Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 97 of 109
Found at i:30953901 original size:17 final size:17
Alignment explanation
Indices: 30953850--30953891 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
30953840 ATTAAAGGGA
*
30953850 TACAAAGAAAAATAAAAT
1 TACAAA-AAGAATAAAAT
*
30953868 TACAAAAAGAATCAAAT
1 TACAAAAAGAATAAAAT
30953885 TACAAAA
1 TACAAAA
30953892 TGTGTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.69, C:0.10, G:0.05, T:0.17
Consensus pattern (17 bp):
TACAAAAAGAATAAAAT
Found at i:30954653 original size:21 final size:21
Alignment explanation
Indices: 30954629--30954675 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
30954619 CAATGGATGG
30954629 TCAACGCTAG-TCAACAATCAA
1 TCAACGCTAGTTCAAC-ATCAA
* * *
30954650 TCAATGCTCGTTCAACATCGA
1 TCAACGCTAGTTCAACATCAA
30954671 TCAAC
1 TCAAC
30954676 AATCGGTAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.36, C:0.30, G:0.11, T:0.23
Consensus pattern (21 bp):
TCAACGCTAGTTCAACATCAA
Found at i:30956166 original size:12 final size:11
Alignment explanation
Indices: 30956149--30956184 Score: 56
Period size: 10 Copynumber: 3.3 Consensus size: 11
30956139 NNNNNNNNNN
30956149 AAAGAAAAAACA
1 AAAGAAAAAA-A
30956161 AAAGAAAAAAA
1 AAAGAAAAAAA
30956172 AAA-AAAAAAA
1 AAAGAAAAAAA
30956182 AAA
1 AAA
30956185 AACTCCCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.42
11 4 0.17
12 10 0.42
ACGTcount: A:0.92, C:0.03, G:0.06, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAAA
Found at i:30956169 original size:1 final size:1
Alignment explanation
Indices: 30956153--30956186 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
30956143 NNNNNNAAAG
* *
30956153 AAAAAACAAAAGAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
30956187 CTCCCAAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.94, C:0.03, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:30979006 original size:18 final size:20
Alignment explanation
Indices: 30978954--30979006 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
30978944 TATTTTAAAT
*
30978954 ATATAATATTATATATTTAAA
1 ATATAAT-TTATATATTCAAA
30978975 ATATAATTTATATATTCAAA
1 ATATAATTTATATATTCAAA
*
30978995 TTA-AATTT-TATA
1 ATATAATTTATATA
30979007 AATAATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 4 0.13
19 5 0.17
20 14 0.47
21 7 0.23
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATAATTTATATATTCAAA
Found at i:30979513 original size:7 final size:7
Alignment explanation
Indices: 30979501--30979542 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
30979491 TATATTTGTT
30979501 TTATAAA
1 TTATAAA
30979508 TTATAAA
1 TTATAAA
30979515 TTATAAA
1 TTATAAA
30979522 TTATATAA
1 TTATA-AA
30979530 TT-TAAA
1 TTATAAA
*
30979536 ATATAAA
1 TTATAAA
30979543 ATTAAGTTCC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 3 0.09
7 25 0.78
8 4 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TTATAAA
Found at i:30979726 original size:94 final size:94
Alignment explanation
Indices: 30979621--30979810 Score: 362
Period size: 94 Copynumber: 2.0 Consensus size: 94
30979611 AACCCAACGC
30979621 TTCTTTTATTATTTATTAATTTTTTATTTTAAAATAAATAAAATTAAGTTTAAAGTTGGTAAACT
1 TTCTTTTATTATTTATTAATTTTTTATTTTAAAATAAATAAAATTAAGTTTAAAGTTGGTAAACT
*
30979686 TTAAATACTGTACTAGTTGGTGCACAATA
66 TTAAATAATGTACTAGTTGGTGCACAATA
*
30979715 TTCTTTTATTATTTATTAATTTTTTATTTTAAAATAAATAAAATTAAGTTTAAAGTTGGTAAATT
1 TTCTTTTATTATTTATTAATTTTTTATTTTAAAATAAATAAAATTAAGTTTAAAGTTGGTAAACT
30979780 TTAAATAATGTACTAGTTGGTGCACAATA
66 TTAAATAATGTACTAGTTGGTGCACAATA
30979809 TT
1 TT
30979811 TTAACTGGTG
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 94 1.00
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.48
Consensus pattern (94 bp):
TTCTTTTATTATTTATTAATTTTTTATTTTAAAATAAATAAAATTAAGTTTAAAGTTGGTAAACT
TTAAATAATGTACTAGTTGGTGCACAATA
Found at i:30981848 original size:223 final size:224
Alignment explanation
Indices: 30981439--30981961 Score: 878
Period size: 223 Copynumber: 2.3 Consensus size: 224
30981429 TAAAAATACG
*
30981439 AAAAAAAAAATTTGTACTGTGTACTTGGTGCTGGCCATTGACAGGCCAGCACCCAAAAATTTTTT
1 AAAAAAAAAATTTGTACTGTGTACTGGGTGCTGGCCATTGACAGGCCAGCACCC-AAAATTTTTT
*
30981504 TATTTTTTTCGTATTTTTATATCTGATTCTTACACGAAAAAAATAAAAAAAAATTTTGTACTGTG
65 TATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAATAAAAAAAAATTTTGTACTGTG
*
30981569 TACTGGGTGCCGGCCATTGACAGGCCAACACCCAACAAAAAAAATTTTAATTTTTTTTTCTTATT
130 TACTGGGTGCCGGCCATTGACAGGCCAACACCCAACAAAAAAAATTTTAA-TTTTTTTTCGTATT
*
30981634 TTTATATCTGATTCTGACACG-AAAAAAA-T
194 TTTATATCTGATTCAGACACGAAAAAAAATT
* *
30981663 AAAAAAAAAATTTGTACTATGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAACATTTTTT
1 AAAAAAAAAATTTGTACTGTGTACTGGGTGCTGGCCATTGACAGGCCAGCACCCAAA-ATTTTTT
30981728 TATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAT-AAAAAAAATTTTGTACTGTG
65 TATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAATAAAAAAAAATTTTGTACTGTG
* ***
30981792 TACTGGGTGCCGGCCATTGACAGGCCAGCACCCAA-AAAAATTTTTTTAATTTTTTTTCGTATTT
130 TACTGGGTGCCGGCCATTGACAGGCCAACACCCAACAAAAAAAATTTTAATTTTTTTTCGTATTT
30981856 TTATATCTGATTCAGACACGAAAAAAAATT
195 TTATATCTGATTCAGACACGAAAAAAAATT
30981886 AAAAAAAAAATTTGTACTGTGTACTGGGTGCTGGCCATTGACAGGCCAGCACCC-AAATTTTTTT
1 AAAAAAAAAATTTGTACTGTGTACTGGGTGCTGGCCATTGACAGGCCAGCACCCAAAATTTTTTT
*
30981950 -TCTTTTTCGTAT
66 ATTTTTTTCGTAT
30981962 ATCAGTATTG
Statistics
Matches: 283, Mismatches: 13, Indels: 10
0.92 0.04 0.03
Matches are distributed among these distances:
220 11 0.04
221 41 0.14
222 20 0.07
223 110 0.39
224 101 0.36
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (224 bp):
AAAAAAAAAATTTGTACTGTGTACTGGGTGCTGGCCATTGACAGGCCAGCACCCAAAATTTTTTT
ATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAATAAAAAAAAATTTTGTACTGTGT
ACTGGGTGCCGGCCATTGACAGGCCAACACCCAACAAAAAAAATTTTAATTTTTTTTCGTATTTT
TATATCTGATTCAGACACGAAAAAAAATT
Found at i:30981942 original size:115 final size:111
Alignment explanation
Indices: 30981439--30981942 Score: 777
Period size: 115 Copynumber: 4.5 Consensus size: 111
30981429 TAAAAATACG
* *
30981439 AAAAAAAAAATTTGTACTGTGTACTTGGTGCTGGCCATTGACAGGCCAGCACCC--AAAAATTTT
1 AAAAAAAAAATTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTT
*
30981502 TTTATTTTTTTCGTATTTTTATATCTGATTCTTACACGAAAAAAAT
66 TTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAT
* *
30981548 AAAAAAAAATTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAACACCCAACAAAAAAAA
1 AAAAAAAAAATTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCA-CC--C-AAAAAAA
* *
30981613 TTTTAATT-TTTTTTTCTTATTTTTATATCTGATTCTGACACGAAAAAAAT
62 TTTT-TTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAT
* *
30981663 AAAAAAAAAATTTGTACTATGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC--AAACATTTT
1 AAAAAAAAAATTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTT
30981726 TTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAT
66 TTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAT
*
30981772 -AAAAAAAATTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTT
1 AAAAAAAAAATTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTT
*
30981836 TTTAATTTTTTTTCGTATTTTTATATCTGATTCAGACACGAAAAAAAATT
66 TTT-A-TTTTTTTCGTATTTTTATATCTGATTCTGACACG-AAAAAAA-T
*
30981886 AAAAAAAAAATTTGTACTGTGTACTGGGTGCTGGCCATTGACAGGCCAGCACCCAAA
1 AAAAAAAAAATTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA
30981943 TTTTTTTTCT
Statistics
Matches: 361, Mismatches: 19, Indels: 24
0.89 0.05 0.06
Matches are distributed among these distances:
108 53 0.15
109 96 0.27
110 13 0.04
111 1 0.00
112 35 0.10
113 7 0.02
114 3 0.01
115 151 0.42
116 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (111 bp):
AAAAAAAAAATTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTT
TTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAT
Found at i:30998121 original size:23 final size:23
Alignment explanation
Indices: 30998094--30998146 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
30998084 ATTCCTTCAT
30998094 AGATAATTTCCTAATCCCTCGAGG
1 AGATAATTTCCTAATCCCTC-AGG
*
30998118 -GATAATTTCCTAATCTCTCAGG
1 AGATAATTTCCTAATCCCTCAGG
30998140 AGATAAT
1 AGATAAT
30998147 ATCTTGTTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 3 0.11
23 24 0.89
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (23 bp):
AGATAATTTCCTAATCCCTCAGG
Found at i:30999574 original size:2 final size:2
Alignment explanation
Indices: 30999567--30999594 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
30999557 TCATTATAAG
30999567 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30999595 TACTCCTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31001916 original size:28 final size:28
Alignment explanation
Indices: 31001858--31001919 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
31001848 TAGGGGCCTG
**
31001858 ATCAAATTAATCCTCTACTATTAAATGA
1 ATCAAATTAATCCTCTACTATTAAAACA
*
31001886 ATCAATTTAATCCTCGTACTA-TAAAACA
1 ATCAAATTAATCCTC-TACTATTAAAACA
31001914 ATCAAA
1 ATCAAA
31001920 CAATGCCAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 24 0.83
29 5 0.17
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.32
Consensus pattern (28 bp):
ATCAAATTAATCCTCTACTATTAAAACA
Found at i:31004693 original size:9 final size:9
Alignment explanation
Indices: 31004679--31004708 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
31004669 AGTTTACTAC
31004679 TTTTCTTCT
1 TTTTCTTCT
31004688 TTTTCTTCT
1 TTTTCTTCT
*
31004697 TCTTCTTCT
1 TTTTCTTCT
31004706 TTT
1 TTT
31004709 CTTGCTCCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTCTTCT
Found at i:31004722 original size:3 final size:3
Alignment explanation
Indices: 31004711--31004745 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
31004701 CTTCTTTTCT
* *
31004711 TGC TCC TGC TGC TGC TGC TGC TGC TGC TGT TGC TG
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TG
31004746 TGTTTTCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.31, G:0.31, T:0.37
Consensus pattern (3 bp):
TGC
Found at i:31005271 original size:6 final size:6
Alignment explanation
Indices: 31005260--31005287 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
31005250 GAGGTTCGTT
31005260 TTTTCC TTTTCC TTTTCC TTTTCC TTTT
1 TTTTCC TTTTCC TTTTCC TTTTCC TTTT
31005288 TATTGCATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTCC
Found at i:31006086 original size:27 final size:27
Alignment explanation
Indices: 31006048--31006099 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
31006038 CTTAGGGAAG
31006048 AGGCAGCACTGGTGGAAGAGCTGGCGC
1 AGGCAGCACTGGTGGAAGAGCTGGCGC
* *
31006075 AGGCGGCACTGGTGGAGGAGCTGGC
1 AGGCAGCACTGGTGGAAGAGCTGGC
31006100 AGAAGCGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.19, C:0.21, G:0.48, T:0.12
Consensus pattern (27 bp):
AGGCAGCACTGGTGGAAGAGCTGGCGC
Found at i:31006107 original size:27 final size:27
Alignment explanation
Indices: 31006053--31006109 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
31006043 GGAAGAGGCA
*
31006053 GCACTGGTGGAAGAGCTGGCGCAGGCG
1 GCACTGGTGGAAGAGCTGGCGCAAGCG
*
31006080 GCACTGGTGGAGGAGCTGGCAG-AAGCG
1 GCACTGGTGGAAGAGCTGGC-GCAAGCG
31006107 GCA
1 GCA
31006110 TCGCAGGCGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.21, C:0.21, G:0.47, T:0.11
Consensus pattern (27 bp):
GCACTGGTGGAAGAGCTGGCGCAAGCG
Found at i:31006780 original size:25 final size:24
Alignment explanation
Indices: 31006764--31006816 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 24
31006754 TATATGTTCT
31006764 AATTTTTTAAGATTTTATAATTGAG
1 AATTTTTTAAGATTTTAT-ATTGAG
31006789 AATTTTTTAAGATTTTATAATTGAG
1 AATTTTTTAAGATTTTAT-ATTGAG
31006814 AAT
1 AAT
31006817 AAGAGTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (24 bp):
AATTTTTTAAGATTTTATATTGAG
Found at i:31013769 original size:19 final size:19
Alignment explanation
Indices: 31013737--31013788 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
31013727 ATTCATACAA
31013737 ATTAT-TTA-AAATTTAGG
1 ATTATGTTATAAATTTAGG
31013754 ATTATGTTATAAATTTAGG
1 ATTATGTTATAAATTTAGG
31013773 ATTATGTTATAAATTT
1 ATTATGTTATAAATTT
31013789 TTGTGTTTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.15
18 3 0.09
19 25 0.76
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (19 bp):
ATTATGTTATAAATTTAGG
Found at i:31013992 original size:16 final size:16
Alignment explanation
Indices: 31013971--31014004 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
31013961 TTCATACAAA
31013971 AATAATATATATATTT
1 AATAATATATATATTT
*
31013987 AATAATATATATTTTT
1 AATAATATATATATTT
31014003 AA
1 AA
31014005 CTGATTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATAATATATATATTT
Found at i:31020760 original size:80 final size:80
Alignment explanation
Indices: 31020663--31020815 Score: 288
Period size: 80 Copynumber: 1.9 Consensus size: 80
31020653 TTGTCATCTC
* *
31020663 TTTAATAAACAATAAAAGCTGCTGTTTTTTTTTTTTTAAGAATGGCTCAATTTTTGTTGGTATGC
1 TTTAATAAAAAAAAAAAGCTGCTGTTTTTTTTTTTTTAAGAATGGCTCAATTTTTGTTGGTATGC
31020728 TCAAATTTTCAATTT
66 TCAAATTTTCAATTT
31020743 TTTAATAAAAAAAAAAAGCTGCTGTTTTTTTTTTTTTAAGAATGGCTCAATTTTTGTTGGTATGC
1 TTTAATAAAAAAAAAAAGCTGCTGTTTTTTTTTTTTTAAGAATGGCTCAATTTTTGTTGGTATGC
31020808 TCAAATTT
66 TCAAATTT
31020816 GTAACTTTAT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 71 1.00
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (80 bp):
TTTAATAAAAAAAAAAAGCTGCTGTTTTTTTTTTTTTAAGAATGGCTCAATTTTTGTTGGTATGC
TCAAATTTTCAATTT
Found at i:31022030 original size:103 final size:99
Alignment explanation
Indices: 31021809--31022028 Score: 282
Period size: 103 Copynumber: 2.2 Consensus size: 99
31021799 ACCAAAAAAA
* **
31021809 AATTTTTGGTTTACTTTTTTCGTATACTGATATCTGATTCTGACACGATTTTTTTAAAAAATTGT
1 AATTTTT-TTTTACTTTTTTCGTATACTGATATCTGATTCTGACAAAATTTTTTTAAAAAATTGT
31021874 ACTGGGTGCCGACCATTGACAGGCCAGCACCTAAC
65 ACTGGGTGCCGACCATTGACAGGCCAGCACCTAAC
* ***
31021909 AATTTTTTTTTACTTTTTTCGTATACTGATATTTGATTCTGACAAAAAAAATTTTTTTTTTAAAT
1 AATTTTTTTTTACTTTTTTCGTATACTGATATCTGATTCTGAC----AAAATTTTTTTAAAAAAT
* * *
31021974 TGTACTGGGTGCCGGCTATTGACAGGCCAGCACC-CA-
62 TGTACTGGGTGCCGACCATTGACAGGCCAGCACCTAAC
*
31022010 AATTTTTTTTTCCTTTTTT
1 AATTTTTTTTTACTTTTTT
31022029 TTTTCCATTT
Statistics
Matches: 105, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
99 34 0.32
100 7 0.07
101 18 0.17
102 1 0.01
103 45 0.43
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.44
Consensus pattern (99 bp):
AATTTTTTTTTACTTTTTTCGTATACTGATATCTGATTCTGACAAAATTTTTTTAAAAAATTGTA
CTGGGTGCCGACCATTGACAGGCCAGCACCTAAC
Found at i:31026369 original size:7 final size:7
Alignment explanation
Indices: 31026344--31026381 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
31026334 CAGCACCACC
*
31026344 TCAATGG
1 TCAATGT
31026351 TC-ATGCT
1 TCAATG-T
31026358 TCAATGT
1 TCAATGT
31026365 TCAATGT
1 TCAATGT
31026372 TCAATGT
1 TCAATGT
31026379 TCA
1 TCA
31026382 CTCCTCTTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
6 3 0.11
7 22 0.79
8 3 0.11
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.39
Consensus pattern (7 bp):
TCAATGT
Found at i:31026673 original size:28 final size:29
Alignment explanation
Indices: 31026626--31026697 Score: 94
Period size: 28 Copynumber: 2.4 Consensus size: 29
31026616 ATAAAAACTA
31026626 TAAAATAATTTAAAATAAATTTTAAAATT
1 TAAAATAATTTAAAATAAATTTTAAAATT
*
31026655 TAAAAT-ATTTATAAA-AAATTTTAAATTT
1 TAAAATAATTTA-AAATAAATTTTAAAATT
31026683 TAATTAATAATTTAA
1 TAA--AATAATTTAA
31026698 GTTTATTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
28 20 0.53
29 9 0.24
30 4 0.11
31 5 0.13
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
TAAAATAATTTAAAATAAATTTTAAAATT
Found at i:31027403 original size:111 final size:110
Alignment explanation
Indices: 31027302--31027749 Score: 458
Period size: 111 Copynumber: 4.2 Consensus size: 110
31027292 TATGAAAAAG
* * * *
31027302 GAAAAAAAAGAAAAAAAAATTTTTGGATGCTGGCCTATAAATGGCCGGCACTCAATAAACAGTAA
1 GAAAAAAAATAAAAAAAAATTTTTGGGTGCTGGCCTGTAAATGGCCGGCACCCAATAAACAGTAA
* *
31027367 AATTTTTTTCTTTTTTTTTCGTGTCAGAGTTAGATATAAAAATAC
66 AATTTTTTTCTTTTTTTTTCGTGTCAGAATCAGATATAAAAATAC
* ***** * * *
31027412 GAAAAAAATTTAAAATTTTTTTTTTGGGTGCCGGCCTGTCAAA-GGCCGGCACCCAGTGAACAGT
1 GAAAAAAA-ATAAAAAAAAATTTTTGGGTGCTGGCCTGT-AAATGGCCGGCACCCAATAAACAGT
*
31027476 AAAA---------TTTTTTTT-GTGTCAAAATCAGATATAAAAATAC
64 AAAATTTTTTTCTTTTTTTTTCGTGTCAGAATCAGATATAAAAATAC
** ** * * * *
31027513 GAAAAAAAATTTAAAAATTTTTTTGGGTGCTGGCCTGTCAATGGCCAGCACCCAATGAACAATAA
1 GAAAAAAAATAAAAAAAAATTTTTGGGTGCTGGCCTGTAAATGGCCGGCACCCAATAAACAGT-A
*
31027578 AAATTTTTTTTCTTTTTTTTTCGTGCCAGAATCAGATATAAAAATAC
65 AAA-TTTTTTTCTTTTTTTTTCGTGTCAGAATCAGATATAAAAATAC
* * * * *
31027625 G-AAAAAAATAAAAAAAAA-TTTTGGGTGCTGGCTTGTCAATGGCCGGCACCTAGTACACAGT-A
1 GAAAAAAAATAAAAAAAAATTTTTGGGTGCTGGCCTGTAAATGGCCGGCACCCAATAAACAGTAA
* *
31027687 AATTTTTTTTTTATTTTTTTCGTGTCAAAATCAGATATAAAAATAC
66 AATTTTTTTCTT-TTTTTTTCGTGTCAGAATCAGATATAAAAATAC
31027733 G-AAAAAAATAAAAAAAA
1 GAAAAAAAATAAAAAAAA
31027750 TTATAGGACT
Statistics
Matches: 279, Mismatches: 43, Indels: 34
0.78 0.12 0.10
Matches are distributed among these distances:
99 2 0.01
100 41 0.15
101 34 0.12
102 8 0.03
107 9 0.03
108 51 0.18
110 44 0.16
111 63 0.23
112 27 0.10
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.32
Consensus pattern (110 bp):
GAAAAAAAATAAAAAAAAATTTTTGGGTGCTGGCCTGTAAATGGCCGGCACCCAATAAACAGTAA
AATTTTTTTCTTTTTTTTTCGTGTCAGAATCAGATATAAAAATAC
Found at i:31027564 original size:100 final size:102
Alignment explanation
Indices: 31027378--31027589 Score: 304
Period size: 100 Copynumber: 2.1 Consensus size: 102
31027368 ATTTTTTTCT
* * * *
31027378 TTTTTTTTCGTGTCAGAGTTAGATATAAAAATACGAAAAAAATTTAAAATTTTTTTTTTGGGTGC
1 TTTTTTTTCGTGTCAAAATCAGATATAAAAATACGAAAAAAATTTAAAA-TATTTTTTTGGGTGC
* * *
31027443 CGGCCTGTCAAAGGCCGGCACCCAGTGAACAGT-AAAA
65 CGGCCTGTCAAAGGCCAGCACCCAATGAACAATAAAAA
31027480 TTTTTTTT-GTGTCAAAATCAGATATAAAAATACGAAAAAAAATTTAAAA-ATTTTTTTGGGTGC
1 TTTTTTTTCGTGTCAAAATCAGATATAAAAATACG-AAAAAAATTTAAAATATTTTTTTGGGTGC
* *
31027543 TGGCCTGTCAATGGCCAGCACCCAATGAACAATAAAAA
65 CGGCCTGTCAAAGGCCAGCACCCAATGAACAATAAAAA
31027581 TTTTTTTTC
1 TTTTTTTTC
31027590 TTTTTTTTTC
Statistics
Matches: 98, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
100 41 0.42
101 35 0.36
102 22 0.22
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (102 bp):
TTTTTTTTCGTGTCAAAATCAGATATAAAAATACGAAAAAAATTTAAAATATTTTTTTGGGTGCC
GGCCTGTCAAAGGCCAGCACCCAATGAACAATAAAAA
Found at i:31027666 original size:110 final size:107
Alignment explanation
Indices: 31027480--31027749 Score: 364
Period size: 108 Copynumber: 2.5 Consensus size: 107
31027470 AACAGTAAAA
* ***
31027480 TTTTTTTT-GTGTCAAAATCAGATATAAAAATACGAAAAAAAATTTAAAAATTTTTTTGGGTGCT
1 TTTTTTTTCGTGTCAAAATCAGATATAAAAATACG-AAAAAAA-TAAAAAAAAATTTTGGGTGCT
31027544 GGCCTGTCAATGGCCAGCACCCAATGA-ACAATAAAAATTTTTTTTCT
64 GGCCTGTCAATGGCCAGCACCCAAT-ACACAAT--AAATTTTTTTT-T
* *
31027591 TTTTTTTTCGTGCCAGAATCAGATATAAAAATACGAAAAAAATAAAAAAAAATTTTGGGTGCTGG
1 TTTTTTTTCGTGTCAAAATCAGATATAAAAATACGAAAAAAATAAAAAAAAATTTTGGGTGCTGG
* * * * *
31027656 CTTGTCAATGGCCGGCACCTAGTACACAGTAAATTTTTTTTT
66 CCTGTCAATGGCCAGCACCCAATACACAATAAATTTTTTTTT
31027698 TATTTTTTTCGTGTCAAAATCAGATATAAAAATACGAAAAAAATAAAAAAAA
1 T-TTTTTTTCGTGTCAAAATCAGATATAAAAATACGAAAAAAATAAAAAAAA
31027750 TTATAGGACT
Statistics
Matches: 143, Mismatches: 13, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
107 2 0.01
108 59 0.41
109 1 0.01
110 42 0.29
111 15 0.10
112 24 0.17
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.34
Consensus pattern (107 bp):
TTTTTTTTCGTGTCAAAATCAGATATAAAAATACGAAAAAAATAAAAAAAAATTTTGGGTGCTGG
CCTGTCAATGGCCAGCACCCAATACACAATAAATTTTTTTTT
Found at i:31028050 original size:99 final size:101
Alignment explanation
Indices: 31027858--31028051 Score: 286
Period size: 105 Copynumber: 1.9 Consensus size: 101
31027848 GGAAATAGAA
*
31027858 TTTTTTTTATTTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAAGAATTTTTTTTACT
1 TTTTTTTTATTTTTTTCGTATTTTTATATCTAATTCTGACACG----AAAAGAATTTTTTTTACT
* *
31027923 GTGTACTGGGTGCCGGCCATTGATAGGCCAGCACCCAAAT
62 GTGTACTGGGTGCAGGCCATTGACAGGCCAGCACCCAAAT
*
31027963 TTTTTTTTATTTTTTTCGTATTTTTATATCTAATTCTGACACG-AAA-ATTTTTTTTTACTGT-T
1 TTTTTTTTATTTTTTTCGTATTTTTATATCTAATTCTGACACGAAAAGAATTTTTTTTACTGTGT
31028025 CACTGGGTGCAGGCCATTGACAGGCCA
66 -ACTGGGTGCAGGCCATTGACAGGCCA
31028052 ACACTAGACC
Statistics
Matches: 84, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
98 1 0.01
99 38 0.45
100 3 0.04
105 42 0.50
ACGTcount: A:0.24, C:0.16, G:0.15, T:0.45
Consensus pattern (101 bp):
TTTTTTTTATTTTTTTCGTATTTTTATATCTAATTCTGACACGAAAAGAATTTTTTTTACTGTGT
ACTGGGTGCAGGCCATTGACAGGCCAGCACCCAAAT
Found at i:31028286 original size:28 final size:28
Alignment explanation
Indices: 31028220--31028287 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
31028210 AATAAACACA
31028220 AAAAAAATATTTTAAAAATAAAAATATT
1 AAAAAAATATTTTAAAAATAAAAATATT
*** * *
31028248 TTTAAAGTATTTTAAAATTAAAAA-ATT
1 AAAAAAATATTTTAAAAATAAAAATATT
31028275 AAAAAATATATTT
1 AAAAAA-ATATTT
31028288 ATTATATTCG
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
27 6 0.20
28 24 0.80
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (28 bp):
AAAAAAATATTTTAAAAATAAAAATATT
Found at i:31033415 original size:30 final size:31
Alignment explanation
Indices: 31033346--31033405 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
31033336 ACTTAAATAA
* *
31033346 AAAAGTTTTGAATAGTTCAATGGCTTAAATG
1 AAAACTTTTGAATAGTTCAATGGATTAAATG
*
31033377 AAAACTTTTGAATAGTTCAGT-GATTAAAT
1 AAAACTTTTGAATAGTTCAATGGATTAAAT
31033406 TGTAACTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.37
Consensus pattern (31 bp):
AAAACTTTTGAATAGTTCAATGGATTAAATG
Found at i:31038516 original size:12 final size:12
Alignment explanation
Indices: 31038486--31038518 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
31038476 TATATATTTT
31038486 AAAATT-ATATA
1 AAAATTAATATA
31038497 AAAA-TAATATA
1 AAAATTAATATA
31038508 AAAATTAATAT
1 AAAATTAATAT
31038519 TGGAGGGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:31043778 original size:11 final size:11
Alignment explanation
Indices: 31043739--31043779 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
31043729 AAATATTTCA
*
31043739 AAAAAGAAAAG
1 AAAAAGGAAAG
31043750 AAAAAGAGAAA-
1 AAAAAG-GAAAG
31043761 AAAAAGGAAAG
1 AAAAAGGAAAG
31043772 AAAAAGGA
1 AAAAAGGA
31043780 GAGGCCAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 4 0.15
11 20 0.74
12 3 0.11
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (11 bp):
AAAAAGGAAAG
Found at i:31044751 original size:24 final size:24
Alignment explanation
Indices: 31044721--31044773 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
31044711 CCAAAGGTGC
*
31044721 AGTGGATTGAACCTTAAAGGTTAT
1 AGTGGATTGAACCTTAAAGATTAT
* *
31044745 GGTGGATTGAACCTTGAAGATTAT
1 AGTGGATTGAACCTTAAAGATTAT
31044769 AGTGG
1 AGTGG
31044774 GGAATCCGGT
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:0.30, C:0.08, G:0.30, T:0.32
Consensus pattern (24 bp):
AGTGGATTGAACCTTAAAGATTAT
Found at i:31045211 original size:45 final size:45
Alignment explanation
Indices: 31045090--31045556 Score: 523
Period size: 45 Copynumber: 10.4 Consensus size: 45
31045080 ATTGTAGATA
* * *
31045090 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA-CAAGCC
1 TTGTCTTCCTGTATTGGCAACGAAGTAGATCGAAGATAGCAGGTC
* * * *
31045134 TCGT-TTCCCTG-A---GCAGCAGTAGAGTAGGTCGAAGATAGCAGATC
1 TTGTCTT-CCTGTATTGGCAAC-G-A-AGTAGATCGAAGATAGCAGGTC
* *
31045178 TTGTCTTCCTATATTGGCAACGTAGTAGATCGAAGATAGCAGGTC
1 TTGTCTTCCTGTATTGGCAACGAAGTAGATCGAAGATAGCAGGTC
* * * *
31045223 TTGTCTTCCTGTATTGGTAACGAAGTAGATCGAATATAGCAGATA
1 TTGTCTTCCTGTATTGGCAACGAAGTAGATCGAAGATAGCAGGTC
* * * * *
31045268 TTGTATTCCTATATTGGCAGCGGAGTAGATCGAAGATAGCAAGTC
1 TTGTCTTCCTGTATTGGCAACGAAGTAGATCGAAGATAGCAGGTC
* * * *
31045313 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATATCAGGTA
1 TTGTCTTCCTGTATTGGCAACGAAGTAGATCGAAGATAGCAGGTC
*** *
31045358 TTGTCTTCCTGTATTGGCAGTAAAGTAGATCAAAGATAGCAGGTC
1 TTGTCTTCCTGTATTGGCAACGAAGTAGATCGAAGATAGCAGGTC
*
31045403 TTGTTTTCCTGTATTGGCAACGAAGTAGATCGAAGATAGCAGGTC
1 TTGTCTTCCTGTATTGGCAACGAAGTAGATCGAAGATAGCAGGTC
* *
31045448 TTGTCTTCCTATATTGGCAGCGAAGTAGATCGAAGATAGCAGGTC
1 TTGTCTTCCTGTATTGGCAACGAAGTAGATCGAAGATAGCAGGTC
* * *** * *
31045493 TTGTCTTTCTGTATTGACAGTAAAGTAGATCGAAGATAGTAGATC
1 TTGTCTTCCTGTATTGGCAACGAAGTAGATCGAAGATAGCAGGTC
*
31045538 TTGTCTTCCTGTACTGGCA
1 TTGTCTTCCTGTATTGGCA
31045557 GTGAAGCAGG
Statistics
Matches: 358, Mismatches: 55, Indels: 19
0.83 0.13 0.04
Matches are distributed among these distances:
40 5 0.01
41 1 0.00
42 1 0.00
43 17 0.05
44 16 0.04
45 313 0.87
47 1 0.00
48 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (45 bp):
TTGTCTTCCTGTATTGGCAACGAAGTAGATCGAAGATAGCAGGTC
Found at i:31045765 original size:21 final size:21
Alignment explanation
Indices: 31045739--31045782 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
31045729 TTGGCATTGT
*
31045739 AGTGGAATAGATTAAAGCTGA
1 AGTGGAAGAGATTAAAGCTGA
* *
31045760 AGTGGAGGGGATTAAAGCTGA
1 AGTGGAAGAGATTAAAGCTGA
31045781 AG
1 AG
31045783 GCAGCGAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.05, G:0.36, T:0.20
Consensus pattern (21 bp):
AGTGGAAGAGATTAAAGCTGA
Found at i:31046092 original size:44 final size:44
Alignment explanation
Indices: 31045975--31046092 Score: 191
Period size: 44 Copynumber: 2.7 Consensus size: 44
31045965 TGGAAAATCT
**
31045975 TATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGTTACTAGCCC
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAGTTACTAGCCC
*
31046019 TATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAGTTACTAGTCC
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAGTTACTAGCCC
* *
31046063 TATCTCCCTGAAGTTACAGTGGAGTGGATT
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATT
31046093 AAAATGATGG
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 69 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAGTTACTAGCCC
Found at i:31046111 original size:44 final size:44
Alignment explanation
Indices: 31045975--31046131 Score: 154
Period size: 44 Copynumber: 3.6 Consensus size: 44
31045965 TGGAAAATCT
** * * * *
31045975 TATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGTTACTAGCCC
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATGACTAGTCC
* * *
31046019 TATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAGTTACTAGTCC
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATGACTAGTCC
* * * *
31046063 TATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATGA-TGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATGACTAG-TCC
* * *
31046107 TATCTCTCTAAAGTTGCAGTAGAGC
1 TATCTCCCTGAAGTTGCAGTGGAGC
31046132 AGATCGCACC
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
43 2 0.02
44 95 0.98
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATGACTAGTCC
Found at i:31046348 original size:46 final size:45
Alignment explanation
Indices: 31046172--31046353 Score: 170
Period size: 46 Copynumber: 4.0 Consensus size: 45
31046162 AGTTGAAGCT
* * * * * * *
31046172 ACAAGTCTTGTCTCACTGAGGTTACAGTACAGTAGACTGAAGATA
1 ACAAGTCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAGATA
* * * *
31046217 ATATA-TCTTATCTCTCTAAAGTTGCAGTAGAGCAGA-TCACACTATA
1 ACA-AGTCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTGA-A-GATA
* *
31046263 ACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCACACTGAAGATA
1 ACAAGTCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAGATA
* * *
31046308 ACCAAGTCTTATCTCCCTGAAGTTGTAGTAGAGTAGACTGAAGATA
1 A-CAAGTCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAGATA
31046354 GCGAATTTTA
Statistics
Matches: 110, Mismatches: 21, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
44 2 0.02
45 32 0.29
46 74 0.67
47 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (45 bp):
ACAAGTCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAGATA
Found at i:31046681 original size:50 final size:50
Alignment explanation
Indices: 31046616--31047001 Score: 323
Period size: 50 Copynumber: 7.7 Consensus size: 50
31046606 GCAGTGGAAC
* * * * *
31046616 AGATTAAAGTTACAACAGTGAATCTTGCTTCCTTGGCATGGCAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCATGGCAGTTAAAT
* * * ** *
31046666 AGATTGAAGCTACAACAGCAAATCTTACTTCCCTAGC-GGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCATG-GCAGTTAAAT
* * * **
31046716 AGATTGAAGCTACAACAGTGAATCTTACTTCCCCGACATTACAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCATGGCAGTTAAAT
* * * *
31046766 AGATTGAAGCTACAATAGTGAATCTTACTTCCCTGG--TGGTGCAGTGAAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCAT-G-GCAGTTAAAT
* * * * *
31046816 AGATTGAAGCTACAACGGCGAATCTTGCTT-CATCGACATTGCAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCT-GGCATGGCAGTTAAAT
** * * ** *
31046866 AGATTGAAGCTACAACAGCGAATCTTACTTCTTTGGC-GGTGTAGTGGAAC
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCATG-GCAGTTAAAT
* * * * * ** *
31046916 AGATTTAAGCTACAATAGTGAATCTTGCTTCCCCGATATTGCAGTTAAAT
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCATGGCAGTTAAAT
*
31046966 AGATTGAAGCTACAACAACGAATCTTACTTCCCTGG
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGG
31047002 TGAACAGATC
Statistics
Matches: 255, Mismatches: 71, Indels: 20
0.74 0.21 0.06
Matches are distributed among these distances:
48 1 0.00
49 3 0.01
50 249 0.98
51 1 0.00
52 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGCATGGCAGTTAAAT
Found at i:31046730 original size:100 final size:100
Alignment explanation
Indices: 31046595--31046999 Score: 576
Period size: 100 Copynumber: 4.0 Consensus size: 100
31046585 CAACCTTATC
* * ** * *
31046595 TCCCTAGCGGTGCAGTGGAACAGATTAAAGTTACAACAGTGAATCTTGCTTCCTTGGCATGGCAG
1 TCCCTAGCGGTGCAGTGGAACAGATTGAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAG
*
31046660 TTAAATAGATTGAAGCTACAACAGCAAATCTTACT
66 TTAAATAGATTGAAGCTACAACAGCGAATCTTACT
* *
31046695 TCCCTAGCGGTGCAGTGGAACAGATTGAAGCTACAACAGTGAATCTTACTTCCCCGACATTACAG
1 TCCCTAGCGGTGCAGTGGAACAGATTGAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAG
* *
31046760 TTAAATAGATTGAAGCTACAATAGTGAATCTTACT
66 TTAAATAGATTGAAGCTACAACAGCGAATCTTACT
* * * * * **
31046795 TCCCTGGTGGTGCAGTGAAACAGATTGAAGCTACAACGGCGAATCTTGCTTCATCGACATTGCAG
1 TCCCTAGCGGTGCAGTGGAACAGATTGAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAG
31046860 TTAAATAGATTGAAGCTACAACAGCGAATCTTACT
66 TTAAATAGATTGAAGCTACAACAGCGAATCTTACT
** * * * * *
31046895 TCTTTGGCGGTGTAGTGGAACAGATTTAAGCTACAATAGTGAATCTTGCTTCCCCGATATTGCAG
1 TCCCTAGCGGTGCAGTGGAACAGATTGAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAG
*
31046960 TTAAATAGATTGAAGCTACAACAACGAATCTTACT
66 TTAAATAGATTGAAGCTACAACAGCGAATCTTACT
31046995 TCCCT
1 TCCCT
31047000 GGTGAACAGA
Statistics
Matches: 268, Mismatches: 37, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 268 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (100 bp):
TCCCTAGCGGTGCAGTGGAACAGATTGAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAG
TTAAATAGATTGAAGCTACAACAGCGAATCTTACT
Found at i:31046824 original size:150 final size:150
Alignment explanation
Indices: 31046607--31046999 Score: 414
Period size: 150 Copynumber: 2.6 Consensus size: 150
31046597 CCTAGCGGTG
* * * *
31046607 CAGTGGAACAGATTAAAGTTACAACAGTGAATCTTGCTTCCTTGGCATG-GCAGTTAAATAGATT
1 CAGTGAAACAGATTAAAGCTACAATAGTGAATCTTGCTTCCCTGG--TGTGCAGTTAAATAGATT
* * * *
31046671 GAAGCTACAACAGCAAATCTTACTTCCCTAG-CGGTGCAGTGGAACAGATTGAAGCTACAACAGT
64 GAAGCTACAACAGCGAATCTTACTTCCCTAGACAGTGCAGTGAAACAGATTGAAGCTACAACAGC
*
31046735 GAATCTTACTTCCCCGACATTA
129 GAATCTTACTTCCCCGACAGTA
* * * * * *
31046757 CAGTTAAATAGATTGAAGCTACAATAGTGAATCTTACTTCCCTGGTGGTGCAGTGAAACAGATTG
1 CAGTGAAACAGATTAAAGCTACAATAGTGAATCTTGCTTCCCTGGT-GTGCAGTTAAATAGATTG
* * * * * * *
31046822 AAGCTACAACGGCGAATCTTGCTT-CATCGACATTGCAGTTAAATAGATTGAAGCTACAACAGCG
65 AAGCTACAACAGCGAATCTTACTTCCCTAGACAGTGCAGTGAAACAGATTGAAGCTACAACAGCG
*** * * *
31046886 AATCTTACTTCTTTGGCGGTG
130 AATCTTACTTCCCCGACAGTA
* * * * * *
31046907 TAGTGGAACAGATTTAAGCTACAATAGTGAATCTTGCTTCCCCGATATTGCAGTTAAATAGATTG
1 CAGTGAAACAGATTAAAGCTACAATAGTGAATCTTGCTTCCCTGGT-GTGCAGTTAAATAGATTG
*
31046972 AAGCTACAACAACGAATCTTACTTCCCT
65 AAGCTACAACAGCGAATCTTACTTCCCT
31047000 GGTGAACAGA
Statistics
Matches: 195, Mismatches: 44, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
148 1 0.01
149 4 0.02
150 188 0.96
151 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (150 bp):
CAGTGAAACAGATTAAAGCTACAATAGTGAATCTTGCTTCCCTGGTGTGCAGTTAAATAGATTGA
AGCTACAACAGCGAATCTTACTTCCCTAGACAGTGCAGTGAAACAGATTGAAGCTACAACAGCGA
ATCTTACTTCCCCGACAGTA
Found at i:31047226 original size:44 final size:44
Alignment explanation
Indices: 31047119--31047214 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 44
31047109 ATAAATAACC
* * * * * * *
31047119 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTATT
1 AATCCTATCTCCCTGAAGTTGCAATAGAGCAGATTAAAGCGATG
*
31047163 AATCCTATCTCCCTAAAGTTGCAATAGAGCAGATTAAAGCGATG
1 AATCCTATCTCCCTGAAGTTGCAATAGAGCAGATTAAAGCGATG
31047207 AATCCTAT
1 AATCCTAT
31047215 ACCTCTGAAG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (44 bp):
AATCCTATCTCCCTGAAGTTGCAATAGAGCAGATTAAAGCGATG
Found at i:31047411 original size:45 final size:44
Alignment explanation
Indices: 31047356--31047462 Score: 117
Period size: 44 Copynumber: 2.4 Consensus size: 44
31047346 TCGTATCTTT
* * *
31047356 CTAAAGTTGCAGTGGAGCAGATTGAAGAATAC-ACGTCTTATCTCC
1 CTAAAGTTGCAGTGGAGCAGACTGAAG-ATACTA-ATCTTATCCCC
* * * *
31047401 CTGAAGTTGCAATAGAGCAGACTGAAGCTACTAATCTTATCCCC
1 CTAAAGTTGCAGTGGAGCAGACTGAAGATACTAATCTTATCCCC
*
31047445 CTAAAGTTGTAGTGGAGC
1 CTAAAGTTGCAGTGGAGC
31047463 GGGTCAAAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
44 26 0.52
45 24 0.48
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (44 bp):
CTAAAGTTGCAGTGGAGCAGACTGAAGATACTAATCTTATCCCC
Found at i:31048263 original size:17 final size:18
Alignment explanation
Indices: 31048241--31048282 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
31048231 TTAATATCTA
31048241 TTTTATCAATATA-AAAT
1 TTTTATCAATATATAAAT
* * *
31048258 TTTTATTATTTTATAAAT
1 TTTTATCAATATATAAAT
31048276 TTTTATC
1 TTTTATC
31048283 CATAAATATT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTATCAATATATAAAT
Found at i:31055726 original size:27 final size:27
Alignment explanation
Indices: 31055676--31055728 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
31055666 AGATTACCTT
* * *
31055676 ATTTGATTCATTTGGTTGGGATGTAAG
1 ATTTGATTCATTTAGTTAGAATGTAAG
*
31055703 ATTTGGTTCATTTAGTTAGAATGTAA
1 ATTTGATTCATTTAGTTAGAATGTAA
31055729 TATTCAGATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.26, C:0.04, G:0.25, T:0.45
Consensus pattern (27 bp):
ATTTGATTCATTTAGTTAGAATGTAAG
Found at i:31056186 original size:4 final size:4
Alignment explanation
Indices: 31056177--31056201 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
31056167 CTATATACTC
31056177 ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA A
31056202 GGATTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:31060185 original size:25 final size:25
Alignment explanation
Indices: 31060140--31060207 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 25
31060130 TATTCATCTA
* * *
31060140 AATTTTTTAGAAATT-TTAAAATTT
1 AATTTTTTAAAAATTATAAAAATAT
*
31060164 TATTTTTTAAAAATTATAAAAATAT
1 AATTTTTTAAAAATTATAAAAATAT
* *
31060189 AAATTATTAAAAATTATAA
1 AATTTTTTAAAAATTATAA
31060208 TTTAATTTCT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
24 13 0.36
25 23 0.64
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (25 bp):
AATTTTTTAAAAATTATAAAAATAT
Found at i:31060192 original size:15 final size:17
Alignment explanation
Indices: 31060174--31060207 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
31060164 TATTTTTTAA
31060174 AAATTA-TAAAAA-TAT
1 AAATTATTAAAAATTAT
31060189 AAATTATTAAAAATTAT
1 AAATTATTAAAAATTAT
31060206 AA
1 AA
31060208 TTTAATTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 6 0.35
17 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATTATTAAAAATTAT
Found at i:31074867 original size:6 final size:6
Alignment explanation
Indices: 31074827--31074864 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
31074817 CCTTTTGTCT
* *
31074827 CCTCCT CCTCCA CCTCCA CCTCCA CCTCCA CCGCCA CC
1 CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA CC
31074865 GCCGCTGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.13, C:0.68, G:0.03, T:0.16
Consensus pattern (6 bp):
CCTCCA
Found at i:31082244 original size:26 final size:27
Alignment explanation
Indices: 31082210--31082264 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
31082200 ATCAAACCCT
*
31082210 ATCAACACAAAAAT-GAAACCACAAAA
1 ATCAACACAAAAATAGAAACCAAAAAA
* * *
31082236 ATCAGCACAAACATAGGAACCAAAAAA
1 ATCAACACAAAAATAGAAACCAAAAAA
31082263 AT
1 AT
31082265 TGCAACAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.62, C:0.22, G:0.07, T:0.09
Consensus pattern (27 bp):
ATCAACACAAAAATAGAAACCAAAAAA
Found at i:31084114 original size:2 final size:2
Alignment explanation
Indices: 31084109--31084140 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
31084099 AGTTATAAAC
*
31084109 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31084141 TATTCTTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31084213 original size:74 final size:75
Alignment explanation
Indices: 31084114--31084262 Score: 291
Period size: 74 Copynumber: 2.0 Consensus size: 75
31084104 TAAACATATA
31084114 TATATATATATATATATATATGTATATTATTCTTGAAAATCTAATAACTGTCATGGCAAACGTGG
1 TATATATATATATATATATATGTATATTATTCTTGAAAATCTAATAACTGTCATGGCAAACGTGG
31084179 ATACCTCAAC
66 ATACCTCAAC
31084189 TATATATATA-ATATATATATGTATATTATTCTTGAAAATCTAATAACTGTCATGGCAAACGTGG
1 TATATATATATATATATATATGTATATTATTCTTGAAAATCTAATAACTGTCATGGCAAACGTGG
31084253 ATACCTCAAC
66 ATACCTCAAC
31084263 CATAGCCTTA
Statistics
Matches: 74, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
74 64 0.86
75 10 0.14
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (75 bp):
TATATATATATATATATATATGTATATTATTCTTGAAAATCTAATAACTGTCATGGCAAACGTGG
ATACCTCAAC
Found at i:31088988 original size:31 final size:31
Alignment explanation
Indices: 31088950--31089022 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 31
31088940 CTTTTATTTG
* *
31088950 TTCAATTTTAGTCTTTGTACTTTTTAAAATT
1 TTCAATTTTAGTCTTTATACTTTTCAAAATT
*
31088981 TTCAATTTTAGTCTTTATACTTTTCAAATTT
1 TTCAATTTTAGTCTTTATACTTTTCAAAATT
*
31089012 TTAAAATTTTA
1 TT-CAATTTTA
31089023 ATCATGACCT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 30 0.81
32 7 0.19
ACGTcount: A:0.29, C:0.10, G:0.04, T:0.58
Consensus pattern (31 bp):
TTCAATTTTAGTCTTTATACTTTTCAAAATT
Found at i:31091163 original size:16 final size:16
Alignment explanation
Indices: 31091139--31091176 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
31091129 TTTGATTCGC
* *
31091139 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
31091155 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
31091171 TGTAAT
1 TGTAAT
31091177 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:31091221 original size:45 final size:44
Alignment explanation
Indices: 31091155--31091249 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
31091145 GGATTAGAGG
*
31091155 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
31091200 TGTAATGGAATAGAGGCGTAATAGTAATCCTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
31091244 TGTAAT
1 TGTAAT
31091250 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 22 0.49
45 23 0.51
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:31096573 original size:17 final size:16
Alignment explanation
Indices: 31096530--31096573 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
31096520 ATGTTATTCG
*
31096530 TTTATATATTTACTTAT
1 TTTAT-TATATACTTAT
31096547 TTTA-TATATACATTAT
1 TTTATTATATAC-TTAT
31096563 TTTATTATATA
1 TTTATTATATA
31096574 TGTATTATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 6 0.25
16 8 0.33
17 10 0.42
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTATTATATACTTAT
Found at i:31096579 original size:16 final size:16
Alignment explanation
Indices: 31096534--31096573 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
31096524 TATTCGTTTA
*
31096534 TATATTTAC-TTATTT
1 TATATATACATTATTT
31096549 TATATATACATTATTT
1 TATATATACATTATTT
31096565 TATTATATA
1 TA-TATATA
31096574 TGTATTATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 8 0.36
17 6 0.27
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (16 bp):
TATATATACATTATTT
Found at i:31096580 original size:19 final size:18
Alignment explanation
Indices: 31096531--31096582 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
31096521 TGTTATTCGT
31096531 TTATATATTTACTTATTTTA
1 TTATATA-TTA-TTATTTTA
*
31096551 -TATATA-CATTATTTTA
1 TTATATATTATTATTTTA
31096567 TTATATATGTATTATT
1 TTATATAT-TATTATT
31096583 GTTTTAAGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
16 8 0.30
17 7 0.26
19 12 0.44
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (18 bp):
TTATATATTATTATTTTA
Found at i:31096717 original size:29 final size:28
Alignment explanation
Indices: 31096684--31096750 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 28
31096674 TTTTAACATC
* *
31096684 TTTAACTTATTTCAACTCATTTCAATAT
1 TTTAATTTATTTAAACTCATTTCAATAT
* * *
31096712 TGTTAATTTATTTAAATTTATTTTAATAT
1 T-TTAATTTATTTAAACTCATTTCAATAT
31096741 TTTAATTTAT
1 TTTAATTTAT
31096751 ATATTATATT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 10 0.30
29 23 0.70
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.58
Consensus pattern (28 bp):
TTTAATTTATTTAAACTCATTTCAATAT
Found at i:31096762 original size:18 final size:19
Alignment explanation
Indices: 31096720--31096792 Score: 64
Period size: 18 Copynumber: 3.9 Consensus size: 19
31096710 ATTGTTAATT
31096720 TATTTAAATTTAT-T-TTAA
1 TATTTAAATTTATATATT-A
*
31096738 TATTTTAATTTATATATTA
1 TATTTAAATTTATATATTA
* *
31096757 TATTT--ATTTCTTAAATTA
1 TATTTAAATTT-ATATATTA
*
31096775 TATTTAAATTTGTATATT
1 TATTTAAATTTATATATT
31096793 TCGTTAGTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
17 4 0.09
18 23 0.51
19 12 0.27
20 6 0.13
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (19 bp):
TATTTAAATTTATATATTA
Found at i:31098339 original size:19 final size:18
Alignment explanation
Indices: 31098308--31098348 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
31098298 TGAATAATCT
31098308 TTAATTAACCTAAATTAA
1 TTAATTAACCTAAATTAA
* *
31098326 TTAAGTTAATCTAACTTAA
1 TTAA-TTAACCTAAATTAA
31098345 TTAA
1 TTAA
31098349 CATAATAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.41
Consensus pattern (18 bp):
TTAATTAACCTAAATTAA
Found at i:31100730 original size:15 final size:15
Alignment explanation
Indices: 31100712--31100748 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
31100702 TCAGCCGTAT
*
31100712 GTGACACATGGCCAG
1 GTGACACACGGCCAG
31100727 GTGACACACGGCCAG
1 GTGACACACGGCCAG
31100742 GTGACAC
1 GTGACAC
31100749 GACCGTGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.27, C:0.30, G:0.32, T:0.11
Consensus pattern (15 bp):
GTGACACACGGCCAG
Found at i:31105022 original size:302 final size:303
Alignment explanation
Indices: 31104466--31105076 Score: 1215
Period size: 302 Copynumber: 2.0 Consensus size: 303
31104456 AATATGATAT
31104466 TATATATAATTGATGGAGATGATAAAATTTGCATAATAAAATTAAAATGTATAAAAATATAAAAA
1 TATATATAATTGATGGAGATGATAAAATTTGCATAATAAAATTAAAATGTATAAAAATATAAAAA
31104531 TAAAACTTTAGTTGAATGATAAATTAAAAGTTTTATTAGCGCAATTGACATGGATTCGAATCACA
66 TAAAACTTTAGTTGAATGATAAATTAAAAGTTTTATTAGCGCAATTGACATGGATTCGAATCACA
31104596 TCATATGTAATTTTTTATTTGTTTTTTTAAATAAAAAAACTAAACTAACCTCAAGGAATATTACT
131 TCATATGTAATTTTTTATTTGTTTTTTTAAATAAAAAAACTAAACTAACCTCAAGGAATATTACT
31104661 TATTTTAATTATCGAAAAGCATTTTCGTAATTTCCTAACTGAGTTGGTGCTTGTTTGACTCGTAA
196 TATTTTAATTATCGAAAAGCATTTTCGTAATTTCCTAACTGAGTTGGTGCTTGTTTGACTCGTAA
31104726 CACTAACTCAATTAGAAGTTTAATTAATAGTATAAAACATAAA
261 CACTAACTCAATTAGAAGTTTAATTAATAGTATAAAACATAAA
31104769 TATATATAA-TGATGGAGATGATAAAATTTGCATAATAAAATTAAAATGTATAAAAATATAAAAA
1 TATATATAATTGATGGAGATGATAAAATTTGCATAATAAAATTAAAATGTATAAAAATATAAAAA
31104833 TAAAACTTTAGTTGAATGATAAATTAAAAGTTTTATTAGCGCAATTGACATGGATTCGAATCACA
66 TAAAACTTTAGTTGAATGATAAATTAAAAGTTTTATTAGCGCAATTGACATGGATTCGAATCACA
31104898 TCATATGTAATTTTTTATTTGTTTTTTTAAATAAAAAAACTAAACTAACCTCAAGGAATATTACT
131 TCATATGTAATTTTTTATTTGTTTTTTTAAATAAAAAAACTAAACTAACCTCAAGGAATATTACT
31104963 TATTTTAATTATCGAAAAGCATTTTCGTAATTTCCTAACTGAGTTGGTGCTTGTTTGACTCGTAA
196 TATTTTAATTATCGAAAAGCATTTTCGTAATTTCCTAACTGAGTTGGTGCTTGTTTGACTCGTAA
31105028 CACTAACTCAATTAGAAGTTTAATTAATAGTATAAAACATAAA
261 CACTAACTCAATTAGAAGTTTAATTAATAGTATAAAACATAAA
31105071 TATATA
1 TATATA
31105077 AAAATTTAGA
Statistics
Matches: 308, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
302 299 0.97
303 9 0.03
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.37
Consensus pattern (303 bp):
TATATATAATTGATGGAGATGATAAAATTTGCATAATAAAATTAAAATGTATAAAAATATAAAAA
TAAAACTTTAGTTGAATGATAAATTAAAAGTTTTATTAGCGCAATTGACATGGATTCGAATCACA
TCATATGTAATTTTTTATTTGTTTTTTTAAATAAAAAAACTAAACTAACCTCAAGGAATATTACT
TATTTTAATTATCGAAAAGCATTTTCGTAATTTCCTAACTGAGTTGGTGCTTGTTTGACTCGTAA
CACTAACTCAATTAGAAGTTTAATTAATAGTATAAAACATAAA
Found at i:31110140 original size:2 final size:2
Alignment explanation
Indices: 31110133--31110162 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
31110123 TTTCTTTTTC
31110133 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31110163 AATTGGATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:31126757 original size:3 final size:3
Alignment explanation
Indices: 31126749--31126797 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
31126739 ATGAATCTTG
*
31126749 AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
31126796 AA
1 AA
31126798 CAGTTAAAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:31127995 original size:27 final size:27
Alignment explanation
Indices: 31127972--31128037 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
31127962 GATTTTTATT
*
31127972 ATTTTAAACATTGTAATTAATTTTAAA
1 ATTTTAAAAATTGTAATTAATTTTAAA
* *
31127999 ATTTTAAAAATTTTAATT-ATATTAAA
1 ATTTTAAAAATTGTAATTAATTTTAAA
*
31128025 TTTTATAAAAATT
1 ATTT-TAAAAATT
31128038 ACTACATTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 10 0.29
27 24 0.71
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (27 bp):
ATTTTAAAAATTGTAATTAATTTTAAA
Found at i:31134191 original size:153 final size:153
Alignment explanation
Indices: 31133913--31134204 Score: 503
Period size: 153 Copynumber: 1.9 Consensus size: 153
31133903 AGGAGCTTTA
* *
31133913 GATTGAGTTTAACAAGGGCCTGGATCTCACTTTTGGCATTATCATCTTTTCTATCCTTGCTTTTA
1 GATTGAGTTTAACAAGGGCCTGAATCTCACTTTTGACATTATCATCTTTTCTATCCTTGCTTTTA
* * * *
31133978 GAACAACTCTTCTTCAACCTTGTTCTCGCCTCCGGTATATCTAACTTATTTACACCTGCCTCCAA
66 GAACAACTCTTCTCCAACCTCGTTCTCCCCTCCAGTATATCTAACTTATTTACACCTGCCTCCAA
31134043 GTTGGAATCCAAAGAACGCCCTG
131 GTTGGAATCCAAAGAACGCCCTG
* * *
31134066 GATTGAGTTTAGCAAGGGCCTGAATCTCACTTTTGATATTATCATCTTTTCTATCCTTGCTTTTG
1 GATTGAGTTTAACAAGGGCCTGAATCTCACTTTTGACATTATCATCTTTTCTATCCTTGCTTTTA
31134131 GAACAACTCTTCTCCAACCTCGTTCTCCCCTCCAGTATATCTAACTTATTTACACCTGCCTCCAA
66 GAACAACTCTTCTCCAACCTCGTTCTCCCCTCCAGTATATCTAACTTATTTACACCTGCCTCCAA
31134196 GTTGGAATC
131 GTTGGAATC
31134205 TAAAAAATCC
Statistics
Matches: 130, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
153 130 1.00
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.36
Consensus pattern (153 bp):
GATTGAGTTTAACAAGGGCCTGAATCTCACTTTTGACATTATCATCTTTTCTATCCTTGCTTTTA
GAACAACTCTTCTCCAACCTCGTTCTCCCCTCCAGTATATCTAACTTATTTACACCTGCCTCCAA
GTTGGAATCCAAAGAACGCCCTG
Found at i:31136970 original size:14 final size:14
Alignment explanation
Indices: 31136948--31136986 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
31136938 ATATATTATA
*
31136948 ATAAAATTAAATAT
1 ATAATATTAAATAT
31136962 ATAATATTATAATAT
1 ATAATATTA-AATAT
31136977 A-AATATTAAA
1 ATAATATTAAA
31136987 AAAATTTAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 2 0.09
14 15 0.65
15 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
ATAATATTAAATAT
Found at i:31136973 original size:22 final size:21
Alignment explanation
Indices: 31136937--31136982 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
31136927 GCTTCATGTT
*
31136937 TATATATTATAATAAAATTAAA
1 TATATAATATAATAAAA-TAAA
* *
31136959 TATATAATATTATAATATAAA
1 TATATAATATAATAAAATAAA
31136980 TAT
1 TAT
31136983 TAAAAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TATATAATATAATAAAATAAA
Found at i:31137643 original size:19 final size:20
Alignment explanation
Indices: 31137599--31137643 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
31137589 TTTTTATTAC
*
31137599 AATTTATGTGTTGATAAGTA
1 AATTTATGTGTTGAGAAGTA
31137619 AA-TTATGATGTTG-GAA-TA
1 AATTTATG-TGTTGAGAAGTA
31137637 AATTTAT
1 AATTTAT
31137644 AAATAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 4 0.18
19 11 0.50
20 7 0.32
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (20 bp):
AATTTATGTGTTGAGAAGTA
Found at i:31139509 original size:2 final size:2
Alignment explanation
Indices: 31139502--31139534 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
31139492 TAATGGAGAA
31139502 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
31139535 NNNNNNNNNN
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31142541 original size:81 final size:81
Alignment explanation
Indices: 31142432--31142595 Score: 240
Period size: 81 Copynumber: 2.0 Consensus size: 81
31142422 GGAAAAGGGA
* * * ** *
31142432 ACTTAGATTAGCACAAGAGAAGAATGCAAGAGTTGGGAGAATGTGGAAA-TGTCTCTATTACTCA
1 ACTTAGATTAGAACAAAAGAAGAATGCAAAAGTTAAGAGAATGT-GAAAGTATCTCTATTACTCA
31142496 AATAAGCTAGCTTGGAT
65 AATAAGCTAGCTTGGAT
*
31142513 ACTTAGATTAGAACAAAAGAATAATGCAAAAGTTAAGAGAATGTGAAAGTATCTCTATTACTCAA
1 ACTTAGATTAGAACAAAAGAAGAATGCAAAAGTTAAGAGAATGTGAAAGTATCTCTATTACTCAA
*
31142578 ATAAGCTATCTTGGAT
66 ATAAGCTAGCTTGGAT
31142594 AC
1 AC
31142596 AAAAGAGGAA
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 4 0.05
81 70 0.95
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (81 bp):
ACTTAGATTAGAACAAAAGAAGAATGCAAAAGTTAAGAGAATGTGAAAGTATCTCTATTACTCAA
ATAAGCTAGCTTGGAT
Found at i:31147060 original size:99 final size:103
Alignment explanation
Indices: 31146880--31147095 Score: 311
Period size: 99 Copynumber: 2.1 Consensus size: 103
31146870 CATTTATCTC
* *
31146880 TTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTGTCACTGATCAGAAGTACT
1 TTGTCATTGATTAGATAAGTGTAGCTAAAACTACCACTTATCA--T-TCACTGATCAGAAGTACT
*
31146945 CAAATCTGACGTTCCGCTCAATTTGATCATTTATTCGGTTT
63 CAAATCTGACGTTCCGCTCAATTTGATCATTTATTCGATTT
*
31146986 TTGTCATTGATTAGATAAGTGTAGCTAAAGCTACCAC-T-T-A-TCACTGATCAGAAGTACTCAA
1 TTGTCATTGATTAGATAAGTGTAGCTAAAACTACCACTTATCATTCACTGATCAGAAGTACTCAA
31147047 AT-TCGACGTTCCGCTCAATTTGATCATTTATTCGATTT
66 ATCT-GACGTTCCGCTCAATTTGATCATTTATTCGATTT
31147085 TTG-CATT-ATTA
1 TTGTCATTGATTA
31147096 TTTTATTTTC
Statistics
Matches: 105, Mismatches: 4, Indels: 11
0.88 0.03 0.09
Matches are distributed among these distances:
97 4 0.04
98 5 0.05
99 59 0.56
103 1 0.01
104 1 0.01
105 1 0.01
106 34 0.32
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (103 bp):
TTGTCATTGATTAGATAAGTGTAGCTAAAACTACCACTTATCATTCACTGATCAGAAGTACTCAA
ATCTGACGTTCCGCTCAATTTGATCATTTATTCGATTT
Found at i:31150604 original size:52 final size:55
Alignment explanation
Indices: 31150526--31150630 Score: 171
Period size: 52 Copynumber: 2.0 Consensus size: 55
31150516 CAAAAAAAAG
*
31150526 TTTTTGAGGTTTGGTGGAAGTAAAAGTTTTGGGGA-AAAGT-AAAAAGAAAAATA
1 TTTTTGAGGTTTGGTAGAAGTAAAAGTTTTGGGGAGAAAGTAAAAAAGAAAAATA
*
31150579 TTTTTGGGGTTTGG-AGAAGTAAAAGTTTTGGGGAGAAAGTAAAAAAGAAAAA
1 TTTTTGAGGTTTGGTAGAAGTAAAAGTTTTGGGGAGAAAGTAAAAAAGAAAAA
31150631 AATTGGGGGT
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
52 19 0.40
53 18 0.38
54 11 0.23
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.29
Consensus pattern (55 bp):
TTTTTGAGGTTTGGTAGAAGTAAAAGTTTTGGGGAGAAAGTAAAAAAGAAAAATA
Found at i:31150640 original size:52 final size:52
Alignment explanation
Indices: 31150533--31150661 Score: 163
Period size: 52 Copynumber: 2.4 Consensus size: 52
31150523 AAGTTTTTGA
* *
31150533 GGTTTGGTGGAAGTAAAAGTTTTGGGGAAAAGTAAAAAGAAAAATATTTTTGG
1 GGTTTGG-GGAAGTAAAAGTTTTGGGGAAAAGTAAAAAGAAAAATATATTGGG
*
31150586 GGTTTGGAGAAGTAAAAGTTTTGGGGAGAAAGTAAAAAAGAAAAA-A-ATTGGG
1 GGTTTGGGGAAGTAAAAGTTTTGGGGA-AAAGT-AAAAAGAAAAATATATTGGG
*
31150638 GGTTTAGGGGGAAGTAAAATTTTT
1 GGTTT--GGGGAAGTAAAAGTTTT
31150662 TAGGGGCNNN
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
52 28 0.42
53 13 0.19
54 26 0.39
ACGTcount: A:0.40, C:0.00, G:0.32, T:0.28
Consensus pattern (52 bp):
GGTTTGGGGAAGTAAAAGTTTTGGGGAAAAGTAAAAAGAAAAATATATTGGG
Found at i:31155548 original size:13 final size:13
Alignment explanation
Indices: 31155530--31155555 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31155520 GACTAATTAA
31155530 TTTAATTTCAATT
1 TTTAATTTCAATT
31155543 TTTAATTTCAATT
1 TTTAATTTCAATT
31155556 AATTAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTAATTTCAATT
Found at i:31155565 original size:18 final size:19
Alignment explanation
Indices: 31155523--31155567 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
31155513 TCATAATGAC
31155523 TAATTAATTTAATTTCAAT
1 TAATTAATTTAATTTCAAT
*
31155542 T-TTTAATTTCAA-TT-AAT
1 TAATTAATTT-AATTTCAAT
31155559 TAATTAATT
1 TAATTAATT
31155568 AATATTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
17 4 0.18
18 15 0.68
19 3 0.14
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (19 bp):
TAATTAATTTAATTTCAAT
Found at i:31164505 original size:16 final size:17
Alignment explanation
Indices: 31164486--31164545 Score: 52
Period size: 16 Copynumber: 3.5 Consensus size: 17
31164476 AAAAGGAAAT
31164486 AAAAACAAAGCAAA-AG
1 AAAAACAAAGCAAACAG
* * *
31164502 AAAAAAAAAACAGAATAG
1 AAAAACAAAGCA-AACAG
31164520 AAAGAACAAAG-AAACAG
1 AAA-AACAAAGCAAACAG
*
31164537 AGAAACAAA
1 AAAAACAAA
31164546 CGGAACAGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
16 16 0.46
17 8 0.23
18 6 0.17
19 5 0.14
ACGTcount: A:0.75, C:0.10, G:0.13, T:0.02
Consensus pattern (17 bp):
AAAAACAAAGCAAACAG
Found at i:31164575 original size:13 final size:14
Alignment explanation
Indices: 31164557--31164587 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
31164547 GGAACAGGGG
31164557 AAAGAAAGAAA-AA
1 AAAGAAAGAAAGAA
31164570 AAAGAAAGAAAGAA
1 AAAGAAAGAAAGAA
31164584 AAAG
1 AAAG
31164588 GGGAAAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAAAGAA
Found at i:31164593 original size:17 final size:17
Alignment explanation
Indices: 31164552--31164593 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
31164542 CAAACGGAAC
31164552 AGGGGAAAGAAAGAAAA
1 AGGGGAAAGAAAGAAAA
***
31164569 AAAAGAAAGAAAGAAAA
1 AGGGGAAAGAAAGAAAA
31164586 AGGGGAAA
1 AGGGGAAA
31164594 ATAGATTTTT
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (17 bp):
AGGGGAAAGAAAGAAAA
Found at i:31164910 original size:67 final size:67
Alignment explanation
Indices: 31164795--31164930 Score: 227
Period size: 67 Copynumber: 2.0 Consensus size: 67
31164785 TAGAATTGAT
* *
31164795 AAAGGGATTAAATTGTAAAAGAAACTATAAGTTTTATGTTTTAGGGACTAAATTGAGGGAAATTC
1 AAAGGGATTAAATTGTAAAAGAAACTATAAGTTTTATGTTTTAAGGACTAAATTGAGAGAAATTC
31164860 GA
66 GA
* * *
31164862 AAAGTGATTAAATTGTAAAAGAAACTGTAAGTTTTATGTTTTAAGGACTAAATTTAGAGAAATTC
1 AAAGGGATTAAATTGTAAAAGAAACTATAAGTTTTATGTTTTAAGGACTAAATTGAGAGAAATTC
31164927 GA
66 GA
31164929 AA
1 AA
31164931 TTAGGAAAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.32
Consensus pattern (67 bp):
AAAGGGATTAAATTGTAAAAGAAACTATAAGTTTTATGTTTTAAGGACTAAATTGAGAGAAATTC
GA
Found at i:31165303 original size:6 final size:6
Alignment explanation
Indices: 31165292--31165322 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
31165282 ATGTGAGGTA
*
31165292 AGTATT AGTATT AGTATT AGTATT ATTATT A
1 AGTATT AGTATT AGTATT AGTATT AGTATT A
31165323 AGATGAGTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (6 bp):
AGTATT
Found at i:31165510 original size:24 final size:27
Alignment explanation
Indices: 31165473--31165536 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
31165463 AATTGCGGAT
*
31165473 TAATTATTG-ATTGAAAG-GTG-GAAA
1 TAATGATTGAATTGAAAGTGTGAGAAA
31165497 -AATGATTGAATTGAAAGTGTGAGAAA
1 TAATGATTGAATTGAAAGTGTGAGAAA
**
31165523 TTGTGATTGAATTG
1 TAATGATTGAATTG
31165537 GGATTATATG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 7 0.21
24 8 0.24
25 3 0.09
26 4 0.12
27 11 0.33
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.34
Consensus pattern (27 bp):
TAATGATTGAATTGAAAGTGTGAGAAA
Found at i:31168099 original size:12 final size:12
Alignment explanation
Indices: 31168066--31168091 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31168056 ATAAATAGCT
31168066 TTTCACAATTTA
1 TTTCACAATTTA
31168078 TTTCACAATTTA
1 TTTCACAATTTA
31168090 TT
1 TT
31168092 ATACAATTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (12 bp):
TTTCACAATTTA
Found at i:31172186 original size:25 final size:24
Alignment explanation
Indices: 31172148--31172195 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
31172138 ATCCAGACAA
31172148 TATAACGAGAAGCTCACAAAGAGCC
1 TATAACGAGAAGCTC-CAAAGAGCC
* * *
31172173 TATAACGGGTAGCTCCGAAGAGC
1 TATAACGAGAAGCTCCAAAGAGC
31172196 ACTTAACAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.15
Consensus pattern (24 bp):
TATAACGAGAAGCTCCAAAGAGCC
Found at i:31179249 original size:125 final size:126
Alignment explanation
Indices: 31179036--31179281 Score: 359
Period size: 125 Copynumber: 2.0 Consensus size: 126
31179026 GGGTTCAGTA
* * *
31179036 ATTTTGCTGACAGTGCATCCTGCTTGAAGTGTTTTTTACACTATTTTTTTAGAACCGTTTTCTCA
1 ATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTCACACTATTTTTTTAGAACCGTCTTCTCA
* *
31179101 AAATTATTTTTTTAGAAACTACTGTAGAAAAAGAGTGTCCACATGAGAGCTTTTTTTAGTG
66 AAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCACATGAGAGCTTTTTTTAGTG
* * **
31179162 ATTTTGTTGATAGTGCATTTTGCTTGAAGCGTTTTTCACACTA-TTTTTTAGAACCGTCTTCTCA
1 ATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTCACACTATTTTTTTAGAACCGTCTTCTCA
* * * * *
31179226 AAATTATTTTTTCAGGAACTACTGTAGAAAAATAGCGTCTACGTGGGAGCTTTTTT
66 AAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCACATGAGAGCTTTTTT
31179282 CAATACTTTT
Statistics
Matches: 106, Mismatches: 14, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
125 69 0.65
126 37 0.35
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (126 bp):
ATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTCACACTATTTTTTTAGAACCGTCTTCTCA
AAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCACATGAGAGCTTTTTTTAGTG
Found at i:31182365 original size:34 final size:34
Alignment explanation
Indices: 31182312--31182401 Score: 126
Period size: 34 Copynumber: 2.6 Consensus size: 34
31182302 TTTTTTAAAA
*
31182312 AAACACTAATTTAATTAATTTTCTTAAAAACCCT
1 AAACCCTAATTTAATTAATTTTCTTAAAAACCCT
* * *
31182346 AAACCCTAATTTAACTAATTTACTTAAAACCCCT
1 AAACCCTAATTTAATTAATTTTCTTAAAAACCCT
* *
31182380 AAAACATAATTTAATTAATTTT
1 AAACCCTAATTTAATTAATTTT
31182402 TAAAAAATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (34 bp):
AAACCCTAATTTAATTAATTTTCTTAAAAACCCT
Found at i:31185622 original size:20 final size:20
Alignment explanation
Indices: 31185597--31185635 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
31185587 GCTCTCTGTG
31185597 TTTTTT-TTATTTTTCTTTTA
1 TTTTTTCTT-TTTTTCTTTTA
31185617 TTTTTTCTTTTTTTCTTTT
1 TTTTTTCTTTTTTTCTTTT
31185636 CGTTTTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.05, C:0.08, G:0.00, T:0.87
Consensus pattern (20 bp):
TTTTTTCTTTTTTTCTTTTA
Found at i:31185641 original size:20 final size:21
Alignment explanation
Indices: 31185596--31185641 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
31185586 AGCTCTCTGT
*
31185596 GTTTTTTTTATTTTTCTTTTA
1 GTTTTTCTTATTTTTCTTTTA
* *
31185617 TTTTTTCTT-TTTTTCTTTTC
1 GTTTTTCTTATTTTTCTTTTA
31185637 GTTTT
1 GTTTT
31185642 GAAAAATGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.04, C:0.09, G:0.04, T:0.83
Consensus pattern (21 bp):
GTTTTTCTTATTTTTCTTTTA
Found at i:31188560 original size:71 final size:71
Alignment explanation
Indices: 31188441--31188654 Score: 288
Period size: 71 Copynumber: 3.0 Consensus size: 71
31188431 TCGGGTTCGG
* * * * * *
31188441 GTTAGTTAGGTAGTTAATTAATGGTAGAATTATATAATTTAGTACTTGTAATTATGGATTCTTAT
1 GTTAGTTA-GTAGTTAATTAGTTGTAGAATTATTTAATTTAGTGCTTGTAATTATTGATTCTGAT
31188506 TGGAATT
65 TGGAATT
* *
31188513 GTTAGTTAGTAGTTAACTAGTTGTAGAATTATTTAGTTTAGTGCTTGTAATTATTGATTCTGATT
1 GTTAGTTAGTAGTTAATTAGTTGTAGAATTATTTAATTTAGTGCTTGTAATTATTGATTCTGATT
*
31188578 GCAATT
66 GGAATT
* * * *
31188584 GCTAGTTA--AGTTAATTAGTTGTAGAGTTATTCAATTTCGTGCTTGTAATTATTGATTCTGATT
1 GTTAGTTAGTAGTTAATTAGTTGTAGAATTATTTAATTTAGTGCTTGTAATTATTGATTCTGATT
31188647 GGAATT
66 GGAATT
31188653 GT
1 GT
31188655 CGATTTAAGT
Statistics
Matches: 125, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
69 56 0.45
71 61 0.49
72 8 0.06
ACGTcount: A:0.28, C:0.05, G:0.20, T:0.47
Consensus pattern (71 bp):
GTTAGTTAGTAGTTAATTAGTTGTAGAATTATTTAATTTAGTGCTTGTAATTATTGATTCTGATT
GGAATT
Found at i:31190356 original size:56 final size:56
Alignment explanation
Indices: 31190289--31190401 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
31190279 CTTTTTAAAT
31190289 ATTTTTAGGTTTATCTCTGTATTTGGTGCCTTAGTTTATAACATCCTACAGAAAAC
1 ATTTTTAGGTTTATCTCTGTATTTGGTGCCTTAGTTTATAACATCCTACAGAAAAC
31190345 ATTTTTAGGTTTATCTCTGTATTTGGTGCCTTAGTTTATAACATCCTACAGAAAAC
1 ATTTTTAGGTTTATCTCTGTATTTGGTGCCTTAGTTTATAACATCCTACAGAAAAC
31190401 A
1 A
31190402 CTTAATGGTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.42
Consensus pattern (56 bp):
ATTTTTAGGTTTATCTCTGTATTTGGTGCCTTAGTTTATAACATCCTACAGAAAAC
Found at i:31192439 original size:177 final size:178
Alignment explanation
Indices: 31192142--31192497 Score: 687
Period size: 177 Copynumber: 2.0 Consensus size: 178
31192132 ATAACAAAAA
31192142 CAGAAAAAATAAAGGAAACAAATTAAGCACAACTTGACCAAATCTAAATTAAAAAAAAAAAACTA
1 CAGAAAAAATAAAGGAAACAAATTAAGCACAACTTGACCAAATCTAAATTAAAAAAAAAAAACTA
31192207 ATTTTGAATCATTCTCCAACACTCCCCCTTGATTCAAGTTTGCACACACCAAGTAAGGCTCTAAA
66 ATTTTGAATCATTCTCCAACACTCCCCCTTGATTCAAGTTTGCACACACCAAGTAAGGCTCTAAA
31192272 ATAACAAAACTTCTCTTTGGACAATGACTTGGTCAGCACATCTGCCAG
131 ATAACAAAACTTCTCTTTGGACAATGACTTGGTCAGCACATCTGCCAG
31192320 CAGAAAAAAT-AAGGAAACAAATTAAGCACAACTTGACCAAATCTAAATTAAAAAAAAAAAACTA
1 CAGAAAAAATAAAGGAAACAAATTAAGCACAACTTGACCAAATCTAAATTAAAAAAAAAAAACTA
31192384 ATTTTGAATCATTCTCCAACACTCCCCCTTGATTCAAGTTTGCACACACCAAGTAAGGCTCTAAA
66 ATTTTGAATCATTCTCCAACACTCCCCCTTGATTCAAGTTTGCACACACCAAGTAAGGCTCTAAA
* *
31192449 ATAACAAAACTTCTCTTTGGACAATGACTTGGTCAGTACATTTGCCAG
131 ATAACAAAACTTCTCTTTGGACAATGACTTGGTCAGCACATCTGCCAG
31192497 C
1 C
31192498 TGATCTTGAG
Statistics
Matches: 176, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
177 166 0.94
178 10 0.06
ACGTcount: A:0.42, C:0.22, G:0.11, T:0.24
Consensus pattern (178 bp):
CAGAAAAAATAAAGGAAACAAATTAAGCACAACTTGACCAAATCTAAATTAAAAAAAAAAAACTA
ATTTTGAATCATTCTCCAACACTCCCCCTTGATTCAAGTTTGCACACACCAAGTAAGGCTCTAAA
ATAACAAAACTTCTCTTTGGACAATGACTTGGTCAGCACATCTGCCAG
Found at i:31195553 original size:18 final size:18
Alignment explanation
Indices: 31195526--31195560 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
31195516 GCCTCGACCT
31195526 CCTCTACCACGATAACCA
1 CCTCTACCACGATAACCA
*
31195544 CCTCTGCCACGATAACC
1 CCTCTACCACGATAACC
31195561 TCTTCTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.46, G:0.09, T:0.17
Consensus pattern (18 bp):
CCTCTACCACGATAACCA
Found at i:31197146 original size:45 final size:44
Alignment explanation
Indices: 31197077--31197232 Score: 184
Period size: 45 Copynumber: 3.7 Consensus size: 44
31197067 TTGTCTTCAT
*
31197077 TAGTCTTTGTTTTCCACTTCTTTCCATGTTATAAGTAAGTTATCA
1 TAGTCTTTGTTTTCCACCTCTTTCCATGTT-TAAGTAAGTTATCA
* *
31197122 TAGTTTTTGTTTTCCACCTCTTTCCATG--T--GT---CT-TCA
1 TAGTCTTTGTTTTCCACCTCTTTCCATGTTTAAGTAAGTTATCA
*
31197158 TTAGTCTTTGTTTTCCACTTCTTTCCATGTTCTAAGTAAGTTATCA
1 -TAGTCTTTGTTTTCCACCTCTTTCCATGTT-TAAGTAAGTTATCA
*
31197204 TAGTTTTTGTTTTCCACCTCTTTCCATGT
1 TAGTCTTTGTTTTCCACCTCTTTCCATGT
31197233 GCTGGGCAAG
Statistics
Matches: 93, Mismatches: 8, Indels: 20
0.77 0.07 0.17
Matches are distributed among these distances:
36 3 0.03
37 27 0.29
40 3 0.03
42 3 0.03
45 54 0.58
46 3 0.03
ACGTcount: A:0.17, C:0.21, G:0.11, T:0.51
Consensus pattern (44 bp):
TAGTCTTTGTTTTCCACCTCTTTCCATGTTTAAGTAAGTTATCA
Found at i:31197205 original size:82 final size:82
Alignment explanation
Indices: 31197064--31197233 Score: 324
Period size: 82 Copynumber: 2.1 Consensus size: 82
31197054 TATATACTCC
31197064 CCAT-TGTCTTCATTAGTCTTTGTTTTCCACTTCTTTCCATGTTATAAGTAAGTTATCATAGTTT
1 CCATGTGTCTTCATTAGTCTTTGTTTTCCACTTCTTTCCATGTTATAAGTAAGTTATCATAGTTT
31197128 TTGTTTTCCACCTCTTT
66 TTGTTTTCCACCTCTTT
*
31197145 CCATGTGTCTTCATTAGTCTTTGTTTTCCACTTCTTTCCATGTTCTAAGTAAGTTATCATAGTTT
1 CCATGTGTCTTCATTAGTCTTTGTTTTCCACTTCTTTCCATGTTATAAGTAAGTTATCATAGTTT
31197210 TTGTTTTCCACCTCTTT
66 TTGTTTTCCACCTCTTT
31197227 CCATGTG
1 CCATGTG
31197234 CTGGGCAAGT
Statistics
Matches: 87, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
81 4 0.05
82 83 0.95
ACGTcount: A:0.16, C:0.22, G:0.11, T:0.51
Consensus pattern (82 bp):
CCATGTGTCTTCATTAGTCTTTGTTTTCCACTTCTTTCCATGTTATAAGTAAGTTATCATAGTTT
TTGTTTTCCACCTCTTT
Found at i:31197244 original size:45 final size:45
Alignment explanation
Indices: 31197159--31197244 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 45
31197149 GTGTCTTCAT
* * *
31197159 TAGTCTTTGTTTTCCACTTCTTTCCATGTTCTAAGTAAGTTATCA
1 TAGTCTTTGTTTTCCACCTCTTTCCATGTGCTAAGCAAGTTATCA
* **
31197204 TAGTTTTTGTTTTCCACCTCTTTCCATGTGCTGGGCAAGTT
1 TAGTCTTTGTTTTCCACCTCTTTCCATGTGCTAAGCAAGTT
31197245 CCCGCGTCTG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.16, C:0.21, G:0.15, T:0.48
Consensus pattern (45 bp):
TAGTCTTTGTTTTCCACCTCTTTCCATGTGCTAAGCAAGTTATCA
Found at i:31197755 original size:68 final size:68
Alignment explanation
Indices: 31197646--31197854 Score: 418
Period size: 68 Copynumber: 3.1 Consensus size: 68
31197636 AATAAATTAC
31197646 AGAACATGACGTCATATAGTTATCGACACAACTAAGACAGCTAAGTCCAAACCATGTAACATTAC
1 AGAACATGACGTCATATAGTTATCGACACAACTAAGACAGCTAAGTCCAAACCATGTAACATTAC
31197711 TAA
66 TAA
31197714 AGAACATGACGTCATATAGTTATCGACACAACTAAGACAGCTAAGTCCAAACCATGTAACATTAC
1 AGAACATGACGTCATATAGTTATCGACACAACTAAGACAGCTAAGTCCAAACCATGTAACATTAC
31197779 TAA
66 TAA
31197782 AGAACATGACGTCATATAGTTATCGACACAACTAAGACAGCTAAGTCCAAACCATGTAACATTAC
1 AGAACATGACGTCATATAGTTATCGACACAACTAAGACAGCTAAGTCCAAACCATGTAACATTAC
31197847 TAA
66 TAA
31197850 AGAAC
1 AGAAC
31197855 TGCTATTGCT
Statistics
Matches: 141, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 141 1.00
ACGTcount: A:0.43, C:0.22, G:0.13, T:0.22
Consensus pattern (68 bp):
AGAACATGACGTCATATAGTTATCGACACAACTAAGACAGCTAAGTCCAAACCATGTAACATTAC
TAA
Found at i:31202992 original size:37 final size:37
Alignment explanation
Indices: 31202951--31203108 Score: 307
Period size: 37 Copynumber: 4.3 Consensus size: 37
31202941 TCAATAGTCT
31202951 AACAAGACAATCAATTTGCAAGACAAGGTATATTCCA
1 AACAAGACAATCAATTTGCAAGACAAGGTATATTCCA
31202988 AACAAGACAATCAATTTGCAAGACAAGGTATATTCCA
1 AACAAGACAATCAATTTGCAAGACAAGGTATATTCCA
31203025 AACAAGACAATCAATTTGCAAGACAAGGTATATTCCA
1 AACAAGACAATCAATTTGCAAGACAAGGTATATTCCA
31203062 AACAAGACAATCAATTTGCAAGACAAGGTATATTCCA
1 AACAAGACAATCAATTTGCAAGACAAGGTATATTCCA
*
31203099 AACAAAACAA
1 AACAAGACAA
31203109 AGAAATTTGC
Statistics
Matches: 120, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 120 1.00
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.20
Consensus pattern (37 bp):
AACAAGACAATCAATTTGCAAGACAAGGTATATTCCA
Found at i:31204641 original size:59 final size:59
Alignment explanation
Indices: 31204576--31204695 Score: 240
Period size: 59 Copynumber: 2.0 Consensus size: 59
31204566 GGCAAAGCTA
31204576 TAGTCAATATGTTGAATGTATATGGACAGTCATGCAGAGTCATGGAAAAAGAAAATCCT
1 TAGTCAATATGTTGAATGTATATGGACAGTCATGCAGAGTCATGGAAAAAGAAAATCCT
31204635 TAGTCAATATGTTGAATGTATATGGACAGTCATGCAGAGTCATGGAAAAAGAAAATCCT
1 TAGTCAATATGTTGAATGTATATGGACAGTCATGCAGAGTCATGGAAAAAGAAAATCCT
31204694 TA
1 TA
31204696 CTTGAACAAC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.28
Consensus pattern (59 bp):
TAGTCAATATGTTGAATGTATATGGACAGTCATGCAGAGTCATGGAAAAAGAAAATCCT
Found at i:31216680 original size:18 final size:18
Alignment explanation
Indices: 31216657--31216693 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
31216647 ACCAGGTGCA
*
31216657 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
31216675 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
31216693 T
1 T
31216694 TTGCTTTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.27, G:0.08, T:0.41
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:31218923 original size:15 final size:15
Alignment explanation
Indices: 31218903--31218942 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
31218893 AATAAAGTAT
31218903 GTTAAGTAATGCAAC
1 GTTAAGTAATGCAAC
31218918 GTTAAGTAATGCAAC
1 GTTAAGTAATGCAAC
*
31218933 ATTAAGTAAT
1 GTTAAGTAAT
31218943 AACAATATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.30
Consensus pattern (15 bp):
GTTAAGTAATGCAAC
Found at i:31220506 original size:125 final size:126
Alignment explanation
Indices: 31220251--31220770 Score: 735
Period size: 125 Copynumber: 4.2 Consensus size: 126
31220241 TAAGGCCAAA
**
31220251 CAGGAACTACTGTAGAAAAAGATAGTCCACGTGGGAG-TTTTTTCAGTAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * *
31220315 ATCCTGCTTGAAGTGTTTTTGACACTATTTTTTCAGAACCGTCTTCTTAAAATTATTTTTT
66 ATCCTACTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
31220376 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCCTTTTTT-AGTAATTTTGCTGACAGTG
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAG-CTTTTTTCAGTAATTTTGCTGACAGTG
* * *
31220440 CATCTTACTTTAAGCGTTTTTGACACTATTTTTTCAGAACAGTCTTCTCAAAATTA-TTTTT
65 CATCCTACTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
* *
31220501 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAAATTTACTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * *
31220566 ATCCTACTTGAAGCATTTTTGAAATTATTTTTT-AGAACCGTCTTCTCAAAATTATTTTTT
66 ATCCTACTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * * * *
31220626 CAGGAACTACTGTAGAAAAATAGCGTCCACGT-GGAGTTTTTTTCAGTAATTTTGATAATAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * * * ** * *
31220690 ATCCTGCTTGAAGCGTTTTTAACATTATCTTTTCAGAGTCGTCTTCTCAAAATTAATTATT
66 ATCCTACTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * *
31220751 CTGAAACTACTGTAAAAAAA
1 CAGGAACTACTGTAGAAAAA
31220771 AAAACAAAAT
Statistics
Matches: 355, Mismatches: 35, Indels: 10
0.89 0.09 0.03
Matches are distributed among these distances:
124 81 0.23
125 199 0.56
126 69 0.19
127 6 0.02
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (126 bp):
CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
ATCCTACTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
Found at i:31220895 original size:34 final size:32
Alignment explanation
Indices: 31220827--31220960 Score: 117
Period size: 34 Copynumber: 4.0 Consensus size: 32
31220817 CTAAACACAA
*** *
31220827 AATT-ATTTTTTAAAAAAACTAACCCTAATTT
1 AATTAATTTTTTAAAAACTTTAAACCTAATTT
31220858 AATTAATTTTCTTAAAAACTTTAAACCTTAATTT
1 AATTAATTTT-TTAAAAACTTTAAACC-TAATTT
* * * *
31220892 AATTTATTTATTTAAAACACCTAAAACCTAGTTT
1 AATTAATTT-TTTAAAA-ACTTTAAACCTAATTT
* *
31220926 AATTAATTTTTTTAAAAACTCTAAACTCTGATTT
1 AATTAA-TTTTTTAAAAACTTTAAAC-CTAATTT
31220960 A
1 A
31220961 TTTTTTAAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
31 4 0.05
32 5 0.06
33 18 0.22
34 43 0.52
35 12 0.15
ACGTcount: A:0.42, C:0.13, G:0.01, T:0.44
Consensus pattern (32 bp):
AATTAATTTTTTAAAAACTTTAAACCTAATTT
Found at i:31220960 original size:68 final size:66
Alignment explanation
Indices: 31220829--31220967 Score: 167
Period size: 68 Copynumber: 2.1 Consensus size: 66
31220819 AAACACAAAA
* *
31220829 TTATTT-TTTAAAAAAACTAACCCTAATTTAATTAATTTTCTTAAAAACTTTAAACCTTAATTTA
1 TTATTTATTTAAAAAAACTAAACCTAATTTAATTAATTTTCTTAAAAACTCTAAACCTTAATTT-
31220893 AT
65 AT
* * * * *
31220895 TTATTTATTTAAAACACCTAAAACCTAGTTTAATTAATTTTTTTAAAAACTCTAAA-CTCTGATT
1 TTATTTATTTAAAAAAACT-AAACCTAATTTAATTAATTTTCTTAAAAACTCTAAACCT-TAATT
31220959 TAT
64 TAT
31220962 TT-TTTA
1 TTATTTA
31220968 AAATTTTTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
66 10 0.16
67 16 0.25
68 37 0.59
ACGTcount: A:0.40, C:0.12, G:0.01, T:0.47
Consensus pattern (66 bp):
TTATTTATTTAAAAAAACTAAACCTAATTTAATTAATTTTCTTAAAAACTCTAAACCTTAATTTA
T
Found at i:31222963 original size:82 final size:83
Alignment explanation
Indices: 31222805--31222970 Score: 210
Period size: 82 Copynumber: 2.0 Consensus size: 83
31222795 AATTGCCGTT
** * * *
31222805 AATTAAATTCCATTAATTAATGCAATTAAAGCTGTACATGGGCATAAAATTGCCATTGGAAAGGC
1 AATTAAATTCCATTAATTAATGCAATTAAAGCTGTACATAAGAATAAAATTGCCATTGAAAAGAC
**
31222870 GGAATGAGTTTT-ATTGC
66 AAAATGAGTTTTAATTGC
** *
31222887 AATTAAATTCCATTAATTAATGCAATTTTAGCTGTATATAAGAATAAAATTG-CAGTTGAAAAGA
1 AATTAAATTCCATTAATTAATGCAATTAAAGCTGTACATAAGAATAAAATTGCCA-TTGAAAAGA
*
31222951 CAAAATGGGTTTTAATTGC
65 CAAAATGAGTTTTAATTGC
31222970 A
1 A
31222971 GCAATGAATG
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
81 2 0.03
82 63 0.89
83 6 0.08
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (83 bp):
AATTAAATTCCATTAATTAATGCAATTAAAGCTGTACATAAGAATAAAATTGCCATTGAAAAGAC
AAAATGAGTTTTAATTGC
Found at i:31227949 original size:16 final size:16
Alignment explanation
Indices: 31227925--31227955 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31227915 AAAAGAATTT
31227925 TATTGGATAAATGATA
1 TATTGGATAAATGATA
*
31227941 TATTTGATAAATGAT
1 TATTGGATAAATGAT
31227956 TGGTCATATA
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:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (16 bp):
TATTGGATAAATGATA
Found at i:31231311 original size:84 final size:88
Alignment explanation
Indices: 31231135--31231303 Score: 206
Period size: 86 Copynumber: 2.0 Consensus size: 88
31231125 TAATTTTTCC
*
31231135 TTTTCATTTTTAGGAGAGTTAAAGGGCAATTTTACTATATATTAATTTTTAATTTCTTTATTTAT
1 TTTTCATTTTTAGGAGAGTTAAAGGGCAATTTTACTATATATTAATTTTTAA-TTCTTTATCTAT
*
31231200 TTATAAGTGAACTGAATTGAAAAT
65 TTATAAGAGAACTGAATTGAAAAT
* * * *
31231224 TTTTCA-TTTT-GGAG-GTTGAAGTGTAATTTTACTATATATATTATTTTATAA-T-TTT-TCTA
1 TTTTCATTTTTAGGAGAGTTAAAGGGCAATTTTACTATATAT-TAATTTT-TAATTCTTTATCTA
*
31231283 TTTATAAGAGAATTGAATTGA
64 TTTATAAGAGAACTGAATTGA
31231304 TTTTTTTTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
84 22 0.31
85 3 0.04
86 23 0.32
87 10 0.14
88 7 0.10
89 6 0.08
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.50
Consensus pattern (88 bp):
TTTTCATTTTTAGGAGAGTTAAAGGGCAATTTTACTATATATTAATTTTTAATTCTTTATCTATT
TATAAGAGAACTGAATTGAAAAT
Found at i:31242848 original size:34 final size:34
Alignment explanation
Indices: 31242798--31242862 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
31242788 ACGACCGTTT
* * * *
31242798 ACGATACTATTTACGTATACGATATTGTTCATCC
1 ACGACACTATTCACGTAGACGATACTGTTCATCC
*
31242832 ACGACACTATTCACGTAGACGGTACTGTTCA
1 ACGACACTATTCACGTAGACGATACTGTTCA
31242863 CGTATACAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (34 bp):
ACGACACTATTCACGTAGACGATACTGTTCATCC
Found at i:31257233 original size:3 final size:3
Alignment explanation
Indices: 31257227--31257274 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
31257217 TTAGTTTTTG
* * *
31257227 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA CTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
31257275 CTATATATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:31257918 original size:3 final size:3
Alignment explanation
Indices: 31257912--31257968 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
31257902 TTTGTTGTTG
31257912 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
31257960 TTA TTA TTA
1 TTA TTA TTA
31257969 CTATATATAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:31258604 original size:3 final size:3
Alignment explanation
Indices: 31258598--31258645 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
31258588 TTAGTTTTTG
* * *
31258598 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA CTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
31258646 CTATATATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:31258871 original size:676 final size:670
Alignment explanation
Indices: 31257056--31259092 Score: 2520
Period size: 676 Copynumber: 3.0 Consensus size: 670
31257046 GTGCTTCAGC
31257056 GACTTGGGAAAATTTCTTTTTAAGTCCCCCACTCATGGCGCGCGTATCAATTTGGTCCTTCAGGG
1 GACTTGGGAAAATTTCTTTTTAAGTCCCCCACTCATGGCGCGCGTATCAATTTGGTCCTTCAGGG
31257121 TGTTTTCTATTTTTAAATTTGGCCTTTTAACTTCGTTTAGCTCTCAGTTTAATCCTTAATGGTGC
66 TGTTTTCTATTTTTAAATTTGGCCTTTTAACTTCGTTTAGCTCTCAGTTTAATCCTTAATGGTGC
31257186 TTTTTAAGGTTTTTTTTTGTAGTTTATTTTTTTAGTTTTTGTTATTATTATTATTATTATTATTA
131 TTTTTAAGGTTTTTTTTTGTAGTTTATTTTTTTAGTTTTTGTTATTATTATTATTATTATTATTA
31257251 TTATTATTGTTACTATTATCATTACTATATATATATACATATGCATATTTTTTATAATAATGTAT
196 TTATTATTGTTACTATTATCATTACTATATATATATACATATGCATATTTTTTATAATAATGTAT
31257316 ACATACATTTAAAAAAAAAAACTTTTATAAACACATGCACCTTACATATATTTATATTTTTTTAT
261 ACATACATTTAAAAAAAAAAACTTTTATAAACACATGCACCTTACATATATTTATATTTTTTTAT
31257381 TATTTTATTTGCATAACTTTTTTATACTCTTATATACATATATAGATATAGATATACACATATGC
326 TATTTTATTTGCATAACTTTTTTATACTCTTATATACATATATAGATATAGATATACACATATGC
31257446 CATTCAAAATGATTGTAAATAGATTTTCCGTTTTTTTATACATACATATACATATTTTCGTAATT
391 CATTCAAAATGATTGTAAATAGATTTTCCGTTTTTTTATACATACATATACATATTTTCGTAATT
**** * **** ** *
31257511 TCTTAATACATTATATTTTTTATTTTTGTCTTATAAGGGGGGGTGGATCCGCGCGTTGACCAGAC
456 TCTTAATACATTATATTTTTTATTTTTGTCTTATAA--GTACAT-G-TAC-ATATTTTTCCATA-
*** ** * * * * * ** * * ** * * * *
31257576 CCGCAAAGGGGATCCGCGCGTCTCCACCCTGA-ATG-GGGAAATTGCGCACCTAGCCCT-TCCTC
515 ATTC---TTGTAT----ACATAT-TA-TAT-ATATGTGTG-TATTG-GCATTTTG--GTATGCAC
* * * * * * * *
31257638 TTTTGCTACGTGTTTCAATCATGTTTT-T-TTTCTTTTTA-AA--TTCAGCC--CAAATATT-TT
566 --AT-ATAC-TATTTCTATTAT-TTTTATCTTGC-TTTCACAATCTTCA-CCTACAAATATTATA
* * * ** * * **** ** * **
31257695 TCTCGCGTGACGA---TTTA-ATCCATGTCACT--GCACAGTGCT-T-CAGC
624 TAT-ACAT-AC-ATTTTTTAGA-AAATATTA-TAAGTTTTGTTTTATATATT
* * * * **
31257739 GACTTGGGAAAATTGT-TTTTTAAGTCCTCCTCTCATGGCGCGTGTATCACTTTGGTCCTTCCTG
1 GACTTGGGAAAATT-TCTTTTTAAGTCCCCCACTCATGGCGCGCGTATCAATTTGGTCCTTCAGG
* * *
31257803 TTGTTTTCTATTTTTAAATTTGGCCTTTTAACTTCGTTTAGCTCTCAGTCTAATCCTTAATGATG
65 GTGTTTTCTATTTTTAAATTTGGCCTTTTAACTTCGTTTAGCTCTCAGTTTAATCCTTAATGGTG
* * *
31257868 CTTTTTAAGGTTTTTTTTAGTTTATTTTTTAGTTTTTGTT-GTTGTTATTATTATTATTATTATT
130 CTTTTTAAGGTTTTTTTT--TGTA--GTTTA-TTTTT-TTAG-T-TT-TTGTTATTATTATTATT
* * * * *
31257932 ATTATTATTATTATTATTATTATTATTATTATTATTACTATATATATACATACGCATATTTTTTT
186 ATTATTATTATTATTATTGTTACTATTATCATTACTA-TATATATATACATATGCATA-TTTTTT
**
31257997 ATAATAATGTATACATACAGTTTTTTAAAAAAAAACTTTTATAAACACATGCACCTTACATATAT
249 ATAATAATGTATACATACA--TTTAAAAAAAAAAACTTTTATAAACACATGCACCTTACATATAT
** *
31258062 TTAT-TTATTTATT-TTATTCTT-TTTGCATAACTTTCATATACTCTTATATACATATATAAATA
312 TTATATT-TTT-TTATTATT-TTATTTGCATAACTTTTTTATACTCTTATATACATATATAGATA
* * * *
31258124 TAGATATACACATACGCCATTCAAAATGATTGTAAATAGATTTTTCGTATTTTTT-TATATATAT
374 TAGATATACACATATGCCATTCAAAATGATTGTAAATAGATTTTCCGT-TTTTTTATACATACAT
*
31258188 ATACATATTTTCATAATTTCTTAATACATTATATTTTTTATTTTTGTCTTATAAGTACATGTACA
438 ATACATATTTTCGTAATTTCTTAATACATTATATTTTTTATTTTTGTCTTATAAGTACATGTACA
31258253 TATTTTTCCATAATTCTTGTATACATATTATATATATATATGTGTGTATTGGCATTTTGGTATGC
503 TATTTTTCCATAATTCTTGTATAC--A-TAT-TATATATATGTGTGTATTGGCATTTTGGTATGC
*
31258318 ACATATAC-ATTTCTATTATTTTTATCTTGCTTACACAATCTTCACCTACATATATATATATATA
564 ACATATACTATTTCTATTATTTTTATCTTGCTTTCACAATCTTCACCTACA-A-ATAT-TATATA
*
31258382 TATATACATTTTTTAGAAAATATTATAAGTTTTGTTTTATATATT
626 TACATACATTTTTTAGAAAATATTATAAGTTTTGTTTTATATATT
31258427 GACTTGGGAAAATTTCTTTTTAAGTCCCCCACTCATGGCGCGCGTATCAATTTGGTCCTTCAGGG
1 GACTTGGGAAAATTTCTTTTTAAGTCCCCCACTCATGGCGCGCGTATCAATTTGGTCCTTCAGGG
31258492 TGTTTTCTATTTTTAAATTTGGCCTTTTAACTTCGTTTAGCTCTCAGTTTAATCCTTAATGGTGC
66 TGTTTTCTATTTTTAAATTTGGCCTTTTAACTTCGTTTAGCTCTCAGTTTAATCCTTAATGGTGC
31258557 TTTTTAAGGTTTTTTTTTGTAGTTTATTTTTTTAGTTTTTGTTATTATTATTATTATTATTATTA
131 TTTTTAAGGTTTTTTTTTGTAGTTTATTTTTTTAGTTTTTGTTATTATTATTATTATTATTATTA
31258622 TTATTATTGTTACTATTATCATTACTATATATATATACATATGCATATTTTTTATAATAATGTAT
196 TTATTATTGTTACTATTATCATTACTATATATATATACATATGCATATTTTTTATAATAATGTAT
31258687 ACATACATTTAAAAAAAAAAACTTTTATAAACACATGCACCTTACATATATTTATATTTTTTTAT
261 ACATACATTTAAAAAAAAAAACTTTTATAAACACATGCACCTTACATATATTTATATTTTTTTAT
31258752 TATTTTATTTGCATAACTTTTTTATACTCTTATATACATATATAGATATAGATATACACATATGC
326 TATTTTATTTGCATAACTTTTTTATACTCTTATATACATATATAGATATAGATATACACATATGC
31258817 CATTCAAAATGATTGTAAATAGATTTTCCGTTTTTTTATACATACATATACATATTTTCGTAATT
391 CATTCAAAATGATTGTAAATAGATTTTCCGTTTTTTTATACATACATATACATATTTTCGTAATT
*
31258882 TCTTAATACATTATATTTTTTATTTTTGTCTTATAAGTACATGTACATATTTTTCCATAATTTTT
456 TCTTAATACATTATATTTTTTATTTTTGTCTTATAAGTACATGTACATATTTTTCCATAATTCTT
*
31258947 GTATACATATTATATATATGTGTGTATTGGCATTTTGGTATGCACATATACATACTTTTATATTA
521 GTATACATATTATATATATGTGTGTATTGGCATTTTGGTATGCACATATAC-TA--TTTCTATTA
31259012 TTTTTATCTTGCTTTCACAATCTTCACCTAC-------ATATATACATACATTTTTTAGAAAATA
583 TTTTTATCTTGCTTTCACAATCTTCACCTACAAATATTATATATACATACATTTTTTAGAAAATA
31259070 TTATAAGTTTTGTTTTATATATT
648 TTATAAGTTTTGTTTTATATATT
31259093 TCATTCGTTT
Statistics
Matches: 1184, Mismatches: 117, Indels: 123
0.83 0.08 0.09
Matches are distributed among these distances:
666 49 0.04
672 41 0.03
673 3 0.00
674 2 0.00
675 10 0.01
676 274 0.23
677 14 0.01
678 30 0.03
679 24 0.02
680 54 0.05
681 5 0.00
682 9 0.01
683 154 0.13
684 16 0.01
685 19 0.02
686 11 0.01
687 6 0.01
688 143 0.12
689 4 0.00
690 8 0.01
691 51 0.04
692 20 0.02
693 27 0.02
694 2 0.00
695 198 0.17
696 10 0.01
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.48
Consensus pattern (670 bp):
GACTTGGGAAAATTTCTTTTTAAGTCCCCCACTCATGGCGCGCGTATCAATTTGGTCCTTCAGGG
TGTTTTCTATTTTTAAATTTGGCCTTTTAACTTCGTTTAGCTCTCAGTTTAATCCTTAATGGTGC
TTTTTAAGGTTTTTTTTTGTAGTTTATTTTTTTAGTTTTTGTTATTATTATTATTATTATTATTA
TTATTATTGTTACTATTATCATTACTATATATATATACATATGCATATTTTTTATAATAATGTAT
ACATACATTTAAAAAAAAAAACTTTTATAAACACATGCACCTTACATATATTTATATTTTTTTAT
TATTTTATTTGCATAACTTTTTTATACTCTTATATACATATATAGATATAGATATACACATATGC
CATTCAAAATGATTGTAAATAGATTTTCCGTTTTTTTATACATACATATACATATTTTCGTAATT
TCTTAATACATTATATTTTTTATTTTTGTCTTATAAGTACATGTACATATTTTTCCATAATTCTT
GTATACATATTATATATATGTGTGTATTGGCATTTTGGTATGCACATATACTATTTCTATTATTT
TTATCTTGCTTTCACAATCTTCACCTACAAATATTATATATACATACATTTTTTAGAAAATATTA
TAAGTTTTGTTTTATATATT
Found at i:31261369 original size:13 final size:13
Alignment explanation
Indices: 31261347--31261377 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
31261337 GGGTGCAAAC
31261347 AATT-TTATTTTT
1 AATTATTATTTTT
31261359 AATTATTATTTTT
1 AATTATTATTTTT
31261372 AATTAT
1 AATTAT
31261378 GAAATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
AATTATTATTTTT
Found at i:31266559 original size:22 final size:22
Alignment explanation
Indices: 31266534--31266576 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
31266524 TGTTGCTGTT
*
31266534 TTGCTATTATTTTACTATTATA
1 TTGCTACTATTTTACTATTATA
*
31266556 TTGCTACTATTTTATTATTAT
1 TTGCTACTATTTTACTATTAT
31266577 TATTATTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.09, G:0.05, T:0.60
Consensus pattern (22 bp):
TTGCTACTATTTTACTATTATA
Found at i:31276254 original size:36 final size:36
Alignment explanation
Indices: 31276214--31276285 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
31276204 AAATCTATTT
31276214 CAATGATCAATTCAAGATTGGAGTACACCAAGGCTA
1 CAATGATCAATTCAAGATTGGAGTACACCAAGGCTA
31276250 CAATGATCAATTCAAGATTGGAGTACACCAAGGCTA
1 CAATGATCAATTCAAGATTGGAGTACACCAAGGCTA
31276286 AGGCTAAGCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.22
Consensus pattern (36 bp):
CAATGATCAATTCAAGATTGGAGTACACCAAGGCTA
Found at i:31277081 original size:73 final size:72
Alignment explanation
Indices: 31276939--31277086 Score: 165
Period size: 73 Copynumber: 2.0 Consensus size: 72
31276929 TAACATTGGG
* * * *
31276939 ATTAATTCATTTGTTGCCTACTTTTTACGGTTTGAAAAACAAGAACCTCCACACTCATTTGAAAG
1 ATTAATTCATTTATTGCCTAC-TTTTACGGTTTGAAAAACAAGAACCTCCACACTCATCTAAAAA
31277004 AGTTCCAC
65 AGTTCCAC
* * * * *
31277012 ATTAATTCATTTATTGCCTAC-TTTCCGTGATTTGAAAAACGAGAACC-CTTACATTTATCTAAA
1 ATTAATTCATTTATTGCCTACTTTTACG-G-TTTGAAAAACAAGAACCTC-CACACTCATCTAAA
31277075 AAAGTTCCAC
63 AAAGTTCCAC
31277085 AT
1 AT
31277087 GGTTTGTCTA
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
71 5 0.08
72 2 0.03
73 56 0.89
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (72 bp):
ATTAATTCATTTATTGCCTACTTTTACGGTTTGAAAAACAAGAACCTCCACACTCATCTAAAAAA
GTTCCAC
Found at i:31278264 original size:26 final size:27
Alignment explanation
Indices: 31278212--31278269 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
31278202 AACAGAATAG
*
31278212 GAAAACGAAAACAGGGGAGAAAGGAAA
1 GAAAACGAAAACAGGGAAGAAAGGAAA
*
31278239 GAAAACTAAAA-AGGGAAGGAAA-GAAA
1 GAAAACGAAAACAGGGAA-GAAAGGAAA
31278265 GAAAA
1 GAAAA
31278270 TTTGGGATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 14 0.50
27 14 0.50
ACGTcount: A:0.64, C:0.05, G:0.29, T:0.02
Consensus pattern (27 bp):
GAAAACGAAAACAGGGAAGAAAGGAAA
Found at i:31279692 original size:17 final size:17
Alignment explanation
Indices: 31279644--31279692 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
31279634 TAGTGAGTAC
31279644 AAATTGCAATAGAATTGAT
1 AAATTG-AAT-GAATTGAT
31279663 --ATTGAAT-ATATTGAT
1 AAATTGAATGA-ATTGAT
31279678 AAATTGAATGAATTG
1 AAATTGAATGAATTG
31279693 TATATGAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
14 1 0.04
15 6 0.23
16 3 0.12
17 15 0.58
18 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.16, T:0.37
Consensus pattern (17 bp):
AAATTGAATGAATTGAT
Found at i:31280098 original size:29 final size:29
Alignment explanation
Indices: 31280016--31280101 Score: 91
Period size: 30 Copynumber: 2.9 Consensus size: 29
31280006 CCTCTGTACT
* *
31280016 TTTTGAAAATTATATTTTGGCCCCCAATT
1 TTTTGAAAATTATATTTTGGCCCCTAATA
* * **
31280045 TTTTCAAAAATTACATTTTAACCCCTAATA
1 TTTT-GAAAATTATATTTTGGCCCCTAATA
* *
31280075 TTTTGTAAATTATATTTGGGCCCCTAA
1 TTTTGAAAATTATATTTTGGCCCCTAA
31280102 ACTTTTTAGA
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 21 0.48
30 23 0.52
ACGTcount: A:0.31, C:0.17, G:0.08, T:0.43
Consensus pattern (29 bp):
TTTTGAAAATTATATTTTGGCCCCTAATA
Found at i:31280115 original size:59 final size:59
Alignment explanation
Indices: 31279990--31280118 Score: 154
Period size: 59 Copynumber: 2.2 Consensus size: 59
31279980 TGCAAAAAAT
* * * * *
31279990 AAAAATTACATTTTAACCTCTGTACTTTTTGAAAATTATATTTTGGCCCCCAATTTTTTC
1 AAAAATTACATTTTAACCCCTATAC-TTTTGAAAATTATATTTGGGCCCCAAACTTTTTC
*
31280050 AAAAATTACATTTTAACCCCTAATA-TTTTGTAAATTATATTTGGGCCCCTAAACTTTTT-
1 AAAAATTACATTTTAACCCCT-ATACTTTTGAAAATTATATTTGGGCCCC-AAACTTTTTC
*
31280109 AGAAATTACA
1 AAAAATTACA
31280119 CTTCAGCCCT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
59 31 0.52
60 27 0.45
61 2 0.03
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.42
Consensus pattern (59 bp):
AAAAATTACATTTTAACCCCTATACTTTTGAAAATTATATTTGGGCCCCAAACTTTTTC
Done.