Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 37 of 320
Found at i:10573799 original size:16 final size:17
Alignment explanation
Indices: 10573772--10573813 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
10573762 AAGTTTTGGG
*
10573772 AGTTTGGAGGAG-TAAA
1 AGTTTGGGGGAGATAAA
* *
10573788 ATTTTGGGGGAGATATA
1 AGTTTGGGGGAGATAAA
10573805 AGTTTGGGG
1 AGTTTGGGG
10573814 TAGACAGTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.29, C:0.00, G:0.40, T:0.31
Consensus pattern (17 bp):
AGTTTGGGGGAGATAAA
Found at i:10574754 original size:20 final size:19
Alignment explanation
Indices: 10574712--10574754 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
10574702 GATTACCTAA
* * *
10574712 TAAAACATTTTGTTTCATT
1 TAAAACATTTTGGTCCATG
10574731 TAAAACAATTTTGGTCCATG
1 TAAAAC-ATTTTGGTCCATG
10574751 TAAA
1 TAAA
10574755 TTTAAAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (19 bp):
TAAAACATTTTGGTCCATG
Found at i:10575579 original size:23 final size:22
Alignment explanation
Indices: 10575539--10575582 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
10575529 AATAGATTTA
10575539 ACATAATGATGAACTGATGAAC
1 ACATAATGATGAACTGATGAAC
* *
10575561 ACATAATATATGAATTGATGAA
1 ACATAAT-GATGAACTGATGAA
10575583 TTTAAAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.48, C:0.09, G:0.16, T:0.27
Consensus pattern (22 bp):
ACATAATGATGAACTGATGAAC
Found at i:10575716 original size:28 final size:27
Alignment explanation
Indices: 10575669--10575725 Score: 62
Period size: 28 Copynumber: 2.1 Consensus size: 27
10575659 TATAATGTGT
* *
10575669 TAAAAAAATTTATTAAAATACATACAA
1 TAAAAAAATTTATGAAAATACATAAAA
*
10575696 TAAAGAAAATTT-TGAATAATATATAAAA
1 TAAA-AAAATTTATGAA-AATACATAAAA
10575724 TA
1 TA
10575726 TGAAAGAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 7 0.28
28 18 0.72
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (27 bp):
TAAAAAAATTTATGAAAATACATAAAA
Found at i:10575946 original size:19 final size:19
Alignment explanation
Indices: 10575905--10575946 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
10575895 CAAATTTTTT
10575905 AAAAAAAAGTTATGTATGCA
1 AAAAAAAAGTTATGTAT-CA
*
10575925 AAAAAAAATTATATGTAT-A
1 AAAAAAAAGT-TATGTATCA
10575944 AAA
1 AAA
10575947 TACATGGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 9 0.45
21 7 0.35
ACGTcount: A:0.62, C:0.02, G:0.10, T:0.26
Consensus pattern (19 bp):
AAAAAAAAGTTATGTATCA
Found at i:10576437 original size:17 final size:17
Alignment explanation
Indices: 10576415--10576449 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10576405 TTGAAATTAA
*
10576415 AATGAGGACCAATGCAC
1 AATGAGGACAAATGCAC
*
10576432 AATGAGTACAAATGCAC
1 AATGAGGACAAATGCAC
10576449 A
1 A
10576450 GGGGTTAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.14
Consensus pattern (17 bp):
AATGAGGACAAATGCAC
Found at i:10577362 original size:21 final size:22
Alignment explanation
Indices: 10577338--10577384 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
10577328 TTTTTTGTTA
*
10577338 TTGGGCCAT-TTAATTTGTATT
1 TTGGGCCATGTTAATTTGAATT
* *
10577359 TTGGGCCTTGTTATTTTGAATT
1 TTGGGCCATGTTAATTTGAATT
10577381 TTGG
1 TTGG
10577385 ACGGGTATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.15, C:0.09, G:0.23, T:0.53
Consensus pattern (22 bp):
TTGGGCCATGTTAATTTGAATT
Found at i:10578559 original size:22 final size:22
Alignment explanation
Indices: 10578534--10578589 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
10578524 TGCAGGGCTC
*
10578534 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGGACCAAGGG
* **
10578556 ACACGCCCATGT-GACCTTGGG
1 ACACGCCCGTGTGGACCAAGGG
10578577 ACACGCCCGTGTG
1 ACACGCCCGTGTG
10578590 CTAGGCCGTG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.18, C:0.34, G:0.32, T:0.16
Consensus pattern (22 bp):
ACACGCCCGTGTGGACCAAGGG
Found at i:10581273 original size:15 final size:15
Alignment explanation
Indices: 10581237--10581274 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
10581227 AAGTTGGACC
*
10581237 ACTATTGTTATCCAA
1 ACTATTTTTATCCAA
10581252 ACTATTTTTATCCAA
1 ACTATTTTTATCCAA
10581267 ACTATTTT
1 ACTATTTT
10581275 GATGAATATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.03, T:0.47
Consensus pattern (15 bp):
ACTATTTTTATCCAA
Found at i:10600701 original size:19 final size:20
Alignment explanation
Indices: 10600657--10600701 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
10600647 ATAATGTTCA
10600657 TATTTTTAACATACTTTAAT
1 TATTTTTAACATACTTTAAT
10600677 TA-TTTTATA-ATA-TTTAAT
1 TATTTTTA-ACATACTTTAAT
10600695 TATTTTT
1 TATTTTT
10600702 TTGACAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 8 0.35
19 12 0.52
20 3 0.13
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTTAACATACTTTAAT
Found at i:10601540 original size:21 final size:20
Alignment explanation
Indices: 10601516--10601554 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
10601506 TTTTGTGATG
10601516 AAACAATATAAATGATATACA
1 AAACAATATAAAT-ATATACA
*
10601537 AAACAATATATATATATA
1 AAACAATATAAATATATA
10601555 TGTATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.62, C:0.08, G:0.03, T:0.28
Consensus pattern (20 bp):
AAACAATATAAATATATACA
Found at i:10603056 original size:21 final size:19
Alignment explanation
Indices: 10603030--10603068 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
10603020 AATTTGGGAC
*
10603030 TTTTTTTATATATTTTTTGG
1 TTTTTTTAT-TATCTTTTGG
10603050 TTTTTTTATTATCTTTTGG
1 TTTTTTTATTATCTTTTGG
10603069 GTTCATAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.13, C:0.03, G:0.10, T:0.74
Consensus pattern (19 bp):
TTTTTTTATTATCTTTTGG
Found at i:10603071 original size:20 final size:20
Alignment explanation
Indices: 10603030--10603071 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
10603020 AATTTGGGAC
*
10603030 TTTTTTTATATATTTTTTGG
1 TTTTTTTATATATTTTTGGG
10603050 TTTTTTTAT-TATCTTTTGGG
1 TTTTTTTATATAT-TTTTGGG
10603070 TT
1 TT
10603072 CATAGTGGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.12, C:0.02, G:0.12, T:0.74
Consensus pattern (20 bp):
TTTTTTTATATATTTTTGGG
Found at i:10610598 original size:12 final size:12
Alignment explanation
Indices: 10610581--10610611 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
10610571 CGTTTTAGGG
10610581 CACACGGCCTAC
1 CACACGGCCTAC
10610593 CACACGGCCTAC
1 CACACGGCCTAC
10610605 CACACGG
1 CACACGG
10610612 TTGTGTGGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.48, G:0.19, T:0.06
Consensus pattern (12 bp):
CACACGGCCTAC
Found at i:10614908 original size:19 final size:19
Alignment explanation
Indices: 10614870--10614949 Score: 81
Period size: 19 Copynumber: 4.2 Consensus size: 19
10614860 CAATCATATA
* *
10614870 AACAGTAATTCATTCG-AT
1 AACAGTAACTCATCCGTAT
10614888 AACAGTAACTCATCCGTAT
1 AACAGTAACTCATCCGTAT
* * *
10614907 AAATAGTACCTCATCCATAT
1 -AACAGTAACTCATCCGTAT
* *
10614927 AACAATAATTCATCCGTAT
1 AACAGTAACTCATCCGTAT
10614946 AACA
1 AACA
10614950 CATAGCTTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
18 14 0.28
19 20 0.40
20 16 0.32
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.29
Consensus pattern (19 bp):
AACAGTAACTCATCCGTAT
Found at i:10614919 original size:20 final size:20
Alignment explanation
Indices: 10614891--10614928 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10614881 ATTCGATAAC
*
10614891 AGTAACTCATCCGTATAAAT
1 AGTAACTCATCCATATAAAT
*
10614911 AGTACCTCATCCATATAA
1 AGTAACTCATCCATATAA
10614929 CAATAATTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (20 bp):
AGTAACTCATCCATATAAAT
Found at i:10615124 original size:26 final size:24
Alignment explanation
Indices: 10615095--10615209 Score: 112
Period size: 24 Copynumber: 4.7 Consensus size: 24
10615085 TCTATGATCG
*
10615095 GTAAGCTCCTT-CTGAGCTGATGGACA
1 GTAAGCT-CTTAC-GAGCTGA-GAACA
10615121 GTAAGCTCATT--GAGCTGA-AACA
1 GTAAGCTC-TTACGAGCTGAGAACA
*
10615143 GTAAGCTCTTACAAGCTGAGAACA
1 GTAAGCTCTTACGAGCTGAGAACA
*
10615167 GTAAGCTCTTACGAGCTGATATATCA
1 GTAAGCTCTTACGAGCTGAGA-A-CA
*
10615193 GTAAGCTCATACGAGCT
1 GTAAGCTCTTACGAGCT
10615210 ACAGTGAGTT
Statistics
Matches: 78, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
21 2 0.03
22 11 0.14
23 6 0.08
24 30 0.38
25 2 0.03
26 27 0.35
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (24 bp):
GTAAGCTCTTACGAGCTGAGAACA
Found at i:10616068 original size:19 final size:19
Alignment explanation
Indices: 10616044--10616081 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
10616034 ATTCTTCTTT
10616044 CCTCTTACTTTCAGCTATA
1 CCTCTTACTTTCAGCTATA
10616063 CCTCTTACTTTCAGCTATA
1 CCTCTTACTTTCAGCTATA
10616082 GAATGAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.32, G:0.05, T:0.42
Consensus pattern (19 bp):
CCTCTTACTTTCAGCTATA
Found at i:10619894 original size:20 final size:20
Alignment explanation
Indices: 10619859--10619909 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
10619849 AGTGTGCGTT
* *
10619859 AAAAATATGATTTAATAATA
1 AAAAATATAATGTAATAATA
* * *
10619879 ATATATATAATGTAATCATA
1 AAAAATATAATGTAATAATA
10619899 AAAAATATAAT
1 AAAAATATAAT
10619910 TGGCGATACA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (20 bp):
AAAAATATAATGTAATAATA
Found at i:10620090 original size:15 final size:15
Alignment explanation
Indices: 10620022--10620092 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 15
10620012 AATAACATGT
*
10620022 AAAACAATATATATA
1 AAAATAATATATATA
*
10620037 TAAATAAT-TA-ATA
1 AAAATAATATATATA
*
10620050 AATATATAATATATGTGA
1 AA-A-ATAATATATAT-A
*
10620068 GAATATAATATATATA
1 -AAAATAATATATATA
10620084 AAAATAATA
1 AAAATAATA
10620093 ATAATTTGAG
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
13 4 0.09
14 3 0.07
15 19 0.44
16 3 0.07
17 11 0.26
18 1 0.02
19 2 0.05
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (15 bp):
AAAATAATATATATA
Found at i:10620111 original size:35 final size:34
Alignment explanation
Indices: 10620038--10620116 Score: 92
Period size: 35 Copynumber: 2.4 Consensus size: 34
10620028 ATATATATAT
*
10620038 AAATAAT-TA-ATAAATATATAATATATGTGAGA
1 AAATAATATATATAAAAATATAATATATGTGAGA
* *
10620070 ATATAATATATATAAAAATAATAATA-ATTTGAGGA
1 AAATAATATATATAAAAAT-ATAATATATGTGA-GA
10620105 AAATAATATATA
1 AAATAATATATA
10620117 ATAGTAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
32 6 0.15
33 2 0.05
34 12 0.31
35 19 0.49
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (34 bp):
AAATAATATATATAAAAATATAATATATGTGAGA
Found at i:10628916 original size:16 final size:16
Alignment explanation
Indices: 10628879--10628917 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
10628869 TCAAAAATAA
*
10628879 AATTTTAAAAATTATG
1 AATTTTAAAAAATATG
10628895 AA-TTTAAAAAATATG
1 AATTTTAAAAAATATG
10628910 AATTTTAA
1 AATTTTAA
10628918 TTTTAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (16 bp):
AATTTTAAAAAATATG
Found at i:10634396 original size:27 final size:27
Alignment explanation
Indices: 10634358--10634412 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
10634348 CCAATGAAGG
10634358 AACTCACTCCTTTTTCTCTGGACTTAT
1 AACTCACTCCTTTTTCTCTGGACTTAT
10634385 AACTCACTCCTTTTTCTCTGGACTTAT
1 AACTCACTCCTTTTTCTCTGGACTTAT
10634412 A
1 A
10634413 TTTATCTGTT
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:0.20, C:0.29, G:0.07, T:0.44
Consensus pattern (27 bp):
AACTCACTCCTTTTTCTCTGGACTTAT
Found at i:10636631 original size:30 final size:30
Alignment explanation
Indices: 10636597--10636693 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
10636587 TAAACTAAAA
*
10636597 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
10636627 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
10636657 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
10636686 ATGAGCTA
1 -TGAGCTA
10636694 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:10638889 original size:13 final size:12
Alignment explanation
Indices: 10638873--10638904 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
10638863 TTTCTTTTTG
10638873 TTTTTCAAAGGC
1 TTTTTCAAAGGC
10638885 TTTTTCAAAGGC
1 TTTTTCAAAGGC
10638897 TTTTTCAA
1 TTTTTCAA
10638905 GTTCTCTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.47
Consensus pattern (12 bp):
TTTTTCAAAGGC
Found at i:10638981 original size:6 final size:6
Alignment explanation
Indices: 10638965--10639014 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
10638955 TTTCTTTTTA
*
10638965 TTTCAT TTTCTT TTTCTT CTCTTGCTT TTTCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT -T-TT-CTT TTTCTT TTTCTT TTTCTT TTTCTT
10639014 T
1 T
10639015 GTTTTCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 20 0.51
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:10638997 original size:37 final size:37
Alignment explanation
Indices: 10638954--10639024 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
10638944 CTTGCCTCTC
10638954 TTTTCTTTTT-ATTTCATTTTCTTT-TTCTTCTCTTGCT
1 TTTTCTTTTTCATTTC-TTTTCTTTGTT-TTCTCTTGCT
*
10638991 TTTTCTTTTTCTTTTCTTTTCTTTGTTTTCTCTT
1 TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTT
10639025 TACAAGAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 25 0.81
38 6 0.19
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (37 bp):
TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTTGCT
Found at i:10639025 original size:16 final size:16
Alignment explanation
Indices: 10638950--10639010 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
10638940 GCCTCTTGCC
*
10638950 TCTCTTTTCTTTTTAT
1 TCTCTTTTCTTTTTCT
10638966 T-TCATTTTCTTTTTCT
1 TCTC-TTTTCTTTTTCT
*
10638982 TCTC-TTGCTTTTTCTT
1 TCTCTTTTCTTTTTC-T
*
10638998 TTTCTTTTCTTTT
1 TCTCTTTTCTTTT
10639011 CTTTGTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
15 11 0.30
16 17 0.46
17 9 0.24
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (16 bp):
TCTCTTTTCTTTTTCT
Found at i:10639945 original size:14 final size:14
Alignment explanation
Indices: 10639928--10639972 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
10639918 TTTTCTTCTT
10639928 TTTTTTTAACTCGA
1 TTTTTTTAACTCGA
*
10639942 TTTTTTT---TC-C
1 TTTTTTTAACTCGA
10639952 TTTTTTTAACTCGA
1 TTTTTTTAACTCGA
10639966 TTTTTTT
1 TTTTTTT
10639973 TTGAATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
13 2 0.08
14 14 0.56
ACGTcount: A:0.13, C:0.13, G:0.04, T:0.69
Consensus pattern (14 bp):
TTTTTTTAACTCGA
Found at i:10639945 original size:24 final size:23
Alignment explanation
Indices: 10639928--10639973 Score: 83
Period size: 24 Copynumber: 2.0 Consensus size: 23
10639918 TTTTCTTCTT
10639928 TTTTTTTAACTCGATTTTTTTTCC
1 TTTTTTTAACTCGATTTTTTTT-C
10639952 TTTTTTTAACTCGATTTTTTTT
1 TTTTTTTAACTCGATTTTTTTT
10639974 TGAATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.13, C:0.13, G:0.04, T:0.70
Consensus pattern (23 bp):
TTTTTTTAACTCGATTTTTTTTC
Found at i:10639945 original size:25 final size:24
Alignment explanation
Indices: 10639917--10639970 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
10639907 ACTTTTGTTT
*
10639917 TTTTTCTTCTTTTTTTTTAACTCGA
1 TTTTTCTTC-CTTTTTTTAACTCGA
*
10639942 TTTTTTTTCCTTTTTTTAACTCGA
1 TTTTTCTTCCTTTTTTTAACTCGA
10639966 TTTTT
1 TTTTT
10639971 TTTTGAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 19 0.70
25 8 0.30
ACGTcount: A:0.11, C:0.15, G:0.04, T:0.70
Consensus pattern (24 bp):
TTTTTCTTCCTTTTTTTAACTCGA
Found at i:10639981 original size:24 final size:24
Alignment explanation
Indices: 10639930--10639982 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
10639920 TTCTTCTTTT
**
10639930 TTTTTAACTCGATTTTTTTTCCTT
1 TTTTTAACTCGATTTTTTTTCCAA
**
10639954 TTTTTAACTCGATTTTTTTTTGAA
1 TTTTTAACTCGATTTTTTTTCCAA
10639978 TTTTT
1 TTTTT
10639983 TTTTCTGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.15, C:0.11, G:0.06, T:0.68
Consensus pattern (24 bp):
TTTTTAACTCGATTTTTTTTCCAA
Found at i:10639981 original size:25 final size:24
Alignment explanation
Indices: 10639929--10639983 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
10639919 TTTCTTCTTT
**
10639929 TTTTTTAACTCGATTTTTTTTCCT
1 TTTTTTAACTCGATTTTTTTTCAA
*
10639953 TTTTTTAACTCGATTTTTTTTTGAA
1 TTTTTTAACTCGA-TTTTTTTTCAA
10639978 TTTTTT
1 TTTTTT
10639984 TTTCTGAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.15, C:0.11, G:0.05, T:0.69
Consensus pattern (24 bp):
TTTTTTAACTCGATTTTTTTTCAA
Found at i:10639983 original size:14 final size:14
Alignment explanation
Indices: 10639966--10639994 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10639956 TTTAACTCGA
10639966 TTTTTTTT-TGAAT
1 TTTTTTTTCTGAAT
10639979 TTTTTTTTCTGAAT
1 TTTTTTTTCTGAAT
10639993 TT
1 TT
10639995 CTTCTCCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.14, C:0.03, G:0.07, T:0.76
Consensus pattern (14 bp):
TTTTTTTTCTGAAT
Found at i:10640090 original size:11 final size:11
Alignment explanation
Indices: 10640074--10640120 Score: 58
Period size: 11 Copynumber: 3.9 Consensus size: 11
10640064 TCCAACTCAA
10640074 ATTTTTTTTTG
1 ATTTTTTTTTG
10640085 ATTTTTTTTTG
1 ATTTTTTTTTG
10640096 ACTTCCTTTTTTTTG
1 A--T--TTTTTTTTG
10640111 ATTTTTTTTT
1 ATTTTTTTTT
10640121 CGTTACGAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
11 20 0.62
13 2 0.06
15 10 0.31
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.79
Consensus pattern (11 bp):
ATTTTTTTTTG
Found at i:10641758 original size:30 final size:30
Alignment explanation
Indices: 10641724--10641820 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
10641714 TAAACTAAAA
*
10641724 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
10641754 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
10641784 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
10641813 ATGAGCTA
1 -TGAGCTA
10641821 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:10642455 original size:33 final size:35
Alignment explanation
Indices: 10642418--10642515 Score: 91
Period size: 33 Copynumber: 2.9 Consensus size: 35
10642408 ATTGTTATAT
10642418 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTACTTAA
* *
10642451 TTAAAT-TTTATAA-ATAATTCATATTTATTACTTAA
1 TTAAATATTTAAAATATAATT--TATATATTACTTAA
*
10642486 --AAATATTTAAAATTTATATTTCATATATTA
1 TTAAATATTTAAAATATA-ATTT-ATATATTA
10642516 AAATATTAAC
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 8 0.15
35 12 0.23
36 3 0.06
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTACTTAA
Found at i:10642505 original size:30 final size:30
Alignment explanation
Indices: 10642466--10642522 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
10642456 TTTTATAAAT
10642466 AATTCATATTT-AT-TACTTAAAAATATTTAA
1 AATTCATATTTCATATA-TT-AAAATATTTAA
*
10642496 AATTTATATTTCATATATTAAAATATT
1 AATTCATATTTCATATATTAAAATATT
10642523 AACAAGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTCATATTTCATATATTAAAATATTTAA
Found at i:10652331 original size:2 final size:2
Alignment explanation
Indices: 10652324--10652356 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
10652314 GGTGGATGGC
*
10652324 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10652357 CATGTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10655488 original size:22 final size:22
Alignment explanation
Indices: 10655460--10655506 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
10655450 TGACACCTCG
*
10655460 AAAGAGGTTTATTAATTTTTCA
1 AAAGAGGTTTATTAATTCTTCA
*
10655482 AAAGAGGTTTATTGATTCTTCA
1 AAAGAGGTTTATTAATTCTTCA
10655504 AAA
1 AAA
10655507 TCGAGAGTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.40
Consensus pattern (22 bp):
AAAGAGGTTTATTAATTCTTCA
Found at i:10659129 original size:21 final size:21
Alignment explanation
Indices: 10659105--10659241 Score: 132
Period size: 21 Copynumber: 6.6 Consensus size: 21
10659095 GTGTTTTACT
*
10659105 TTCTGTTTAGCTCTTTTGAGC
1 TTCTGTTTAGCTCTTATGAGC
* * *
10659126 TTCTGTTTAACTCATATGAGT
1 TTCTGTTTAGCTCTTATGAGC
* *
10659147 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTTAGCTCTTATGAGC
* * * * *
10659168 TTCTGTTAAACCCTTATGGGT
1 TTCTGTTTAGCTCTTATGAGC
*
10659189 TTTTG-TTAGCTCTTATGAGC
1 TTCTGTTTAGCTCTTATGAGC
* *
10659209 TTCTATTTAGCTCTCATGAGC
1 TTCTGTTTAGCTCTTATGAGC
*
10659230 TTCTGTTCAGCT
1 TTCTGTTTAGCT
10659242 TTCAGGCTTC
Statistics
Matches: 89, Mismatches: 26, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
20 13 0.15
21 76 0.85
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.46
Consensus pattern (21 bp):
TTCTGTTTAGCTCTTATGAGC
Found at i:10659151 original size:42 final size:41
Alignment explanation
Indices: 10659104--10659241 Score: 152
Period size: 42 Copynumber: 3.3 Consensus size: 41
10659094 CGTGTTTTAC
* *
10659104 TTTCTGTTTAGCTCTTTTGAGCTTCTGTTTAACTCATATGAG
1 TTTCTGTTCAGCTCTTATGAGCTTCTGTTTAACTC-TATGAG
* * * *
10659146 TTTCTGTTCAGCTCTTACGAGCTTCTGTTAAACCCTTATGGG
1 TTTCTGTTCAGCTCTTATGAGCTTCTGTTTAACTC-TATGAG
* * *
10659188 TTTTTGTT-AGCTCTTATGAGCTTCTATTTAGCTCTCATGAG
1 TTTCTGTTCAGCTCTTATGAGCTTCTGTTTAACTCT-ATGAG
*
10659229 CTTCTGTTCAGCT
1 TTTCTGTTCAGCT
10659242 TTCAGGCTTC
Statistics
Matches: 78, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
40 1 0.01
41 31 0.40
42 46 0.59
ACGTcount: A:0.16, C:0.20, G:0.17, T:0.46
Consensus pattern (41 bp):
TTTCTGTTCAGCTCTTATGAGCTTCTGTTTAACTCTATGAG
Found at i:10665757 original size:20 final size:19
Alignment explanation
Indices: 10665721--10665765 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
10665711 CCTTTATTTC
10665721 TTTTTATAAAAAGATATAA
1 TTTTTATAAAAAGATATAA
* *
10665740 TTTTTATTAAATGTATATAA
1 TTTTTATAAAAAG-ATATAA
*
10665760 ATTTTA
1 TTTTTA
10665766 AATTTTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (19 bp):
TTTTTATAAAAAGATATAA
Found at i:10665818 original size:20 final size:21
Alignment explanation
Indices: 10665774--10665821 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
10665764 TAAATTTTTA
10665774 TAAAAAT-AAAAAAATAATCT
1 TAAAAATAAAAAAAATAATCT
* *
10665794 CAAAAATAAAAAAAAT-ATTT
1 TAAAAATAAAAAAAATAATCT
10665814 TAAAAATA
1 TAAAAATA
10665822 TAATTAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAAAATAAAAAAAATAATCT
Found at i:10675324 original size:31 final size:30
Alignment explanation
Indices: 10675257--10675324 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
10675247 TTACAATTAG
*
10675257 GTCATTAAACTATTCAAAAATTTCATCTAA
1 GTCACTAAACTATTCAAAAATTTCATCTAA
* *
10675287 GACACTAAACTATTCAAAAAAATTT-ATTTAA
1 GTCACTAAACTATTC--AAAAATTTCATCTAA
10675318 GTCACTA
1 GTCACTA
10675325 GCATGTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 13 0.41
31 11 0.34
32 8 0.25
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.34
Consensus pattern (30 bp):
GTCACTAAACTATTCAAAAATTTCATCTAA
Found at i:10679838 original size:22 final size:22
Alignment explanation
Indices: 10679813--10679854 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10679803 TTAAAAGAAA
* *
10679813 CATAATTATTCAATTAATATCT
1 CATAACTATTCAAGTAATATCT
10679835 CATAACTATTCAAGTAATAT
1 CATAACTATTCAAGTAATAT
10679855 TACTTTATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.40
Consensus pattern (22 bp):
CATAACTATTCAAGTAATATCT
Found at i:10688406 original size:34 final size:34
Alignment explanation
Indices: 10688363--10688431 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
10688353 TGTGTTAAAG
10688363 TTAGTGCAGGATCATATCATCATGACCAAATAAT
1 TTAGTGCAGGATCATATCATCATGACCAAATAAT
10688397 TTAGTGCAGGATCATATCATCATGACCAAATAAT
1 TTAGTGCAGGATCATATCATCATGACCAAATAAT
10688431 T
1 T
10688432 GTCGTTCAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.30
Consensus pattern (34 bp):
TTAGTGCAGGATCATATCATCATGACCAAATAAT
Found at i:10693847 original size:16 final size:17
Alignment explanation
Indices: 10693823--10693857 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
10693813 ATATAAAAAT
*
10693823 ATGGTAATAATT-TATA
1 ATGGCAATAATTGTATA
10693839 ATGGCAATAATTGTATA
1 ATGGCAATAATTGTATA
10693856 AT
1 AT
10693858 TTTACGCGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.43, C:0.03, G:0.14, T:0.40
Consensus pattern (17 bp):
ATGGCAATAATTGTATA
Found at i:10694904 original size:6 final size:6
Alignment explanation
Indices: 10694850--10694904 Score: 74
Period size: 6 Copynumber: 9.2 Consensus size: 6
10694840 TGCAAATGGA
* * * *
10694850 TCATTT CCATTT CCATTT CCATTT CCATTT TCATTT TCATTT TCATTT
1 TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT
10694898 TCATTT T
1 TCATTT T
10694905 TGGAAACCTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (6 bp):
TCATTT
Found at i:10694904 original size:18 final size:18
Alignment explanation
Indices: 10694850--10694904 Score: 83
Period size: 18 Copynumber: 3.1 Consensus size: 18
10694840 TGCAAATGGA
*
10694850 TCATTTCCATTTCCATTT
1 TCATTTCCATTTTCATTT
*
10694868 CCATTTCCATTTTCATTT
1 TCATTTCCATTTTCATTT
*
10694886 TCATTTTCATTTTCATTT
1 TCATTTCCATTTTCATTT
10694904 T
1 T
10694905 TGGAAACCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (18 bp):
TCATTTCCATTTTCATTT
Found at i:10710748 original size:53 final size:53
Alignment explanation
Indices: 10710680--10710785 Score: 151
Period size: 53 Copynumber: 2.0 Consensus size: 53
10710670 ACAAGTAAGC
* * *
10710680 TTTACTAAAGTTTAGTAAGTTCAACGGTTAAAACGATAACCTTACCATATAAA
1 TTTACTAAAGTTTAGTAAGCTCAACGGTGAAAACGATAAACTTACCATATAAA
* *
10710733 TTTACTAAA-TCTTAGTAAGCTCAATGGTGAAAATGATAAACTTACCATATAAA
1 TTTACTAAAGT-TTAGTAAGCTCAACGGTGAAAACGATAAACTTACCATATAAA
10710786 CACATAAATC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
52 1 0.02
53 46 0.98
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.32
Consensus pattern (53 bp):
TTTACTAAAGTTTAGTAAGCTCAACGGTGAAAACGATAAACTTACCATATAAA
Found at i:10712431 original size:53 final size:53
Alignment explanation
Indices: 10712252--10712455 Score: 183
Period size: 53 Copynumber: 3.8 Consensus size: 53
10712242 AGGGTTTAAG
* * * * * * *
10712252 GATACCAAGTAGGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGCAAA
* * * * * * * *
10712306 GAAATCATGTAAGACCATGTCAATACATGGCATTGATAAACTACTATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAAA
* * * *
10712361 GATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAT
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
* * *
10712414 GATACCACGTAAGACCATGTCAAGACATGGTAATGGTAAGTT
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
10712456 TAATAAAGAA
Statistics
Matches: 117, Mismatches: 31, Indels: 5
0.76 0.20 0.03
Matches are distributed among these distances:
53 45 0.38
54 33 0.28
55 39 0.33
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAA
Found at i:10716858 original size:91 final size:90
Alignment explanation
Indices: 10716703--10716883 Score: 326
Period size: 91 Copynumber: 2.0 Consensus size: 90
10716693 TCCTCGTTTG
*
10716703 GCACAATTTCACAAGCATACTTGCTAAGATTTACAAACTCTCTTTCATACTCAGCTACTAATTTA
1 GCACAATTTCACAAGCATACTTGCTAAGATGTACAAACTCTCTTTCATACTCAGCTACTAATTTA
*
10716768 TTTCTTTTTTTTTAGTTCAAGAAATT
66 TTTC-TTTTCTTTAGTTCAAGAAATT
10716794 GCACAATTTCACAAGCATACTTGCTAAGATGTACAAACTCTCTTTCATACTCAGCTACTAATTTA
1 GCACAATTTCACAAGCATACTTGCTAAGATGTACAAACTCTCTTTCATACTCAGCTACTAATTTA
*
10716859 TTTCTTTTCTTTAGTTTAAGAAATT
66 TTTCTTTTCTTTAGTTCAAGAAATT
10716884 TTTTTTTTTT
Statistics
Matches: 87, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
90 19 0.22
91 68 0.78
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (90 bp):
GCACAATTTCACAAGCATACTTGCTAAGATGTACAAACTCTCTTTCATACTCAGCTACTAATTTA
TTTCTTTTCTTTAGTTCAAGAAATT
Found at i:10720645 original size:16 final size:17
Alignment explanation
Indices: 10720626--10720660 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
10720616 TTATTTATTA
*
10720626 AATTAATTAATTTT-TC
1 AATTAAATAATTTTCTC
10720642 AATTAAATAATTTTCTC
1 AATTAAATAATTTTCTC
10720659 AA
1 AA
10720661 CCCGATTCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTAAATAATTTTCTC
Found at i:10723758 original size:22 final size:21
Alignment explanation
Indices: 10723730--10723770 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
10723720 CCTTGGATGT
10723730 TTTTAA-GTTGTTTGTAAGATTC
1 TTTTAAGGTT-TTTG-AAGATTC
10723752 TTTTAAGGTTTTTGAAGAT
1 TTTTAAGGTTTTTGAAGAT
10723771 GGGTAGTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 10 0.56
23 3 0.17
ACGTcount: A:0.24, C:0.02, G:0.20, T:0.54
Consensus pattern (21 bp):
TTTTAAGGTTTTTGAAGATTC
Found at i:10729118 original size:22 final size:22
Alignment explanation
Indices: 10729093--10729135 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
10729083 TATCCAAACA
10729093 ATAATAACAAAATAGTAGCAAT
1 ATAATAACAAAATAGTAGCAAT
** *
10729115 ATAATAGTAAAATGGTAGCAA
1 ATAATAACAAAATAGTAGCAA
10729136 AATTGAGATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.07, G:0.14, T:0.23
Consensus pattern (22 bp):
ATAATAACAAAATAGTAGCAAT
Found at i:10730009 original size:18 final size:18
Alignment explanation
Indices: 10729986--10730033 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
10729976 ACATTTAATT
*
10729986 AATTTTTTAAAATTTAAA
1 AATTTTTTAAAATATAAA
**
10730004 AATTTTAAAAAATATAAA
1 AATTTTTTAAAATATAAA
*
10730022 AATATTTTAAAA
1 AATTTTTTAAAA
10730034 AATTAAAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AATTTTTTAAAATATAAA
Found at i:10730030 original size:20 final size:18
Alignment explanation
Indices: 10729994--10730053 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 18
10729984 TTAATTTTTT
*
10729994 AAAATTTAAAAATTTTAA
1 AAAATTAAAAAATTTTAA
10730012 AAAATATAAAAATATTTTAA
1 AAAAT-TAAAAA-ATTTTAA
10730032 AAAATTAAAAAAATTATTAA
1 AAAATT-AAAAAATT-TTAA
10730052 AA
1 AA
10730054 TTATTATAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
18 5 0.14
19 9 0.24
20 23 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATTAAAAAATTTTAA
Found at i:10730037 original size:30 final size:31
Alignment explanation
Indices: 10730009--10730071 Score: 53
Period size: 29 Copynumber: 2.1 Consensus size: 31
10729999 TTAAAAATTT
*
10730009 TAAAAAATATAAAAATATT-TTAAAAA-ATTA
1 TAAAAAAT-TAAAAAAATTATTAAAAATATTA
** *
10730039 -AAAAAATTATTAAAATTATTATAAA-ATTA
1 TAAAAAATTAAAAAAATTATTAAAAATATTA
10730068 TAAA
1 TAAA
10730072 TTTTTTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
28 7 0.26
29 17 0.63
30 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (31 bp):
TAAAAAATTAAAAAAATTATTAAAAATATTA
Found at i:10737244 original size:94 final size:94
Alignment explanation
Indices: 10737076--10737339 Score: 440
Period size: 94 Copynumber: 2.8 Consensus size: 94
10737066 AAGACTATAA
* * * *
10737076 AAGTTGATGGCTTCTGAAAGGGCATTGATGAATCAAAAGTTTTATTTCTTATATATGTGGGAG-A
1 AAGTTGATGGCTTCTTAAAGGACATTGATGAATCAAAAATTTTATTTCTTATATATGTGGGGGAA
*
10737140 AATTAAAAAAAAAAAAGAAAAAAAGAAGAG
66 AATTGAAAAAAAAAAAG-AAAAAAGAAGAG
*
10737170 AAGTTGATGGCTTCTTAAAGGACATTGATGAATCAAAAATTTTATTTTTTATATATGTGGGGGAA
1 AAGTTGATGGCTTCTTAAAGGACATTGATGAATCAAAAATTTTATTTCTTATATATGTGGGGGAA
10737235 AATTGAAAAAAAAAAAGAAAAAAGAAGAG
66 AATTGAAAAAAAAAAAGAAAAAAGAAGAG
* *
10737264 AAGTTGATGGCTTCTTAAAGGATATTGATGAATCAAAAATTTTATTTCTTATATATGTGGGGAAA
1 AAGTTGATGGCTTCTTAAAGGACATTGATGAATCAAAAATTTTATTTCTTATATATGTGGGGGAA
10737329 AATTGAAAAAA
66 AATTGAAAAAA
10737340 GAGAAAGGAG
Statistics
Matches: 160, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
94 143 0.89
95 17 0.11
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.30
Consensus pattern (94 bp):
AAGTTGATGGCTTCTTAAAGGACATTGATGAATCAAAAATTTTATTTCTTATATATGTGGGGGAA
AATTGAAAAAAAAAAAGAAAAAAGAAGAG
Found at i:10741747 original size:24 final size:24
Alignment explanation
Indices: 10741714--10741760 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
10741704 ATAAAAACTA
*
10741714 AACCCCCAAAACCTAAAAACAAAG
1 AACCCCCAAAACATAAAAACAAAG
* *
10741738 AACCCTCAAAACATAAACACAAA
1 AACCCCCAAAACATAAAAACAAA
10741761 ATTATCTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.60, C:0.32, G:0.02, T:0.06
Consensus pattern (24 bp):
AACCCCCAAAACATAAAAACAAAG
Found at i:10748124 original size:93 final size:93
Alignment explanation
Indices: 10748013--10748184 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
10748003 CGCCCATAAG
*
10748013 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10748078 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
10748106 CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10748171 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
10748185 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:10748181 original size:46 final size:46
Alignment explanation
Indices: 10748006--10748181 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
10747996 TGTAACTCGC
* *
10748006 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
10748052 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
10748102 -C-TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
10748145 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
10748182 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.56
47 28 0.25
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:10763314 original size:2 final size:2
Alignment explanation
Indices: 10763307--10763332 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10763297 AAATTGAAAA
10763307 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
10763333 GAGGATATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10767854 original size:22 final size:22
Alignment explanation
Indices: 10767829--10767871 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
10767819 TATCAAAAGC
*
10767829 GGAATTTTAAATACTT-AGTTTT
1 GGAAGTTTAAATA-TTAAGTTTT
*
10767851 GGAAGTTTGAATATTAAGTTT
1 GGAAGTTTAAATATTAAGTTT
10767872 AACCTCCTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.47
Consensus pattern (22 bp):
GGAAGTTTAAATATTAAGTTTT
Found at i:10775796 original size:38 final size:38
Alignment explanation
Indices: 10775740--10775862 Score: 194
Period size: 38 Copynumber: 3.3 Consensus size: 38
10775730 AGGCCCAGAT
* * *
10775740 ATAT-TTCCAGTACATAGCCTGCGGACCTCAAGTTCGG
1 ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
*
10775777 ATATGTTCCATCACGTAGCCTGCGGACCTCAAGTCCGG
1 ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
*
10775815 ATATGTTCCAGCACGTAGCCTGCGGACTTCAAGTCCGG
1 ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
10775853 ATATGTTCCA
1 ATATGTTCCA
10775863 AATACCATGC
Statistics
Matches: 79, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
37 4 0.05
38 75 0.95
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (38 bp):
ATATGTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGG
Found at i:10776934 original size:4 final size:4
Alignment explanation
Indices: 10776925--10776951 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
10776915 CAAACACAAA
10776925 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
10776952 AAACTTGGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:10777032 original size:22 final size:22
Alignment explanation
Indices: 10776992--10777033 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
10776982 TGGCCACCCA
*
10776992 CCTTGGCCACCAACTCCACCAC
1 CCTTGGCCACCAACACCACCAC
10777014 CCTTGGCCACCTAA-ACCACC
1 CCTTGGCCACC-AACACCACC
10777034 CCAACCACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.24, C:0.52, G:0.10, T:0.14
Consensus pattern (22 bp):
CCTTGGCCACCAACACCACCAC
Found at i:10777134 original size:23 final size:23
Alignment explanation
Indices: 10777108--10777157 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
10777098 GTTTTTGGTT
10777108 TTTTGGAGAAGGATTGTTCTTTG
1 TTTTGGAGAAGGATTGTTCTTTG
* * * *
10777131 TTTTGGAGGAGGTTTTTTTTTTG
1 TTTTGGAGAAGGATTGTTCTTTG
10777154 TTTT
1 TTTT
10777158 TTGGAGGTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.12, C:0.02, G:0.28, T:0.58
Consensus pattern (23 bp):
TTTTGGAGAAGGATTGTTCTTTG
Found at i:10777163 original size:25 final size:25
Alignment explanation
Indices: 10777099--10777177 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
10777089 AGGTGGTGGG
* * * *
10777099 TTTTTGGTTTTTTGGAGAAGGATTG
1 TTTTTTGTTTTTTGGAGGAGGTTTT
*
10777124 TTCTTTG--TTTTGGAGGAGGTTTT
1 TTTTTTGTTTTTTGGAGGAGGTTTT
* *
10777147 TTTTTTGTTTTTTGGAGGTGTTTTT
1 TTTTTTGTTTTTTGGAGGAGGTTTT
10777172 TTTTTT
1 TTTTTT
10777178 TGGAAAGAAG
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
23 19 0.43
25 25 0.57
ACGTcount: A:0.09, C:0.01, G:0.27, T:0.63
Consensus pattern (25 bp):
TTTTTTGTTTTTTGGAGGAGGTTTT
Found at i:10777170 original size:22 final size:21
Alignment explanation
Indices: 10777138--10777178 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
10777128 TTGTTTTGGA
*
10777138 GGAGGTTTTTTTTTTGTTTTTT
1 GGAGGTGTTTTTTTT-TTTTTT
10777160 GGAGGTGTTTTTTTTTTTT
1 GGAGGTGTTTTTTTTTTTT
10777179 GGAAAGAAGG
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:0.05, C:0.00, G:0.24, T:0.71
Consensus pattern (21 bp):
GGAGGTGTTTTTTTTTTTTTT
Found at i:10777313 original size:20 final size:20
Alignment explanation
Indices: 10777288--10777335 Score: 80
Period size: 20 Copynumber: 2.4 Consensus size: 20
10777278 TCTTTGTTTG
10777288 TTTATTGTT-TTCCTTTCAAT
1 TTTATT-TTCTTCCTTTCAAT
10777308 TTTATTTTCTTCCTTTCAAT
1 TTTATTTTCTTCCTTTCAAT
10777328 TTTATTTT
1 TTTATTTT
10777336 GTTTTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 2 0.07
20 25 0.93
ACGTcount: A:0.15, C:0.15, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTATTTTCTTCCTTTCAAT
Found at i:10777543 original size:3 final size:3
Alignment explanation
Indices: 10777529--10777608 Score: 53
Period size: 3 Copynumber: 26.3 Consensus size: 3
10777519 GAGCTTTGTT
* *
10777529 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
10777572 TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA T
10777609 ATATGCCCTC
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
2 7 0.11
3 46 0.74
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:10777598 original size:12 final size:12
Alignment explanation
Indices: 10777532--10777610 Score: 72
Period size: 12 Copynumber: 6.5 Consensus size: 12
10777522 CTTTGTTTTA
*
10777532 TTATTTTATTAT
1 TTATATTATTAT
* *
10777544 TTTTACTATTAT
1 TTATATTATTAT
10777556 TTATATTATTA-
1 TTATATTATTAT
* *
10777567 TTAT-TTCTCAT
1 TTATATTATTAT
10777578 GTATATATTATTAT
1 -T-TATATTATTAT
10777592 TTATATTATTAT
1 TTATATTATTAT
10777604 ATTATAT
1 -TTATAT
10777611 ATGCCCTCTC
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
10 4 0.08
11 4 0.08
12 30 0.57
13 10 0.19
14 5 0.09
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (12 bp):
TTATATTATTAT
Found at i:10777689 original size:3 final size:3
Alignment explanation
Indices: 10777683--10777733 Score: 50
Period size: 3 Copynumber: 16.0 Consensus size: 3
10777673 TTCTAACTAC
*
10777683 TAT TAT TAT ATAT ATAT GTAT TAT TGT T-T GTAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
10777731 TAT
1 TAT
10777734 CACCCCTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 1 0.02
3 31 0.72
4 11 0.26
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:10780450 original size:19 final size:19
Alignment explanation
Indices: 10780426--10780472 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
10780416 CTTTCTTTCT
10780426 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
* *
10780445 TTTGCATTATATTGCAACA
1 TTTGCATTACATTCCAACA
10780464 TTTGCATTA
1 TTTGCATTA
10780473 AACTTTCACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:10783275 original size:6 final size:6
Alignment explanation
Indices: 10783264--10783290 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
10783254 GTTATATGGA
10783264 AAAGGC AAAGGC AAAGGC AAAGGC AAA
1 AAAGGC AAAGGC AAAGGC AAAGGC AAA
10783291 AAAAAACACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.30, T:0.00
Consensus pattern (6 bp):
AAAGGC
Found at i:10783305 original size:8 final size:8
Alignment explanation
Indices: 10783292--10783320 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
10783282 AAAGGCAAAA
10783292 AAAAACAC
1 AAAAACAC
10783300 AAAAACAC
1 AAAAACAC
10783308 AAAAACAC
1 AAAAACAC
10783316 AAAAA
1 AAAAA
10783321 AAACAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAACAC
Found at i:10783312 original size:9 final size:9
Alignment explanation
Indices: 10783291--10783330 Score: 57
Period size: 8 Copynumber: 4.7 Consensus size: 9
10783281 CAAAGGCAAA
10783291 AAAAAACAC
1 AAAAAACAC
10783300 -AAAAACAC
1 AAAAAACAC
10783308 -AAAAACAC
1 AAAAAACAC
*
10783316 AAAAAAAAC
1 AAAAAACAC
10783325 AAAAAA
1 AAAAAA
10783331 ATTCTAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 16 0.55
9 13 0.45
ACGTcount: A:0.82, C:0.17, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAACAC
Found at i:10784574 original size:66 final size:66
Alignment explanation
Indices: 10784474--10784600 Score: 227
Period size: 66 Copynumber: 1.9 Consensus size: 66
10784464 CATTCATATA
*
10784474 ATAACACATCTACTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACACATT
1 ATAACACATCTACTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACACATT
10784539 C
66 C
* *
10784540 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACA
1 ATAACACATCTACTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACA
10784601 TAAGCATAGA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.35
Consensus pattern (66 bp):
ATAACACATCTACTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACACATT
C
Found at i:10784822 original size:86 final size:85
Alignment explanation
Indices: 10784664--10785301 Score: 418
Period size: 87 Copynumber: 7.3 Consensus size: 85
10784654 ATTCACAAGC
* * * * * *
10784664 CTTAAGCCCCTAAGCAATAGGGTAACAGGCTGAAGATT-TACAGATCTTAACCCCCTAAGTAGTA
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCG-A-ATTGT--AGATCTTATCCCCCTAAGCAGTA
10784728 GGGAAACAGATCGAAGACGAAGGGT
62 GGGAAACAGATCGAAGACGAA-GGT
* * *
10784753 CTTAAACCCCTAATCGGTAGGGTAACAGACCGAATTGTAGATCTTATCTCCCTAAGCAGTAGGGA
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAATTGTAGATCTTATCCCCCTAAGCAGTAGGGA
* *
10784818 AACAGATCGAAGATGAAGAT
66 AACAGATCGAAGACGAAGGT
* * * * **
10784838 CTTAACCCCCGAAGCAGTAGGG-AGACAGATCGAAGATG-ATGGGCTTTAAT-CCCCTAAGCAGT
1 CTTAAACCCCTAAGCAGTAGGGTA-ACAGACCGAA-TTGTA-GATC-TT-ATCCCCCTAAGCAGT
* * * * *
10784900 AGGGTAACA-AGCCAAATTTAC-AA-GC
61 AGGGAAACAGA-TCGAA--GACGAAGGT
* * * *
10784925 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATT-TACAGATCTTAACCCCCTAAGCAGTA
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCG-A-ATTGT--AGATCTTATCCCCCTAAGCAGTA
10784989 GGGAAACAGATCGAAGACGAAGGGT
62 GGGAAACAGATCGAAGACGAA-GGT
* * * * *
10785014 CTTAAACCCGTAATCGGTAGGGTAACAGACCGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGA
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAATTGTAGATCTTATCCCCCTAAGCAGTAGGGA
* * *
10785079 AACAGATCGAAGATGGAGAT
66 AACAGATCGAAGACGAAGGT
* * * * * * * * *
10785099 CTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGATGATGGGTTTTAACCCCCTAAGCAGTAGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAA-TTG-TAGATCTTATCCCCCTAAGCAGTAGG
* * * * *
10785164 GTAACA-AGCCAAATTTAC-AA-GC
64 GAAACAGA-TCGAA--GACGAAGGT
* * * ** *
10785186 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGACTTACAGATCTTAACCCCCTAAGCAGTAG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCG-A-A-TTGTAGATCTTATCCCCCTAAGCAGTAG
* * *
10785251 GGAAACAGATCAAAGA-TAATGGG
63 GGAAACAGATCGAAGACGAA-GGT
*
10785274 CTTTAACCCCCTAAGCAGTAGGGTAACA
1 C-TTAAACCCCTAAGCAGTAGGGTAACA
10785302 AGCCAAATTT
Statistics
Matches: 426, Mismatches: 90, Indels: 66
0.73 0.15 0.11
Matches are distributed among these distances:
84 1 0.00
85 59 0.14
86 93 0.22
87 114 0.27
88 70 0.16
89 88 0.21
90 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (85 bp):
CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAATTGTAGATCTTATCCCCCTAAGCAGTAGGGA
AACAGATCGAAGACGAAGGT
Found at i:10784853 original size:43 final size:43
Alignment explanation
Indices: 10784664--10785603 Score: 509
Period size: 43 Copynumber: 21.5 Consensus size: 43
10784654 ATTCACAAGC
* * * * *
10784664 CTTAAGCCCCTAAGCAATAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGA-TGA-AGAT
* * *
10784709 CTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGACGAAGGGT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAA-GAT
* * * * * * *
10784753 CTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTGTAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
* *
10784795 CTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
* * * **
10784838 CTTAACCCCCGAAGCAGTAGGGAGACAGATCGAAGATGATGGG
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
* * * * * *
10784881 CTTTAATCCCCTAAGCAGTAGGGTAACA-AGCCAA-ATTTACA-AGC
1 C-TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGA-TGA-AGA-T
* * *
10784925 CTTAACCCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGA-TGA-AGAT
* *
10784970 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAA-GAT
* * * * * * * *
10785014 CTTAAACCCGTAATCGGTAGGGTAACAGACCGAA-TTGCAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
* * *
10785056 CTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGGAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
* * *
10785099 CTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGATGATGGGT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGA-AGAT
* * * * * *
10785143 TTTAACCCCCTAAGCAGTAGGGTAACA-AGCCAA-ATTTACA-AGC
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGA-TGA-AGA-T
* * *
10785186 CTTAACCCCCTAAGCAGTAGGGTAACAG-GCTGAAGACTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGA-TGA-AGAT
* **
10785231 CTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGAT-AATGGG
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAA-GAT
* * * * *
10785274 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCAA-ATTTACA-AGC
1 C-TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGA-TGA-AGA-T
* * * *
10785318 CTTAAACCCCTAAGCAGTA-GGATAACTG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGA-AACAGATC-GAAGA-TGA-AGAT
* ** * * **
10785363 CTTAGCCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGG
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
* * * * * *
10785406 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAA-TTTACAAAC
1 C-TTAACCCCCTAAGCAGTAGGGAAACAGA-TCGAAGATGA-AGAT
* * * * *
10785450 CTTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAAAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGA-TGA-AGAT
* * * * * *
10785495 CTTAACCCCCTAACCAGTAGGGTAACAGGTTGAA-TTTATAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGA-AGAT
* * * * **
10785538 CTTAACCCCTTAAGCAGTTGGGAAATAGATCGAAGATGATGGGC
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGA-AGAT
* *
10785582 CTTAAACCCCTAAGTAGTAGGG
1 CTTAACCCCCTAAGCAGTAGGG
10785604 TAATAGGCTG
Statistics
Matches: 695, Mismatches: 156, Indels: 89
0.74 0.17 0.09
Matches are distributed among these distances:
42 64 0.09
43 253 0.36
44 196 0.28
45 173 0.25
46 9 0.01
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.21
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
Found at i:10784998 original size:132 final size:132
Alignment explanation
Indices: 10784653--10785522 Score: 1093
Period size: 132 Copynumber: 6.6 Consensus size: 132
10784643 AGAATCAGTG
* * *
10784653 AATTCACAAGCCTTAAGCCCCTAAGCAATAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
1 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
* * * * * *
10784718 CTAAGTAGTAGGGAAACAGATCGAAGACGAAGGG-TCTTAAACCCCTAATCGGTAGGGTAAC-AG
66 CTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCT-TTAACCCCCTAAGCAGTAGGGTAACAAG
*
10784781 ACCG
130 -CCA
* * * * * * *
10784785 AATTGTA-GA-TCTTATCTCCCTAAGCAGTAGGGAAACA-GATCGAAGA-TGA-AGATCTTAACC
1 AATT-TACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAGATCTTAACC
* * *
10784845 CCCGAAGCAGTAGGGAGACAGATCGAAGATGATGGGCTTTAATCCCCTAAGCAGTAGGGTAACAA
64 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAA
10784910 GCCA
129 GCCA
10784914 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
1 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
* * * * * *
10784979 CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGG-TCTTAAACCCGTAATCGGTAGGGTAAC-AG
66 CTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCT-TTAACCCCCTAAGCAGTAGGGTAACAAG
*
10785042 ACCG
130 -CCA
* * * * * * **
10785046 AA-TTGC-AGATCTTATCTCCCTAAGCAGTAGGGAAACA-GATCGAAGA--TGGAGATCTTAACC
1 AATTTACAAG-CCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAGATCTTAACC
* *
10785106 CCCTAAGTAGTAGGGAAACAGATCGAAGATGATGGGTTTTAACCCCCTAAGCAGTAGGGTAACAA
64 CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAA
10785171 GCCA
129 GCCA
*
10785175 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGACTTACAGATCTTAACCCC
1 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
* *
10785240 CTAAGCAGTAGGGAAACAGATCAAAGATAATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGC
66 CTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGC
10785305 CA
131 CA
* * * *
10785307 AATTTACAAGCCTTAAACCCCTAAGCAGTAGGATAACTGGCTGAAGATTTACAGATCTTAGCCCC
1 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
** *
10785372 CTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGC
66 CTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGC
*
10785437 CG
131 CA
* * *
10785439 AATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCC
1 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
* *
10785504 CTAACCAGTAGGGTAACAG
66 CTAAGCAGTAGGGAAACAG
10785523 GTTGAATTTA
Statistics
Matches: 639, Mismatches: 79, Indels: 40
0.84 0.10 0.05
Matches are distributed among these distances:
128 2 0.00
129 141 0.22
130 75 0.12
131 70 0.11
132 350 0.55
133 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (132 bp):
AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
CTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGC
CA
Found at i:10785129 original size:261 final size:261
Alignment explanation
Indices: 10784653--10785522 Score: 1286
Period size: 261 Copynumber: 3.3 Consensus size: 261
10784643 AGAATCAGTG
* * *
10784653 AATTCACAAGCCTTAAGCCCCTAAGCAATAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
1 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
*
10784718 CTAAGTAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGAC
66 CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGAC
*
10784783 CGAATTGTAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCCC
131 CGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCCC
* * *
10784848 GAAGCAGTAGGGAGACAGATCGAAGATGATGGGCTTTAATCCCCTAAGCAGTAGGGTAACAAGCC
196 TAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCC
10784913 A
261 A
10784914 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
1 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
*
10784979 CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCGTAATCGGTAGGGTAACAGAC
66 CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGAC
*
10785044 CGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGGAGATCTTAACCCCC
131 CGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCCC
* *
10785109 TAAGTAGTAGGGAAACAGATCGAAGATGATGGGTTTTAACCCCCTAAGCAGTAGGGTAACAAGCC
196 TAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCC
10785174 A
261 A
*
10785175 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGACTTACAGATCTTAACCCC
1 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
* * * * *
10785240 CTAAGCAGTAGGGAAACAGATCAAAGA-TAATGGG-CTTTAACCCCCTAAGCAGTAGGGTAACA-
66 CTAAGCAGTAGGGAAACAGATCGAAGACGAA-GGGTC-TTAAACCCCTAATCGGTAGGGTAACAG
* * * * * * *
10785302 AGCCAAATTTACA-AGCCTTAAAC-CCCTAAGCAGTA-GGATAACTG-GCTGAAGATTTACAGAT
129 A-CCGAA-TTGCAGA-TCTT-ATCTCCCTAAGCAGTAGGGA-AACAGATC-GAAGA-TGA-AGAT
* ** *
10785363 CTTAGCCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAACCCCCTAAGCAGTAGG
186 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGG
*
10785428 GTAACAAGCCG
251 GTAACAAGCCA
* * *
10785439 AATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCC
1 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
* *
10785504 CTAACCAGTAGGGTAACAG
66 CTAAGCAGTAGGGAAACAG
10785523 GTTGAATTTA
Statistics
Matches: 559, Mismatches: 40, Indels: 17
0.91 0.06 0.03
Matches are distributed among these distances:
260 4 0.01
261 373 0.67
262 28 0.05
263 3 0.01
264 151 0.27
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (261 bp):
AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGAC
CGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCCC
TAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCC
A
Found at i:10785585 original size:132 final size:131
Alignment explanation
Indices: 10784653--10785625 Score: 746
Period size: 132 Copynumber: 7.4 Consensus size: 131
10784643 AGAATCAGTG
* * *
10784653 AATTCACAAGCCTTAAGCCCCTAAGCAATAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
1 AATT-ACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCC
* * * ** * * * *
10784718 CTAAGTAGTAGGGAAACAGATCGAAGACGA-AGGG-TCTTAAACCCCTAATCGGTAGGGTAACAG
65 CTAAGCAGTAGGGAAACAGAT-AAAAATTATAGGGCT-TTAACCCCCTAAGCAGTAGGG-AAAAG
10784781 ACCG-
127 ACCGA
** * * * * * *
10784785 AATT-GTAGATCTT-ATCTCCCTAAGCAGTAGGGAAACA-GATCGAAGA-TGA-AGATCTTAACC
1 AATTACAAG-CCTTAAAC-CCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAAATCTTAACC
* * * * * *
10784845 CCCGAAGCAGTAGGGAGACAGATCGAAGATGAT-GGGCTTTAATCCCCTAAGCAGTAGGGTAACA
63 CCCTAAGCAGTAGGGAAACAGAT-AAAAATTATAGGGCTTTAACCCCCTAAGCAGTAGGG-AA-A
10784909 AG-CC-A
125 AGACCGA
* *
10784914 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
1 AA-TTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCC
* * ** * * * * *
10784979 CTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGG-TCTTAAACCCGTAATCGGTAGGGTAACAG
65 CTAAGCAGTAGGGAAACAGAT-AAAAATTATAGGGCT-TTAACCCCCTAAGCAGTAGGG-AAAAG
10785042 ACCG-
127 ACCGA
* * * * * ** *
10785046 AATTGC-AGATCTT-ATCTCCCTAAGCAGTAGGGAAACA-GATCGAAGA--TGGAGATCTTAACC
1 AATTACAAG-CCTTAAAC-CCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAAATCTTAACC
* * * * *
10785106 CCCTAAGTAGTAGGGAAACAGATCGAAGATGAT-GGGTTTTAACCCCCTAAGCAGTAGGGTAACA
63 CCCTAAGCAGTAGGGAAACAGAT-AAAAATTATAGGGCTTTAACCCCCTAAGCAGTAGGG-AA-A
10785170 AG-CC-A
125 AGACCGA
* * *
10785175 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGACTTACAGATCTTAACCCC
1 AA-TTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCC
* *
10785240 CTAAGCAGTAGGGAAACAGATCAAAGATAAT-GGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
65 CTAAGCAGTAGGGAAACAGAT-AAAAATTATAGGGCTTTAACCCCCTAAGCAGTAGGG-AA-AAG
10785304 -CC-A
127 ACCGA
* * * *
10785307 AATTTACAAGCCTTAAACCCCTAAGCAGTAGGATAACTGGCTGAAGATTTACAGATCTTAGCCCC
1 AA-TTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCC
*
10785372 CTAAGCAGTAGGGAAACAGATAAAAAATGAT-GGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
65 CTAAGCAGTAGGGAAACAGAT-AAAAATTATAGGGCTTTAACCCCCTAAGCAGTAGGG-AA-AAG
10785436 -CCGA
127 ACCGA
* *
10785440 ATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCC
1 AATTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCC
* * * ** * ** * * *
10785505 TAACCAGTAGGGTAACAGGTTGAATTTATAGATC-TTAACCCCTTAAGCAGTTGGGAAATAGATC
66 TAAGCAGTAGGGAAACAGATAAAAATTATAGGGCTTTAACCCCCTAAGCAGTAGGGAAA-AGACC
10785569 GA
130 GA
* *** * *
10785571 AGATGATGGGCCTTAAACCCCTAAGTAGTAGGGTAATAGGCTGGAA-A-TTACAAAT
1 A-ATTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAAAT
10785626 TTTTTTTTCC
Statistics
Matches: 715, Mismatches: 90, Indels: 73
0.81 0.10 0.08
Matches are distributed among these distances:
129 137 0.19
130 83 0.12
131 109 0.15
132 381 0.53
133 5 0.01
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (131 bp):
AATTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCC
TAAGCAGTAGGGAAACAGATAAAAATTATAGGGCTTTAACCCCCTAAGCAGTAGGGAAAAGACCG
A
Found at i:10785590 original size:88 final size:86
Alignment explanation
Indices: 10784834--10785622 Score: 334
Period size: 87 Copynumber: 9.0 Consensus size: 86
10784824 TCGAAGATGA
* * * *
10784834 AGATCTTAACCCCCGAAGCAGTAGGGAGACAGATCGAAGATGATGGGCTTTAATCCCCTAAGCAG
1 AGATCTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCCTAAGCAG
* **
10784899 TAGGGTAACAAGCCAAATTTAC
65 TAGGGTAACAGGCTGAATTTAC
* * * * ** ** *
10784921 A-AGCCTTAACCCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGATCTTAACCCCCTAAG
1 AGA-TCTTAA-CCCCTAAGCAGTAGGGAAACAGATC-GAAGA-TGATGGGCCTTAAACCCCTAAG
* * *
10784984 CAGTAGGGAAACA-GATCGAA--GAC
62 CAGTAGGGTAACAGGCT-GAATTTAC
* * * * * * * ** *
10785007 GAAGGGTCTTAAACCCGTAATCGGTAGGGTAACAGACCGAA-TTGCA--GATCTT-ATCTCCCTA
1 --A-GATCTT-AACCCCTAAGCAGTAGGGAAACAGATCGAAGATG-ATGGGCCTTAAAC-CCCTA
* * ** **
10785068 AGCAGTAGGGAAACA-GATCGAAGATGG
60 AGCAGTAGGGTAACAGGCT-GAATTTAC
* ** *
10785095 AGATCTTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGATGATGGGTTTTAACCCCCTAAGCAG
1 AGATCTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCCTAAGCAG
* **
10785160 TAGGGTAACAAGCCAAATTTAC
65 TAGGGTAACAGGCTGAATTTAC
* * * * ** ** *
10785182 A-AGCCTTAACCCCCTAAGCAGTAGGGTAACAG-GCTGAAGACTTACAGATCTTAACCCCCTAAG
1 AGA-TCTTAA-CCCCTAAGCAGTAGGGAAACAGATC-GAAGA-TGATGGGCCTTAAACCCCTAAG
* * * **
10785245 CAGTAGGGAAACA-GATCAAAGATA-
62 CAGTAGGGTAACAGGCT-GAATTTAC
** * * * * ***
10785269 ATGGGCTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCAA-ATTTACAAGCCTTAAACCCCTAAG
1 A-GATC-TTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGA-TGATGGGCCTTAAACCCCTAAG
* *
10785332 CAGTAGGATAACTGGCTGAAGATTTAC
62 CAGTAGGGTAACAGGCTG-A-ATTTAC
* ** * * *
10785359 AGATCTTAGCCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAACCCCCTAAGCAG
1 AGATCTTA-ACCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCCTAAGCAG
* *
10785424 TAGGGTAACAAGCCGAATTTAC
65 TAGGGTAACAGGCTGAATTTAC
* * * * * ***** * *
10785446 AAACCTTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAAATCTTAACCCCCTAACC
1 AGATCTT-AACCCCTAAGCAGTAGGGAAACAGATC-GAAGA-TGATGGGCCTTAAACCCCTAAGC
* *
10785510 AGTAGGGTAACAGGTTGAATTTAT
63 AGTAGGGTAACAGGCTGAATTTAC
* * *
10785534 AGATCTTAACCCCTTAAGCAGTTGGGAAATAGATCGAAGATGATGGGCCTTAAACCCCTAAGTAG
1 AGATCTTAACCCC-TAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCCTAAGCAG
* *
10785599 TAGGGTAATAGGCTGGAAATTAC
65 TAGGGTAACAGGCT-GAATTTAC
10785622 A
1 A
10785623 AATTTTTTTT
Statistics
Matches: 528, Mismatches: 133, Indels: 81
0.71 0.18 0.11
Matches are distributed among these distances:
84 2 0.00
85 30 0.06
86 42 0.08
87 191 0.36
88 166 0.31
89 92 0.17
90 5 0.01
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (86 bp):
AGATCTTAACCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCCTAAGCAGT
AGGGTAACAGGCTGAATTTAC
Found at i:10785744 original size:68 final size:68
Alignment explanation
Indices: 10785635--10785825 Score: 294
Period size: 68 Copynumber: 2.8 Consensus size: 68
10785625 TTTTTTTTTC
* * *
10785635 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG-AGGATCTTT
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCA-AACCTCT
10785699 TCTT
65 TCTT
*
10785703 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCAAACCTCTT
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCAAACCTCTT
10785768 CTT
66 CTT
* * * *
10785771 CCAGAAATGGCATTGGAGAGGCTAAAAGCCATAGTAGATCTCCTTGAAGTTTCAG
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG
10785826 TGGAAGAAGA
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
68 112 0.99
69 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (68 bp):
CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCAAACCTCTT
CTT
Found at i:10786043 original size:44 final size:44
Alignment explanation
Indices: 10785937--10786400 Score: 451
Period size: 44 Copynumber: 10.6 Consensus size: 44
10785927 GATTTCAGCA
* **
10785937 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAG-ATT
10785980 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
*
10786024 TGGCATCTCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
* * * * * *
10786068 TGGCATCCCTGTGCTTATAGGGAAC-GGATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAACATCAGATT
* * * * * * **
10786112 TGACATTCCTGTGCTTACAGTGAAGC-AGATCAAAGATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAA-CAAGTTGAAA-ACATCAG-ATT
10786156 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
* *
10786200 TGGCATCCCTGTGCTTATAGGGAACAGGTTGAAAACAACAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
* * * * * *
10786244 TGGCATCCCTGTGCTTATAGGGAAC-GGATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAACATCAGATT
* * * * ** * * **
10786288 TGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAACATCAG-ATT
* *
10786332 TGACATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
10786376 TGGCATCCCTGTGCTTATAGGGAAC
1 TGGCATCCCTGTGCTTATAGGGAAC
10786401 GGATCGAAGA
Statistics
Matches: 351, Mismatches: 56, Indels: 27
0.81 0.13 0.06
Matches are distributed among these distances:
42 3 0.01
43 55 0.16
44 271 0.77
45 20 0.06
46 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (44 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
Found at i:10786193 original size:176 final size:176
Alignment explanation
Indices: 10785968--10786400 Score: 803
Period size: 176 Copynumber: 2.5 Consensus size: 176
10785958 GAACAAGTTG
*
10785968 AAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCTC
1 AAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCC
*
10786033 TGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACGGATC
66 TGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAACGGATC
10786098 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCA
131 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCA
10786144 AAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCC
1 AAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCC
*
10786209 TGTGCTTATAGGGAACAGGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAACGGATC
66 TGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAACGGATC
* *
10786274 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCG
131 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCA
* *
10786320 AAGATTTCAGCATGACATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCC
1 AAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCC
10786385 TGTGCTTATAGGGAAC
66 TGTGCTTATAGGGAAC
10786401 GGATCGAAGA
Statistics
Matches: 250, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
176 250 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (176 bp):
AAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCC
TGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAACGGATC
GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCA
Found at i:10786431 original size:44 final size:44
Alignment explanation
Indices: 10785878--10786459 Score: 330
Period size: 44 Copynumber: 13.2 Consensus size: 44
10785868 AGGAGCAGAC
* * * *
10785878 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGAT
1 CGAAGATAGCAGATCTGACATCCCTGTGCTTATAGGGAA-CGGAT
* ** * *
10785923 CCAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAAC-AAGT
1 CGAAGATAGCAGATC-TGACATCCCTGTGCTTATAGGGAACGGA-T
* ** * *
10785966 TGAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAAC-AAGT
1 CGAAGATAGCAGATC-TGACATCCCTGTGCTTATAGGGAACGGA-T
* * * * * * * *
10786009 TGAAAACATCAGATTTGGCATCTCTGTGCTTATAGGGAAC-AAGT
1 CGAAGATAGCAGATCTGACATCCCTGTGCTTATAGGGAACGGA-T
* * * * * *
10786053 TGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACGGAT
1 CGAAGATAGCAGATCTGACATCCCTGTGCTTATAGGGAACGGAT
* * * *
10786097 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGAT
1 CGAAGATAGCAGATCTGACATCCCTGTGCTTATAGGGAA-CGGAT
* ** * *
10786142 CAAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAAC-AAGT
1 CGAAGATAGCAGATC-TGACATCCCTGTGCTTATAGGGAACGGA-T
* * * * * *
10786185 TGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAGG-T
1 CGAAGATAGCAGATCTGACATCCCTGTGCTTATAGGGAAC-GGAT
* * * * * *
10786229 TGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAACGGAT
1 CGAAGATAGCAGATCTGACATCCCTGTGCTTATAGGGAACGGAT
* * *
10786273 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA-GTAGAT
1 CGAAGATAGCAGATCTGACATCCCTGTGCTTATAGGGAACG--GAT
** *
10786318 CGAAGATTTCAG--CATGACATCCCTGTGCTTATAGGGAAC-AAGT
1 CGAAGATAGCAGATC-TGACATCCCTGTGCTTATAGGGAACGGA-T
* * * * *
10786361 TGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACGGAT
1 CGAAGATAGCAGATCTGACATCCCTGTGCTTATAGGGAACGGAT
* * * * *
10786405 CGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGAT
1 CGAAGATAGCAGATCTGACATCCCTGTGCTTATAGGGAA-CGGAT
*
10786450 CAAAGATAGC
1 CGAAGATAGC
10786460 GGATATCGCC
Statistics
Matches: 438, Mismatches: 77, Indels: 44
0.78 0.14 0.08
Matches are distributed among these distances:
42 3 0.01
43 75 0.17
44 310 0.71
45 50 0.11
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (44 bp):
CGAAGATAGCAGATCTGACATCCCTGTGCTTATAGGGAACGGAT
Found at i:10786433 original size:176 final size:177
Alignment explanation
Indices: 10785885--10786459 Score: 750
Period size: 176 Copynumber: 3.3 Consensus size: 177
10785875 GACCGAAGAT
* * * ** * *
10785885 AGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCCAAGATTTCAG--CATGGCATCCCTG
1 AGCAGATCTGACATCCCTGTGCTTACAGGGAAGCAGATCGAAGATAGCAGATC-TGACATTCCTG
* * * *
10785948 TGCTTATAGGGAACAAG-TTGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGA
65 TGCTTACAGTGAAGAAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGA
* * *
10786012 AAACATCAGATTTGGCATCTCTGTGCTTATAGGGAAC-AAGTTGAAAAC
130 AAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACGGA-TCGAAAAC
* * * * *
10786060 ATCAGATTTGGCATCCCTGTGCTTATAGGGAA-CGGATCGAAGATAGCAGATCTGACATTCCTGT
1 AGCAGATCTGACATCCCTGTGCTTACAGGGAAGCAGATCGAAGATAGCAGATCTGACATTCCTGT
* *
10786124 GCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAA
66 GCTTACAGTGAAGAAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAA
*
10786189 AACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAGG-TTGAAAAC
131 AACATCAGATTTGGCATCCCTGTGCTTATAGGGAAC-GGATCGAAAAC
* * * * *
10786236 AACAGATTTGGCATCCCTGTGCTTATAGGGAA-CGGATCGAAGATAGCAGATCTGACATTCCTGT
1 AGCAGATCTGACATCCCTGTGCTTACAGGGAAGCAGATCGAAGATAGCAGATCTGACATTCCTGT
* *
10786300 GCTTACAGTGAAGTAGATCGAAGATTTCAGCATGACATCCCTGTGCTTATAGGGAACAAGTTGAA
66 GCTTACAGTGAAGAAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAA
* * *
10786365 AACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACGGATCGAAGAT
131 AACATCAGATTTGGCATCCCTGTGCTTATAGGGAACGGATCGAAAAC
* * * *
10786412 AGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATAGC
1 AGCAGATCTGACATCCCTGTGCTTACAGGGAAGCAGATCGAAGATAGC
10786460 GGATATCGCC
Statistics
Matches: 356, Mismatches: 37, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
174 13 0.04
175 50 0.14
176 280 0.79
177 13 0.04
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (177 bp):
AGCAGATCTGACATCCCTGTGCTTACAGGGAAGCAGATCGAAGATAGCAGATCTGACATTCCTGT
GCTTACAGTGAAGAAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAA
AACATCAGATTTGGCATCCCTGTGCTTATAGGGAACGGATCGAAAAC
Found at i:10786440 original size:132 final size:132
Alignment explanation
Indices: 10785878--10786457 Score: 552
Period size: 132 Copynumber: 4.4 Consensus size: 132
10785868 AGGAGCAGAC
* * *
10785878 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCCAAGATTTCAGCA-TGGCA
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGAAGATCGAAGATATCAG-ATTGGCA
* ***
10785942 TCCCTGTGCTTATAGGGAACAAGTTGAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAAC
65 TCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAAC
*
10786005 -AAGT
129 GGA-T
* * * * * * * * * * * *
10786009 TGAAAACATCAGATTTGGCA-TCTCTGTGCTTATAGGGAACAAG-TTGAAAACATCAGATTTGGC
1 CGAAGATAGCAGATCTGACATTC-CTGTGCTTACAGTGAAGAAGATCGAAGATATCAGA-TTGGC
* * * * * * * * *
10786072 ATCCCTGTGCTTATAGGGAAC-GGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAA
64 ATCCCTGTGCTTATAGGGAACAAG-TTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
*
10786136 GCAGAT
128 -CGGAT
* ** * * * * * * * *
10786142 CAAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAACATCAGATTTGGC
1 CGAAGATAGCAGATC-TGACATTCCTGTGCTTACAGTGAAGAAGATCGAAGATATCAGA-TTGGC
* *
10786204 ATCCCTGTGCTTATAGGGAACAGGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAAC
64 ATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
10786269 GGAT
129 GGAT
* * *
10786273 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCA-TGACA
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGAAGATCGAAGATATCAG-ATTGGCA
10786337 TCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACG
65 TCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACG
10786402 GAT
130 GAT
* * *
10786405 CGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATA
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGAAGATCGAAGATA
10786458 GCGGATATCG
Statistics
Matches: 373, Mismatches: 61, Indels: 29
0.81 0.13 0.06
Matches are distributed among these distances:
129 1 0.00
130 12 0.03
131 78 0.21
132 258 0.69
133 22 0.06
134 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (132 bp):
CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGAAGATCGAAGATATCAGATTGGCAT
CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACGG
AT
Found at i:10786835 original size:22 final size:22
Alignment explanation
Indices: 10786795--10786836 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
10786785 TGGCCACCCA
*
10786795 CCTTGGCCACCAACTCCACCAC
1 CCTTGGCCACCAACACCACCAC
10786817 CCTTGGCCACCTAA-ACCACC
1 CCTTGGCCACC-AACACCACC
10786837 CCAACCACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.24, C:0.52, G:0.10, T:0.14
Consensus pattern (22 bp):
CCTTGGCCACCAACACCACCAC
Found at i:10786957 original size:24 final size:24
Alignment explanation
Indices: 10786930--10786981 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
10786920 AGGATTGTTC
10786930 TTTGTTTTGGAGGAGGT-TTTTTTT
1 TTTGTTTT-GAGGAGGTGTTTTTTT
**
10786954 TTTGTTTTTTGGAGGTGTTTTTTT
1 TTTGTTTTGAGGAGGTGTTTTTTT
10786978 TTTG
1 TTTG
10786982 GAAAGAAGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.06, C:0.00, G:0.27, T:0.67
Consensus pattern (24 bp):
TTTGTTTTGAGGAGGTGTTTTTTT
Found at i:10787325 original size:3 final size:3
Alignment explanation
Indices: 10787311--10787393 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
10787301 GAGCTTTGTT
* *
10787311 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
10787355 TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA T
10787394 ATATGCCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 7 0.11
3 49 0.75
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:10787371 original size:21 final size:18
Alignment explanation
Indices: 10787311--10787393 Score: 87
Period size: 18 Copynumber: 4.4 Consensus size: 18
10787301 GAGCTTTGTT
*
10787311 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
10787331 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
10787349 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
10787370 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
10787388 -TATTAT
1 TTATTAT
10787394 ATATGCCCTC
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
17 6 0.11
18 18 0.33
19 9 0.16
20 10 0.18
21 12 0.22
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:10787396 original size:27 final size:26
Alignment explanation
Indices: 10787310--10787397 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 26
10787300 AGAGCTTTGT
* * *
10787310 TTTATTATTTTATTATTTTTACTATTA
1 TTTA-TATATTATTATTTATATTATTA
* *
10787337 TTTATATTATTATTA-TTAT-TTCTCA
1 TTTATA-TATTATTATTTATATTATTA
*
10787362 TGTATATATTATTATTTATATTATTA
1 TTTATATATTATTATTTATATTATTA
10787388 TATTATATAT
1 T-TTATATAT
10787398 GCCCTCTCCA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
24 8 0.17
25 12 0.25
26 10 0.21
27 18 0.38
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (26 bp):
TTTATATATTATTATTTATATTATTA
Found at i:10793978 original size:21 final size:21
Alignment explanation
Indices: 10793954--10793997 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
10793944 TTCAGTTTTA
10793954 CTGTATTTATCTTTTATAAGT
1 CTGTATTTATCTTTTATAAGT
10793975 CTGTATTTATCTTTTATAAGT
1 CTGTATTTATCTTTTATAAGT
10793996 CT
1 CT
10793998 TCTTTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.11, G:0.09, T:0.57
Consensus pattern (21 bp):
CTGTATTTATCTTTTATAAGT
Found at i:10795909 original size:14 final size:13
Alignment explanation
Indices: 10795890--10795919 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
10795880 CCAGAAAAGC
10795890 AAATCATTTTCCAG
1 AAATCATTTTCC-G
10795904 AAATCATTTTCCG
1 AAATCATTTTCCG
10795917 AAA
1 AAA
10795920 AACATTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (13 bp):
AAATCATTTTCCG
Found at i:10800031 original size:28 final size:28
Alignment explanation
Indices: 10800000--10800073 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 28
10799990 TCAATGCCTT
*
10800000 GCACACTATGTGCCATACTC-AATATCTC
1 GCACACTAAGTGCCATACTCGAA-ATCTC
*
10800028 GCACACTAAGTGCCACACTCGAAATCTC
1 GCACACTAAGTGCCATACTCGAAATCTC
*
10800056 GTACACTAAGTGCCATAC
1 GCACACTAAGTGCCATAC
10800074 ATAGCCGAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 39 0.95
29 2 0.05
ACGTcount: A:0.31, C:0.32, G:0.14, T:0.23
Consensus pattern (28 bp):
GCACACTAAGTGCCATACTCGAAATCTC
Found at i:10800106 original size:40 final size:40
Alignment explanation
Indices: 10800058--10800272 Score: 313
Period size: 40 Copynumber: 5.4 Consensus size: 40
10800048 GAAATCTCGT
* *
10800058 ACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCGAATCGC
* *
10800098 ACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCAC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCGAATCGC
* * *
10800138 ACACTAAGTGTCATACATAGCCGAAGCTATCTCAAATCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCGAATCGC
* * *
10800178 ACACTAAGTGTCATATATAGCCGAAGCTATATCGAATCAC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCGAATCGC
* * *
10800218 ACACTAAGTGCCATTTATAGCCGAAGCTATGTCGTATCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCGAATCGC
10800258 ACACTAAGTGCCATA
1 ACACTAAGTGCCATA
10800273 AATAACTGAT
Statistics
Matches: 156, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 156 1.00
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.23
Consensus pattern (40 bp):
ACACTAAGTGCCATATATAGCCGAAGCTATCTCGAATCGC
Found at i:10800293 original size:80 final size:80
Alignment explanation
Indices: 10800058--10800272 Score: 358
Period size: 80 Copynumber: 2.7 Consensus size: 80
10800048 GAAATCTCGT
10800058 ACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATATATAGCCGAA
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATATATAGCCGAA
10800123 GCTATGTCGAATCAC
66 GCTATGTCGAATCAC
* *
10800138 ACACTAAGTGTCATACATAGCCGAAGCTATCTCAAATCGCACACTAAGTGTCATATATAGCCGAA
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATATATAGCCGAA
*
10800203 GCTATATCGAATCAC
66 GCTATGTCGAATCAC
** * **
10800218 ACACTAAGTGCCATTTATAGCCGAAGCTATGTCGTATCGCACACTAAGTGCCATA
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATA
10800273 AATAACTGAT
Statistics
Matches: 125, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 125 1.00
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.23
Consensus pattern (80 bp):
ACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGCACACTAAGTGCCATATATAGCCGAA
GCTATGTCGAATCAC
Found at i:10801735 original size:7 final size:7
Alignment explanation
Indices: 10801714--10801750 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
10801704 TCTTAAAATA
10801714 ATTTA-C
1 ATTTACC
*
10801720 ATTTTCC
1 ATTTACC
10801727 ATTTACC
1 ATTTACC
10801734 ATTTACC
1 ATTTACC
10801741 ATTTACC
1 ATTTACC
10801748 ATT
1 ATT
10801751 GGTGTCATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
6 4 0.14
7 24 0.86
ACGTcount: A:0.27, C:0.24, G:0.00, T:0.49
Consensus pattern (7 bp):
ATTTACC
Found at i:10810101 original size:28 final size:27
Alignment explanation
Indices: 10810069--10810124 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 27
10810059 AAAACATAGA
*
10810069 GGTAGAAAGGAATAGTTTCAATTGATAT
1 GGTAGAAAGGAATAATTTCAA-TGATAT
10810097 GGTAGAAAGGAATAATTTCAATGATAT
1 GGTAGAAAGGAATAATTTCAATGATAT
10810124 G
1 G
10810125 AAAATTTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 7 0.26
28 20 0.74
ACGTcount: A:0.41, C:0.04, G:0.25, T:0.30
Consensus pattern (27 bp):
GGTAGAAAGGAATAATTTCAATGATAT
Found at i:10818695 original size:46 final size:46
Alignment explanation
Indices: 10818628--10818802 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
10818618 TGTAACCCGC
*
10818628 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
10818674 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * ** *
10818724 -C-TCA-CGAACTCGAACTCAACTCGACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
10818767 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGG
10818803 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 62 0.58
47 24 0.23
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:10818745 original size:93 final size:93
Alignment explanation
Indices: 10818636--10818806 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
10818626 GCCCATAAGT
* ** * *
10818636 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
10818701 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* *
10818729 GAACTCGAACTCAACTCGACGAGTTCGAACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
*
10818794 CGAGTTCGGATGC
66 CGAGCTCGGATGC
10818807 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:10819150 original size:26 final size:26
Alignment explanation
Indices: 10819117--10819167 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
10819107 CGTAATTATC
10819117 CCTTAATCGATTTCTTTCCGTTCTAT
1 CCTTAATCGATTTCTTTCCGTTCTAT
10819143 CCTTAATCGATTTCTTTCCGTTCTA
1 CCTTAATCGATTTCTTTCCGTTCTA
10819168 GGTCCAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.16, C:0.27, G:0.08, T:0.49
Consensus pattern (26 bp):
CCTTAATCGATTTCTTTCCGTTCTAT
Found at i:10823273 original size:6 final size:6
Alignment explanation
Indices: 10823243--10823281 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
10823233 TCCAACAACC
* *
10823243 AAAATA GAAAATA AAAGTC AAAATA AAAATA AAAATA AA
1 AAAATA -AAAATA AAAATA AAAATA AAAATA AAAATA AA
10823282 TAGTTATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:10834702 original size:61 final size:62
Alignment explanation
Indices: 10834563--10834705 Score: 207
Period size: 62 Copynumber: 2.3 Consensus size: 62
10834553 TTAAATCACA
* * * *
10834563 AACAGTGAGTCATATGACCTGGACACACGCCCGTGTCTCTGGCCCATGTGGTCTTTAATAGT
1 AACAGTGAGTCACACGACCTGGACACACGCCCGTGTCTCTGGCCCATGTGGTCTCTAATAGC
** * *
10834625 AGTAGTGAGTCACACGACCTGGACACACGCCTGTGTCTCTGG-CCGTGTGGTCTCTAATAGC
1 AACAGTGAGTCACACGACCTGGACACACGCCCGTGTCTCTGGCCCATGTGGTCTCTAATAGC
10834686 AACAGTGAGTCACACGACCT
1 AACAGTGAGTCACACGACCT
10834706 ACCACATGGC
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
61 34 0.48
62 37 0.52
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.24
Consensus pattern (62 bp):
AACAGTGAGTCACACGACCTGGACACACGCCCGTGTCTCTGGCCCATGTGGTCTCTAATAGC
Found at i:10842898 original size:27 final size:26
Alignment explanation
Indices: 10842858--10842913 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 26
10842848 AAGAAAGAAA
*
10842858 AAGAAAAAGAGAAGAGACAAGATTTT
1 AAGAAAAAGAGAAGAGACAAGATTAT
10842884 AAGAAAAATGAGAAGAGACAAGATTAT
1 AAGAAAAA-GAGAAGAGACAAGATTAT
10842911 AAG
1 AAG
10842914 GGCATAGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.59, C:0.04, G:0.23, T:0.14
Consensus pattern (26 bp):
AAGAAAAAGAGAAGAGACAAGATTAT
Found at i:10844430 original size:29 final size:31
Alignment explanation
Indices: 10844354--10844412 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
10844344 ACTCAAGTGT
10844354 GAGTGTCAAATGTGATTATGTGCCCAACCAA
1 GAGTGTCAAATGTGATTATGTGCCCAACCAA
10844385 GAGTGTCAAATGTGATTATGTGCCCAAC
1 GAGTGTCAAATGTGATTATGTGCCCAAC
10844413 TAAATGTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (31 bp):
GAGTGTCAAATGTGATTATGTGCCCAACCAA
Found at i:10853465 original size:19 final size:18
Alignment explanation
Indices: 10853414--10853469 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
10853404 TGAAAATAAA
10853414 TATAATTG-TAATAATTT
1 TATAATTGTTAATAATTT
*
10853431 T-TAATCAT-TTATTAATTT
1 TATAAT--TGTTAATAATTT
10853449 TATAATTGTTAAATAATTT
1 TATAATTGTT-AATAATTT
10853468 TA
1 TA
10853470 AAAATTTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
16 4 0.13
17 2 0.06
18 12 0.39
19 13 0.42
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (18 bp):
TATAATTGTTAATAATTT
Found at i:10853607 original size:21 final size:21
Alignment explanation
Indices: 10853581--10853633 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
10853571 TGCTGTTTCT
* *
10853581 AATCTCACTGCTACAATACCC
1 AATCTCACCGCTACAATAACC
* *
10853602 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAATAACC
10853623 AATCTCACCGC
1 AATCTCACCGC
10853634 CACCGCTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.38, G:0.08, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:10853719 original size:21 final size:21
Alignment explanation
Indices: 10853693--10853736 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
10853683 TAAGCCTTAG
10853693 TCTGTTTCCTAGTATAGAGTT
1 TCTGTTTCCTAGTATAGAGTT
10853714 TCTGTTTCCTAGTATAGAGTT
1 TCTGTTTCCTAGTATAGAGTT
10853735 TC
1 TC
10853737 CTAAGTTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.16, G:0.18, T:0.48
Consensus pattern (21 bp):
TCTGTTTCCTAGTATAGAGTT
Found at i:10855539 original size:33 final size:33
Alignment explanation
Indices: 10855497--10855587 Score: 173
Period size: 33 Copynumber: 2.8 Consensus size: 33
10855487 TTTCTTCTTG
*
10855497 ACATTCCAGCTGCTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
10855530 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
10855563 ACATTCCAGCTCCTGTCCAGCAACC
1 ACATTCCAGCTCCTGTCCAGCAACC
10855588 TGAAACAGAG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.29, C:0.42, G:0.11, T:0.19
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:10857577 original size:21 final size:21
Alignment explanation
Indices: 10857551--10857592 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
10857541 AGAGTTAGTT
10857551 TGTTTCCTAGTATAGAGTTTC
1 TGTTTCCTAGTATAGAGTTTC
10857572 TGTTTCCTAGTATAGAGTTTC
1 TGTTTCCTAGTATAGAGTTTC
10857593 CTAAGTTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.48
Consensus pattern (21 bp):
TGTTTCCTAGTATAGAGTTTC
Found at i:10860789 original size:12 final size:12
Alignment explanation
Indices: 10860772--10860828 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
10860762 CACGAACAAG
10860772 CTCGTTTATTGA
1 CTCGTTTATTGA
*
10860784 CTCGTTTA-TAA
1 CTCGTTTATTGA
* *
10860795 GCTTGCTTATTGA
1 -CTCGTTTATTGA
10860808 CTCGTTTA-TGA
1 CTCGTTTATTGA
*
10860819 CTCATTTATT
1 CTCGTTTATT
10860829 TATTAATGAT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
11 12 0.34
12 21 0.60
13 2 0.06
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (12 bp):
CTCGTTTATTGA
Found at i:10861126 original size:23 final size:23
Alignment explanation
Indices: 10861083--10861127 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
10861073 ATATGTTCAC
* *
10861083 GAACATGTTCGATTAATTTAAAT
1 GAACATGTTCGATGAAATTAAAT
10861106 GAACATGTTCG-TGAACATTAAA
1 GAACATGTTCGATGAA-ATTAAA
10861128 CAAACAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (23 bp):
GAACATGTTCGATGAAATTAAAT
Found at i:10862199 original size:7 final size:8
Alignment explanation
Indices: 10862185--10862218 Score: 59
Period size: 8 Copynumber: 4.1 Consensus size: 8
10862175 CTATCATCCT
10862185 TAAAAAAA
1 TAAAAAAA
10862193 TAAAAAAA
1 TAAAAAAA
10862201 TAAAAAAAA
1 T-AAAAAAA
10862210 TAAAAAAA
1 TAAAAAAA
10862218 T
1 T
10862219 CCCTATATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
TAAAAAAA
Found at i:10862200 original size:9 final size:9
Alignment explanation
Indices: 10862186--10862217 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
10862176 TATCATCCTT
10862186 AAAAAAAT-
1 AAAAAAATA
10862194 AAAAAAATA
1 AAAAAAATA
10862203 AAAAAAATA
1 AAAAAAATA
10862212 AAAAAA
1 AAAAAA
10862218 TCCCTATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (9 bp):
AAAAAAATA
Done.