Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004298.1 Hibiscus syriacus cultivar Beakdansim tig00009429_pilon, whole genome shotgun sequence
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: 138021
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.34
Found at i:3724 original size:54 final size:54
Alignment explanation
Indices: 3641--4009 Score: 507
Period size: 54 Copynumber: 6.9 Consensus size: 54
3631 TACTCTAACA
* * *
3641 TGTTCATCAACATATGTTGAATTTTGTGGGTTGCACACTTAGTACCTATACGGT
1 TGTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTGCCTATACGGT
3695 TGTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTGCCTATACGGT
1 TGTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTGCCTATACGGT
* * * *** *
3749 TGTTCTTCAACATATGATTAA-TTCTGTGGGTTACACACTTAGTGCCCGCATGGT
1 TGTTCATCAACATATGATGAATTTC-GTGGGTTGCACACTTAGTGCCTATACGGT
*
3803 TGTTCATCATCATATGATGAA-TTCTGTGGGTTGCACACTTAGTGCCTATACGGT
1 TGTTCATCAACATATGATGAATTTC-GTGGGTTGCACACTTAGTGCCTATACGGT
* * * * *
3857 TGTCCATCAACATATAATGAATTACTTGGGTTGCACACTTAGTGCCTATACGAT
1 TGTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTGCCTATACGGT
*
3911 TGTTCATCAACATATGATGAATTAT-GT--GTTGCACA-TATAGTGCCTATACTGT
1 TGTTCATCAACATATGATGAATT-TCGTGGGTTGCACACT-TAGTGCCTATACGGT
3963 TGTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTGCCT
1 TGTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTGCCT
4010 TTAGTACAAA
Statistics
Matches: 277, Mismatches: 30, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
51 2 0.01
52 46 0.17
53 3 0.01
54 223 0.81
55 3 0.01
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (54 bp):
TGTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTGCCTATACGGT
Found at i:7679 original size:55 final size:55
Alignment explanation
Indices: 7595--8169 Score: 776
Period size: 55 Copynumber: 10.4 Consensus size: 55
7585 ATATGTATGG
*
7595 TGAATTTCCGTATGGGCACTATGTGTACAAAATTAAGAAATTCATACTAAGTGTA
1 TGAATTTCCATATGGGCACTATGTGTACAAAATTAAGAAATTCATACTAAGTGTA
* * * * *
7650 TGAATTTCTATATGGGTATTATGTATACAAAACTAAGAAATTCATACTAAGTGTA
1 TGAATTTCCATATGGGCACTATGTGTACAAAATTAAGAAATTCATACTAAGTGTA
* * * *
7705 TGAATTTCCGTATAGGCACTATGTGTGCAAAATTAAGAAATCCATACTAAGTGTA
1 TGAATTTCCATATGGGCACTATGTGTACAAAATTAAGAAATTCATACTAAGTGTA
* * *
7760 TGAATTTCAATATGGACACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTA
1 TGAATTTCCATATGGGCACTATGTGTACAAAATTAAGAAATTCATACTAAGTGTA
* *
7815 TGAATTTCCATATGAGCACTATGTGTACAAATTTAAGAAATTCATACTAAGTGTA
1 TGAATTTCCATATGGGCACTATGTGTACAAAATTAAGAAATTCATACTAAGTGTA
***
7870 TGAATTTATGTATGGGCACTATGTGTACAAAAATTAAGAAATTCATACTAAGTGTA
1 TGAATTTCCATATGGGCACTATGTGTAC-AAAATTAAGAAATTCATACTAAGTGTA
* * * * * **
7926 TAAATTTTCGTATAGGCAATATGTGTGTAAAATTAAGAAATTCATACTAAGTGTA
1 TGAATTTCCATATGGGCACTATGTGTACAAAATTAAGAAATTCATACTAAGTGTA
* * *
7981 TGAATTTCCGTATGGGCACTATGTGTGCAAAAATTAATAAATTCATACTAAGTGTA
1 TGAATTTCCATATGGGCACTATGTGTAC-AAAATTAAGAAATTCATACTAAGTGTA
* *
8037 TGAATTTCCGTATGGGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTA
1 TGAATTTCCATATGGGCACTATGTGTACAAAATTAAGAAATTCATACTAAGTGTA
* * *
8092 TGAATTTCTATATGAGAACTCCATGTGTA-AAAATTAAGAAATTCATACTAAGTGTA
1 TGAATTTCCATATGGGCACT--ATGTGTACAAAATTAAGAAATTCATACTAAGTGTA
* *
8148 TGAATGTT-TATATGGGAACTAT
1 TGAAT-TTCCATATGGGCACTAT
8170 ATGTGCGAAC
Statistics
Matches: 465, Mismatches: 50, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
54 2 0.00
55 311 0.67
56 144 0.31
57 8 0.02
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (55 bp):
TGAATTTCCATATGGGCACTATGTGTACAAAATTAAGAAATTCATACTAAGTGTA
Found at i:7753 original size:28 final size:28
Alignment explanation
Indices: 7722--7813 Score: 69
Period size: 28 Copynumber: 3.3 Consensus size: 28
7712 CCGTATAGGC
*
7722 ACTATGTGTGCAAAATTAAGAAATCCAT
1 ACTAAGTGTGCAAAATTAAGAAATCCAT
*** * * * ** *
7750 ACTAAGTGTATGAATTTCA-ATATGGAC
1 ACTAAGTGTGCAAAATTAAGAAATCCAT
* *
7777 ACTATGTGTGCAAAATTAAGAAATTCAT
1 ACTAAGTGTGCAAAATTAAGAAATCCAT
7805 ACTAAGTGT
1 ACTAAGTGT
7814 ATGAATTTCC
Statistics
Matches: 42, Mismatches: 21, Indels: 2
0.65 0.32 0.03
Matches are distributed among these distances:
27 17 0.40
28 25 0.60
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (28 bp):
ACTAAGTGTGCAAAATTAAGAAATCCAT
Found at i:7965 original size:111 final size:111
Alignment explanation
Indices: 7595--8152 Score: 820
Period size: 111 Copynumber: 5.0 Consensus size: 111
7585 ATATGTATGG
* *
7595 TGAATTTCCGTATGGGCACTATGTGTACAAAATTAAGAAATTCATACTAAGTGTATGAATTTCTA
1 TGAATTTCCGTATAGGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCTA
* * * *
7660 TATGGGTATTATGTATAC-AAAACTAAGAAATTCATACTAAGTGTA
66 TATGGGCACTATGTGTACAAAAATTAAGAAATTCATACTAAGTGTA
* *
7705 TGAATTTCCGTATAGGCACTATGTGTGCAAAATTAAGAAATCCATACTAAGTGTATGAATTTCAA
1 TGAATTTCCGTATAGGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCTA
* *
7770 TATGGACACTATGTGTGC-AAAATTAAGAAATTCATACTAAGTGTA
66 TATGGGCACTATGTGTACAAAAATTAAGAAATTCATACTAAGTGTA
* * * *
7815 TGAATTTCCATAT-GAGCACTATGTGTACAAATTTAAGAAATTCATACTAAGTGTATGAATTTAT
1 TGAATTTCCGTATAG-GCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCT
*
7879 GTATGGGCACTATGTGTACAAAAATTAAGAAATTCATACTAAGTGTA
65 ATATGGGCACTATGTGTACAAAAATTAAGAAATTCATACTAAGTGTA
* * * * **
7926 TAAATTTTCGTATAGGCAATATGTGTGTAAAATTAAGAAATTCATACTAAGTGTATGAATTTCCG
1 TGAATTTCCGTATAGGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCTA
* *
7991 TATGGGCACTATGTGTGCAAAAATTAATAAATTCATACTAAGTGTA
66 TATGGGCACTATGTGTACAAAAATTAAGAAATTCATACTAAGTGTA
*
8037 TGAATTTCCGTATGGGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCTA
1 TGAATTTCCGTATAGGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCTA
* *
8102 TATGAGAACTCCATGTGT--AAAAATTAAGAAATTCATACTAAGTGTA
66 TATGGGCACT--ATGTGTACAAAAATTAAGAAATTCATACTAAGTGTA
8148 TGAAT
1 TGAAT
8153 GTTTATATGG
Statistics
Matches: 403, Mismatches: 40, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
109 1 0.00
110 172 0.43
111 223 0.55
112 1 0.00
113 6 0.01
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (111 bp):
TGAATTTCCGTATAGGCACTATGTGTGCAAAATTAAGAAATTCATACTAAGTGTATGAATTTCTA
TATGGGCACTATGTGTACAAAAATTAAGAAATTCATACTAAGTGTA
Found at i:7979 original size:28 final size:28
Alignment explanation
Indices: 7733--7981 Score: 78
Period size: 28 Copynumber: 9.0 Consensus size: 28
7723 CTATGTGTGC
*
7733 AAAATTAAGAAATCCATACTAAGTGTAT
1 AAAATTAAGAAATTCATACTAAGTGTAT
* * * * ** * * **
7761 GAATTTCA-ATATGGACACTATGTGTGC
1 AAAATTAAGAAATTCATACTAAGTGTAT
7788 AAAATTAAGAAATTCATACTAAGTGTAT
1 AAAATTAAGAAATTCATACTAAGTGTAT
* *** * * * * *
7816 -GAATTTCCATA-TGAGCACTATGTGTAC
1 AAAATTAAGAAATTCA-TACTAAGTGTAT
*
7843 AAATTTAAGAAATTCATACTAAGTGTAT
1 AAAATTAAGAAATTCATACTAAGTGTAT
* * * * **** * *
7871 GAATTTATG-TATGGGCACTATGTGTACA
1 AAAATTAAGAAATTCATACTAAGTGTA-T
7899 AAAATTAAGAAATTCATACTAAGTGTAT
1 AAAATTAAGAAATTCATACTAAGTGTAT
* ** * ** * *
7927 AAATTTTCGTATAGGCA-A-TATGTGTGT
1 AAAATTAAG-AAATTCATACTAAGTGTAT
7954 AAAATTAAGAAATTCATACTAAGTGTAT
1 AAAATTAAGAAATTCATACTAAGTGTAT
7982 GAATTTCCGT
Statistics
Matches: 138, Mismatches: 74, Indels: 18
0.60 0.32 0.08
Matches are distributed among these distances:
26 6 0.04
27 57 0.41
28 58 0.42
29 17 0.12
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.34
Consensus pattern (28 bp):
AAAATTAAGAAATTCATACTAAGTGTAT
Found at i:10802 original size:33 final size:33
Alignment explanation
Indices: 10765--10828 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
10755 TTAAAATAAA
10765 AGAGGGAAAGGGGAAAAGTGGTTACCAAAAGCT
1 AGAGGGAAAGGGGAAAAGTGGTTACCAAAAGCT
10798 AGAGGGAAAGGGGAAAAGTGGTTACCAAAAG
1 AGAGGGAAAGGGGAAAAGTGGTTACCAAAAG
10829 ATATCTCTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.44, C:0.08, G:0.38, T:0.11
Consensus pattern (33 bp):
AGAGGGAAAGGGGAAAAGTGGTTACCAAAAGCT
Found at i:11555 original size:94 final size:95
Alignment explanation
Indices: 11457--11640 Score: 228
Period size: 95 Copynumber: 1.9 Consensus size: 95
11447 GATACCCAGC
* ** *
11457 AACATCGAACCTAATTTTGGTATCGATACCAGAAGG-G-GTATCGATACCATAGTATGGTAGTAT
1 AACATCAAACCTAAAATTGGTATCGATA-CAGAAGGCGAGTATCGATACCATAGTATAGTAGTAT
*
11520 TGATAACATGGCAAGGATATCGATACCAGGT
65 CGATAACATGGCAAGGATATCGATACCAGGT
* * * *
11551 AACATCAAATCTAAAATTGGTATCGATACTGGAGGCGAGTATCGGTACCATAGTATAGTAGTATC
1 AACATCAAACCTAAAATTGGTATCGATACAGAAGGCGAGTATCGATACCATAGTATAGTAGTATC
* * * *
11616 GATACCATGGTAGGGGTATCGATAC
66 GATAACATGGCAAGGATATCGATAC
11641 TGAAGAACCA
Statistics
Matches: 75, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
93 5 0.07
94 25 0.33
95 45 0.60
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.27
Consensus pattern (95 bp):
AACATCAAACCTAAAATTGGTATCGATACAGAAGGCGAGTATCGATACCATAGTATAGTAGTATC
GATAACATGGCAAGGATATCGATACCAGGT
Found at i:12221 original size:79 final size:77
Alignment explanation
Indices: 12085--12372 Score: 355
Period size: 79 Copynumber: 3.6 Consensus size: 77
12075 TATATGTGTC
* * *
12085 TTATTGGCATGAAAGGATGTCATATCTGAAATACATATGGGTGCATTATCAGCATAAAAGAATAA
1 TTATTGGCATGAAAGGATGCCA-AGCTGAAATGCATATGGGTGCATTATCAGCATAAAAGAATAA
*
12150 TGCATATGGATTCA
65 TGCATATGG-TGCA
* *
12164 TTATTGGCATGAAAGGATGCCATAGCCGAAATGCATATGGGTGCATTATCAGAATAAAAGAATAA
1 TTATTGGCATGAAAGGATGCCA-AGCTGAAATGCATATGGGTGCATTATCAGCATAAAAGAATAA
12229 TGCATATGGGTGCA
65 TGCATAT-GGTGCA
* * *
12243 TTATTAGCATGACAA-GATGCCAA-CATTGAAATGCATATGGGTGCATTATCATCATAACAGAAT
1 TTATTGGCATGA-AAGGATGCCAAGC--TGAAATGCATATGGGTGCATTATCAGCATAAAAGAAT
**
12306 AATGTGTATGTGTGCA
63 AATGCATATG-GTGCA
* * *
12322 TTATTGGCATGACAGGATGCCAACGTTGAAATGCATATGGGTGTATTATCA
1 TTATTGGCATGAAAGGATGCCAA-GCTGAAATGCATATGGGTGCATTATCA
12373 ACCTAGAAGA
Statistics
Matches: 184, Mismatches: 17, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
77 1 0.01
78 3 0.02
79 176 0.96
80 4 0.02
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (77 bp):
TTATTGGCATGAAAGGATGCCAAGCTGAAATGCATATGGGTGCATTATCAGCATAAAAGAATAAT
GCATATGGTGCA
Found at i:12818 original size:110 final size:110
Alignment explanation
Indices: 12624--12822 Score: 251
Period size: 110 Copynumber: 1.8 Consensus size: 110
12614 TGCTCTAAAA
* * * * **
12624 TAAAAGAATAATGGCTTAACTGTGCAATTGACAGAAACGTGTCAATTATTCCAGTTATATGAATG
1 TAAAAGAATAATGGCTTAACTGTGCAATTGACAGAAAAGTGTCAAATATGCAAGTTATATGAAAA
*
12689 GTTAAATACTGTTGAGTAAAAGAAGAAAGGTTAAACACTGTTGAG
66 GCTAAATACTGTTGAGTAAAAGAAGAAAGGTTAAACACTGTTGAG
** *
12734 TAAAAGAATAATGGAC-TAGTTGTGCATTTGACAGAAAAGTGTCAAATATGCAAGTTA-AGTGAA
1 TAAAAGAATAATGG-CTTAACTGTGCAATTGACAGAAAAGTGTCAAATATGCAAGTTATA-TGAA
*
12797 AAGCTAAATACCT-TTGGGTAAAAGAA
64 AAGCTAAATA-CTGTTGAGTAAAAGAA
12823 TAAATGAATT
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
109 1 0.01
110 71 0.95
111 3 0.04
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.28
Consensus pattern (110 bp):
TAAAAGAATAATGGCTTAACTGTGCAATTGACAGAAAAGTGTCAAATATGCAAGTTATATGAAAA
GCTAAATACTGTTGAGTAAAAGAAGAAAGGTTAAACACTGTTGAG
Found at i:12859 original size:24 final size:24
Alignment explanation
Indices: 12832--12885 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
12822 ATAAATGAAT
*
12832 TATAATGTAATATGATATGAATGATA
1 TATAA-GTAATATGA-AGGAATGATA
*
12858 TATAAGTGATATGAAGGAATGATA
1 TATAAGTAATATGAAGGAATGATA
12882 TATA
1 TATA
12886 TATATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 13 0.50
25 8 0.31
26 5 0.19
ACGTcount: A:0.46, C:0.00, G:0.19, T:0.35
Consensus pattern (24 bp):
TATAAGTAATATGAAGGAATGATA
Found at i:15865 original size:54 final size:54
Alignment explanation
Indices: 15779--16558 Score: 873
Period size: 54 Copynumber: 14.4 Consensus size: 54
15769 ATAAGTTCTA
* * * * * * * * *
15779 TGGGGTGCACACATAGTGTCGATACGGTCGTTCATAAATAAATTATAAATTCAG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATAAATTCAG
* ** ** **
15833 TGGGTTGCACACTTAGTGCCTATATGGCCGTTCATCAACATATGATGGATTCCT
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATAAATTCAG
* * * * *
15887 TGGGTTGCACACGTAGTGCCTATATGGATGTTCATCAATATATGATGAATT-ATG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATAAATTCA-G
* * *
15941 TGGGTTGCACACTTAGTGCCTATACGGTTATTCATCAACATATGATGAATTCTG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATAAATTCAG
* * ** *
15995 TGGGTTGTACACTTAGTTCCTATACTATTGTTCATCAACATATGATGAATT-ACG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATAAATTCA-G
* * * *
16049 TGCGTTGCACACTTAGTGCATATACGATTGTTCATCAACATATGATGAATTTCA-
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGAT-AAATTCAG
*
16103 TGGGTTGCACACTTAGT-CCGTATACGGTTGTTCATCAACATATGATGAATTTC-G
1 TGGGTTGCACACTTAGTGCC-TATACGGTTGTTCATCAACATATGAT-AAATTCAG
* * *
16157 TGGGTTGCACACTTAGTGCATATACGGTTGTTCATGAACATATGATGAATTTCA-
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGAT-AAATTCAG
* * *
16211 TGGGTTGCACACTTAATGCCTATACGGATGTTCATCAACATATGATGAATTTC-G
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGAT-AAATTCAG
* * * *
16265 TGGGTTGTACACTTAGTTCCTATACTGTTGTTCATCAACATATGATGAATT-ATG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATAAATTCA-G
*
16319 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTC-G
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGAT-AAATTCAG
* * *
16373 TGGGTTGCACACTTAGTGCATATACGATTGTTCATCAACATATGATGAATTTC-G
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGAT-AAATTCAG
* *
16427 TGGGTTGCACACTTAGTGCCTATACGATTGTTCATCAACATATGATGAATT-ATG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATAAATTCA-G
* * * *
16481 TGAGTTGCACACTTAGTGCCTATATGGTTGTTCATCAACATATAATGAATTTC-G
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGAT-AAATTCAG
*
16535 TGGGTTGCACACTTAGGGCCTATA
1 TGGGTTGCACACTTAGTGCCTATA
16559 GTACACATAG
Statistics
Matches: 634, Mismatches: 74, Indels: 36
0.85 0.10 0.05
Matches are distributed among these distances:
53 7 0.01
54 616 0.97
55 10 0.02
56 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (54 bp):
TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATAAATTCAG
Found at i:15975 original size:108 final size:108
Alignment explanation
Indices: 15832--16558 Score: 1027
Period size: 108 Copynumber: 6.7 Consensus size: 108
15822 TATAAATTCA
* ** * *
15832 GTGGGTTGCACACTTAGTGCCTATATGGCCGTTCATCAACATATGATGGATTCCTTGGGTTGCAC
1 GTGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTCTTGGGTTGCAC
* * *
15897 ACGTAGTGCCTATATGGATGTTCATCAATATATGATGAATTAT-
66 ACTTAGTGCCTATACGGATGTTCATCAACATATGATGAATT-TC
* *
15940 GTGGGTTGCACACTTAGTGCCTATACGGTTATTCATCAACATATGATGAA-TTCTGTGGGTTGTA
1 GTGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTCT-TGGGTTGCA
* * *
16004 CACTTAGTTCCTATAC-TATTGTTCATCAACATATGATGAATTAC
65 CACTTAGTGCCTATACGGA-TGTTCATCAACATATGATGAATTTC
* * * *
16048 GTGCGTTGCACACTTAGTGCATATACGATTGTTCATCAACATATGATGAATTTCATGGGTTGCAC
1 GTGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTCTTGGGTTGCAC
*
16113 ACTTAGT-CCGTATACGGTTGTTCATCAACATATGATGAATTTC
66 ACTTAGTGCC-TATACGGATGTTCATCAACATATGATGAATTTC
* * *
16156 GTGGGTTGCACACTTAGTGCATATACGGTTGTTCATGAACATATGATGAATTTCATGGGTTGCAC
1 GTGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTCTTGGGTTGCAC
*
16221 ACTTAATGCCTATACGGATGTTCATCAACATATGATGAATTTC
66 ACTTAGTGCCTATACGGATGTTCATCAACATATGATGAATTTC
* * * *
16264 GTGGGTTGTACACTTAGTTCCTATACTGTTGTTCATCAACATATGATGAATTAT-GTGGGTTGCA
1 GTGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATT-TCTTGGGTTGCA
*
16328 CACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTC
65 CACTTAGTGCCTATACGGATGTTCATCAACATATGATGAATTTC
* * *
16372 GTGGGTTGCACACTTAGTGCATATACGATTGTTCATCAACATATGATGAATTTCGTGGGTTGCAC
1 GTGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTCTTGGGTTGCAC
16437 ACTTAGTGCCTATAC-GATTGTTCATCAACATATGATGAATTAT-
66 ACTTAGTGCCTATACGGA-TGTTCATCAACATATGATGAATT-TC
* * * *
16480 GTGAGTTGCACACTTAGTGCCTATATGGTTGTTCATCAACATATAATGAATTTCGTGGGTTGCAC
1 GTGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTCTTGGGTTGCAC
*
16545 ACTTAGGGCCTATA
66 ACTTAGTGCCTATA
16559 GTACACATAG
Statistics
Matches: 561, Mismatches: 47, Indels: 22
0.89 0.07 0.03
Matches are distributed among these distances:
107 8 0.01
108 546 0.97
109 7 0.01
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.35
Consensus pattern (108 bp):
GTGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTCTTGGGTTGCAC
ACTTAGTGCCTATACGGATGTTCATCAACATATGATGAATTTC
Found at i:16058 original size:162 final size:162
Alignment explanation
Indices: 15779--16558 Score: 1063
Period size: 162 Copynumber: 4.8 Consensus size: 162
15769 ATAAGTTCTA
* * * * * * * * * *
15779 TGGGGTGCACACATAGTGTCGATACGGTCGTTCATAAATAAATTATAAATTCA-GTGGGTTGCAC
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATT-ATGTGGGTTGCAC
** * * * *
15843 ACTTAGTGCCTATA-TGGCCGTTCATCAACATATGATGGATTCCTTGGGTTGCACACGTAGTGCC
65 ACTTAGTGCCTATACT-GTTGTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTGCC
* *
15907 TATATGGA-TGTTCATCAATATATGATGAATTAT-G
129 TATA-CGATTGTTCATCAACATATGATGAATT-TCG
* * *
15941 TGGGTTGCACACTTAGTGCCTATACGGTTATTCATCAACATATGATGAATTCTGTGGGTTGTACA
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTATGTGGGTTGCACA
* * * * *
16006 CTTAGTTCCTATACTATTGTTCATCAACATATGATGAATTACGTGCGTTGCACACTTAGTGCATA
66 CTTAGTGCCTATACTGTTGTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTGCCTA
*
16071 TACGATTGTTCATCAACATATGATGAATTTCA
131 TACGATTGTTCATCAACATATGATGAATTTCG
16103 TGGGTTGCACACTTAGT-CCGTATACGGTTGTTCATCAACATATGATGAATT-TCGTGGGTTGCA
1 TGGGTTGCACACTTAGTGCC-TATACGGTTGTTCATCAACATATGATGAATTAT-GTGGGTTGCA
* * * * *
16166 CACTTAGTGCATATACGGTTGTTCATGAACATATGATGAATTTCATGGGTTGCACACTTAATGCC
64 CACTTAGTGCCTATACTGTTGTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTGCC
16231 TATACGGA-TGTTCATCAACATATGATGAATTTCG
129 TATAC-GATTGTTCATCAACATATGATGAATTTCG
* * *
16265 TGGGTTGTACACTTAGTTCCTATACTGTTGTTCATCAACATATGATGAATTATGTGGGTTGCACA
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTATGTGGGTTGCACA
* *
16330 CTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTGCATA
66 CTTAGTGCCTATACTGTTGTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTGCCTA
16395 TACGATTGTTCATCAACATATGATGAATTTCG
131 TACGATTGTTCATCAACATATGATGAATTTCG
* *
16427 TGGGTTGCACACTTAGTGCCTATACGATTGTTCATCAACATATGATGAATTATGTGAGTTGCACA
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTATGTGGGTTGCACA
* *
16492 CTTAGTGCCTATA-TGGTTGTTCATCAACATATAATGAATTTCGTGGGTTGCACACTTAGGGCCT
66 CTTAGTGCCTATACT-GTTGTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTGCCT
16556 ATA
130 ATA
16559 GTACACATAG
Statistics
Matches: 552, Mismatches: 55, Indels: 22
0.88 0.09 0.03
Matches are distributed among these distances:
161 8 0.01
162 538 0.97
163 6 0.01
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (162 bp):
TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTATGTGGGTTGCACA
CTTAGTGCCTATACTGTTGTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAGTGCCTA
TACGATTGTTCATCAACATATGATGAATTTCG
Found at i:18201 original size:16 final size:18
Alignment explanation
Indices: 18180--18221 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
18170 CTCATATATC
18180 CACATAG-AT-CAAGTAA
1 CACATAGTATACAAGTAA
*
18196 CACATAGTATAACATGTAA
1 CACATAGTAT-ACAAGTAA
18215 CACATAG
1 CACATAG
18222 CTCATGTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 7 0.32
17 2 0.09
19 13 0.59
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.21
Consensus pattern (18 bp):
CACATAGTATACAAGTAA
Found at i:18229 original size:16 final size:16
Alignment explanation
Indices: 18180--18229 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 16
18170 CTCATATATC
*
18180 CACATAGATCAAGTAA
1 CACATAGATCATGTAA
18196 CACATAGTATAACATGTAA
1 CACATAG-AT--CATGTAA
*
18215 CACATAGCTCATGTA
1 CACATAGATCATGTA
18230 TAGCAATGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 13 0.45
17 2 0.07
18 1 0.03
19 13 0.45
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.24
Consensus pattern (16 bp):
CACATAGATCATGTAA
Found at i:18708 original size:19 final size:20
Alignment explanation
Indices: 18686--18725 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
18676 GGAGTTCATC
18686 CTTAAA-AATGGTACCGATA
1 CTTAAACAATGGTACCGATA
* *
18705 CTTAAACATTGGTATCGATA
1 CTTAAACAATGGTACCGATA
18725 C
1 C
18726 CCCTAGTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (20 bp):
CTTAAACAATGGTACCGATA
Found at i:27783 original size:29 final size:29
Alignment explanation
Indices: 27701--27785 Score: 82
Period size: 30 Copynumber: 2.9 Consensus size: 29
27691 TAAAATATAT
*
27701 AACTTTTAAAAATAATATTTTTAGTCCCTA
1 AACTTTTAAAAATTATA-TTTTAGTCCCTA
** *
27731 AACTTTTCAAAGTTTATACTTTAG-CCGCTA
1 AACTTTT-AAAAATTATATTTTAGTCC-CTA
* *
27761 ATCTTTTAAAACTTATATTTTAGTC
1 AACTTTTAAAAATTATATTTTAGTC
27786 ACTAGAAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
29 15 0.34
30 22 0.50
31 7 0.16
ACGTcount: A:0.34, C:0.15, G:0.06, T:0.45
Consensus pattern (29 bp):
AACTTTTAAAAATTATATTTTAGTCCCTA
Found at i:29542 original size:20 final size:21
Alignment explanation
Indices: 29493--29548 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 21
29483 ATACCTAAAG
*
29493 GGGTATCGATACCATAGTATA
1 GGGTATCGATACCATAGCATA
* *
29514 GTAGTATCGATACCATGGCA-A
1 G-GGTATCGATACCATAGCATA
29535 GGGTATCGATACCA
1 GGGTATCGATACCA
29549 GGTAACATCG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 12 0.40
21 3 0.10
22 15 0.50
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (21 bp):
GGGTATCGATACCATAGCATA
Found at i:30377 original size:79 final size:79
Alignment explanation
Indices: 29998--30365 Score: 483
Period size: 79 Copynumber: 4.7 Consensus size: 79
29988 CTATATGTGT
* *
29998 ATTATTGGCATGAAAGGATGTCATA-TCTGAAATGCATATGGGTGCATTATCAACATAAAAGAAT
1 ATTATTGGCATGAAAGGATGCCATAGT-TGAAATGCATATGGGTGCATTATCAGCATAAAAGAAT
*
30062 AATGCATGTGGGTGC
65 AATGCATATGGGTGC
* * * *
30077 ATTATTAGCATGAAAGGATACCATAGCTGAAATGCATATGGGTGCATTATCAGTATAAAAGAATA
1 ATTATTGGCATGAAAGGATGCCATAGTTGAAATGCATATGGGTGCATTATCAGCATAAAAGAATA
*
30142 ATGCATATGGGTTC
66 ATGCATATGGGTGC
* * * * *
30156 ATTATTGGCATGAAATGATGCCATAGCTGAAATACATAAGGGTGCATTATCAGCATAAAATAATA
1 ATTATTGGCATGAAAGGATGCCATAGTTGAAATGCATATGGGTGCATTATCAGCATAAAAGAATA
30221 ATGCATATGGGTGC
66 ATGCATATGGGTGC
* *
30235 ATTATTGGCAT-AACAGGATGGCA-ACGTTGAAATGCATATGGGTGCATTATCAGCATAACAGAA
1 ATTATTGGCATGAA-AGGATGCCATA-GTTGAAATGCATATGGGTGCATTATCAGCATAAAAGAA
** **
30298 TAATGTGTATGTATGC
64 TAATGCATATGGGTGC
* *
30314 ATTATTGGCATGATAGGATGCCA-ACGTTGAAATGCATATGGGTGTATTATCA
1 ATTATTGGCATGAAAGGATGCCATA-GTTGAAATGCATATGGGTGCATTATCA
30366 ACCTAGAAGA
Statistics
Matches: 255, Mismatches: 30, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
78 3 0.01
79 251 0.98
80 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (79 bp):
ATTATTGGCATGAAAGGATGCCATAGTTGAAATGCATATGGGTGCATTATCAGCATAAAAGAATA
ATGCATATGGGTGC
Found at i:30721 original size:29 final size:29
Alignment explanation
Indices: 30675--30733 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
30665 TGCCAGTTAT
* *
30675 ATGAATGGTTAAATACTGTTGAGTAAAAG
1 ATGAAAGGTTAAACACTGTTGAGTAAAAG
30704 ATGAAAGGTTAAACACTGTTGAGTAAAAG
1 ATGAAAGGTTAAACACTGTTGAGTAAAAG
30733 A
1 A
30734 ATAATGGACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.44, C:0.05, G:0.24, T:0.27
Consensus pattern (29 bp):
ATGAAAGGTTAAACACTGTTGAGTAAAAG
Found at i:30847 original size:26 final size:22
Alignment explanation
Indices: 30818--30876 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 22
30808 TATAAGAATA
30818 AATGAATTATAATGTAATGTGATATG
1 AATGAATTAT-A--TAA-GTGATATG
30844 AATG-A-TATATAAGTGATATG
1 AATGAATTATATAAGTGATATG
*
30864 AATGAATGATATA
1 AATGAATTATATA
30877 TATATAATGT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
20 12 0.40
21 4 0.13
22 5 0.17
23 1 0.03
24 3 0.10
25 1 0.03
26 4 0.13
ACGTcount: A:0.46, C:0.00, G:0.19, T:0.36
Consensus pattern (22 bp):
AATGAATTATATAAGTGATATG
Found at i:34296 original size:54 final size:54
Alignment explanation
Indices: 33779--34288 Score: 657
Period size: 54 Copynumber: 9.4 Consensus size: 54
33769 ATAAGTTCTA
* * * ** * * *
33779 TGGGGTGCACACATAGTGCCGATACGGTCATTCATAAACACATTATGAA-TTCAG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTC-G
* *
33833 TGGGTTGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTCG
* * * *
33887 TAGGTTGCACACGTAGTGCCTATACGGTTGATCATCAACATATGATGAATGAT-G
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAAT-TTCG
* *
33941 TGGGTTGCACACTTAGTGCCTATACGGTTATTCATCAACATATGATGAATTCCG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTCG
* * * *
33995 TGGGTTGTACACTTAGTTCATATACTGTTGTTCATCAACATATGATG-ATTTACG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTT-CG
*
34049 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATAATGAATTTCG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTCG
* * *
34103 TGGGTTCCACACTTAGTGCATATACGATTGTTCATCAACATATGATGAATTTCG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTCG
** * *
34157 TGGAATGCACACTTAGTGCATATACGGTTGTTCATCAACATATGATGAATTTCT
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTCG
* ** *
34211 TGGGTTGCACACTTAGTTCCTATATTGTTGTTCATCAACATATGATGAATTTCA
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTCG
* * *
34265 TTGGTTGTACACTTAGTTCCTATA
1 TGGGTTGCACACTTAGTGCCTATA
34289 TTGTTGTTAA
Statistics
Matches: 402, Mismatches: 49, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
53 3 0.01
54 393 0.98
55 6 0.01
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (54 bp):
TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTCG
Found at i:34809 original size:54 final size:53
Alignment explanation
Indices: 34746--35524 Score: 986
Period size: 54 Copynumber: 14.5 Consensus size: 53
34736 ATAAGTTCTA
* * * * * * * *
34746 TGGGGTGCACACATAGTGCCGATACGATCGTTCATAAACACATTATGAATTCAG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTC-G
* *
34800 TGGGTTGCACACTTAGTGCCTATACAGTCGTTCATCAACATATGATGAATTCCG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATT-CG
* * *
34854 TAGGTTGCACACGTAGTGCCTATACGGTTGATCATCAACATATGATGAATGAT-G
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAAT--TCG
* *
34908 TGGGTTGCACACTTAGTGCCTATACGGTTATTCATCAACATATGATGAATTTTG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAA-TTCG
* * * * *
34962 TGGGTTGTACACTTAGTTCATATACTGTTGTTCATCAACATATGATGATTTACG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATT-CG
* *
35016 TGGGTTGTACACTTAGTGCCTATACGGTTGTTCATCAACATATAATGAATTTCG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAA-TTCG
* *
35070 TGGGTTCCACACTTAGTGCATATACGGTTGTTCATCAACATATGATGAATTTCG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAA-TTCG
** * *
35124 TGGAATGCACACTTAGTGCATATACGGTTGTTCATCAACATATGATGAATTTCT
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAA-TTCG
* **
35178 TGGGTTGCACACTTAGTTCCTATATTGTTGTTCATCAACATATGATGAATTTCG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAA-TTCG
* * * *
35232 TTGGTTGTACACTTAGTTCCTATACTGTTGTT-ATCAACATATGATGAATTACG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATT-CG
* * *
35285 TGGGTTGCACACTTAGTACCTATACTGTTGTTCATCAACATATGATGAATTTTG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAA-TTCG
* *
35339 TGGGTTGCACTCTTAGTGCATATACGGTTGTTCATCAACATATGATGAATTTCG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAA-TTCG
* * * *
35393 TGGGTTGCACACTTAGTGCCTATACGATTGTTCATCAATATATGATTAATTATG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATT-CG
* *
35447 TGAGTTGCACACTTATTGCCTATACGGTTGTTCATCAACATATGATGAATTTCG
1 TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAA-TTCG
*
35501 TGGGTTGCACACTTAGTGTCTATA
1 TGGGTTGCACACTTAGTGCCTATA
35525 GTACACATAG
Statistics
Matches: 642, Mismatches: 71, Indels: 24
0.87 0.10 0.03
Matches are distributed among these distances:
52 2 0.00
53 52 0.08
54 579 0.90
55 8 0.01
56 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (53 bp):
TGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCG
Found at i:35204 original size:967 final size:967
Alignment explanation
Indices: 33330--35264 Score: 3717
Period size: 967 Copynumber: 2.0 Consensus size: 967
33320 AAACTAAGAC
*
33330 AAAAATTACATCATTAGATGTCTTACTGATATTGCAGTATATTCCTTGATGAGTGGAGTTGCTCG
1 AAAAATTACATCATAAGATGTCTTACTGATATTGCAGTATATTCCTTGATGAGTGGAGTTGCTCG
33395 GTACTCTTTACTTCTAATCTCGACTTTACCTACGAGTGAAACCAACACCCATTAAGTATTTACTT
66 GTACTCTTTACTTCTAATCTCGACTTTACCTACGAGTGAAACCAACACCCATTAAGTATTTACTT
* *
33460 AGTGAGGTATGGTAATACAAAATGAATTATACTTAAATATAGGCATATGCCAAATTATCACAATA
131 AGTGAGGTATGGTAATACAAAATGAATTATACTTAAATATAAGAATATGCCAAATTATCACAATA
33525 CAAGTGAAAATCGTATTATTCAAATCAATACACCAAATAGGCTTGGCGAAACAATCTTCAATCAT
196 CAAGTGAAAATCGTATTATTCAAATCAATACACCAAATAGGCTTGGCGAAACAATCTTCAATCAT
33590 ATAACATGATAACTATCTTTAGTAGACCCAACGTAACTTTCAATCAATATTTTATAATTTATCCT
261 ATAACATGATAACTATCTTTAGTAGACCCAACGTAACTTTCAATCAATATTTTATAATTTATCCT
*
33655 TTGTTTGCCCAGTATATGATGAATCATAATACATGGTACCTGAGTTGCACCTAAATGCCTTAATT
326 TTGTTTGCCCAGTATATGATGAATCAAAATACATGGTACCTGAGTTGCACCTAAATGCCTTAATT
33720 AAAACATAAGTATATCATATATATCAAAATCAATTGTTTTCATAACATTATAAGTTCTATGGGGT
391 AAAACATAAGTATATCATATATATCAAAATCAATTGTTTTCATAACATTATAAGTTCTATGGGGT
*
33785 GCACACATAGTGCCGATACGGTCATTCATAAACACATTATGAATTCAGTGGGTTGCACACTTAGT
456 GCACACATAGTGCCGATACGATCATTCATAAACACATTATGAATTCAGTGGGTTGCACACTTAGT
*
33850 GCCTATACGGTCGTTCATCAACATATGATGAATTCCGTAGGTTGCACACGTAGTGCCTATACGGT
521 GCCTATACAGTCGTTCATCAACATATGATGAATTCCGTAGGTTGCACACGTAGTGCCTATACGGT
33915 TGATCATCAACATATGATGAATGATGTGGGTTGCACACTTAGTGCCTATACGGTTATTCATCAAC
586 TGATCATCAACATATGATGAATGATGTGGGTTGCACACTTAGTGCCTATACGGTTATTCATCAAC
33980 ATATGATGAATTCCGTGGGTTGTACACTTAGTTCATATACTGTTGTTCATCAACATATGATGATT
651 ATATGATGAATTCCGTGGGTTGTACACTTAGTTCATATACTGTTGTTCATCAACATATGATGATT
34045 TACGTGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATAATGAATTTCGTGGGTTC
716 TACGTGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATAATGAATTTCGTGGGTTC
34110 CACACTTAGTGCATATACGATTGTTCATCAACATATGATGAATTTCGTGGAATGCACACTTAGTG
781 CACACTTAGTGCATATACGATTGTTCATCAACATATGATGAATTTCGTGGAATGCACACTTAGTG
34175 CATATACGGTTGTTCATCAACATATGATGAATTTCTTGGGTTGCACACTTAGTTCCTATATTGTT
846 CATATACGGTTGTTCATCAACATATGATGAATTTCTTGGGTTGCACACTTAGTTCCTATATTGTT
*
34240 GTTCATCAACATATGATGAATTTCATTGGTTGTACACTTAGTTCCTATATTGTTGTT
911 GTTCATCAACATATGATGAATTTCATTGGTTGTACACTTAGTTCCTATACTGTTGTT
34297 AAAAATTACATCATAAGATGTCTTACTGATATTGCAGTATATTCCTTGATGAGTGGAGTTGCTCG
1 AAAAATTACATCATAAGATGTCTTACTGATATTGCAGTATATTCCTTGATGAGTGGAGTTGCTCG
* *
34362 GTACTCTTTACTTCTAATCTCGACTTTACCTACGAGTGAAACTAACACCCGTTAAGTATTTACTT
66 GTACTCTTTACTTCTAATCTCGACTTTACCTACGAGTGAAACCAACACCCATTAAGTATTTACTT
*
34427 AGTGAGGTATGGTAATACAAAATGAATTATACTTAAATATAAGAATATTCCAAATTATCACAATA
131 AGTGAGGTATGGTAATACAAAATGAATTATACTTAAATATAAGAATATGCCAAATTATCACAATA
*
34492 CAAGTGAAAATCGTATTATTCAAATCAATACACCAAATAGGGTTGGCGAAACAATCTTCAATCAT
196 CAAGTGAAAATCGTATTATTCAAATCAATACACCAAATAGGCTTGGCGAAACAATCTTCAATCAT
34557 ATAACATGATAACTATCTTTAGTAGACCCAACGTAACTTTCAATCAATATTTTATAATTTATCCT
261 ATAACATGATAACTATCTTTAGTAGACCCAACGTAACTTTCAATCAATATTTTATAATTTATCCT
34622 TTGTTTGCCCAGTATATGATGAATCAAAATACATGGTACCTGAGTTGCACCTAAATGCCTTAATT
326 TTGTTTGCCCAGTATATGATGAATCAAAATACATGGTACCTGAGTTGCACCTAAATGCCTTAATT
34687 AAAACATAAGTATATCATATATATCAAAATCAATTGTTTTCATAACATTATAAGTTCTATGGGGT
391 AAAACATAAGTATATCATATATATCAAAATCAATTGTTTTCATAACATTATAAGTTCTATGGGGT
*
34752 GCACACATAGTGCCGATACGATCGTTCATAAACACATTATGAATTCAGTGGGTTGCACACTTAGT
456 GCACACATAGTGCCGATACGATCATTCATAAACACATTATGAATTCAGTGGGTTGCACACTTAGT
34817 GCCTATACAGTCGTTCATCAACATATGATGAATTCCGTAGGTTGCACACGTAGTGCCTATACGGT
521 GCCTATACAGTCGTTCATCAACATATGATGAATTCCGTAGGTTGCACACGTAGTGCCTATACGGT
34882 TGATCATCAACATATGATGAATGATGTGGGTTGCACACTTAGTGCCTATACGGTTATTCATCAAC
586 TGATCATCAACATATGATGAATGATGTGGGTTGCACACTTAGTGCCTATACGGTTATTCATCAAC
**
34947 ATATGATGAATTTTGTGGGTTGTACACTTAGTTCATATACTGTTGTTCATCAACATATGATGATT
651 ATATGATGAATTCCGTGGGTTGTACACTTAGTTCATATACTGTTGTTCATCAACATATGATGATT
*
35012 TACGTGGGTTGTACACTTAGTGCCTATACGGTTGTTCATCAACATATAATGAATTTCGTGGGTTC
716 TACGTGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATAATGAATTTCGTGGGTTC
*
35077 CACACTTAGTGCATATACGGTTGTTCATCAACATATGATGAATTTCGTGGAATGCACACTTAGTG
781 CACACTTAGTGCATATACGATTGTTCATCAACATATGATGAATTTCGTGGAATGCACACTTAGTG
35142 CATATACGGTTGTTCATCAACATATGATGAATTTCTTGGGTTGCACACTTAGTTCCTATATTGTT
846 CATATACGGTTGTTCATCAACATATGATGAATTTCTTGGGTTGCACACTTAGTTCCTATATTGTT
*
35207 GTTCATCAACATATGATGAATTTCGTTGGTTGTACACTTAGTTCCTATACTGTTGTT
911 GTTCATCAACATATGATGAATTTCATTGGTTGTACACTTAGTTCCTATACTGTTGTT
35264 A
1 A
35265 TCAACATATG
Statistics
Matches: 951, Mismatches: 17, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
967 951 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.35
Consensus pattern (967 bp):
AAAAATTACATCATAAGATGTCTTACTGATATTGCAGTATATTCCTTGATGAGTGGAGTTGCTCG
GTACTCTTTACTTCTAATCTCGACTTTACCTACGAGTGAAACCAACACCCATTAAGTATTTACTT
AGTGAGGTATGGTAATACAAAATGAATTATACTTAAATATAAGAATATGCCAAATTATCACAATA
CAAGTGAAAATCGTATTATTCAAATCAATACACCAAATAGGCTTGGCGAAACAATCTTCAATCAT
ATAACATGATAACTATCTTTAGTAGACCCAACGTAACTTTCAATCAATATTTTATAATTTATCCT
TTGTTTGCCCAGTATATGATGAATCAAAATACATGGTACCTGAGTTGCACCTAAATGCCTTAATT
AAAACATAAGTATATCATATATATCAAAATCAATTGTTTTCATAACATTATAAGTTCTATGGGGT
GCACACATAGTGCCGATACGATCATTCATAAACACATTATGAATTCAGTGGGTTGCACACTTAGT
GCCTATACAGTCGTTCATCAACATATGATGAATTCCGTAGGTTGCACACGTAGTGCCTATACGGT
TGATCATCAACATATGATGAATGATGTGGGTTGCACACTTAGTGCCTATACGGTTATTCATCAAC
ATATGATGAATTCCGTGGGTTGTACACTTAGTTCATATACTGTTGTTCATCAACATATGATGATT
TACGTGGGTTGCACACTTAGTGCCTATACGGTTGTTCATCAACATATAATGAATTTCGTGGGTTC
CACACTTAGTGCATATACGATTGTTCATCAACATATGATGAATTTCGTGGAATGCACACTTAGTG
CATATACGGTTGTTCATCAACATATGATGAATTTCTTGGGTTGCACACTTAGTTCCTATATTGTT
GTTCATCAACATATGATGAATTTCATTGGTTGTACACTTAGTTCCTATACTGTTGTT
Found at i:37149 original size:16 final size:16
Alignment explanation
Indices: 37128--37158 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37118 CTCAAATATC
37128 CACATAGATCATGTAA
1 CACATAGATCATGTAA
*
37144 CACATAGCTCATGTA
1 CACATAGATCATGTA
37159 TAACAATGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (16 bp):
CACATAGATCATGTAA
Found at i:39787 original size:21 final size:21
Alignment explanation
Indices: 39763--39805 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
39753 TTCAATCATC
39763 ACAACATCAAATTGAATCAAA
1 ACAACATCAAATTGAATCAAA
39784 ACAACATCAAATTGAATCAAA
1 ACAACATCAAATTGAATCAAA
39805 A
1 A
39806 TACTAACACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.58, C:0.19, G:0.05, T:0.19
Consensus pattern (21 bp):
ACAACATCAAATTGAATCAAA
Found at i:48343 original size:79 final size:79
Alignment explanation
Indices: 48212--48753 Score: 820
Period size: 79 Copynumber: 6.9 Consensus size: 79
48202 GGCACTATAT
* * * * * *
48212 GTGTATTATTGGCATGAAAGGATGTCATATCTAAAATGCATATGCGTACATTATCAGCATAAAAG
1 GTGTATTATTAGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTATCAGCATAAAAG
48277 AATAATGCATATGG
66 AATAATGCATATGG
* *
48291 GTGTATTATTAGCATGAAAGGATACCATAGTTGAAATGCATATGGGTGCATTATCAGCATAAAAG
1 GTGTATTATTAGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTATCAGCATAAAAG
48356 AATAATGCATATGG
66 AATAATGCATATGG
* * * * *
48370 GT-TCATTATTCGCATGAAAGGATGTCATGGCTGAAATGGATATGGGTGCATTATCAGAATAAAA
1 GTGT-ATTATTAGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTATCAGCATAAAA
48434 GAATAATGCATATGG
65 GAATAATGCATATGG
* *
48449 GTGCATTATTAGCATGAAAGGATACCATAGCTGAAATGCATATGGGTGCATTATCAGCATAAAAG
1 GTGTATTATTAGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTATCAGCATAAAAG
48514 AATAATGCATATGG
66 AATAATGCATATGG
* * * *
48528 GT-TCATTATTGGCATGAAAGGATGCCATGGCTGAAATGCATATGGGTACATTATCAACATAAAA
1 GTGT-ATTATTAGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTATCAGCATAAAA
48592 GAATAATGCATATGG
65 GAATAATGCATATGG
* * *
48607 GTGCATTATTAGAATGAAAGGATACCATAGCTGAAATGCATATGGGTGCATTATCAGCATAAAAG
1 GTGTATTATTAGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTATCAGCATAAAAG
48672 AATAATGCATATGG
66 AATAATGCATATGG
* *
48686 GT-TCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGATGCATTATCAGCATAAAA
1 GTGT-ATTATTAGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTATCAGCATAAAA
48750 GAAT
65 GAAT
48754 GTTATAATTG
Statistics
Matches: 418, Mismatches: 40, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
78 1 0.00
79 417 1.00
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (79 bp):
GTGTATTATTAGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTATCAGCATAAAAG
AATAATGCATATGG
Found at i:48504 original size:158 final size:158
Alignment explanation
Indices: 48216--48753 Score: 907
Period size: 158 Copynumber: 3.4 Consensus size: 158
48206 CTATATGTGT
* * * * *
48216 ATTATTGGCATGAAAGGATGTCATATCTAAAATGCATATGCGTACATTATCAGCATAAAAGAATA
1 ATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTACATTATCAGAATAAAAGAATA
* *
48281 ATGCATATGGGTGTATTATTAGCATGAAAGGATACCATAGTTGAAATGCATATGGGTGCATTATC
66 ATGCATATGGGTGCATTATTAGCATGAAAGGATACCATAGCTGAAATGCATATGGGTGCATTATC
48346 AGCATAAAAGAATAATGCATATGGGTTC
131 AGCATAAAAGAATAATGCATATGGGTTC
* * * * *
48374 ATTATTCGCATGAAAGGATGTCATGGCTGAAATGGATATGGGTGCATTATCAGAATAAAAGAATA
1 ATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTACATTATCAGAATAAAAGAATA
48439 ATGCATATGGGTGCATTATTAGCATGAAAGGATACCATAGCTGAAATGCATATGGGTGCATTATC
66 ATGCATATGGGTGCATTATTAGCATGAAAGGATACCATAGCTGAAATGCATATGGGTGCATTATC
48504 AGCATAAAAGAATAATGCATATGGGTTC
131 AGCATAAAAGAATAATGCATATGGGTTC
*
48532 ATTATTGGCATGAAAGGATGCCATGGCTGAAATGCATATGGGTACATTATCA-ACATAAAAGAAT
1 ATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTACATTATCAGA-ATAAAAGAAT
*
48596 AATGCATATGGGTGCATTATTAGAATGAAAGGATACCATAGCTGAAATGCATATGGGTGCATTAT
65 AATGCATATGGGTGCATTATTAGCATGAAAGGATACCATAGCTGAAATGCATATGGGTGCATTAT
48661 CAGCATAAAAGAATAATGCATATGGGTTC
130 CAGCATAAAAGAATAATGCATATGGGTTC
* * *
48690 ATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGATGCATTATCAGCATAAAAGAAT
1 ATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTACATTATCAGAATAAAAGAAT
48754 GTTATAATTG
Statistics
Matches: 359, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
157 1 0.00
158 358 1.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (158 bp):
ATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTACATTATCAGAATAAAAGAATA
ATGCATATGGGTGCATTATTAGCATGAAAGGATACCATAGCTGAAATGCATATGGGTGCATTATC
AGCATAAAAGAATAATGCATATGGGTTC
Found at i:49097 original size:29 final size:29
Alignment explanation
Indices: 49051--49109 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
49041 TGCCAGTTAT
* *
49051 ATGAATGGTTAAATACTGTTGAGTAAAAG
1 ATGAAAGGTTAAAAACTGTTGAGTAAAAG
49080 ATGAAAGGTTAAAAACTGTTGAGTAAAAG
1 ATGAAAGGTTAAAAACTGTTGAGTAAAAG
49109 A
1 A
49110 ATAATGGACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.46, C:0.03, G:0.24, T:0.27
Consensus pattern (29 bp):
ATGAAAGGTTAAAAACTGTTGAGTAAAAG
Found at i:52219 original size:45 final size:45
Alignment explanation
Indices: 52119--52229 Score: 109
Period size: 45 Copynumber: 2.5 Consensus size: 45
52109 ATCACATAAA
* * *
52119 CATATAATCACATAGATC-CTCATCACATAGCTTATATCACATGTT
1 CATATAATCACATAGGTCAAT-ACCACATAGCTTATATCACATGTT
* * * *
52164 CATATAATCACTTATGTCAATACCACATAGTTTATATCATAT-TCT
1 CATATAATCACATAGGTCAATACCACATAGCTTATATCACATGT-T
* *
52209 CATGTTATCACATAGGTCAAT
1 CATATAATCACATAGGTCAAT
52230 GTTATTTAGC
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
44 1 0.02
45 51 0.96
46 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.36
Consensus pattern (45 bp):
CATATAATCACATAGGTCAATACCACATAGCTTATATCACATGTT
Found at i:52388 original size:18 final size:16
Alignment explanation
Indices: 52352--52397 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
52342 CTCATATACC
*
52352 CACATAGATCATGTAA
1 CACATAGATCATATAA
52368 CACATAGTATACATATAA
1 CACATAG-AT-CATATAA
*
52386 CACATAGCTCAT
1 CACATAGATCAT
52398 GTATAGCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 13 0.50
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.26
Consensus pattern (16 bp):
CACATAGATCATATAA
Found at i:53412 original size:18 final size:18
Alignment explanation
Indices: 53391--53438 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
53381 ATCTTGCAAA
*
53391 TCTTTTAGTTTCTACTTC
1 TCTTTAAGTTTCTACTTC
53409 TCTTTAAGTTTCTACTTC
1 TCTTTAAGTTTCTACTTC
*
53427 TCTTTACGTTTC
1 TCTTTAAGTTTC
53439 CTTAAGCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.12, C:0.23, G:0.06, T:0.58
Consensus pattern (18 bp):
TCTTTAAGTTTCTACTTC
Found at i:56050 original size:38 final size:38
Alignment explanation
Indices: 55999--56076 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
55989 ACGTGTCTAC
55999 ATACATGCATTAAACAGATGAGGAAACTTTTTCTTCAT
1 ATACATGCATTAAACAGATGAGGAAACTTTTTCTTCAT
56037 ATACATGCATTAAACAGATGAGGAAACTTTTTCTTCAT
1 ATACATGCATTAAACAGATGAGGAAACTTTTTCTTCAT
56075 AT
1 AT
56077 TTTCTTCTCG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (38 bp):
ATACATGCATTAAACAGATGAGGAAACTTTTTCTTCAT
Found at i:62653 original size:31 final size:31
Alignment explanation
Indices: 62618--62691 Score: 139
Period size: 31 Copynumber: 2.4 Consensus size: 31
62608 ATATATCCTG
62618 ACCCGACCCGACTTTTTGAGATAAAATCCGA
1 ACCCGACCCGACTTTTTGAGATAAAATCCGA
*
62649 ACCCGACCCTACTTTTTGAGATAAAATCCGA
1 ACCCGACCCGACTTTTTGAGATAAAATCCGA
62680 ACCCGACCCGAC
1 ACCCGACCCGAC
62692 CCGACCCGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.31, C:0.34, G:0.15, T:0.20
Consensus pattern (31 bp):
ACCCGACCCGACTTTTTGAGATAAAATCCGA
Found at i:69015 original size:37 final size:37
Alignment explanation
Indices: 68965--69076 Score: 188
Period size: 37 Copynumber: 3.0 Consensus size: 37
68955 ATATTTATGA
*
68965 ATCATATTTTTAGGAGTTTGAATCTTAGTAAAACTCT
1 ATCATATTTTTAGGAGTTTGAATCATAGTAAAACTCT
*
69002 ATCATATTTTTAGGAGTTTGAATCATAGTAAAATTCT
1 ATCATATTTTTAGGAGTTTGAATCATAGTAAAACTCT
* *
69039 ATCATATTTTTAGAAGTTTGAATCATAATAAAACTCT
1 ATCATATTTTTAGGAGTTTGAATCATAGTAAAACTCT
69076 A
1 A
69077 ACGTTATGTT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.42
Consensus pattern (37 bp):
ATCATATTTTTAGGAGTTTGAATCATAGTAAAACTCT
Found at i:73133 original size:139 final size:139
Alignment explanation
Indices: 72883--73248 Score: 583
Period size: 139 Copynumber: 2.6 Consensus size: 139
72873 GGAAACAAGT
* ** *
72883 TAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCATCATCAGATGAGTTCTTCTCATTA
1 TAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTTTTCGGATGAGTTCTTCTCATTA
* * *
72948 TGAACTCTCCACTGAAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATACGTGAC
66 TGAACTCTTCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATACGCGAC
*
73013 GAATCTAGC
131 GAATCGAGC
* *
73022 TAAGGTTGAATAAGTTCTTCTCATTATGAACTTATTCTCCTTTTTCGGATGAGTTCTTCTCATTA
1 TAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTTTTCGGATGAGTTCTTCTCATTA
* * *
73087 TGAACTCTTCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTTAACTCCATATGCGAT
66 TGAACTCTTCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATACGCGAC
*
73152 GAATCGAGT
131 GAATCGAGC
73161 TAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTTTTCGGATGAGTTCTTCTCATTA
1 TAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTTTTCGGATGAGTTCTTCTCATTA
*
73226 TGAACTCTT--CTTGAAATGTTGAT
66 TGAACTCTTCACTGGAAATGTTGAT
73249 TCACCTCCTT
Statistics
Matches: 210, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
137 13 0.06
139 197 0.94
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.38
Consensus pattern (139 bp):
TAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTTTTCGGATGAGTTCTTCTCATTA
TGAACTCTTCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATACGCGAC
GAATCGAGC
Found at i:74509 original size:52 final size:53
Alignment explanation
Indices: 74437--74631 Score: 200
Period size: 52 Copynumber: 3.8 Consensus size: 53
74427 TGAAAGTCAT
* * *
74437 CATCAAGAAACACCTGAAAATCAGACTTAGTTTC-TAAAAAATCATTTGAAAA
1 CATCAAGAAACCCCTGAAAATCAGGCTTAGTTTCTTAAAAATTCATTTGAAAA
* * * * * **
74489 TATCAAGAAATCCCTAAAAATTAGGCTTAATTTCTTTGAAATTCATTT-AAAA
1 CATCAAGAAACCCCTGAAAATCAGGCTTAGTTTCTTAAAAATTCATTTGAAAA
* * * * ** *
74541 CATTAAGAAACCCCT-AAAATTAGGTTTAGCTTCTTTCAAGTTCATTTGAAAA
1 CATCAAGAAACCCCTGAAAATCAGGCTTAGTTTCTTAAAAATTCATTTGAAAA
*
74593 CATCGAGAAACCCCTGAAAATCAGGCTTAGTTTC-TAAAA
1 CATCAAGAAACCCCTGAAAATCAGGCTTAGTTTCTTAAAA
74632 GTCTTCTTTT
Statistics
Matches: 115, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
51 27 0.23
52 63 0.55
53 25 0.22
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (53 bp):
CATCAAGAAACCCCTGAAAATCAGGCTTAGTTTCTTAAAAATTCATTTGAAAA
Found at i:74797 original size:74 final size:75
Alignment explanation
Indices: 74695--74873 Score: 211
Period size: 74 Copynumber: 2.4 Consensus size: 75
74685 AGGGAAACTA
* * * * *
74695 TCTCAAGCGAGATAAATTTTGGTTTTAAGAAAAATAATTT-TGAGTGAAATG-AATAATCTTGTT
1 TCTCAAGCGAGACAAAATAT-GTTTTAAGAAAAATAATTTGT-AATGAAACGAAAT-ATCTTGTT
* *
74758 TTGAG-TAAAATG
63 GTGAGAAAAAATG
* *
74770 TCTTAAGCGAGACAAAATATGTTTTAAGAAAAATAATTTGTAATGAAACGAAATGTCTTGTTGTG
1 TCTCAAGCGAGACAAAATATGTTTTAAGAAAAATAATTTGTAATGAAACGAAATATCTTGTTGTG
74835 AGAAAAAAATG
66 AG-AAAAAATG
*
74846 TCTCAAGCGAGACAAAGTATGTTTTAAG
1 TCTCAAGCGAGACAAAATATGTTTTAAG
74874 GGAAACTATC
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
74 37 0.42
75 20 0.22
76 32 0.36
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (75 bp):
TCTCAAGCGAGACAAAATATGTTTTAAGAAAAATAATTTGTAATGAAACGAAATATCTTGTTGTG
AGAAAAAATG
Found at i:74897 original size:36 final size:36
Alignment explanation
Indices: 74846--74935 Score: 126
Period size: 36 Copynumber: 2.5 Consensus size: 36
74836 GAAAAAAATG
* * * *
74846 TCTCAAGCGAGACAAAGTATGTTTTAAGGGAAACTA
1 TCTCAAGGGAGACAAAATATGTTTCAAGAGAAACTA
* *
74882 TCTCAAGGGAAACAAAATCTGTTTCAAGAGAAACTA
1 TCTCAAGGGAGACAAAATATGTTTCAAGAGAAACTA
74918 TCTCAAGGGAGACAAAAT
1 TCTCAAGGGAGACAAAAT
74936 TTTTTTTCAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (36 bp):
TCTCAAGGGAGACAAAATATGTTTCAAGAGAAACTA
Found at i:75149 original size:37 final size:37
Alignment explanation
Indices: 75108--75281 Score: 148
Period size: 37 Copynumber: 4.9 Consensus size: 37
75098 GAAAAACATA
75108 TCTCAAGTGAAACAAAATTTGTTTTAAGAGAAAAATG
1 TCTCAAGTGAAACAAAATTTGTTTTAAGAGAAAAATG
* * * *
75145 TCTCAAGCGAGACAAAATTTGTTTTTA-AGAAAAACG
1 TCTCAAGTGAAACAAAATTTGTTTTAAGAGAAAAATG
* * ** ***
75181 ACT---TTG-AA-ATTA-TTGTTCCGA-AGAAAAATG
1 TCTCAAGTGAAACAAAATTTGTTTTAAGAGAAAAATG
75211 TCTCAAGTGAAACAAAATTTGTTTTAAGAGAAAAATG
1 TCTCAAGTGAAACAAAATTTGTTTTAAGAGAAAAATG
* * * *
75248 TCTCAAGTGAGACGACATTTTGTTTCAAGAGAAA
1 TCTCAAGTGAAAC-AAAATTTGTTTTAAGAGAAA
75282 CAGCAACCAA
Statistics
Matches: 104, Mismatches: 25, Indels: 15
0.72 0.17 0.10
Matches are distributed among these distances:
30 16 0.15
31 2 0.02
32 1 0.01
33 3 0.03
34 2 0.02
35 2 0.02
36 16 0.15
37 45 0.43
38 17 0.16
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (37 bp):
TCTCAAGTGAAACAAAATTTGTTTTAAGAGAAAAATG
Found at i:79149 original size:12 final size:12
Alignment explanation
Indices: 79132--79167 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
79122 AAAATGTAAT
79132 GATGCAAATGCA
1 GATGCAAATGCA
*
79144 GATGCAAATACA
1 GATGCAAATGCA
79156 GATGCAAATGCA
1 GATGCAAATGCA
79168 ACGAAGGTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (12 bp):
GATGCAAATGCA
Found at i:93277 original size:36 final size:35
Alignment explanation
Indices: 93196--93335 Score: 183
Period size: 36 Copynumber: 3.9 Consensus size: 35
93186 AGATGAACAA
93196 TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCAC
1 TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCAC
* * *
93231 TTGAATCGAAAGTGTC-GATACTTCCTTTCGTTCTTC
1 TTGAATCGAAAGTG-CGGATGCTTCCTTCCGTTC-AC
*
93267 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCAC
1 TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCAC
** *
93302 TTTGAATCGAAAGTGCTAATGCTTCCTTTCGTTC
1 -TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTC
93336 TTCTTATTCA
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
35 31 0.34
36 61 0.66
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.36
Consensus pattern (35 bp):
TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCAC
Found at i:95983 original size:7 final size:7
Alignment explanation
Indices: 95962--95999 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
95952 GTTAGATTAC
95962 ACCATAA
1 ACCATAA
95969 ACTC-TAA
1 AC-CATAA
95976 ACCATAA
1 ACCATAA
95983 ACCATAA
1 ACCATAA
95990 ACCATAA
1 ACCATAA
95997 ACC
1 ACC
96000 CTTAATCCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 1 0.03
7 27 0.93
8 1 0.03
ACGTcount: A:0.53, C:0.32, G:0.00, T:0.16
Consensus pattern (7 bp):
ACCATAA
Found at i:97721 original size:13 final size:13
Alignment explanation
Indices: 97703--97727 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
97693 CTTTCTACAC
97703 GTGATTGATGTAG
1 GTGATTGATGTAG
97716 GTGATTGATGTA
1 GTGATTGATGTA
97728 CTTAGGGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.36, T:0.40
Consensus pattern (13 bp):
GTGATTGATGTAG
Found at i:98324 original size:30 final size:32
Alignment explanation
Indices: 98288--98348 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
98278 GGAACTTAAT
*
98288 TTGACATGTTGC-A-ATCTTTTATAAGTAAAC
1 TTGACATATTGCTACATCTTTTATAAGTAAAC
*
98318 TTGACATATTGCTACCATCTTTTGTAAGTAA
1 TTGACATATTGCTA-CATCTTTTATAAGTAA
98349 GCTTAACTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 11 0.42
31 1 0.04
33 14 0.54
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (32 bp):
TTGACATATTGCTACATCTTTTATAAGTAAAC
Found at i:98487 original size:34 final size:33
Alignment explanation
Indices: 98435--98501 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
98425 AGGAAAATAG
*
98435 TGTCATCTTGTATAAATTTGGATATGTTGTCAT
1 TGTCATCTTGTATAAATTTAGATATGTTGTCAT
* *
98468 TGTCATCTTTTTATAAATTTAGATGTGTTGTCAT
1 TGTCATC-TTGTATAAATTTAGATATGTTGTCAT
98502 ATTTTGTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 7 0.23
34 23 0.77
ACGTcount: A:0.24, C:0.09, G:0.16, T:0.51
Consensus pattern (33 bp):
TGTCATCTTGTATAAATTTAGATATGTTGTCAT
Found at i:99170 original size:50 final size:49
Alignment explanation
Indices: 99050--99172 Score: 138
Period size: 50 Copynumber: 2.4 Consensus size: 49
99040 AGAAAAACAT
* * * * *
99050 GCCCCCTGCACCGCGTTATATGCTGATTTGGCGCCACGTGGGTATAGCGC
1 GCCCCCTG-ACCGCGATATACGCTGATCTGGCGCCACATGGGTATAACGC
* * *
99100 GCCCCTTGCCCTGCGATATACGGTGATCTGGCGCCACATGGGTATAACGC
1 GCCCCCTGACC-GCGATATACGCTGATCTGGCGCCACATGGGTATAACGC
*
99150 GCCCCCTGATCCGCGCTATACGC
1 GCCCCCTGA-CCGCGATATACGC
99173 CACGTAGGGG
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
49 2 0.03
50 55 0.93
51 2 0.03
ACGTcount: A:0.15, C:0.35, G:0.28, T:0.22
Consensus pattern (49 bp):
GCCCCCTGACCGCGATATACGCTGATCTGGCGCCACATGGGTATAACGC
Found at i:103011 original size:6 final size:6
Alignment explanation
Indices: 102995--103056 Score: 55
Period size: 6 Copynumber: 11.3 Consensus size: 6
102985 ACTCCTCGCT
* *
102995 GTCATC ATCATC GTCATC GTCGTC GTCA-C --CATC GTCATC G---TC
1 GTCATC GTCATC GTCATC GTCATC GTCATC GTCATC GTCATC GTCATC
*
103037 GTCATC GTCATC GTCGTC GT
1 GTCATC GTCATC GTCATC GT
103057 GTTGAGCAGG
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
3 5 0.11
4 1 0.02
5 1 0.02
6 38 0.84
ACGTcount: A:0.15, C:0.34, G:0.19, T:0.32
Consensus pattern (6 bp):
GTCATC
Found at i:103048 original size:21 final size:21
Alignment explanation
Indices: 102995--103056 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
102985 ACTCCTCGCT
102995 GTCATCATCATCGTCATCGTC
1 GTCATCATCATCGTCATCGTC
* *
103016 GTCGTCACCATCGTCATCGTC
1 GTCATCATCATCGTCATCGTC
* *
103037 GTCATCGTCATCGTCGTCGT
1 GTCATCATCATCGTCATCGT
103057 GTTGAGCAGG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.15, C:0.34, G:0.19, T:0.32
Consensus pattern (21 bp):
GTCATCATCATCGTCATCGTC
Found at i:103052 original size:15 final size:15
Alignment explanation
Indices: 102999--103054 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
102989 CTCGCTGTCA
*
102999 TCATCATCGTCATCG
1 TCATCGTCGTCATCG
* **
103014 TCGTCGTCACCATCG
1 TCATCGTCGTCATCG
103029 TCATCGTCGTCATCG
1 TCATCGTCGTCATCG
103044 TCATCGTCGTC
1 TCATCGTCGTC
103055 GTGTTGAGCA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.14, C:0.36, G:0.18, T:0.32
Consensus pattern (15 bp):
TCATCGTCGTCATCG
Found at i:103445 original size:20 final size:18
Alignment explanation
Indices: 103397--103452 Score: 103
Period size: 18 Copynumber: 3.1 Consensus size: 18
103387 AAGGCGATGA
103397 CGACATCATATATGGCTG
1 CGACATCATATATGGCTG
103415 CGACATCATATATGGCTG
1 CGACATCATATATGGCTG
*
103433 CGACATCATATATGGTTG
1 CGACATCATATATGGCTG
103451 CG
1 CG
103453 GTGGCTGCTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (18 bp):
CGACATCATATATGGCTG
Found at i:105100 original size:111 final size:111
Alignment explanation
Indices: 104963--105184 Score: 383
Period size: 111 Copynumber: 2.0 Consensus size: 111
104953 ATTACAAAAA
* *
104963 TTAATTCTTAATCTAATAATCATGCAT-TAAATGAATCAACTAATTATTACTAATAATTTAAATT
1 TTAATTCTTAATCTAATAATCATGCATAT-AATAAATCAACTAAATATTACTAATAATTTAAATT
* *
105027 AAATTAAAACGTTAAAATGTTATCATATCAGCAAAGTGTCGAGATAT
65 AAATTAAAACGTTAAAATGTTACCATATCAGCAAAGTGTAGAGATAT
105074 TTAATTCTTAATCTAATAATCATGCATATAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATATAATAAATCAACTAAATATTACTAATAATTTAAATTA
*
105139 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCATATCAGCAAAGTGTAGAGATAT
105185 ATGATTTCCA
Statistics
Matches: 105, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
111 104 0.99
112 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATATAATAAATCAACTAAATATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCATATCAGCAAAGTGTAGAGATAT
Found at i:105327 original size:10 final size:10
Alignment explanation
Indices: 105308--105337 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
105298 ACCTTAAAAA
*
105308 GAGAGTATTT
1 GAGAGAATTT
105318 GAGAGAATTT
1 GAGAGAATTT
105328 GAGAGAATTT
1 GAGAGAATTT
105338 AGTGTGATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:105511 original size:50 final size:49
Alignment explanation
Indices: 105457--105576 Score: 123
Period size: 50 Copynumber: 2.4 Consensus size: 49
105447 CCAGGTATGG
* * * * *
105457 CGCGGATCAGGGGGCGCGCTATACCCAAGTGGCGCCAGATCACCGTATAT
1 CGCGG-TCAGGGGGCGCGCTATACCCAAGTGACGCCAAATCAACATATAA
* ** *
105507 CGCGGGGCAGGAAGCGCGCTATACCCACGTGACGCCAAATCAACATATAA
1 CGC-GGTCAGGGGGCGCGCTATACCCAAGTGACGCCAAATCAACATATAA
*
105557 CGCGGTGCAGGGGACGCGCT
1 CGCGGT-CAGGGGGCGCGCT
105577 TTTCTGCTAA
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
49 2 0.04
50 51 0.93
51 2 0.04
ACGTcount: A:0.24, C:0.30, G:0.33, T:0.13
Consensus pattern (49 bp):
CGCGGTCAGGGGGCGCGCTATACCCAAGTGACGCCAAATCAACATATAA
Found at i:121016 original size:3 final size:3
Alignment explanation
Indices: 121010--121038 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
121000 AAATATTTTT
121010 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
121039 TTAATTTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:123371 original size:23 final size:24
Alignment explanation
Indices: 123327--123382 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 24
123317 AATCGTCAAA
*
123327 TTTTTAAAATAAAAGTCATAATTGT
1 TTTTTAAAATAAAAGTCATAA-TAT
* *
123352 TTTTTAAAATAATA-T-TTAATAT
1 TTTTTAAAATAAAAGTCATAATAT
123374 TTTTTAAAA
1 TTTTTAAAA
123383 AATGGTTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.39
23 3 0.11
24 1 0.04
25 13 0.46
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (24 bp):
TTTTTAAAATAAAAGTCATAATAT
Found at i:123950 original size:3 final size:3
Alignment explanation
Indices: 123944--123972 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
123934 CCCTTATTAT
123944 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
123973 AAACCTATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:135652 original size:19 final size:19
Alignment explanation
Indices: 135620--135686 Score: 57
Period size: 19 Copynumber: 3.3 Consensus size: 19
135610 TTTAAATCAA
135620 TTTTAACAT-AAAAATATAT
1 TTTTAA-ATAAAAAATATAT
135639 TTTTAAATAAAAAATAAATAT
1 TTTTAAATAAAAAAT--ATAT
*
135660 TTAATAAATTAATAAAA-ATAT
1 TT-TTAAA-TAA-AAAATATAT
135681 TTTTAA
1 TTTTAA
135687 GCTAATATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
18 2 0.05
19 12 0.30
20 3 0.08
21 12 0.30
22 4 0.10
23 3 0.08
24 4 0.10
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (19 bp):
TTTTAAATAAAAAATATAT
Done.