAGCCGAGAAAGGTGGCTGTTGACAAACAAGGAGCCAACACA
66 ATTCAAAGATGATTACGGTGAATCAGCCGAGAAAGGTGGCTGTTGACAAACAAGGAGCCAACACA
36242327 AGGCAAAACAAGGAAAAGCCCCAGTTTACGCCCATTCCAATGTCGTATAAGGAGTTGTATCAAAA
131 AGGCAAAACAAGGAAAAGCCCCAGTTTACGCCCATTCCAATGTCGTATAAGGAGTTGTATCAAAA
36242392 GTTATTCAATGCACACGTAGTTTCTCCTTTTTATTTAGAACCTCTGCAGCCTTCGTACCTCAAGT
196 GTTATTCAATGCACACGTAGTTTCTCCTTTTTATTTAGAACCTCTGCAGCCTTCGTACCTCAAGT
36242457 GGTACGATGCAAAAGCACAATGCGATTATCATGCGGAAATCGTGGGGTATTCCATAGAGCATTGT
261 GGTACGATGCAAAAGCACAATGCGATTATCATGCGGAAATCGTGGGGTATTCCATAGAGCATTGT
36242522 ACGGTGTTCAAAAAGCTGGTTGAAAGACTCATAAG
326 ACGGTGTTCAAAAAGCTGGTTGAAAGACTCATAAG
36242557 TATGGGAGAAAGTAGTAGAAGGTCAACCTCGAAGAAAAAGGAAAACGAGGTCAATAATGCCAGTT
1 TATGGGAGAAAGTAGTAGAAGGTCAACCTCGAAGAAAAAGGAAAACGAGGTCAATAATGCCAGTT
36242622 ATTCAAAGATGATTACGGTGAATCAGCCGAGAAAGGTGGCTGTTGACAAACAAGGAGCCAACACA
66 ATTCAAAGATGATTACGGTGAATCAGCCGAGAAAGGTGGCTGTTGACAAACAAGGAGCCAACACA
36242687 AGGCAAAACAAGGAAAAGCCCCAGTTTACGCCCATTCCAATGTCGTATAAGGAGTTGTATCAAAA
131 AGGCAAAACAAGGAAAAGCCCCAGTTTACGCCCATTCCAATGTCGTATAAGGAGTTGTATCAAAA
36242752 GTTATTCAATGCACACGTAGTTTCTCCTTTTTATTTAGAACCTCTGCAGCCTTCGTACCTCAAGT
196 GTTATTCAATGCACACGTAGTTTCTCCTTTTTATTTAGAACCTCTGCAGCCTTCGTACCTCAAGT
36242817 GGTACGATGCAAAAGCACAATGCGATTATCATGCGGAAATCGTGGGGTATTCCATAGAGCATTGT
261 GGTACGATGCAAAAGCACAATGCGATTATCATGCGGAAATCGTGGGGTATTCCATAGAGCATTGT
36242882 ACGGTGTTCAAAAAGCTGGTTGAAAGACTCATAAG
326 ACGGTGTTCAAAAAGCTGGTTGAAAGACTCATAAG
36242917 TATGGG
1 TATGGG
36242923 CGTTGTTAAA
Statistics
Matches: 366, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
360 366 1.00
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (360 bp):
TATGGGAGAAAGTAGTAGAAGGTCAACCTCGAAGAAAAAGGAAAACGAGGTCAATAATGCCAGTT
ATTCAAAGATGATTACGGTGAATCAGCCGAGAAAGGTGGCTGTTGACAAACAAGGAGCCAACACA
AGGCAAAACAAGGAAAAGCCCCAGTTTACGCCCATTCCAATGTCGTATAAGGAGTTGTATCAAAA
GTTATTCAATGCACACGTAGTTTCTCCTTTTTATTTAGAACCTCTGCAGCCTTCGTACCTCAAGT
GGTACGATGCAAAAGCACAATGCGATTATCATGCGGAAATCGTGGGGTATTCCATAGAGCATTGT
ACGGTGTTCAAAAAGCTGGTTGAAAGACTCATAAG
Found at i:36248822 original size:25 final size:25
Alignment explanation
Indices: 36248781--36248828 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
36248771 TGAATTTGTT
36248781 TGTTCTTGTAATACTTTATTCTTTGC
1 TGTTCTTGTAATACTTT-TTCTTTGC
36248807 TGTTCTTG-AATACTTTTTCTTT
1 TGTTCTTGTAATACTTTTTCTTT
36248829 TCAAGACACT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 6 0.27
25 8 0.36
26 8 0.36
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.60
Consensus pattern (25 bp):
TGTTCTTGTAATACTTTTTCTTTGC
Found at i:36249717 original size:44 final size:45
Alignment explanation
Indices: 36249654--36250034 Score: 314
Period size: 44 Copynumber: 8.6 Consensus size: 45
36249644 AAAAAATAGT
*
36249654 AGATCTTGTCTTCATATATTGG-CGTGAAGTAGATCGAAGATAAC
1 AGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAAC
* * * * *
36249698 AGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGAT-GC
1 AGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAAC
* * * * *
36249742 ATATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA-AAGC
1 AGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAA-C
* * **
36249787 AGATCTTGTCTTCATGTATT-AACGTGAAGTAGATCGAAGA-AAGC
1 AGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAA-C
* * *
36249831 AGAGCTTGTCTTCCTGTATTGG-CGTGAAGTAGATCGATGATAAC
1 AGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAAC
* * * * * *
36249875 ATATCCTGTCTTCCTGTATTGGTAG-GAAGTGGATCGAAGAT-GC
1 AGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAAC
* * * * *
36249918 AGATCTTGTATTCCCACATTGGTGGCGAAGTAGATCGAAGA-AAGC
1 AGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAA-C
* * * * * * *
36249963 AGATATTATCTTCATGTATTGG-CTTGAAGTAGATCGAAAATAGC
1 AGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAAC
* * *
36250007 AGATCCTGTCTTTCTATATTGGTAGTGA
1 AGATCTTGTCTTCCTATATTGGTCGTGA
36250035 GGCAGACTGA
Statistics
Matches: 264, Mismatches: 62, Indels: 21
0.76 0.18 0.06
Matches are distributed among these distances:
43 19 0.07
44 190 0.72
45 55 0.21
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (45 bp):
AGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAAC
Found at i:36249904 original size:88 final size:88
Alignment explanation
Indices: 36249654--36250028 Score: 350
Period size: 88 Copynumber: 4.2 Consensus size: 88
36249644 AAAAAATAGT
* *
36249654 AGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATATTG
1 AGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTGTATTG
36249719 GTAGCGAAGTGGATCGAAGATGC
66 GTAGCGAAGTGGATCGAAGATGC
* * * * * * *
36249742 ATATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCATGTAT
1 AGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATCGAAGATAA-CAGATCCTGTCTTCCTGTAT
* * * *
36249806 T--AACGTGAAGTAGATCGAAGAAAGC
64 TGGTA-GCGAAGTGGATCGAAG-ATGC
* * * *
36249831 AGAGCTTGTCTTCCTGTATTGGCGTGAAGTAGATCGATGATAACATATCCTGTCTTCCTGTATTG
1 AGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTGTATTG
36249896 GTAG-GAAGTGGATCGAAGATGC
66 GTAGCGAAGTGGATCGAAGATGC
* * * * * ** * *
36249918 AGATCTTGTATTCCCACATTGGTGGCGAAGTAGATCGAAGA-AAGCAGATATTATCTTCATGTAT
1 AGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATCGAAGATAA-CAGATCCTGTCTTCCTGTAT
* * *
36249982 TGGCT--TGAAGTAGATCGAAAATAGC
64 TGG-TAGCGAAGTGGATCGAAGAT-GC
* *
36250007 AGATCCTGTCTTTCTATATTGG
1 AGATCTTGTCTTCCTATATTGG
36250029 TAGTGAGGCA
Statistics
Matches: 228, Mismatches: 47, Indels: 23
0.77 0.16 0.08
Matches are distributed among these distances:
87 23 0.10
88 127 0.56
89 77 0.34
90 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (88 bp):
AGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTGTATTG
GTAGCGAAGTGGATCGAAGATGC
Found at i:36249977 original size:176 final size:177
Alignment explanation
Indices: 36249646--36250028 Score: 572
Period size: 176 Copynumber: 2.2 Consensus size: 177
36249636 AGCAGGCTAA
* * *
36249646 AAAATAGTAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTC
1 AAAATAGCAGAGCTTGTCTTCCTATATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTC
* * *
36249711 CTATATTGGTAGCGAAGTGGATCGAAGATGCATATCTTGTCTTCCCATACTGGTGGCGAAGTAGA
66 CTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTATTCCCACACTGGTGGCGAAGTAGA
* *
36249776 TCGAAGAAAGCAGATCTTGTCTTCATGTATTAACGTGAAGTAGATCG
131 TCGAAGAAAGCAGATATTATCTTCATGTATTAACGTGAAGTAGATCG
* * *
36249823 AAGAA-AGCAGAGCTTGTCTTCCTGTATTGGCGTGAAGTAGATCGATGATAACATATCCTGTCTT
1 AA-AATAGCAGAGCTTGTCTTCCTATATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTT
* *
36249887 CCTGTATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTATTCCCACATTGGTGGCGAAGTAG
65 CCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTATTCCCACACTGGTGGCGAAGTAG
** *
36249951 ATCGAAGAAAGCAGATATTATCTTCATGTATTGGCTTGAAGTAGATCG
130 ATCGAAGAAAGCAGATATTATCTTCATGTATTAACGTGAAGTAGATCG
* * *
36249999 AAAATAGCAGATCCTGTCTTTCTATATTGG
1 AAAATAGCAGAGCTTGTCTTCCTATATTGG
36250029 TAGTGAGGCA
Statistics
Matches: 184, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
175 2 0.01
176 113 0.61
177 67 0.36
178 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (177 bp):
AAAATAGCAGAGCTTGTCTTCCTATATTGGCGTGAAGTAGATCGAAGATAACAGATCCTGTCTTC
CTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTATTCCCACACTGGTGGCGAAGTAGA
TCGAAGAAAGCAGATATTATCTTCATGTATTAACGTGAAGTAGATCG
Found at i:36263712 original size:48 final size:49
Alignment explanation
Indices: 36263652--36263798 Score: 176
Period size: 48 Copynumber: 3.1 Consensus size: 49
36263642 CAGATTTCTT
* * * *
36263652 GGTGGCTTGCACACTGTCCGTACCACCTTTGTGTAATAACAGA-TTCTC
1 GGTGGCTTGCACACTGTCCGTGCCACCCTTGTGTCATAACAGAGTTATC
* * *
36263700 GGTGGCTTGCACA-TAGTCCGTGCCACCCTTGTATCTTAACA-AGTTATT
1 GGTGGCTTGCACACT-GTCCGTGCCACCCTTGTGTCATAACAGAGTTATC
* *
36263748 GGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGA-TTATC
1 GGTGGCTTGCACACTGTCCGTGCCACCCTTGTGTCATAACAGAGTTATC
36263796 GGT
1 GGT
36263799 ACGCATAATA
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
47 2 0.02
48 80 0.96
49 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.30
Consensus pattern (49 bp):
GGTGGCTTGCACACTGTCCGTGCCACCCTTGTGTCATAACAGAGTTATC
Found at i:36272993 original size:18 final size:17
Alignment explanation
Indices: 36272957--36272998 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
36272947 AAATTATGCC
36272957 AAAA-ATAAAATAAAAT
1 AAAATATAAAATAAAAT
*
36272973 AAAATATAAAACTAAACT
1 AAAATATAAAA-TAAAAT
*
36272991 AAACTATA
1 AAAATATA
36272999 GTTACTTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 4 0.18
17 6 0.27
18 12 0.55
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAATATAAAATAAAAT
Found at i:36273228 original size:32 final size:34
Alignment explanation
Indices: 36273178--36273240 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
36273168 TAATATTTCA
*
36273178 AATATATATAATTAATAATT-TTTATAAAAAACT
1 AATATATATAATTAATAATTATTAATAAAAAACT
36273211 AATATA-ATAATCT-ATAATTATTAATAAAAA
1 AATATATATAAT-TAATAATTATTAATAAAAA
36273241 GTAAATACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (34 bp):
AATATATATAATTAATAATTATTAATAAAAAACT
Found at i:36274127 original size:124 final size:124
Alignment explanation
Indices: 36273907--36274403 Score: 985
Period size: 124 Copynumber: 4.0 Consensus size: 124
36273897 AAAAAACTGT
36273907 GACATATCGAGTCGGAGTGAAGTAAAGCTTTAATTTTTCAGGTCAGTTTTATGGTAAGTAATTAA
1 GACATATCGAGTCGGAGTGAAGTAAAGCTTTAATTTTTCAGGTCAGTTTTATGGTAAGTAATTAA
36273972 TATTTAATTTGGGATGGAGTTATGTTGGGGGTATACCGAGTTGATGTCAAAGGATGGGG
66 TATTTAATTTGGGATGGAGTTATGTTGGGGGTATACCGAGTTGATGTCAAAGGATGGGG
36274031 GACATATCGAGTCGGAGTGAAGTAAAGCTTTAATTTTTCAGGTCAGTTTTATGGTAAGTAATTAA
1 GACATATCGAGTCGGAGTGAAGTAAAGCTTTAATTTTTCAGGTCAGTTTTATGGTAAGTAATTAA
36274096 TATTTAATTTGGGATGGAGTTATGTTGGGGGTATACCGAGTTGATGTCAAAGGATGGGG
66 TATTTAATTTGGGATGGAGTTATGTTGGGGGTATACCGAGTTGATGTCAAAGGATGGGG
36274155 GACATATCGAGTCGGAGTGAAGTAAAGCTTTAATTTTTCAGGTCAGTTTTATGGTAAGTAATTAA
1 GACATATCGAGTCGGAGTGAAGTAAAGCTTTAATTTTTCAGGTCAGTTTTATGGTAAGTAATTAA
36274220 TATTTAATTTGGGATGGAGTTATGTTGGGGGTATACCGAGTTGATGTCAAAGGATGGGG
66 TATTTAATTTGGGATGGAGTTATGTTGGGGGTATACCGAGTTGATGTCAAAGGATGGGG
36274279 GACATATCGAGTCGGAGTGAAGTAAAGCTTTAATTTTTCAGGTCAGTTTTATGGTAAGTAATTAA
1 GACATATCGAGTCGGAGTGAAGTAAAGCTTTAATTTTTCAGGTCAGTTTTATGGTAAGTAATTAA
*
36274344 TATTTAATTTGGGATGGAGTTATGTTGGGGGTATACCGGGTTGATGTCAAAGGATGGGG
66 TATTTAATTTGGGATGGAGTTATGTTGGGGGTATACCGAGTTGATGTCAAAGGATGGGG
36274403 G
1 G
36274404 GCAAAAACAG
Statistics
Matches: 372, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
124 372 1.00
ACGTcount: A:0.28, C:0.07, G:0.30, T:0.35
Consensus pattern (124 bp):
GACATATCGAGTCGGAGTGAAGTAAAGCTTTAATTTTTCAGGTCAGTTTTATGGTAAGTAATTAA
TATTTAATTTGGGATGGAGTTATGTTGGGGGTATACCGAGTTGATGTCAAAGGATGGGG
Found at i:36276434 original size:29 final size:26
Alignment explanation
Indices: 36276384--36276439 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 26
36276374 AATTTGACTC
*
36276384 TTTTTTTAAAGATTGATAGTTAAATT
1 TTTTTTTAAAGATTGAAAGTTAAATT
36276410 TTTTTTTAAAAGATTGAGAAAGTTAAATT
1 TTTTTTT-AAAGATT--GAAAGTTAAATT
36276439 T
1 T
36276440 AACTAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 7 0.27
27 7 0.27
29 12 0.46
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (26 bp):
TTTTTTTAAAGATTGAAAGTTAAATT
Found at i:36284381 original size:23 final size:23
Alignment explanation
Indices: 36284349--36284394 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
36284339 ACTACCATTT
*
36284349 TCTAAATAAAATAATAATAAATA
1 TCTAAATAAAATAATAAAAAATA
*
36284372 TCTAAGTAAAATAATAAAAAATA
1 TCTAAATAAAATAATAAAAAATA
36284395 ATATTTAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.28
Consensus pattern (23 bp):
TCTAAATAAAATAATAAAAAATA
Found at i:36293574 original size:15 final size:15
Alignment explanation
Indices: 36293542--36293581 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
36293532 GGAAACCCTG
36293542 AAAATCAAATCTCTA
1 AAAATCAAATCTCTA
*
36293557 AAAAT-AAATCTTTA
1 AAAATCAAATCTCTA
36293571 AAAATCGAAAT
1 AAAATC-AAAT
36293582 TCAAAACCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 13 0.59
15 5 0.23
16 4 0.18
ACGTcount: A:0.57, C:0.12, G:0.03, T:0.28
Consensus pattern (15 bp):
AAAATCAAATCTCTA
Found at i:36295542 original size:29 final size:31
Alignment explanation
Indices: 36295485--36295542 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 31
36295475 ATACATTTGA
*
36295485 ACCACAATTAAAGTTTCACGTATAAAATTAC
1 ACCACAATTAAAGTCTCACGTATAAAATTAC
* *
36295516 ACCA-AATTAAAG-CTCATGTATACAATT
1 ACCACAATTAAAGTCTCACGTATAAAATT
36295543 TGATTTGCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 12 0.50
30 8 0.33
31 4 0.17
ACGTcount: A:0.45, C:0.19, G:0.07, T:0.29
Consensus pattern (31 bp):
ACCACAATTAAAGTCTCACGTATAAAATTAC
Found at i:36302476 original size:50 final size:50
Alignment explanation
Indices: 36302360--36302552 Score: 260
Period size: 50 Copynumber: 3.8 Consensus size: 50
36302350 GATAATAACA
* * ** *
36302360 TGCCAAAGCCATGTCTCAGACATGGTCTTACATGGGATGTTCACATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCAG
* **
36302411 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* *
36302461 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
** *
36302511 TGCCAATTTCATGCCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
36302553 TTACCCAAAT
Statistics
Matches: 125, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 93 0.74
51 32 0.26
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
Found at i:36304689 original size:17 final size:16
Alignment explanation
Indices: 36304664--36304696 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
36304654 GTAGATTAAC
36304664 ATGATTTGTATATGAA
1 ATGATTTGTATATGAA
36304680 ATGATATTGTATATGAA
1 ATGAT-TTGTATATGAA
36304697 TTGGTTGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (16 bp):
ATGATTTGTATATGAA
Found at i:36306612 original size:31 final size:31
Alignment explanation
Indices: 36306557--36306624 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
36306547 TGTCATCTTG
* *
36306557 GATTGCCTAACGACAATGATCAACCACCCCA
1 GATTGCCTAACAACAATGACCAACCACCCCA
** * *
36306588 GATTGCCTAACAATGATGACCAACCGCCCCG
1 GATTGCCTAACAACAATGACCAACCACCCCA
36306619 GATTGC
1 GATTGC
36306625 TCGGCGACAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.31, C:0.34, G:0.18, T:0.18
Consensus pattern (31 bp):
GATTGCCTAACAACAATGACCAACCACCCCA
Found at i:36309579 original size:21 final size:22
Alignment explanation
Indices: 36309555--36309595 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
36309545 TTTCTCCCAC
*
36309555 GTTA-GGTTTTGGGTTTTTAGG
1 GTTAGGGTTTAGGGTTTTTAGG
36309576 GTTAGGGTTTAGGGTTTTTA
1 GTTAGGGTTTAGGGTTTTTA
36309596 AGATTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.12, C:0.00, G:0.37, T:0.51
Consensus pattern (22 bp):
GTTAGGGTTTAGGGTTTTTAGG
Found at i:36310002 original size:125 final size:125
Alignment explanation
Indices: 36309780--36310190 Score: 628
Period size: 125 Copynumber: 3.3 Consensus size: 125
36309770 ATTTATTAAG
* * *
36309780 GAAATCGCTCCCACGTGGACGCGTTTTTTATACAATAGGTCCTGAGAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTTCTACAATAGGTCCTGAAAAAATAATTTCGAGTTGAC
* * * * * *
36309845 ATTTCTGAGTAAATAGTATAAAAAACGCTTCAAGTAGGATACTTTATTAGAAGAATTTCT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
* * * *
36309905 GAAATCGCTCCCACGTAGACGTGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTTCTACAATAGGTCCTGAAAAAATAATTTCGAGTTGAC
* *
36309970 GTTTCTGAGCAAATATTATAAAAAATGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
* * * *
36310030 GAAATCGTTCCCACGTGGATGCGCATTTACTACAATAGGTCCTG-AAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTTCTACAATAGGTCCTGAAAAAATAATTTCGAGTTGAC
36310094 GTTTCTGAGCAAATAGTAT-AAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
*
36310153 GAAATTGCTCCCACGTGGACGCGCTTTTTCTACAATAG
1 GAAATCGCTCCCACGTGGACGCGCTTTTTCTACAATAG
36310191 CATGTTTGAG
Statistics
Matches: 257, Mismatches: 29, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
123 72 0.28
124 38 0.15
125 147 0.57
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (125 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTTCTACAATAGGTCCTGAAAAAATAATTTCGAGTTGAC
GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
Found at i:36312065 original size:18 final size:18
Alignment explanation
Indices: 36312038--36312075 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
36312028 GGAAAAAGAA
* *
36312038 ACATATAAGGGTTAGGAT
1 ACATAAAAGGGCTAGGAT
36312056 ACATAAAAGGGCTAGGAT
1 ACATAAAAGGGCTAGGAT
36312074 AC
1 AC
36312076 GCACCTGGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (18 bp):
ACATAAAAGGGCTAGGAT
Found at i:36335173 original size:16 final size:16
Alignment explanation
Indices: 36335152--36335193 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
36335142 TTATTAAATT
*
36335152 ATATATTTTAATTATA
1 ATATATTTTAATAATA
36335168 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
36335183 AT-TATGTTTAA
1 ATATAT-TTTAA
36335194 ATGTGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:36335178 original size:15 final size:15
Alignment explanation
Indices: 36335143--36335184 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
36335133 TTAAGAATTT
*
36335143 TATTAAATTAT-ATA
1 TATTTAATTATAATA
36335157 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
36335171 TATTTAATAATAAT
1 TATTTAATTATAAT
36335185 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:36343561 original size:18 final size:17
Alignment explanation
Indices: 36343524--36343665 Score: 90
Period size: 18 Copynumber: 8.1 Consensus size: 17
36343514 CCAGAGAAGA
*
36343524 AAGAGGAACCAAAGAAAG
1 AAGATGAACCAAA-AAAG
*
36343542 AAGGTGAAGCCAAAAAAG
1 AAGATGAA-CCAAAAAAG
*
36343560 AAGATGAACAAAAGAAAG
1 AAGATGAACCAAA-AAAG
* * *
36343578 AAGGTGAACCCAAGAAGG
1 AAGATGAA-CCAAAAAAG
*
36343596 AAGATGAA-CAAAAGA-
1 AAGATGAACCAAAAAAG
*
36343611 AAGATGAAGCCAAAAAGG
1 AAGATGAA-CCAAAAAAG
* ** *
36343629 AAGAAGAAGGTAAGAAAG
1 AAGATGAA-CCAAAAAAG
*
36343647 AAGATGAAACCAAGAAAG
1 AAGATG-AACCAAAAAAG
36343665 A
1 A
36343666 TGGTGAGAAG
Statistics
Matches: 95, Mismatches: 22, Indels: 14
0.73 0.17 0.11
Matches are distributed among these distances:
15 8 0.08
16 4 0.04
17 9 0.09
18 64 0.67
19 10 0.11
ACGTcount: A:0.59, C:0.09, G:0.27, T:0.05
Consensus pattern (17 bp):
AAGATGAACCAAAAAAG
Found at i:36343575 original size:36 final size:36
Alignment explanation
Indices: 36343524--36343665 Score: 146
Period size: 36 Copynumber: 4.0 Consensus size: 36
36343514 CCAGAGAAGA
* *
36343524 AAGAGGAACCAAAGAAAGAAGGTGAAGCCAAAAAAG
1 AAGATGAACAAAAGAAAGAAGGTGAAGCCAAAAAAG
* * *
36343560 AAGATGAACAAAAGAAAGAAGGTGAACCCAAGAAGG
1 AAGATGAACAAAAGAAAGAAGGTGAAGCCAAAAAAG
*
36343596 AAGATGAACAAAAGAAAG-A--TGAAGCCAAAAAGG
1 AAGATGAACAAAAGAAAGAAGGTGAAGCCAAAAAAG
* *** * * *
36343629 AAGAAGAAGGTAAGAAAGAAGATGAAACCAAGAAAG
1 AAGATGAACAAAAGAAAGAAGGTGAAGCCAAAAAAG
36343665 A
1 A
36343666 TGGTGAGAAG
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
33 26 0.29
34 1 0.01
35 1 0.01
36 61 0.69
ACGTcount: A:0.59, C:0.09, G:0.27, T:0.05
Consensus pattern (36 bp):
AAGATGAACAAAAGAAAGAAGGTGAAGCCAAAAAAG
Found at i:36343578 original size:15 final size:15
Alignment explanation
Indices: 36343555--36343618 Score: 58
Period size: 15 Copynumber: 3.9 Consensus size: 15
36343545 GTGAAGCCAA
36343555 AAAAG-AAGATGAAC
1 AAAAGAAAGATGAAC
36343569 AAAAGAAAGAAGGTGAACCC
1 AAAAGAAAG-A--TGAA--C
*
36343589 AAGAAGGAAGATGAAC
1 AA-AAGAAAGATGAAC
36343605 AAAAGAAAGATGAA
1 AAAAGAAAGATGAA
36343619 GCCAAAAAGG
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
14 5 0.12
15 14 0.34
16 4 0.10
18 8 0.20
20 4 0.10
21 6 0.15
ACGTcount: A:0.61, C:0.08, G:0.25, T:0.06
Consensus pattern (15 bp):
AAAAGAAAGATGAAC
Found at i:36343632 original size:69 final size:71
Alignment explanation
Indices: 36343512--36343662 Score: 180
Period size: 69 Copynumber: 2.1 Consensus size: 71
36343502 CCAGCAAAAG
* *
36343512 AACCAGAGAAGAAAGAGGAACCAAAGAAAGAAGGTGAAGCCAAAAAAGAAGATGAACAAAAGAAA
1 AACCA-AGAAGAAAGAGGAACAAAAGAAAGAA-GTGAAGCCAAAAAAGAAGAAGAACAAAAGAAA
*
36343577 GAAGGTGA
64 GAAGATGA
* * * * ***
36343585 ACCCAAGAAGGAAGATGAACAAAAGAAAG-A-TGAAGCCAAAAAGGAAGAAGAAGGTAAGAAAGA
1 AACCAAGAAGAAAGAGGAACAAAAGAAAGAAGTGAAGCCAAAAAAGAAGAAGAACAAAAGAAAGA
36343648 AGATGA
66 AGATGA
36343654 AACCAAGAA
1 AACCAAGAA
36343663 AGATGGTGAG
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
69 41 0.61
71 1 0.01
72 21 0.31
73 4 0.06
ACGTcount: A:0.59, C:0.10, G:0.26, T:0.05
Consensus pattern (71 bp):
AACCAAGAAGAAAGAGGAACAAAAGAAAGAAGTGAAGCCAAAAAAGAAGAAGAACAAAAGAAAGA
AGATGA
Found at i:36347626 original size:29 final size:26
Alignment explanation
Indices: 36347576--36347629 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 26
36347566 CAGAAAGAGA
*
36347576 AAAAGAGAAAAAAACAAAATAGCAGG
1 AAAAGAAAAAAAAACAAAATAGCAGG
36347602 AAAAGAAAATAAATAACAGAAATAGCAG
1 AAAAGAAAA-AAA-AACA-AAATAGCAG
36347630 AAGAGATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 8 0.33
27 3 0.12
28 4 0.17
29 9 0.38
ACGTcount: A:0.69, C:0.07, G:0.17, T:0.07
Consensus pattern (26 bp):
AAAAGAAAAAAAAACAAAATAGCAGG
Found at i:36353185 original size:30 final size:30
Alignment explanation
Indices: 36353149--36353208 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
36353139 ATTTTTCGCA
36353149 TACAAGATGAAAGTGAGAAATCTTATCTAT
1 TACAAGATGAAAGTGAGAAATCTTATCTAT
36353179 TACAAGATGAAAGTGAGAAATCTTATCTAT
1 TACAAGATGAAAGTGAGAAATCTTATCTAT
36353209 AAAAACATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.30
Consensus pattern (30 bp):
TACAAGATGAAAGTGAGAAATCTTATCTAT
Found at i:36355827 original size:131 final size:131
Alignment explanation
Indices: 36355443--36356136 Score: 804
Period size: 131 Copynumber: 5.3 Consensus size: 131
36355433 ATCAGTGAAT
* * * * *
36355443 ATTGTAGATCTTATCTTCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCA
1 ATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCC
* * * * * * *
36355508 AGATAGT-GGGAAGCAGATTTAGGCCATCGAG-CCT-TGTCTCCCTGAGCAGCAG-CGAAGCAGG
66 AG-GAGTAGGGAAACAGATTTAAGCCA-CAAGTCCTATG--TCCCTGACCAGCAGTGGAA-TAGG
36355569 TT-GAA
126 TTGGAA
* * * *
36355574 GATTGTAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATATTTCC
1 -ATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAATCTTAT-CTTCC
* * *
36355639 AANCAGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATGTCCTTGACCAGCAGTGGGATAGGT
64 --CCAGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGT
36355704 TGGAA
127 TGGAA
* * * *
36355709 ATTGCAGATCTTATCTTCCTAAGTAGTAGTGGAGCAGTTCGAAGACGGCGAATCTTATCTTCCCC
1 ATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCC
*
36355774 AGGAGTAGGGAAACAGATTTGAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGA
66 AGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGA
36355839 A
131 A
*
36355840 ATTGCAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCC
1 ATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCC
* * *
36355905 AGAAGTAGGGAAACAGATTTAAGCCACAAGTCCTATGTCCCTGACTAGTAGTGGAATAGGTTGGA
66 AGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGA
36355970 A
131 A
*
36355971 ATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTT---C
1 ATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCC
* * * * * * *** *
36356033 AAGTGTAAGGAAGCAGATTGAAGCCGATAA-TCCTATGTCCCTGAAGTTGCAGTGGAGT-GGATT
66 AGGAGTAGGGAAACAGATTTAAGCC-ACAAGTCCTATGTCCCTG-ACCAGCAGTGGAATAGG-TT
36356096 --AA
128 GGAA
36356098 A--GCAATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 ATTGC---AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
36356137 CAGAAGAAAT
Statistics
Matches: 501, Mismatches: 47, Indels: 32
0.86 0.08 0.06
Matches are distributed among these distances:
125 2 0.00
127 3 0.01
128 68 0.14
129 15 0.03
131 245 0.49
132 56 0.11
133 7 0.01
134 76 0.15
135 27 0.05
136 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (131 bp):
ATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCC
AGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGA
A
Found at i:36356132 original size:43 final size:43
Alignment explanation
Indices: 36356083--36356220 Score: 138
Period size: 43 Copynumber: 3.2 Consensus size: 43
36356073 CTGAAGTTGC
*
36356083 AGTGGAGTGGATTAAAGCAATAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGCGGATTAAAGCAATAGATCTTATCTCCCTAAGCAGT
* * * * * *
36356126 AGTGGAGCAGA-CAGAAGAAATCA-ATCCTATCTCCCTGAAGTTA-C
1 AGTGGAGCGGATTA-AAGCAAT-AGATCTTATCTCCCT-AAG-CAGT
* *
36356170 AATGGAGCGGATTAAAACAATAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGCGGATTAAAGCAATAGATCTTATCTCCCTAAGCAGT
36356213 AGTGGAGC
1 AGTGGAGC
36356221 AGATCGCATT
Statistics
Matches: 72, Mismatches: 16, Indels: 14
0.71 0.16 0.14
Matches are distributed among these distances:
42 2 0.03
43 38 0.53
44 30 0.42
45 2 0.03
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (43 bp):
AGTGGAGCGGATTAAAGCAATAGATCTTATCTCCCTAAGCAGT
Found at i:36356155 original size:87 final size:87
Alignment explanation
Indices: 36356061--36356223 Score: 281
Period size: 87 Copynumber: 1.9 Consensus size: 87
36356051 TGAAGCCGAT
* * * * *
36356061 AATCCTATGTCCCTGAAGTTGCAGTGGAGTGGATTAAAGCAATAGATCTTATCTCCCTAAGCAGT
1 AATCCTATCTCCCTGAAGTTACAATGGAGCGGATTAAAACAATAGATCTTATCTCCCTAAGCAGT
36356126 AGTGGAGCAGACAGAAGAAATC
66 AGTGGAGCAGACAGAAGAAATC
36356148 AATCCTATCTCCCTGAAGTTACAATGGAGCGGATTAAAACAATAGATCTTATCTCCCTAAGCAGT
1 AATCCTATCTCCCTGAAGTTACAATGGAGCGGATTAAAACAATAGATCTTATCTCCCTAAGCAGT
36356213 AGTGGAGCAGA
66 AGTGGAGCAGA
36356224 TCGCATTCGA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 71 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.25
Consensus pattern (87 bp):
AATCCTATCTCCCTGAAGTTACAATGGAGCGGATTAAAACAATAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGACAGAAGAAATC
Found at i:36356201 original size:44 final size:44
Alignment explanation
Indices: 36356070--36356205 Score: 120
Period size: 44 Copynumber: 3.1 Consensus size: 44
36356060 TAATCCTATG
* * *
36356070 TCCCTGAAGTTGCAGTGGAGTGGATTAAAGCAATAGATCTTATC
1 TCCCTGAAGTTACAGTGGAGCGGATTAAAACAATAGATCTTATC
* * * * *
36356114 TCCCT-AAG-CAGTAGTGGAGCAGA-CAGAAGA-AATCA-ATCCTATC
1 TCCCTGAAGTTA-CAGTGGAGCGGATTA-AA-ACAAT-AGATCTTATC
*
36356157 TCCCTGAAGTTACAATGGAGCGGATTAAAACAATAGATCTTATC
1 TCCCTGAAGTTACAGTGGAGCGGATTAAAACAATAGATCTTATC
36356201 TCCCT
1 TCCCT
36356206 AAGCAGTAGT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
42 1 0.01
43 31 0.45
44 35 0.51
45 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (44 bp):
TCCCTGAAGTTACAGTGGAGCGGATTAAAACAATAGATCTTATC
Found at i:36356276 original size:87 final size:84
Alignment explanation
Indices: 36356061--36356264 Score: 212
Period size: 87 Copynumber: 2.4 Consensus size: 84
36356051 TGAAGCCGAT
* * ** ** * *
36356061 AATCCTATGTCCCTGAAGTTGCAGTGGAGTGGATTAAAGCAATAGATCTTATCTCCCTAAGCAGT
1 AATCCTATCTCCCTGAAGTTACAACGGAGCAGATGAAAACAATAGATCTTATCTCCCTAAGCAGT
36356126 AGTGGAGCAGACAGAAGAAATC
66 AGTGGAGCAGAC---AGAAATC
* * *
36356148 AATCCTATCTCCCTGAAGTTACAATGGAGCGGATTAAAACAATAGATCTTATCTCCCTAAGCAGT
1 AATCCTATCTCCCTGAAGTTACAACGGAGCAGATGAAAACAATAGATCTTATCTCCCTAAGCAGT
* *
36356213 AGTGGAGCAGATC-GCATTC
66 AGTGGAGCAGA-CAGAAATC
* * * *
36356232 GATCTTATCTCCCTGAAGTTGCAGCGGAGCAGA
1 AATCCTATCTCCCTGAAGTTACAACGGAGCAGA
36356265 CTGAGAAAAC
Statistics
Matches: 103, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
84 31 0.30
87 71 0.69
88 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (84 bp):
AATCCTATCTCCCTGAAGTTACAACGGAGCAGATGAAAACAATAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGACAGAAATC
Found at i:36356290 original size:44 final size:44
Alignment explanation
Indices: 36356233--36356352 Score: 168
Period size: 44 Copynumber: 2.7 Consensus size: 44
36356223 ATCGCATTCG
*
36356233 ATCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAAAACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGAAAACAA
* * ** *
36356277 GTCTTATCCCCCTGAAGTCACAGTGGGGCAGACTGAGAAAACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGAAAACAA
* *
36356321 ATTTTATCTCCCTGAGGTTGCAGTGGAGCAGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
36356353 TTGAAGTCGA
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 63 1.00
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGAAAACAA
Found at i:36363302 original size:57 final size:57
Alignment explanation
Indices: 36363214--36363473 Score: 272
Period size: 57 Copynumber: 4.7 Consensus size: 57
36363204 TGGTAATGAA
** *
36363214 GGTGTTGAAATTGCTGGCAGTAAAAGTGGTAAGGGTGTTGAAGGTTTAAATGGGAAG
1 GGTGTTGAGGTTGCTGGCAGTAAAGGTGGTAAGGGTGTTGAAGGTTTAAATGGGAAG
* *
36363271 GGTGTTGAGGTTGCTGGCAGTGAAGGTGGTAAAGGT-TT--AGG------TGGG-AG
1 GGTGTTGAGGTTGCTGGCAGTAAAGGTGGTAAGGGTGTTGAAGGTTTAAATGGGAAG
* *
36363318 GGTGTTGAGGTTGTTGGCAGTAAAGGTGGTAAGGGTGTTGAAGGTCTAAAT-GGAGAG
1 GGTGTTGAGGTTGCTGGCAGTAAAGGTGGTAAGGGTGTTGAAGGTTTAAATGGGA-AG
* * * * ** *
36363375 TGTGCTGAGGTTGCTGGCAGTAAATGTGGTGAGGGTGTTGAAGGTTTAGGTGGGGAG
1 GGTGTTGAGGTTGCTGGCAGTAAAGGTGGTAAGGGTGTTGAAGGTTTAAATGGGAAG
* * * *
36363432 GGTGTTGAGGTTGCTGGCAATGAAGGTGGTGAGGGTGGTGAA
1 GGTGTTGAGGTTGCTGGCAGTAAAGGTGGTAAGGGTGTTGAA
36363474 TGTGGTAAGG
Statistics
Matches: 168, Mismatches: 23, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
47 35 0.21
48 6 0.04
50 3 0.02
54 3 0.02
55 2 0.01
56 3 0.02
57 114 0.68
58 2 0.01
ACGTcount: A:0.22, C:0.04, G:0.45, T:0.28
Consensus pattern (57 bp):
GGTGTTGAGGTTGCTGGCAGTAAAGGTGGTAAGGGTGTTGAAGGTTTAAATGGGAAG
Found at i:36363328 original size:47 final size:48
Alignment explanation
Indices: 36363254--36363349 Score: 149
Period size: 47 Copynumber: 2.0 Consensus size: 48
36363244 AAGGGTGTTG
*
36363254 AAGGTTTAAATGGGAAGGGTGTTGAGGTTGCTGGCAGTGAAGGTGGTA
1 AAGGTTTAAATGGGAAGGGTGTTGAGGTTGCTGGCAGTAAAGGTGGTA
** *
36363302 AAGGTTTAGGTGGG-AGGGTGTTGAGGTTGTTGGCAGTAAAGGTGGTA
1 AAGGTTTAAATGGGAAGGGTGTTGAGGTTGCTGGCAGTAAAGGTGGTA
36363349 A
1 A
36363350 GGGTGTTGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
47 32 0.73
48 12 0.27
ACGTcount: A:0.24, C:0.03, G:0.45, T:0.28
Consensus pattern (48 bp):
AAGGTTTAAATGGGAAGGGTGTTGAGGTTGCTGGCAGTAAAGGTGGTA
Found at i:36363394 original size:104 final size:109
Alignment explanation
Indices: 36363214--36363473 Score: 307
Period size: 104 Copynumber: 2.4 Consensus size: 109
36363204 TGGTAATGAA
** * * *
36363214 GGTGTTGAAATTGCTGGCAGTAAAAGTGGTAAGGGTGTTGAAGGTTTAAATGGGAAGGGTGTTGA
1 GGTGTTGAGGTTGCTGGCAGTAAAGGTGGTAAGGGTGTTGAAGGTCTAAATGGGAAGGGTGCTGA
*
36363279 GGTTGCTGGCAGTGAA-GGT-G-G-TAAAGGTTTAGGT-GGGAG
66 GGTTGCTGGCAGTAAATGGTGGTGTTAAAGGTTTAGGTGGGGAG
* *
36363318 GGTGTTGAGGTTGTTGGCAGTAAAGGTGGTAAGGGTGTTGAAGGTCTAAAT-GGAGAGTGTGCTG
1 GGTGTTGAGGTTGCTGGCAGTAAAGGTGGTAAGGGTGTTGAAGGTCTAAATGGGA-AGGGTGCTG
*
36363382 AGGTTGCTGGCAGTAAATGTGGTGAGGGTGTTGAAGGTTTAGGTGGGGAG
65 AGGTTGCTGGCAGTAAA--TGGT---GGTGTTAAAGGTTTAGGTGGGGAG
* * * *
36363432 GGTGTTGAGGTTGCTGGCAATGAAGGTGGTGAGGGTGGTGAA
1 GGTGTTGAGGTTGCTGGCAGTAAAGGTGGTAAGGGTGTTGAA
36363474 TGTGGTAAGG
Statistics
Matches: 131, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
103 3 0.02
104 69 0.53
107 3 0.02
111 1 0.01
112 1 0.01
113 12 0.09
114 42 0.32
ACGTcount: A:0.22, C:0.04, G:0.45, T:0.28
Consensus pattern (109 bp):
GGTGTTGAGGTTGCTGGCAGTAAAGGTGGTAAGGGTGTTGAAGGTCTAAATGGGAAGGGTGCTGA
GGTTGCTGGCAGTAAATGGTGGTGTTAAAGGTTTAGGTGGGGAG
Found at i:36363478 original size:18 final size:18
Alignment explanation
Indices: 36363452--36363486 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36363442 TTGCTGGCAA
*
36363452 TGAAGGTGGTGAGGGTGG
1 TGAAGGTGGTAAGGGTGG
*
36363470 TGAATGTGGTAAGGGTG
1 TGAAGGTGGTAAGGGTG
36363487 TTAAAGGTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.54, T:0.26
Consensus pattern (18 bp):
TGAAGGTGGTAAGGGTGG
Found at i:36370339 original size:4 final size:4
Alignment explanation
Indices: 36370330--36370360 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
36370320 TGGTTTCACC
36370330 CATA CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CAT
36370361 CACGGATGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:36373072 original size:31 final size:32
Alignment explanation
Indices: 36373034--36373099 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 32
36373024 TATATATAGG
* * *
36373034 TTAAATTCTAATTTTGGTCCTTTTACAAT-AT
1 TTAAATTCAAATTTTAGTCCTTATACAATAAT
36373065 TTAAATTCAAATTTTAGTCCTTATACAATAAT
1 TTAAATTCAAATTTTAGTCCTTATACAATAAT
36373097 TTA
1 TTA
36373100 GTATTATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
31 26 0.84
32 5 0.16
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.48
Consensus pattern (32 bp):
TTAAATTCAAATTTTAGTCCTTATACAATAAT
Found at i:36380006 original size:82 final size:82
Alignment explanation
Indices: 36379869--36380215 Score: 604
Period size: 82 Copynumber: 4.2 Consensus size: 82
36379859 NNNNNNNNNN
36379869 TTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGTGCTTTTTCAAAAACGCCTCTAAAGACTAG
1 TTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGTGCTTTTTCAAAAACGCCTCTAAAGACTAG
36379934 AGCATTAGTGGCGCTTT
66 AGCATTAGTGGCGCTTT
36379951 TTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGTGCTTTTTCAAAAACGCCTCTAAAGACTAG
1 TTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGTGCTTTTTCAAAAACGCCTCTAAAGACTAG
36380016 AGCATTAGTGGCGCTTT
66 AGCATTAGTGGCGCTTT
36380033 TTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGTGCTTTTTCAAAAACGCCTCTAAAGACTAG
1 TTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGTGCTTTTTCAAAAACGCCTCTAAAGACTAG
36380098 AGCATTAGTGGCGCTTT
66 AGCATTAGTGGCGCTTT
* * * * * **
36380115 TTCAAAAACGCCGCTAAAGACCAGAGCATTAGCAGCGCTTTTTCAAAAACACCGCTAAAGTCCCG
1 TTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGTGCTTTTTCAAAAACGCCTCTAAAGACTAG
*
36380180 AGCATTAGCGGCGCTTT
66 AGCATTAGTGGCGCTTT
* *
36380197 TTCAAAAACACCTCTAAAG
1 TTCAAAAACGCCGCTAAAG
36380216 CCCCGAAAGG
Statistics
Matches: 255, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 255 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (82 bp):
TTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGTGCTTTTTCAAAAACGCCTCTAAAGACTAG
AGCATTAGTGGCGCTTT
Found at i:36380221 original size:41 final size:41
Alignment explanation
Indices: 36379869--36380215 Score: 532
Period size: 41 Copynumber: 8.5 Consensus size: 41
36379859 NNNNNNNNNN
*
36379869 TTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGTGCTTT
1 TTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTT
* * *
36379910 TTCAAAAACGCCTCTAAAGACTAGAGCATTAGTGGCGCTTT
1 TTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTT
*
36379951 TTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGTGCTTT
1 TTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTT
* * *
36379992 TTCAAAAACGCCTCTAAAGACTAGAGCATTAGTGGCGCTTT
1 TTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTT
*
36380033 TTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGTGCTTT
1 TTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTT
* * *
36380074 TTCAAAAACGCCTCTAAAGACTAGAGCATTAGTGGCGCTTT
1 TTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTT
*
36380115 TTCAAAAACGCCGCTAAAGACCAGAGCATTAGCAGCGCTTT
1 TTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTT
* * *
36380156 TTCAAAAACACCGCTAAAGTCCCGAGCATTAGCGGCGCTTT
1 TTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTT
* *
36380197 TTCAAAAACACCTCTAAAG
1 TTCAAAAACGCCGCTAAAG
36380216 CCCCGAAAGG
Statistics
Matches: 277, Mismatches: 29, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 277 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (41 bp):
TTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTT
Found at i:36380326 original size:39 final size:40
Alignment explanation
Indices: 36380278--36380388 Score: 129
Period size: 40 Copynumber: 2.8 Consensus size: 40
36380268 TTCTAGAAAA
*
36380278 CGCCGCTAATGCTC-ATTTTTAGCGGTAC-TTTTCT-TAAAG
1 CGCCGCTAATGCTCGATTTTTAGCGG--CGTTTTATGTAAAG
* * *
36380317 CGCCACTAATGCTCGATATTTAGTGGCGTTTTATGTAAAG
1 CGCCGCTAATGCTCGATTTTTAGCGGCGTTTTATGTAAAG
* *
36380357 CACCGTTAATGCTCGATTTTTAGCGGCGTTTT
1 CGCCGCTAATGCTCGATTTTTAGCGGCGTTTT
36380389 TTATCCAAAC
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
38 1 0.02
39 18 0.30
40 41 0.68
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (40 bp):
CGCCGCTAATGCTCGATTTTTAGCGGCGTTTTATGTAAAG
Found at i:36380547 original size:13 final size:13
Alignment explanation
Indices: 36380531--36380555 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36380521 TTTTTTAATA
36380531 TTATTTTGTGTGT
1 TTATTTTGTGTGT
36380544 TTATTTTGTGTG
1 TTATTTTGTGTG
36380556 CCTTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:36382655 original size:41 final size:40
Alignment explanation
Indices: 36382610--36382754 Score: 218
Period size: 41 Copynumber: 3.5 Consensus size: 40
36382600 GACTTTAAGT
* *
36382610 CTAGCAGGCTAAGTGTCGGTGATCTGAACCAGGTTATGAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTAT-AAC
36382651 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTAT-AAC
* * *
36382692 CTAGCAGGCTACGTGCTGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA-C
36382733 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
36382755 ATATGTTAAA
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 2 0.02
41 93 0.98
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (40 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAC
Found at i:36385083 original size:13 final size:13
Alignment explanation
Indices: 36385067--36385091 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36385057 TTATTAAATT
36385067 AAAATTAAAATAG
1 AAAATTAAAATAG
36385080 AAAATTAAAATA
1 AAAATTAAAATA
36385092 TTAAATATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (13 bp):
AAAATTAAAATAG
Found at i:36385163 original size:11 final size:11
Alignment explanation
Indices: 36385147--36385180 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
36385137 TTAATTAATG
36385147 TTGACCAACCA
1 TTGACCAACCA
*
36385158 TTGACC-AGCA
1 TTGACCAACCA
36385168 TTGACCAACCA
1 TTGACCAACCA
36385179 TT
1 TT
36385181 AATCGGGCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.32, C:0.32, G:0.12, T:0.24
Consensus pattern (11 bp):
TTGACCAACCA
Done.