Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 144 of 216
Found at i:45542368 original size:20 final size:20
Alignment explanation
Indices: 45542340--45542379 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
45542330 CTCTAACCAA
*
45542340 AATCTCTAAAAATCAGCTAT
1 AATCCCTAAAAATCAGCTAT
* *
45542360 AATCCCTAAAGATTAGCTAT
1 AATCCCTAAAAATCAGCTAT
45542380 TTGGTACTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.30
Consensus pattern (20 bp):
AATCCCTAAAAATCAGCTAT
Found at i:45549011 original size:12 final size:13
Alignment explanation
Indices: 45548993--45549020 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
45548983 TTTAGAAAAA
45548993 CATTTTTAACATT
1 CATTTTTAACATT
45549006 CATTTTTAACATT
1 CATTTTTAACATT
45549019 CA
1 CA
45549021 ATTGATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (13 bp):
CATTTTTAACATT
Found at i:45551084 original size:18 final size:18
Alignment explanation
Indices: 45551061--45551097 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
45551051 TAAGCAAACA
45551061 AAAAATAATCATCACAAG
1 AAAAATAATCATCACAAG
45551079 AAAAATAATCATCACAAG
1 AAAAATAATCATCACAAG
45551097 A
1 A
45551098 TTAGGATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.16, G:0.05, T:0.16
Consensus pattern (18 bp):
AAAAATAATCATCACAAG
Found at i:45551750 original size:184 final size:185
Alignment explanation
Indices: 45551518--45551892 Score: 617
Period size: 184 Copynumber: 2.0 Consensus size: 185
45551508 TCGATACTTT
*
45551518 TTGTGATTGTTTAAAAATCATTAAGTCAGAATGCAAAAACGGTATCGATATCAAAGATGGTATTG
1 TTGTGATTGTTTAAAAATC--TAAGTCAGAATGCAAAAACGGTATCGATATCAAAGATGGTATCG
* * **
45551583 ATAAAAATACAATAGGTATCGATATTTTTTGAAAAGTATTGATACTTTTTGTTTTTGTTCAAATT
64 ATAAAAATACAATAGGTATAGATATTTTTTGAAAAGTATCGATACTTTTTACTTTTGTTCAAATT
* * *
45551648 TTGTTTCAAGTCAGTAAGCAAGTTTGGTATCGATCTTTAAATAGGTATCAATAAAAA
129 TTATTTCAAGTCAGTAAGCAAGTTTGGTATCAATCTTGAAATAGGTATCAATAAAAA
* *
45551705 TTGTGATTGTTTAAAAATC-AAGTTATAATGCAAAAACGGTATCGATATCAAAGATGGTATCGAT
1 TTGTGATTGTTTAAAAATCTAAGTCAGAATGCAAAAACGGTATCGATATCAAAGATGGTATCGAT
* *
45551769 AAAAATACAATAGGTATAGATATTTTTTGAAAGGTATCGATACTTTTTACTTTTGTTCAATTTTT
66 AAAAATACAATAGGTATAGATATTTTTTGAAAAGTATCGATACTTTTTACTTTTGTTCAAATTTT
45551834 ATTTCAAGTCAGTAAGCAAGTTTGGTATCAATCTTGAAATAGGTATCAATAAAAA
131 ATTTCAAGTCAGTAAGCAAGTTTGGTATCAATCTTGAAATAGGTATCAATAAAAA
45551889 TTGT
1 TTGT
45551893 ATGGGTATTG
Statistics
Matches: 176, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
184 157 0.89
187 19 0.11
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (185 bp):
TTGTGATTGTTTAAAAATCTAAGTCAGAATGCAAAAACGGTATCGATATCAAAGATGGTATCGAT
AAAAATACAATAGGTATAGATATTTTTTGAAAAGTATCGATACTTTTTACTTTTGTTCAAATTTT
ATTTCAAGTCAGTAAGCAAGTTTGGTATCAATCTTGAAATAGGTATCAATAAAAA
Found at i:45551756 original size:18 final size:18
Alignment explanation
Indices: 45551735--45551769 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45551725 AGTTATAATG
45551735 CAAAAACGGTATCGATAT
1 CAAAAACGGTATCGATAT
* *
45551753 CAAAGATGGTATCGATA
1 CAAAAACGGTATCGATA
45551770 AAAATACAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (18 bp):
CAAAAACGGTATCGATAT
Found at i:45561919 original size:9 final size:9
Alignment explanation
Indices: 45561878--45561925 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
45561868 CTCACATCCT
45561878 ATTCTCTCA
1 ATTCTCTCA
* * *
45561887 AATCTTTCT
1 ATTCTCTCA
45561896 ATTCTCTCA
1 ATTCTCTCA
* *
45561905 ACTCTCTAA
1 ATTCTCTCA
45561914 ATTCTCTCA
1 ATTCTCTCA
45561923 ATT
1 ATT
45561926 TTCACAAGCT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.25, C:0.29, G:0.00, T:0.46
Consensus pattern (9 bp):
ATTCTCTCA
Found at i:45568655 original size:13 final size:13
Alignment explanation
Indices: 45568637--45568665 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
45568627 CAAACCCTAG
45568637 ACAAAATGAAAAT
1 ACAAAATGAAAAT
45568650 ACAAAATGAAAAT
1 ACAAAATGAAAAT
45568663 ACA
1 ACA
45568666 GTAAGTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.69, C:0.10, G:0.07, T:0.14
Consensus pattern (13 bp):
ACAAAATGAAAAT
Found at i:45569160 original size:15 final size:15
Alignment explanation
Indices: 45569135--45569169 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
45569125 GATTCTATTT
*
45569135 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
45569149 TAATTAATATTAAGA
1 TAATTAATATTAAGA
45569164 TAATTA
1 TAATTA
45569170 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:45577164 original size:27 final size:26
Alignment explanation
Indices: 45577132--45577186 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
45577122 TTACTGTTTC
* *
45577132 AAGTTATTTTATATGTCATTTTATTTT
1 AAGTTATTTTACATATCA-TTTATTTT
*
45577159 AAGTTATTTTACATATTATTTATTTT
1 AAGTTATTTTACATATCATTTATTTT
45577185 AA
1 AA
45577187 AATTAACCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (26 bp):
AAGTTATTTTACATATCATTTATTTT
Found at i:45581732 original size:28 final size:28
Alignment explanation
Indices: 45581701--45581771 Score: 133
Period size: 28 Copynumber: 2.5 Consensus size: 28
45581691 AACCAAAACC
*
45581701 AAAATAAAAGTCAAAAAGAAGAAAAAGA
1 AAAATCAAAGTCAAAAAGAAGAAAAAGA
45581729 AAAATCAAAGTCAAAAAGAAGAAAAAGA
1 AAAATCAAAGTCAAAAAGAAGAAAAAGA
45581757 AAAATCAAAGTCAAA
1 AAAATCAAAGTCAAA
45581772 GTCAAAATGA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.72, C:0.07, G:0.13, T:0.08
Consensus pattern (28 bp):
AAAATCAAAGTCAAAAAGAAGAAAAAGA
Found at i:45581760 original size:34 final size:36
Alignment explanation
Indices: 45581719--45581804 Score: 104
Period size: 34 Copynumber: 2.4 Consensus size: 36
45581709 AGTCAAAAAG
*
45581719 AAGAAAAAGAAAAATCAAAGTCAAAA-AGAA-GAAA
1 AAGAAAAAGAAAAATCAAAGTCAAAAGAAAATGAAA
** *
45581753 AAGAAAAATCAAAGTCAAAGTCAAAATGAAAATGAAA
1 AAGAAAAAGAAAAATCAAAGTCAAAA-GAAAATGAAA
45581790 AAGAAAAAAGAAAAA
1 AAG-AAAAAGAAAAA
45581805 AGAAAAAAGA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
34 23 0.56
36 3 0.07
37 7 0.17
38 8 0.20
ACGTcount: A:0.72, C:0.06, G:0.14, T:0.08
Consensus pattern (36 bp):
AAGAAAAAGAAAAATCAAAGTCAAAAGAAAATGAAA
Found at i:45581797 original size:6 final size:6
Alignment explanation
Indices: 45581775--45581823 Score: 53
Period size: 6 Copynumber: 7.7 Consensus size: 6
45581765 AGTCAAAGTC
* *
45581775 AAAATG AAAATG AAAAAG AAAAAAG AAAAAAG AAAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG -AAAAAG -AAAAAG -AAAAAG AAAAAG AAAA
45581824 GGAGAGGCCA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
6 21 0.51
7 20 0.49
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:45581797 original size:7 final size:7
Alignment explanation
Indices: 45581787--45581823 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
45581777 AATGAAAATG
45581787 AAAAAGA
1 AAAAAGA
45581794 AAAAAGA
1 AAAAAGA
45581801 AAAAAGA
1 AAAAAGA
45581808 AAAAAG-
1 AAAAAGA
45581814 AAAAAGA
1 AAAAAGA
45581821 AAA
1 AAA
45581824 GGAGAGGCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:45581804 original size:14 final size:13
Alignment explanation
Indices: 45581781--45581823 Score: 68
Period size: 13 Copynumber: 3.2 Consensus size: 13
45581771 AGTCAAAATG
*
45581781 AAAATGAAAAAGA
1 AAAAAGAAAAAGA
45581794 AAAAAGAAAAAAGA
1 AAAAAG-AAAAAGA
45581808 AAAAAGAAAAAGA
1 AAAAAGAAAAAGA
45581821 AAA
1 AAA
45581824 GGAGAGGCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
13 15 0.54
14 13 0.46
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (13 bp):
AAAAAGAAAAAGA
Found at i:45581812 original size:80 final size:80
Alignment explanation
Indices: 45581661--45581811 Score: 182
Period size: 80 Copynumber: 1.9 Consensus size: 80
45581651 ATCCAATTCA
*
45581661 AAAAAGAAGAAAAACAAAAAGAAAAATCAAAACCAAAACCAAAATAAAAGTCAAAAAGAAGAAAA
1 AAAAAGAAGAAAAACAAAAAGAAAAATCAAAACCAAAACCAAAATAAAAGTAAAAAAGAAGAAAA
45581726 AGAAAAATCAAAGTC
66 AGAAAAATCAAAGTC
* ** * ** **
45581741 AAAAAGAAGAAAAAGAAAAATCAAAGTCAAAGTCAAAATGAAAATGAAAAAG-AAAAAAG-A-AA
1 AAAAAGAAGAAAAACAAAAAGAAAAATCAAAACCAAAACCAAAAT--AAAAGTAAAAAAGAAGAA
45581803 AAAGAAAAA
64 AAAGAAAAA
45581812 AGAAAAAGAA
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
79 11 0.18
80 38 0.63
81 6 0.10
82 5 0.08
ACGTcount: A:0.74, C:0.08, G:0.12, T:0.07
Consensus pattern (80 bp):
AAAAAGAAGAAAAACAAAAAGAAAAATCAAAACCAAAACCAAAATAAAAGTAAAAAAGAAGAAAA
AGAAAAATCAAAGTC
Found at i:45583595 original size:87 final size:87
Alignment explanation
Indices: 45583440--45583771 Score: 490
Period size: 87 Copynumber: 3.8 Consensus size: 87
45583430 AGATCGGTGA
* * **
45583440 AGATTGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGACCTTT-
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCA-AATTTTG
45583504 CCTTCCTGCATTAACAGCGAAGC
65 CCTTCCTGCATTAACAGCGAAGC
*
45583527 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAAATATTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAAATTTTGC
*
45583592 CTTCCTGCATTAACGGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* * *
45583614 AGATCGAAAACGAAGCCTTGCCTCCATCGGTTACAGTGGAG-TAGGTTAAAGATAGCAGATTTTG
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCT-GGTTAAAGATAGCAAATTTTG
*
45583678 CCTTCCTACATTAACAGCGAAGC
65 CCTTCCTGCATTAACAGCGAAGC
* * * *
45583701 AGATCGAAAACGAAGCCTTACCTCCATCGGTTGTAGCGGAGCTGGTTAAAGATAG-AAGATTTTG
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAA-ATTTTG
45583765 CCTTCCT
65 CCTTCCT
45583772 AAGCACTAGC
Statistics
Matches: 224, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
86 5 0.02
87 218 0.97
88 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAAATTTTGC
CTTCCTGCATTAACAGCGAAGC
Found at i:45585926 original size:27 final size:26
Alignment explanation
Indices: 45585894--45585948 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
45585884 TTATTGTTTC
* *
45585894 AAGTTATTTTATATGTCATTTTATTTT
1 AAGTTATTTTACATATCA-TTTATTTT
*
45585921 AAGTTATTTTACATATTATTTATTTT
1 AAGTTATTTTACATATCATTTATTTT
45585947 AA
1 AA
45585949 AATTAACCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (26 bp):
AAGTTATTTTACATATCATTTATTTT
Found at i:45591735 original size:25 final size:25
Alignment explanation
Indices: 45591681--45591736 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
45591671 TAAGGGCATG
* * * *
45591681 CTGCAGAGTCGTCTATGTCTAGGGG
1 CTGCACAGTCATCTATGTCTACGGA
*
45591706 TTGCACAGTCATCTATGTCTACGGA
1 CTGCACAGTCATCTATGTCTACGGA
45591731 CTGCAC
1 CTGCAC
45591737 GCATATAATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.25, G:0.27, T:0.29
Consensus pattern (25 bp):
CTGCACAGTCATCTATGTCTACGGA
Found at i:45594532 original size:23 final size:24
Alignment explanation
Indices: 45594495--45594551 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 24
45594485 TTATGACATC
*
45594495 ATTTATGTCACGTGTCATAATCTT
1 ATTTATGCCACGTGTCATAATCTT
*
45594519 -TTTATGCCATGTGTCATAATCTT
1 ATTTATGCCACGTGTCATAATCTT
45594542 ATTT-TGCCAC
1 ATTTATGCCAC
45594552 TAGTCCTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 26 0.90
24 3 0.10
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (24 bp):
ATTTATGCCACGTGTCATAATCTT
Found at i:45594650 original size:30 final size:28
Alignment explanation
Indices: 45594596--45594652 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
45594586 CGATTTAGTT
* *
45594596 GACAAAAAAAAATTAAGTATCAATCTAA
1 GACAAAAAAAAATTAAATACCAATCTAA
45594624 GACAAAAAAAAACTATAAATACCAATCTA
1 GACAAAAAAAAA-T-TAAATACCAATCTA
45594653 GGAGAAGTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.48
29 1 0.04
30 12 0.48
ACGTcount: A:0.61, C:0.14, G:0.05, T:0.19
Consensus pattern (28 bp):
GACAAAAAAAAATTAAATACCAATCTAA
Found at i:45602611 original size:18 final size:18
Alignment explanation
Indices: 45602588--45602676 Score: 133
Period size: 18 Copynumber: 4.9 Consensus size: 18
45602578 CCCAACTACT
*
45602588 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
**
45602606 GTATACGTGAATAGTGTC
1 GTATACGTGAATAGTACC
45602624 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
45602642 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
45602660 ATATACGTGAATAGTAC
1 GTATACGTGAATAGTAC
45602677 TGTAAACGGT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:45602640 original size:36 final size:36
Alignment explanation
Indices: 45602588--45602676 Score: 151
Period size: 36 Copynumber: 2.5 Consensus size: 36
45602578 CCCAACTACT
* *
45602588 GTATACGTGAACAGTACCGTATACGTGAATAGTGTC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
45602624 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
*
45602660 ATATACGTGAATAGTAC
1 GTATACGTGAATAGTAC
45602677 TGTAAACGGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:45613306 original size:12 final size:11
Alignment explanation
Indices: 45613284--45613318 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
45613274 TAAAAGAATG
45613284 AAATGAAAAAA
1 AAATGAAAAAA
*
45613295 AAGTGAAAAAA
1 AAATGAAAAAA
*
45613306 AAATTAAAAAA
1 AAATGAAAAAA
45613317 AA
1 AA
45613319 TTGATTGAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (11 bp):
AAATGAAAAAA
Found at i:45617663 original size:42 final size:42
Alignment explanation
Indices: 45617530--45617686 Score: 131
Period size: 42 Copynumber: 3.7 Consensus size: 42
45617520 ATGTGATTTT
* * * *
45617530 GTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTTGAGATTTAC
1 GTGTAAGACCATGTCCGGGACATTGGCATCGTATAT--GA-TTAC
*
45617574 GTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTAC
1 GTGTAAGACCATGTCCGGGACATTGGCATCGTATATGATTAC
* * *
45617616 GTGTAAGACCCTGTCCGGGAC-TGTGGCATCATTATTTG-TTAC
1 GTGTAAGACCATGTCCGGGACAT-TGGCATC-GTATATGATTAC
* * * * *
45617658 ATGTAAGGCCACGTCTGGGACGTTGGCAT
1 GTGTAAGACCATGTCCGGGACATTGGCAT
45617687 TGTACGAGCT
Statistics
Matches: 97, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
41 1 0.01
42 56 0.58
43 8 0.08
44 29 0.30
45 3 0.03
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATGTCCGGGACATTGGCATCGTATATGATTAC
Found at i:45621792 original size:18 final size:18
Alignment explanation
Indices: 45621771--45621808 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
45621761 CTTCTACCCT
45621771 TTCCCCTTTCCCTTCCCC
1 TTCCCCTTTCCCTTCCCC
*
45621789 TTCCCTTTTCCCTTCCCC
1 TTCCCCTTTCCCTTCCCC
45621807 TT
1 TT
45621809 GGATTGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (18 bp):
TTCCCCTTTCCCTTCCCC
Found at i:45621902 original size:25 final size:25
Alignment explanation
Indices: 45621868--45621917 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
45621858 CAGGTAAGGC
*
45621868 TCCTTCTTCTTCTTCCGTTTTTCAT
1 TCCTTCTTCTTCTTCCGTTCTTCAT
* *
45621893 TCCTTTTTCTTCTTCTGTTCTTCAT
1 TCCTTCTTCTTCTTCCGTTCTTCAT
45621918 CTTCTCTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.04, C:0.30, G:0.04, T:0.62
Consensus pattern (25 bp):
TCCTTCTTCTTCTTCCGTTCTTCAT
Found at i:45625154 original size:15 final size:15
Alignment explanation
Indices: 45625115--45625167 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 15
45625105 GAACATTTGG
45625115 AATTTAATTAGATAAAA
1 AATTT-ATTA-ATAAAA
45625132 AACTTTTATTAATAAAA
1 AA--TTTATTAATAAAA
*
45625149 AATTTATTTATAAATA
1 AATTTATTAATAAA-A
45625165 AAT
1 AAT
45625168 CATTGCAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 11 0.34
16 4 0.12
17 10 0.31
18 4 0.12
19 3 0.09
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (15 bp):
AATTTATTAATAAAA
Found at i:45625241 original size:22 final size:20
Alignment explanation
Indices: 45625198--45625236 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
45625188 TAATTTTAAA
45625198 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
45625218 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
45625237 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:45625381 original size:34 final size:35
Alignment explanation
Indices: 45625323--45625389 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
45625313 CAAACACTAG
45625323 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
*
45625358 AAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
45625390 CATTTTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:45633944 original size:23 final size:23
Alignment explanation
Indices: 45633916--45633961 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
45633906 TTGATACTAT
45633916 TTAAAAATAT-AAAATTAAAATA
1 TTAAAAATATAAAAATTAAAATA
* *
45633938 TTAAAAATCTAAAAATTATAATA
1 TTAAAAATATAAAAATTAAAATA
45633961 T
1 T
45633962 CATCCAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
TTAAAAATATAAAAATTAAAATA
Found at i:45633955 original size:15 final size:15
Alignment explanation
Indices: 45633916--45633958 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
45633906 TTGATACTAT
45633916 TTAAAAA-TATAAAA
1 TTAAAAATTATAAAA
45633930 TTAAAATATTA-AAAA
1 TTAAAA-ATTATAAAA
45633945 TCTAAAAATTATAA
1 T-TAAAAATTATAA
45633959 TATCATCCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.24
15 10 0.40
16 9 0.36
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
TTAAAAATTATAAAA
Found at i:45637773 original size:23 final size:23
Alignment explanation
Indices: 45637730--45637773 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
45637720 TATGAAAAAT
*
45637730 ATTAAAAAAATTAATTTTAAACG
1 ATTAAAAAAATTAATTATAAACG
*
45637753 ATTAATAAATATT-ATTATAAA
1 ATTAA-AAAAATTAATTATAAA
45637774 ATGTTTGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (23 bp):
ATTAAAAAAATTAATTATAAACG
Found at i:45644704 original size:28 final size:28
Alignment explanation
Indices: 45644672--45644768 Score: 140
Period size: 28 Copynumber: 3.5 Consensus size: 28
45644662 TGATTTTCGA
45644672 CACTAAGTGTGCGAGTTTAATTGTAGAG
1 CACTAAGTGTGCGAGTTTAATTGTAGAG
* *
45644700 CACTAAGTGTGCGAGTTTAATGGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAGAG
* * *
45644728 CACTAAGTGTGCGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTGTAGAG
*
45644756 CACTAAGGGTGCG
1 CACTAAGTGTGCG
45644769 TTTGGTTCGC
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.30
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAGAG
Found at i:45644800 original size:16 final size:16
Alignment explanation
Indices: 45644779--45644830 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
45644769 TTTGGTTCGC
45644779 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
45644795 TGTATTGGATTGGAGG
1 TGTATTGGATTAGAGG
45644811 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
45644827 TGTA
1 TGTA
45644831 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.23, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:45645087 original size:18 final size:17
Alignment explanation
Indices: 45645066--45645100 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45645056 TTATTATTAA
*
45645066 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
45645084 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
45645101 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:45645154 original size:157 final size:157
Alignment explanation
Indices: 45644953--45645424 Score: 890
Period size: 157 Copynumber: 3.0 Consensus size: 157
45644943 TAGAATACCC
* * *
45644953 TTAGCATAAATTTGTTTTAGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
45645018 TTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
45645083 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
45645110 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
45645175 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
45645240 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
45645267 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
45645332 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
45645397 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
45645424 T
1 T
45645425 CAATATTCTT
Statistics
Matches: 309, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
157 309 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:45645240 original size:16 final size:16
Alignment explanation
Indices: 45645203--45645244 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
45645193 TTAATCATAT
*
45645203 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
45645219 TT-AAATATATTATAA
1 TTAAAATATATTATAA
45645234 TTAAAATATAT
1 TTAAAATATAT
45645245 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:45645251 original size:14 final size:15
Alignment explanation
Indices: 45645212--45645253 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
45645202 TTTAAACATA
*
45645212 ATTATTATTAAATAT
1 ATTATAATTAAATAT
45645227 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
45645241 A-TATAATTTAATA
1 ATTATAATTAAATA
45645254 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:45645397 original size:16 final size:16
Alignment explanation
Indices: 45645360--45645401 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
45645350 TTAATCATAT
*
45645360 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
45645376 TT-AAATATATTATAA
1 TTAAAATATATTATAA
45645391 TTAAAATATAT
1 TTAAAATATAT
45645402 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:45645408 original size:14 final size:15
Alignment explanation
Indices: 45645369--45645410 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
45645359 TTTAAACATA
*
45645369 ATTATTATTAAATAT
1 ATTATAATTAAATAT
45645384 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
45645398 A-TATAATTTAATA
1 ATTATAATTAAATA
45645411 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:45650192 original size:24 final size:22
Alignment explanation
Indices: 45650156--45650792 Score: 291
Period size: 23 Copynumber: 27.6 Consensus size: 22
45650146 TGTTATATGT
* * *
45650156 ATGCTGCCCAATTTTGATAAATCA
1 ATGCTGTCAAATTTTG-TATAT-A
45650180 ATGCTGTCAAATTTTGTATATA
1 ATGCTGTCAAATTTTGTATATA
* *
45650202 CATGCTGTTAAATTTTGTGTATAA
1 -ATGCTGTCAAATTTTGTATAT-A
*
45650226 ATGCTGTCCAAA-TTTG--TGT-
1 ATGCTGT-CAAATTTTGTATATA
* *
45650245 ATG-TCT-AAATTTGGGTGA-ATAA
1 ATGCTGTCAAATTT-TGT-ATAT-A
*
45650267 ATGCTGTCCAATTTTGTATATA
1 ATGCTGTCAAATTTTGTATATA
* * *
45650289 CATGCTGTTATATTTTGTGTATA
1 -ATGCTGTCAAATTTTGTATATA
*
45650312 AGTGCTGTCCAAA-TTTGTATATGT
1 A-TGCTGT-CAAATTTTGTATAT-A
* * *
45650336 ATGCCGCCCAATTTTGGTGA-ATCA
1 ATGCTGTCAAATTTT-GT-ATAT-A
*
45650360 ATGCTGTCCAATTTTGTATATA
1 ATGCTGTCAAATTTTGTATATA
* *
45650382 CATGCTGTTAAATTTTGTGTATA
1 -ATGCTGTCAAATTTTGTATATA
*
45650405 AGTGCTGTCCAAATTTGTGTATGT-
1 A-TGCTGT-CAAATTT-TGTATATA
* * *
45650429 ATGCTGCCCAATTTTGGTGA-AGCA
1 ATGCTGTCAAATTTT-GT-ATA-TA
*
45650453 ATGCTGTCAAATTTTGTACATA
1 ATGCTGTCAAATTTTGTATATA
* * * *
45650475 CATGCTATTATATTTTGTGTATA
1 -ATGCTGTCAAATTTTGTATATA
*
45650498 AGTGCTGTCCAAA-TTTGTATATGT
1 A-TGCTGT-CAAATTTTGTATAT-A
* *
45650522 ATGCTGCCCAATTTTGGTGA-ATCA
1 ATGCTGTCAAATTTT-GT-ATAT-A
*
45650546 ATGCTGTCCAATTTTGTATATA
1 ATGCTGTCAAATTTTGTATATA
* *
45650568 CATGCTGTTAAATTTTGTGTATA
1 -ATGCTGTCAAATTTTGTATATA
*
45650591 AGTGCTGTCCAAATTTGTGTATGT-
1 A-TGCTGT-CAAATTT-TGTATATA
* * *
45650615 ATGCTGCCCAATTTTGGTGA-AGCA
1 ATGCTGTCAAATTTT-GT-ATA-TA
*
45650639 ATGCTGTCAAATTTTGTACATA
1 ATGCTGTCAAATTTTGTATATA
* * * *
45650661 CATGCTATTATATTTTGTGTATA
1 -ATGCTGTCAAATTTTGTATATA
*
45650684 AGTGCTGTCCAAA-TTTGTATATGT
1 A-TGCTGT-CAAATTTTGTATAT-A
* *
45650708 ATGCTGCCCAATTTTGGTGA-ATCA
1 ATGCTGTCAAATTTT-GT-ATAT-A
45650732 ATGCTGTCAAATTTTGTATATA
1 ATGCTGTCAAATTTTGTATATA
* * *
45650754 CATGCTGTTATATTTTGTGTATA
1 -ATGCTGTCAAATTTTGTATATA
*
45650777 AGTGTTGTCCAAATTT
1 A-TGCTGT-CAAATTT
45650793 GTAATATGTA
Statistics
Matches: 464, Mismatches: 91, Indels: 116
0.69 0.14 0.17
Matches are distributed among these distances:
16 3 0.01
17 2 0.00
18 3 0.01
19 3 0.01
20 1 0.00
21 4 0.01
22 47 0.10
23 259 0.56
24 129 0.28
25 13 0.03
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (22 bp):
ATGCTGTCAAATTTTGTATATA
Found at i:45650385 original size:93 final size:93
Alignment explanation
Indices: 45650149--45650802 Score: 1050
Period size: 93 Copynumber: 7.1 Consensus size: 93
45650139 GCCCAATTGT
* * *
45650149 TATATGTATGCTGCCCAATTTTGATAAATCAATGCTGTCAAATTTTGTATATACATGCTGTTAAA
1 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTATA
*
45650214 TTTTGTGTATAAATGCTGTCCAAATTTG
66 TTTTGTGTATAAGTGCTGTCCAAATTTG
** * * *
45650242 ----TGTATG-T-CTAAATTTGGGTGAATAAATGCTGTCCAATTTTGTATATACATGCTGTTATA
1 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTATA
45650301 TTTTGTGTATAAGTGCTGTCCAAATTTG
66 TTTTGTGTATAAGTGCTGTCCAAATTTG
* * *
45650329 TATATGTATGCCGCCCAATTTTGGTGAATCAATGCTGTCCAATTTTGTATATACATGCTGTTAAA
1 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTATA
45650394 TTTTGTGTATAAGTGCTGTCCAAATTTG
66 TTTTGTGTATAAGTGCTGTCCAAATTTG
* * * *
45650422 TGTATGTATGCTGCCCAATTTTGGTGAAGCAATGCTGTCAAATTTTGTACATACATGCTATTATA
1 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTATA
45650487 TTTTGTGTATAAGTGCTGTCCAAATTTG
66 TTTTGTGTATAAGTGCTGTCCAAATTTG
* *
45650515 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCCAATTTTGTATATACATGCTGTTAAA
1 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTATA
45650580 TTTTGTGTATAAGTGCTGTCCAAATTTG
66 TTTTGTGTATAAGTGCTGTCCAAATTTG
* * * *
45650608 TGTATGTATGCTGCCCAATTTTGGTGAAGCAATGCTGTCAAATTTTGTACATACATGCTATTATA
1 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTATA
45650673 TTTTGTGTATAAGTGCTGTCCAAATTTG
66 TTTTGTGTATAAGTGCTGTCCAAATTTG
45650701 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTATA
1 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTATA
*
45650766 TTTTGTGTATAAGTGTTGTCCAAATTTG
66 TTTTGTGTATAAGTGCTGTCCAAATTTG
45650794 TAATATGTA
1 T-ATATGTA
45650803 GTATAGTTAG
Statistics
Matches: 515, Mismatches: 39, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
87 71 0.14
88 1 0.00
89 6 0.01
91 6 0.01
93 424 0.82
94 7 0.01
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (93 bp):
TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTATA
TTTTGTGTATAAGTGCTGTCCAAATTTG
Found at i:45652443 original size:20 final size:20
Alignment explanation
Indices: 45652418--45652460 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
45652408 TTGAACTGAG
45652418 GCTTCCATGAACACTTGAAT
1 GCTTCCATGAACACTTGAAT
45652438 GCTTCCATGAACACTTGAAT
1 GCTTCCATGAACACTTGAAT
45652458 GCT
1 GCT
45652461 ACTTCAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (20 bp):
GCTTCCATGAACACTTGAAT
Found at i:45656147 original size:53 final size:52
Alignment explanation
Indices: 45656062--45656210 Score: 163
Period size: 53 Copynumber: 2.8 Consensus size: 52
45656052 GACGCTAAAG
* *
45656062 ACCATATCGTGTAAGATGTAACTGGTGAGTTATGACATCATATAGAAAGAAA
1 ACCATATCGTGTAAGACGTAACTGGTGGGTTATGACATCATATAGAAAGAAA
** * * *
45656114 ATGATATCGTGTAAGACCGTAACTGGTGGGTTATGACATCGTATGGAAAGAAT
1 ACCATATCGTGTAAGA-CGTAACTGGTGGGTTATGACATCATATAGAAAGAAA
* * * * * *
45656167 ACCATATTGTATAAGATCATAGCTGGTGGGTTATGGCATTATAT
1 ACCATATCGTGTAAGA-CGTAACTGGTGGGTTATGACATCATAT
45656211 GGAAGAATTT
Statistics
Matches: 79, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
52 14 0.18
53 65 0.82
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.30
Consensus pattern (52 bp):
ACCATATCGTGTAAGACGTAACTGGTGGGTTATGACATCATATAGAAAGAAA
Found at i:45658478 original size:34 final size:34
Alignment explanation
Indices: 45658440--45658505 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
45658430 AGTAACAAAC
* *
45658440 AATATGCTCATAACGATTCAATTTAGTAGCAATT
1 AATATGCTCATAACAAATCAATTTAGTAGCAATT
** *
45658474 AATATGCTTGTGACAAATCAATTTAGTAGCAA
1 AATATGCTCATAACAAATCAATTTAGTAGCAA
45658506 AAATCATGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (34 bp):
AATATGCTCATAACAAATCAATTTAGTAGCAATT
Found at i:45659624 original size:31 final size:31
Alignment explanation
Indices: 45659588--45659650 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
45659578 TGGTAAGTTT
45659588 TCACTCCATTTGATATTTATTTTAGAGTGAC
1 TCACTCCATTTGATATTTATTTTAGAGTGAC
45659619 TCACTCCATTTGATATTTATTTTAGAGTGAC
1 TCACTCCATTTGATATTTATTTTAGAGTGAC
45659650 T
1 T
45659651 TTCATCCTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.46
Consensus pattern (31 bp):
TCACTCCATTTGATATTTATTTTAGAGTGAC
Found at i:45660724 original size:27 final size:27
Alignment explanation
Indices: 45660668--45660724 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
45660658 TGTTTACATT
**
45660668 AATTTAAATATATATTTTTAATATTCA
1 AATTTAAATATATATTTTTAATATAAA
* *
45660695 AATTTACATATATGATTTTTATTA-AAA
1 AATTTAAATATAT-ATTTTTAATATAAA
45660722 AAT
1 AAT
45660725 AAATACATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 16 0.64
28 9 0.36
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (27 bp):
AATTTAAATATATATTTTTAATATAAA
Found at i:45661429 original size:110 final size:112
Alignment explanation
Indices: 45661307--45661581 Score: 500
Period size: 113 Copynumber: 2.5 Consensus size: 112
45661297 TTTACTAAGT
*
45661307 TAAAATTAGAATAATCTAGAGTTTTCATCTTTGAATAGTTTTAAAATCTAAAAAAAAA-AA-TTA
1 TAAAATTAGAATAATCTAAAGTTTTCATCTTTGAATAGTTTTAAAATCTAAAAAAAAATAATTTA
*
45661370 TAAAATCTAAAATTTTTTATTATTAATTTTTTTAGAAAATATAGTTG
66 TAAAATCTAAAATTTTTTATTATTAATTATTTTAGAAAATATAGTTG
45661417 TAAAATTAGAATAATCTAAAGTTTTCATCTTTGAATAGTTTTAAAATCTAAAAAAAAATAATTTT
1 TAAAATTAGAATAATCTAAAGTTTTCATCTTTGAATAGTTTTAAAATCTAAAAAAAAATAA-TTT
45661482 ATAAAATCTAAAATTTTTTATTATTAATTATTTTAGAAAATATAGTTG
65 ATAAAATCTAAAATTTTTTATTATTAATTATTTTAGAAAATATAGTTG
*
45661530 TAAAATTAGAATAATCTAAAGTTTTCATCTTTAAATAGTTTTAAAATCTAAA
1 TAAAATTAGAATAATCTAAAGTTTTCATCTTTGAATAGTTTTAAAATCTAAA
45661582 CAACTTTTAA
Statistics
Matches: 159, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
110 57 0.36
111 2 0.01
113 100 0.63
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.43
Consensus pattern (112 bp):
TAAAATTAGAATAATCTAAAGTTTTCATCTTTGAATAGTTTTAAAATCTAAAAAAAAATAATTTA
TAAAATCTAAAATTTTTTATTATTAATTATTTTAGAAAATATAGTTG
Found at i:45661433 original size:56 final size:55
Alignment explanation
Indices: 45661363--45661554 Score: 160
Period size: 55 Copynumber: 3.4 Consensus size: 55
45661353 TCTAAAAAAA
* *
45661363 AAAATTATAAAATCTAAAATTTTTTATTATTAATTTTTTTAGAAAATATAGTTGT
1 AAAATTAGAAAATCTAAAATTTTTTATTATTAATTATTTTAGAAAATATAGTTGT
* * * *****
45661418 AAAATTAGAATAATCT-AAAGTTTTCATCT-TTGAA-TAGTTTT--AAAATCTAAAAAAA
1 AAAATTAGAA-AATCTAAAATTTTTTAT-TATT-AATTA-TTTTAGAAAATAT-AGTTGT
*
45661473 AATAATTTTATAAAATCTAAAATTTTTTATTATTAATTATTTTAGAAAATATAGTTGT
1 AA-AA--TTAGAAAATCTAAAATTTTTTATTATTAATTATTTTAGAAAATATAGTTGT
*
45661531 AAAATTAGAATAATCTAAAGTTTT
1 AAAATTAGAA-AATCTAAAATTTT
45661555 CATCTTTAAA
Statistics
Matches: 102, Mismatches: 21, Indels: 27
0.68 0.14 0.18
Matches are distributed among these distances:
54 6 0.06
55 29 0.28
56 26 0.25
57 14 0.14
58 21 0.21
59 6 0.06
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (55 bp):
AAAATTAGAAAATCTAAAATTTTTTATTATTAATTATTTTAGAAAATATAGTTGT
Found at i:45661537 original size:113 final size:111
Alignment explanation
Indices: 45661307--45661642 Score: 498
Period size: 113 Copynumber: 2.9 Consensus size: 111
45661297 TTTACTAAGT
*
45661307 TAAAATTAGAATAATCTAGAGTTTTCATCTTTGAATAGTTTTAAAATCTAAAAAAAAAAA--TTA
1 TAAAATTAGAATAATCTAAAGTTTTCATCTTTGAATAGTTTTAAAATCTAAAAAAAAAAATTTTA
45661370 TAAAATCTAAAATTTTTTATTATTAATTTTTTTAGAAAATATAGTTG
66 TAAAATCTAAAATTTTTTATTATTAA-TTTTTTAGAAAATATAGTTG
45661417 TAAAATTAGAATAATCTAAAGTTTTCATCTTTGAATAGTTTTAAAATCTAAAAAAAAATAATTTT
1 TAAAATTAGAATAATCTAAAGTTTTCATCTTTGAATAGTTTTAAAATCTAAAAAAAAA-AATTTT
45661482 ATAAAATCTAAAATTTTTTATTATTAATTATTTTAGAAAATATAGTTG
65 ATAAAATCTAAAATTTTTTATTATTAATT-TTTTAGAAAATATAGTTG
*
45661530 TAAAATTAGAATAATCTAAAGTTTTCATCTTTAAATAGTTTTAAAATCTAAACAACTTTTAATAA
1 TAAAATTAGAATAATCTAAAGTTTTCATCTTTGAATAGTTTTAAAATCTAAA-AA-----AA-AA
*
45661595 GAATTTTATAATATCTAAAAGTTGTTATTATTATT-ATTTTTTAGAAAA
59 -AATTTTATAAAATCTAAAA-TT-TT-TTATTATTAATTTTTTAGAAAA
45661643 ATGGAATTCT
Statistics
Matches: 208, Mismatches: 4, Indels: 17
0.91 0.02 0.07
Matches are distributed among these distances:
110 57 0.27
111 2 0.01
112 2 0.01
113 98 0.47
114 2 0.01
119 2 0.01
120 20 0.10
121 12 0.06
122 5 0.02
123 8 0.04
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (111 bp):
TAAAATTAGAATAATCTAAAGTTTTCATCTTTGAATAGTTTTAAAATCTAAAAAAAAAAATTTTA
TAAAATCTAAAATTTTTTATTATTAATTTTTTAGAAAATATAGTTG
Found at i:45662404 original size:49 final size:50
Alignment explanation
Indices: 45662303--45662407 Score: 140
Period size: 49 Copynumber: 2.1 Consensus size: 50
45662293 TATGGGTAGT
* ** *
45662303 GTTTTAGTGTTTAGGGTTAGGATGTTTGAAAAAATAAATTTGGGTTTAGG
1 GTTTTAGGGTTTAGCATTAGGATGTTTGAAAAAATAAATTAGGGTTTAGG
* * *
45662353 GTTTTAGGGTTTAGCATTAGGGTTTTTG-AAAAATAAATTAGGGTTTTGG
1 GTTTTAGGGTTTAGCATTAGGATGTTTGAAAAAATAAATTAGGGTTTAGG
45662402 GTTTTA
1 GTTTTA
45662408 AAAAAATAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
49 25 0.52
50 23 0.48
ACGTcount: A:0.27, C:0.01, G:0.29, T:0.44
Consensus pattern (50 bp):
GTTTTAGGGTTTAGCATTAGGATGTTTGAAAAAATAAATTAGGGTTTAGG
Found at i:45663174 original size:125 final size:125
Alignment explanation
Indices: 45662506--45663165 Score: 811
Period size: 126 Copynumber: 5.3 Consensus size: 125
45662496 TTGTACAGTT
* * * ** *
45662506 AGCAAAAGCACTGAAAAAAGCTCTCAGCTGGACACTTTTTTTGTATGGTTGTTTCTGAAAAATAA
1 AGCAAAAGTACTGAAAAAAGCTCCCAGCTGGACACTCTTTTTGTACAGTTGTTTCTAAAAAATAA
* * * * * * * *
45662571 TTTTGAGAAGATGGATATAAAAAAATATGTTGAAAAACGATTCAAGCAAGATGCATTGCC
66 TTTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATGCACTGTC
* * * * * **
45662631 AGCAAAATTACTGAAAGAAGCTCTCAGTTGGACGCTCTTTTTGTATGGTTGTTTCTAAAAAAATA
1 AGCAAAAGTACTGAAAAAAGCTCCCAGCTGGACACTCTTTTTGTACAGTTGTTTCT-AAAAAATA
* * *
45662696 ATTTTGAGAAGATGGTTTTGAAAAAGTAGGTTGAAAAACGCTTCAAGCAGGATGCACTATC
65 ATTTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATGCACTGTC
** * * * * *
45662757 AAAAAAAATACTGAAAAAAGTTCCCAGCTAGACACTTTTTTTGTACAATTGTTTCTGAAAAAATA
1 AGCAAAAGTACTGAAAAAAGCTCCCAGCTGGACACTCTTTTTGTACAGTTGTTTCT-AAAAAATA
* * * *
45662822 ATTTTAAGAAGATGGTTCTGAAAAAATAGGTTGAAAAATGCTTCAAGTAGGATGCACTGTT
65 ATTTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATGCACTGTC
* * * *
45662883 AGCAAAAGTACTAAAAAAAGCTCCTAGCAGGACGCTCTTTTTGTACAGTTGTTTCTGAAAAAATA
1 AGCAAAAGTACTGAAAAAAGCTCCCAGCTGGACACTCTTTTTGTACAGTTGTTTCT-AAAAAATA
* * * *
45662948 ATTTTGAGAAGATGGTTCTGAAAAAATAGGTTAAAAAACGCTTCAAACAAGATGCACTATC
65 ATTTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATGCACTGTC
* * *
45663009 AGCAAAAGTACT-AAAAAATCTCCCAACTAGACACTCTTTTTGTACAGTTGTTTCTAAAAAACTA
1 AGCAAAAGTACTGAAAAAAGCTCCCAGCTGGACACTCTTTTTGTACAGTTGTTTCTAAAAAA-TA
* *
45663073 ATTTCGAGAAGATGGTTTTGAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATTG-ACTGTC
65 ATTTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACGCTTCAAGCAGGA-TGCACTGTC
* *
45663134 AGCAGAAGTACTGAAAAAAGCTCCCAACTGGA
1 AGCAAAAGTACTGAAAAAAGCTCCCAGCTGGA
45663166 TGCTTTTTTC
Statistics
Matches: 459, Mismatches: 72, Indels: 7
0.85 0.13 0.01
Matches are distributed among these distances:
124 6 0.01
125 152 0.33
126 301 0.66
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.28
Consensus pattern (125 bp):
AGCAAAAGTACTGAAAAAAGCTCCCAGCTGGACACTCTTTTTGTACAGTTGTTTCTAAAAAATAA
TTTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATGCACTGTC
Found at i:45668995 original size:15 final size:15
Alignment explanation
Indices: 45668977--45669019 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
45668967 TTTAAATAAC
45668977 GAATTATACAATATT
1 GAATTATACAATATT
45668992 GAATTATACTAAT-TT
1 GAATTATAC-AATATT
45669007 G-ATCTATACAATA
1 GAAT-TATACAATA
45669020 AATTGCAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.20
15 17 0.68
16 3 0.12
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (15 bp):
GAATTATACAATATT
Found at i:45677085 original size:50 final size:50
Alignment explanation
Indices: 45676970--45677218 Score: 309
Period size: 50 Copynumber: 4.8 Consensus size: 50
45676960 GATAATAACA
* ** *
45676970 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
45677021 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
45677071 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
45677121 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATC-T-CGG
* *
45677176 ATGCCAATGCCATGTCCCAGACATGGTCTTATATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
45677219 TTACCCGAAT
Statistics
Matches: 171, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
50 95 0.56
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 38 0.22
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:45677156 original size:100 final size:104
Alignment explanation
Indices: 45676969--45677218 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 104
45676959 TGATAATAAC
** *
45676969 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
* *
45677034 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
45677071 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
45677135 CCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
66 CCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* * *
45677176 ATGCCAATGCCATGTCCCAGACATGGTCTTATATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
45677219 TTACCCGAAT
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
100 51 0.39
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:45677334 original size:13 final size:13
Alignment explanation
Indices: 45677313--45677344 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
45677303 GCTTGGATCA
*
45677313 TCATCAAATAAAT
1 TCATAAAATAAAT
45677326 TCATAAAATAAAT
1 TCATAAAATAAAT
45677339 TCATAA
1 TCATAA
45677345 TTGATGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:45687307 original size:84 final size:84
Alignment explanation
Indices: 45687163--45687333 Score: 279
Period size: 84 Copynumber: 2.0 Consensus size: 84
45687153 TCGTGTTTCG
* *
45687163 AAGCATTATAGGGAAGAAGGTGCAGATCACCTACCTGTTGGTTGGAACCCAGTGAGAGAAAGATA
1 AAGCATTATAGGGAAGAAGGTGCAGATCACATACCTATTGGTTGGAACCCAGTGAGAGAAAGATA
45687228 ATTGGTCTTGACTTCGTAC
66 ATTGGTCTTGACTTCGTAC
* * * * *
45687247 AAGCATTATAGGGAAGAAGGTGCAGATCATATACCTATTGGTTTGAACTCAGTGATAGAAAGTTA
1 AAGCATTATAGGGAAGAAGGTGCAGATCACATACCTATTGGTTGGAACCCAGTGAGAGAAAGATA
45687312 ATTGGTCTTGACTTCGTAC
66 ATTGGTCTTGACTTCGTAC
45687331 AAG
1 AAG
45687334 AAATAGAAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
84 80 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (84 bp):
AAGCATTATAGGGAAGAAGGTGCAGATCACATACCTATTGGTTGGAACCCAGTGAGAGAAAGATA
ATTGGTCTTGACTTCGTAC
Found at i:45692089 original size:11 final size:10
Alignment explanation
Indices: 45692058--45692096 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
45692048 GAAAATGATC
*
45692058 AAAATTAATC
1 AAAATTAATT
*
45692068 AAAATTTATT
1 AAAATTAATT
45692078 ATAAATTAATT
1 A-AAATTAATT
45692089 AAAATTAA
1 AAAATTAA
45692097 ACATGTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (10 bp):
AAAATTAATT
Found at i:45692450 original size:79 final size:79
Alignment explanation
Indices: 45692319--45692473 Score: 301
Period size: 79 Copynumber: 2.0 Consensus size: 79
45692309 AATTCTTCCC
*
45692319 AAAATTATGAATTTAGTATACTTATGCCCAAGAACAAGTAATTTGATATTTATGCTACTTAATTA
1 AAAATTATGAATTTAGTATACTTATGCCCAAGAACAAGAAATTTGATATTTATGCTACTTAATTA
45692384 TACATATCATTAAA
66 TACATATCATTAAA
45692398 AAAATTATGAATTTAGTATACTTATGCCCAAGAACAAGAAATTTGATATTTATGCTACTTAATTA
1 AAAATTATGAATTTAGTATACTTATGCCCAAGAACAAGAAATTTGATATTTATGCTACTTAATTA
45692463 TACATATCATT
66 TACATATCATT
45692474 CAAATTAATC
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (79 bp):
AAAATTATGAATTTAGTATACTTATGCCCAAGAACAAGAAATTTGATATTTATGCTACTTAATTA
TACATATCATTAAA
Found at i:45692457 original size:37 final size:37
Alignment explanation
Indices: 45692337--45692458 Score: 88
Period size: 37 Copynumber: 3.2 Consensus size: 37
45692327 GAATTTAGTA
*
45692337 TACTTATGCCCAAGAACAAGTAATTTGATATTTATGC
1 TACTTATGCCCAAGAACAAGAAATTTGATATTTATGC
*** * * *
45692374 TACTTAATTATACATATCATTA-AAAAAATTATGA-ATTTA-GTA
1 TACTT-A-TGCCCA-A-GA--ACAAGAAATT-TGATATTTATG-C
45692416 TACTTATGCCCAAGAACAAGAAATTTGATATTTATGC
1 TACTTATGCCCAAGAACAAGAAATTTGATATTTATGC
45692453 TACTTA
1 TACTTA
45692459 ATTATACATA
Statistics
Matches: 61, Mismatches: 13, Indels: 22
0.64 0.14 0.23
Matches are distributed among these distances:
36 4 0.07
37 23 0.38
38 3 0.05
39 4 0.07
40 4 0.07
41 3 0.05
42 16 0.26
43 4 0.07
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (37 bp):
TACTTATGCCCAAGAACAAGAAATTTGATATTTATGC
Found at i:45710177 original size:40 final size:40
Alignment explanation
Indices: 45710079--45710315 Score: 276
Period size: 40 Copynumber: 5.9 Consensus size: 40
45710069 AACTATTGAA
* * ** *
45710079 TGTTTGCACATTCATGCCCCTGTCTGTACTTTGGTACCCT
1 TGTTTGCACATACATGCCCCTGTTTGTACTTCAGTACCCC
* * * ** * *
45710119 TATTTACATATATGTGCCCATGTTTGTACTTTAGTACCCC
1 TGTTTGCACATACATGCCCCTGTTTGTACTTCAGTACCCC
*
45710159 TGTTTGAACATACATGCCCCTGTTTGTACTTCAGTACCCC
1 TGTTTGCACATACATGCCCCTGTTTGTACTTCAGTACCCC
* *
45710199 TGTTTGCACATACGTGCCGCTGTTTGTACTTCAGTACCCC
1 TGTTTGCACATACATGCCCCTGTTTGTACTTCAGTACCCC
*
45710239 TGTTTGCACATACATGCCCCTGTTTGCACTTCAGTACCCC
1 TGTTTGCACATACATGCCCCTGTTTGTACTTCAGTACCCC
* ** * * *
45710279 TGTTTGCACTTATGTGCCCCTATATGTACTTCGGTAC
1 TGTTTGCACATACATGCCCCTGTTTGTACTTCAGTAC
45710316 TCCTAAACAC
Statistics
Matches: 166, Mismatches: 31, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 166 1.00
ACGTcount: A:0.17, C:0.29, G:0.16, T:0.38
Consensus pattern (40 bp):
TGTTTGCACATACATGCCCCTGTTTGTACTTCAGTACCCC
Found at i:45710298 original size:20 final size:19
Alignment explanation
Indices: 45710132--45710299 Score: 129
Period size: 20 Copynumber: 8.4 Consensus size: 19
45710122 TTACATATAT
* *
45710132 GTGCCCATGTTTGTACTTTA
1 GTGCCCCTGTTTGCAC-TTA
* * *
45710152 GTACCCCTGTTTGAACATA
1 GTGCCCCTGTTTGCACTTA
* *
45710171 CATGCCCCTGTTTGTACTTCA
1 -GTGCCCCTGTTTGCACTT-A
* *
45710192 GTACCCCTGTTTGCACATA
1 GTGCCCCTGTTTGCACTTA
* *
45710211 CGTGCCGCTGTTTGTACTTCA
1 -GTGCCCCTGTTTGCACTT-A
* *
45710232 GTACCCCTGTTTGCACATA
1 GTGCCCCTGTTTGCACTTA
*
45710251 CATGCCCCTGTTTGCACTTCA
1 -GTGCCCCTGTTTGCACTT-A
*
45710272 GTACCCCTGTTTGCACTTA
1 GTGCCCCTGTTTGCACTTA
45710291 TGTGCCCCT
1 -GTGCCCCT
45710300 ATATGTACTT
Statistics
Matches: 115, Mismatches: 26, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
19 5 0.04
20 107 0.93
21 3 0.03
ACGTcount: A:0.16, C:0.31, G:0.17, T:0.36
Consensus pattern (19 bp):
GTGCCCCTGTTTGCACTTA
Found at i:45712120 original size:22 final size:22
Alignment explanation
Indices: 45712047--45712128 Score: 67
Period size: 22 Copynumber: 3.5 Consensus size: 22
45712037 CCTACGTGTT
*
45712047 GCAACA-GGGATGATCGATGTC
1 GCAACATGGGATGATCAATGTC
* *
45712068 GTAACATGGGATACTGGTCACTATGTC
1 GCAACATGGG--A-TGATCA--ATGTC
*
45712095 GCAACATGGGATGATCAATGTT
1 GCAACATGGGATGATCAATGTC
45712117 GCAACATAGGGA
1 GCAACAT-GGGA
45712129 GCGAAATAGA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
21 5 0.10
22 14 0.29
23 4 0.08
24 6 0.12
25 5 0.10
27 14 0.29
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (22 bp):
GCAACATGGGATGATCAATGTC
Found at i:45724252 original size:25 final size:25
Alignment explanation
Indices: 45724212--45724300 Score: 99
Period size: 25 Copynumber: 3.6 Consensus size: 25
45724202 CTTGTACATG
* *
45724212 TATGCTCACACAAGTTATAAAACGA
1 TATGCTCACACGAGTTATAAATCGA
* * *
45724237 TATGCTCTCACGAGTTGTAAATCGG
1 TATGCTCACACGAGTTATAAATCGA
*
45724262 TATGCTCACACGAGCTATAAATC-A
1 TATGCTCACACGAGTTATAAATCGA
*
45724286 GTATGCTCTCACGAG
1 -TATGCTCACACGAG
45724301 ATGTGGGTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (25 bp):
TATGCTCACACGAGTTATAAATCGA
Found at i:45729783 original size:17 final size:17
Alignment explanation
Indices: 45729761--45729795 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
45729751 CTGAAAAACA
45729761 ATAAAGATTCACTAATT
1 ATAAAGATTCACTAATT
45729778 ATAAAGATTCACTAATT
1 ATAAAGATTCACTAATT
45729795 A
1 A
45729796 CTATCTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.34
Consensus pattern (17 bp):
ATAAAGATTCACTAATT
Found at i:45730793 original size:10 final size:9
Alignment explanation
Indices: 45730778--45730816 Score: 51
Period size: 10 Copynumber: 4.1 Consensus size: 9
45730768 TATCAAACTT
45730778 ATAATATAA
1 ATAATATAA
45730787 CATAATATAA
1 -ATAATATAA
*
45730797 ATATTATAA
1 ATAATATAA
45730806 ATAATTATAA
1 ATAA-TATAA
45730816 A
1 A
45730817 ACAAATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 11 0.42
10 15 0.58
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (9 bp):
ATAATATAA
Found at i:45748481 original size:12 final size:13
Alignment explanation
Indices: 45748449--45748481 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
45748439 AAATTATCCA
45748449 ACCCAACCCAATT
1 ACCCAACCCAATT
45748462 ACCCAACCCAATT
1 ACCCAACCCAATT
45748475 A-CCAACC
1 ACCCAACC
45748482 TAATAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.39, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:45748531 original size:33 final size:33
Alignment explanation
Indices: 45748488--45748571 Score: 98
Period size: 39 Copynumber: 2.4 Consensus size: 33
45748478 AACCTAATAA
45748488 AAATAAAACTAAAGTCTACCCAATTACCCAACCC
1 AAATAAAACTAAAGTCTACCCAATTA-CCAACCC
45748522 AATAAAACTAAAACTAAAGTCTACCCAATTACCAACCC
1 ----AAA-TAAAACTAAAGTCTACCCAATTACCAACCC
*
45748560 -AATAAAAATAAA
1 AAATAAAACTAAA
45748572 ACTAAAGTCT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
32 9 0.20
33 2 0.05
38 10 0.23
39 23 0.52
ACGTcount: A:0.54, C:0.26, G:0.02, T:0.18
Consensus pattern (33 bp):
AAATAAAACTAAAGTCTACCCAATTACCAACCC
Found at i:45748566 original size:38 final size:38
Alignment explanation
Indices: 45748467--45748582 Score: 205
Period size: 38 Copynumber: 3.0 Consensus size: 38
45748457 CAATTACCCA
*
45748467 ACCCAATTACCAACCTAATAAAAATAAAACTAAAGTCT
1 ACCCAATTACCAACCCAATAAAAATAAAACTAAAGTCT
*
45748505 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
1 ACCCAATTA-CCAACCCAATAAAAATAAAACTAAAGTCT
45748544 ACCCAATTACCAACCCAATAAAAATAAAACTAAAGTCT
1 ACCCAATTACCAACCCAATAAAAATAAAACTAAAGTCT
45748582 A
1 A
45748583 ACTCTAAGTC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
38 38 0.51
39 36 0.49
ACGTcount: A:0.52, C:0.27, G:0.03, T:0.19
Consensus pattern (38 bp):
ACCCAATTACCAACCCAATAAAAATAAAACTAAAGTCT
Found at i:45749064 original size:38 final size:38
Alignment explanation
Indices: 45749022--45749187 Score: 128
Period size: 38 Copynumber: 4.5 Consensus size: 38
45749012 ACCCTTATTG
*
45749022 AAAGGTTGGGAAATACCTAGTCAAGGCCGACCTTTAAA
1 AAAGGTTGGGAAAGACCTAGTCAAGGCCGACCTTTAAA
* * * *
45749060 AAAGGTTGGGATAGACCTAGTTAAGGCCTACCTTTGAA
1 AAAGGTTGGGAAAGACCTAGTCAAGGCCGACCTTTAAA
* * * * *
45749098 AAAGGTTGGCATAGACC-CGTTTAAGG-CAACC-TT-AA
1 AAAGGTTGGGAAAGACCTAG-TCAAGGCCGACCTTTAAA
* ***
45749133 AAAGGTTGGGATAGACC-AGTCTAA-GATAACCTTTAAA
1 AAAGGTTGGGAAAGACCTAGTC-AAGGCCGACCTTTAAA
* *
45749170 AAATGTTGGGATAGACCT
1 AAAGGTTGGGAAAGACCT
45749188 CATCTAAAAC
Statistics
Matches: 109, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
34 2 0.02
35 25 0.23
36 4 0.04
37 23 0.21
38 55 0.50
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (38 bp):
AAAGGTTGGGAAAGACCTAGTCAAGGCCGACCTTTAAA
Found at i:45749147 original size:35 final size:35
Alignment explanation
Indices: 45749058--45749558 Score: 385
Period size: 35 Copynumber: 13.9 Consensus size: 35
45749048 CCGACCTTTA
* *
45749058 AAAAAGGTTGGGATAGACCTAGT-TAAGGCCTACCTTT
1 AAAAAGGTTGGGATAGACC-CGTCTAAGG-CAACC-TT
* *
45749095 GAAAAAGGTTGGCATAGACCCGTTTAAGGCAACCTT
1 -AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
* **
45749131 AAAAAGGTTGGGATAGACCAGTCTAAGATAACCTTT
1 AAAAAGGTTGGGATAGACCCGTCTAAGGCAACC-TT
* * **
45749167 AAAAAATGTTGGGATAGACCTCATCTAAAACAACCTTT
1 -AAAAAGGTTGGGATAGACC-CGTCTAAGGCAACC-TT
* **
45749205 AAAATATGTTAAGATAGACCTC-TCTAAGGCAACCTT
1 AAAA-AGGTTGGGATAGACC-CGTCTAAGGCAACCTT
** * * *
45749241 AAAAAAATTGGGATAGACTCATTTAAGGCAACCTT
1 AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
** *
45749276 AAAAAGGTTGGGATAGACCTTATTTAAGGCAAGCCTT
1 AAAAAGGTTGGGATAGACC-CGTCTAAGGCAA-CCTT
* * * * *
45749313 AAAAAAGGTTGGGATAAACACATCTAAAGCAACCCT
1 -AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
* *
45749349 AAAAAGGTTGGGATAGACCTTGTCTAAGACAACCTTT
1 AAAAAGGTTGGGATAGACC-CGTCTAAGGCAACC-TT
* * * **
45749386 AAAAAGGTTGAGATAGAGCTGTCTAATACAACCTT
1 AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
* ** **
45749421 AAAAAGGTTGGGATATACCTTATCTAAGAAAACCTTT
1 AAAAAGGTTGGGATAGACC-CGTCTAAGGCAACC-TT
*
45749458 AAAAAGGTTGGGATAGACCCGTCTAAGGCAGCCTT
1 AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
* * * * * *
45749493 TAAAAGGTTGAGATAAACCTGTTTAAGGCAATCTT
1 AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
* * * *
45749528 AAAAATGTTGGAATAAACACGTCTAAGGCAA
1 AAAAAGGTTGGGATAGACCCGTCTAAGGCAA
45749559 TTTTTTTCTA
Statistics
Matches: 381, Mismatches: 69, Indels: 29
0.80 0.14 0.06
Matches are distributed among these distances:
34 1 0.00
35 156 0.41
36 67 0.18
37 89 0.23
38 68 0.18
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (35 bp):
AAAAAGGTTGGGATAGACCCGTCTAAGGCAACCTT
Found at i:45749184 original size:72 final size:73
Alignment explanation
Indices: 45749058--45749512 Score: 435
Period size: 72 Copynumber: 6.3 Consensus size: 73
45749048 CCGACCTTTA
* * * * * *
45749058 AAAAAGGTTGGGATAGACCTAGT-TAAGGCCTACCTTTGAAAAAGGTTGGCATAGACCCGTTTAA
1 AAAAAGGTTGGGATAGACCTAGTCTAA-GACAACCTTTAAAAAAGGTTGGGATAGACCCATCTAA
45749122 GGCAACCTT
65 GGCAACCTT
* *
45749131 AAAAAGGTTGGGATAGACC-AGTCTAAGATAACCTTTAAAAAATGTTGGGATAGACCTCATCTAA
1 AAAAAGGTTGGGATAGACCTAGTCTAAGACAACCTTTAAAAAAGGTTGGGATAGACC-CATCTAA
**
45749195 AACAACCTTT
65 GGCAACC-TT
* ** * * * * *
45749205 AAAATATGTTAAGATAGACCT-CTCTAAGGCAACC-TTAAAAAA-ATTGGGATAGACTCATTTAA
1 AAAA-AGGTTGGGATAGACCTAGTCTAAGACAACCTTTAAAAAAGGTTGGGATAGACCCATCTAA
45749267 GGCAACCTT
65 GGCAACCTT
* * * *
45749276 AAAAAGGTTGGGATAGACCTTA-TTTAAGGCAAGCC-TTAAAAAAGGTTGGGATAAACACATCTA
1 AAAAAGGTTGGGATAGACC-TAGTCTAAGACAA-CCTTTAAAAAAGGTTGGGATAGACCCATCTA
* *
45749339 AAGCAACCCT
64 AGGCAACCTT
* * * ** *
45749349 AAAAAGGTTGGGATAGACCTTGTCTAAGACAACCTTT-AAAAAGGTTGAGATAGAGCTGTCTAAT
1 AAAAAGGTTGGGATAGACCTAGTCTAAGACAACCTTTAAAAAAGGTTGGGATAGACCCATCTAAG
*
45749413 ACAACCTT
66 GCAACCTT
* * *
45749421 AAAAAGGTTGGGATATACCTTA-TCTAAGAAAACCTTT-AAAAAGGTTGGGATAGACCCGTCTAA
1 AAAAAGGTTGGGATAGACC-TAGTCTAAGACAACCTTTAAAAAAGGTTGGGATAGACCCATCTAA
*
45749484 GGCAGCCTT
65 GGCAACCTT
* * *
45749493 TAAAAGGTTGAGATAAACCT
1 AAAAAGGTTGGGATAGACCT
45749513 GTTTAAGGCA
Statistics
Matches: 315, Mismatches: 55, Indels: 26
0.80 0.14 0.07
Matches are distributed among these distances:
70 12 0.04
71 17 0.05
72 154 0.49
73 96 0.30
74 14 0.04
75 22 0.07
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.25
Consensus pattern (73 bp):
AAAAAGGTTGGGATAGACCTAGTCTAAGACAACCTTTAAAAAAGGTTGGGATAGACCCATCTAAG
GCAACCTT
Found at i:45749292 original size:145 final size:143
Alignment explanation
Indices: 45749051--45749532 Score: 483
Period size: 145 Copynumber: 3.3 Consensus size: 143
45749041 GTCAAGGCCG
* * ** * *
45749051 ACCTTTAAAAAAGGTTGGGATAGACCTAGT-TAAGGCCTACCTTTGAAAAAGGTTGGCATAGACC
1 ACCTTT-AAAAAGGTTGAGATAGACCT-GTCTAAGG-CAACC-TT-AAAAAAATTGGGATAGACT
* *
45749115 CGTTTAAGGCAACCTTAAAAAGGTTGGGATAGACC-AGTCTAAGATAACCTTTAAAAAATGTTGG
61 CGTTTAAGGCAACCTTAAAAAGGTTGGGATAGACCTA-TCTAAGAAAACCTTTAAAAAAGGTTGG
*
45749179 GATAGACCTCATCTAAAACA
125 GATAGACC-CATCTAAAGCA
* * * *
45749199 ACCTTTAAAATATGTTAAGATAGACCTCTCTAAGGCAACCTTAAAAAAATTGGGATAGACTCATT
1 ACCTTTAAAA-AGGTTGAGATAGACCTGTCTAAGGCAACCTTAAAAAAATTGGGATAGACTCGTT
* * *
45749264 TAAGGCAACCTTAAAAAGGTTGGGATAGACCTTATTTAAGGCAAGCC-TTAAAAAAGGTTGGGAT
65 TAAGGCAACCTTAAAAAGGTTGGGATAGACC-TATCTAA-GAAAACCTTTAAAAAAGGTTGGGAT
* *
45749328 AAACACATCTAAAGCA
128 AGACCCATCTAAAGCA
* * * ** *
45749344 ACC-CTAAAAAGGTTGGGATAGACCTTGTCTAAGACAACCTTTAAAAAGGTTGAGATAGAGCT-G
1 ACCTTTAAAAAGGTTGAGATAGACC-TGTCTAAGGCAACC-TTAAAAAAATTGGGATAGA-CTCG
* ** *
45749407 TCTAATACAACCTTAAAAAGGTTGGGATATACCTTATCTAAGAAAACCTTT-AAAAAGGTTGGGA
63 TTTAAGGCAACCTTAAAAAGGTTGGGATAGACC-TATCTAAGAAAACCTTTAAAAAAGGTTGGGA
* *
45749471 TAGACCCGTCTAAGGCA
127 TAGACCCATCTAAAGCA
* * * *
45749488 GCCTTT-AAAAGGTTGAGATAAACCTGTTTAAGGCAATCTTAAAAA
1 ACCTTTAAAAAGGTTGAGATAGACCTGTCTAAGGCAACCTTAAAAA
45749533 TGTTGGAATA
Statistics
Matches: 278, Mismatches: 46, Indels: 26
0.79 0.13 0.07
Matches are distributed among these distances:
142 7 0.03
143 23 0.08
144 66 0.24
145 117 0.42
146 27 0.10
147 14 0.05
148 24 0.09
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.26
Consensus pattern (143 bp):
ACCTTTAAAAAGGTTGAGATAGACCTGTCTAAGGCAACCTTAAAAAAATTGGGATAGACTCGTTT
AAGGCAACCTTAAAAAGGTTGGGATAGACCTATCTAAGAAAACCTTTAAAAAAGGTTGGGATAGA
CCCATCTAAAGCA
Found at i:45753634 original size:19 final size:19
Alignment explanation
Indices: 45753610--45753720 Score: 186
Period size: 19 Copynumber: 5.8 Consensus size: 19
45753600 AATTTTTGAG
45753610 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
45753629 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
*
45753648 GATAAGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
45753667 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
45753686 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
45753705 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
45753721 ATATATGATT
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 84 1.00
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:45754522 original size:25 final size:26
Alignment explanation
Indices: 45754479--45754528 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
45754469 TGTACATGTA
45754479 TATATTTTTTAAAACGAATATTTTCC
1 TATATTTTTTAAAACGAATATTTTCC
* *
45754505 TATATTTTTT-TAATGAATATTTTC
1 TATATTTTTTAAAACGAATATTTTC
45754529 ATATTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (26 bp):
TATATTTTTTAAAACGAATATTTTCC
Found at i:45759882 original size:8 final size:8
Alignment explanation
Indices: 45759869--45759912 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
45759859 TTCAGATTAA
45759869 AAAAAAAC
1 AAAAAAAC
45759877 AAAAAAAC
1 AAAAAAAC
45759885 --AAAAAC
1 AAAAAAAC
*
45759891 AAAAACA-
1 AAAAAAAC
45759898 AAAAAAAC
1 AAAAAAAC
45759906 AAAAAAA
1 AAAAAAA
45759913 AGTGAAAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
6 6 0.19
7 6 0.19
8 19 0.61
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:45759882 original size:9 final size:9
Alignment explanation
Indices: 45759868--45759913 Score: 65
Period size: 9 Copynumber: 4.9 Consensus size: 9
45759858 GTTCAGATTA
45759868 AAAAAAAAC
1 AAAAAAAAC
*
45759877 AAAAAAACAA
1 AAAAAAA-AC
45759887 AAACAAAAAC
1 AAA-AAAAAC
45759897 AAAAAAAAC
1 AAAAAAAAC
45759906 AAAAAAAA
1 AAAAAAAA
45759914 GTGAAAGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 21 0.64
10 8 0.24
11 4 0.12
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:45759901 original size:21 final size:19
Alignment explanation
Indices: 45759867--45759913 Score: 76
Period size: 21 Copynumber: 2.4 Consensus size: 19
45759857 AGTTCAGATT
45759867 AAAAAAAAACAAAAAAACA
1 AAAAAAAAACAAAAAAACA
45759886 AAAACAAAAACAAAAAAAACA
1 AAAA-AAAAAC-AAAAAAACA
45759907 AAAAAAA
1 AAAAAAA
45759914 GTGAAAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.15
20 9 0.35
21 13 0.50
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAAAAAAACAAAAAAACA
Found at i:45761403 original size:132 final size:132
Alignment explanation
Indices: 45761166--45761551 Score: 682
Period size: 132 Copynumber: 2.9 Consensus size: 132
45761156 CTGCATTGAC
*
45761166 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAATGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
45761231 CAAGCCTTGTCTCTCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
45761296 GT
131 GT
*
45761298 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
*
45761363 CAAGCCTTATCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
45761428 GT
131 GT
* *
45761430 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTAAACCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * *
45761495 CAAGCCTTGTCTCCCTCAGCAGTAGCGGAGAAGGTTGAAGATTGTATATCCTATCTC
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTC
45761552 TCTGAAGTTG
Statistics
Matches: 242, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 242 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
GT
Found at i:45761458 original size:44 final size:44
Alignment explanation
Indices: 45761278--45761462 Score: 137
Period size: 44 Copynumber: 4.2 Consensus size: 44
45761268 AAGATTGTAG
*
45761278 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
* ** ** *
45761322 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAGACGGCGA
* * * * * * * ** *
45761365 AGCCTTATCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
45761409 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
45761454 ATCTTATCT
1 ATCTTATCT
45761463 TTCCAAGATA
Statistics
Matches: 102, Mismatches: 29, Indels: 20
0.68 0.19 0.13
Matches are distributed among these distances:
42 4 0.04
43 9 0.09
44 79 0.77
45 8 0.08
46 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
Found at i:45761677 original size:44 final size:43
Alignment explanation
Indices: 45761625--45762142 Score: 323
Period size: 44 Copynumber: 11.9 Consensus size: 43
45761615 GATCGCATCT
45761625 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* * *
45761669 AGTCTTATC-CTTCTCAAGTTGCAGTGG-GACAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGACT-AAGA-AGCA
*
45761714 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA-AAGCCGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A
* * * * * *
45761757 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAA-AACCTT
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-A
* * * * *
45761801 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCA
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
*
45761842 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* * *
45761886 AGTCTTATC-CTTCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGA-AGCA
** * *
45761931 AGTCTTATCTCCCTGAAGTTTTAGTGGAGTAGA-TTA-AAGCCGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A
* * * * ** * * *
45761974 TAATCCTATCTCCTTGAAGTTGTAGTGGAGTGGATTAA-AACCTT
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-A
* * * * * * *
45762018 AGATCTTATCTCTCTGAAGTTGTAG-AGAGCAGA-T-CGCATCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* * * *
45762059 AGTCTTATCTCTCTGAAGTTGCAGTGAAGTAGACTAAATAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAGCA
45762103 AGTCTTATCAT-CCTGAAGTTGCAGT-GAGGCAGACTGAAGA
1 AGTCTTATC-TCCCTGAAGTTGCAGTGGA-GCAGACT-AAGA
45762143 TGGCACTAAT
Statistics
Matches: 369, Mismatches: 73, Indels: 64
0.73 0.14 0.13
Matches are distributed among these distances:
40 42 0.11
41 18 0.05
42 12 0.03
43 22 0.06
44 198 0.54
45 74 0.20
46 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (43 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
Found at i:45761785 original size:217 final size:216
Alignment explanation
Indices: 45761542--45762147 Score: 1014
Period size: 217 Copynumber: 2.8 Consensus size: 216
45761532 AAGATTGTAT
* * *
45761542 ATCCTATCTCTCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTATCTAAAGTTGC
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
45761607 AGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
66 AGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
*
45761672 CTTATCCTTCTCAAGTTGCAGTGGGACAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCA
131 CTTATCCTTCTGAAGTTGCAGTGGG-CAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCA
45761737 GTGGAGCAGATTAAAGCCGATA
195 GTGGAGCAGATTAAAGCCGATA
*
45761759 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
* *
45761824 AGAGAGCAGATCGCATCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
66 AGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
**
45761889 CTTATCCTTCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTTTA
131 CTTATCCTTCTGAAGTTGCAGT-GGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCA
*
45761954 GTGGAGTAGATTAAAGCCGATA
195 GTGGAGCAGATTAAAGCCGATA
* * *
45761976 ATCCTATCTCCTTGAAGTTGTAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGT
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
* * * *
45762041 AGAGAGCAGATCGCATCTAGTCTTATCTCTCTGAAGTTGCAGTGAAGTAGACTAAATAAGCAAGT
66 AGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
* *
45762106 CTTATCATCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCA
131 CTTATCCTTCTGAAGTTGCAGTG-GGCAGACTGAAGATGGCA
45762148 CTAATTCCTA
Statistics
Matches: 365, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
216 1 0.00
217 361 0.99
218 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (216 bp):
ATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
AGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
CTTATCCTTCTGAAGTTGCAGTGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAG
TGGAGCAGATTAAAGCCGATA
Found at i:45761808 original size:133 final size:127
Alignment explanation
Indices: 45761630--45761874 Score: 298
Period size: 133 Copynumber: 1.9 Consensus size: 127
45761620 CATCTAGTCT
* *
45761630 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC-CTTCTCAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AACCAAGTCTTATCTC-TCTCAAGTTGCAGA
* * *
45761694 GGGACAGA-CTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
64 GAG-CAGATC-G--CAT--CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
45761758 AATCC
123 AATCC
* * * *
45761763 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAA-AACCTTAGATCTTATCTCTCTGAAGTTGCAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAACC-AAG-TCTTATCTCTCTCAAGTTGCAGA
45761827 GAGCAGATCGCATCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
64 GAGCAGATCGCATCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
45761875 CTAAGTAAGC
Statistics
Matches: 99, Mismatches: 9, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
128 34 0.34
130 2 0.02
131 3 0.03
132 7 0.07
133 52 0.53
134 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (127 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAACCAAGTCTTATCTCTCTCAAGTTGCAGAGA
GCAGATCGCATCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCC
Found at i:45761892 original size:84 final size:87
Alignment explanation
Indices: 45761684--45761910 Score: 234
Period size: 84 Copynumber: 2.6 Consensus size: 87
45761674 TATCCTTCTC
* * *
45761684 AAGTTGCAGTGG-GACAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
1 AAGTTGCAGTGGAG-CAGACT-AAGA-AGCAAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
*
45761748 TAAAGCCGATAATCCTATCTCCCTG
63 CAAAGCCGATAATCCTATCTCCCTG
* * * *
45761773 AAGTTGCAGTGGAGCGGATTAA-AACCTTAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATC
1 AAGTTGCAGTGGAGCAGACTAAGAAGC-AAG-TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC
** * *
45761836 GCA-TC-A-AATCTTATCTCCCTG
64 AAAGCCGATAATCCTATCTCCCTG
45761857 AAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC-CTTCTGAAGTTGCAGT
1 AAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCTTATCTC-TCTGAAGTTGCAGT
45761911 GGGGCAGACT
Statistics
Matches: 115, Mismatches: 16, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
83 1 0.01
84 54 0.47
85 3 0.03
86 5 0.04
87 12 0.10
88 23 0.20
89 16 0.14
90 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (87 bp):
AAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAA
AGCCGATAATCCTATCTCCCTG
Found at i:45761994 original size:173 final size:173
Alignment explanation
Indices: 45761684--45761995 Score: 375
Period size: 173 Copynumber: 1.8 Consensus size: 173
45761674 TATCCTTCTC
* *
45761684 AAGTTGCAGTGGGACAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
1 AAGTTGCAGTGGGACAGACTGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
* * * * *
45761749 AAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCT
66 AAAGACGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATAGATCCTATCTCT
45761814 CTGAAGTTGCAGAGAGCAGATCGCATCAAATCTTATCTCCCTG
131 CTGAAGTTGCAGAGAGCAGATCGCATCAAATCTTATCTCCCTG
* *
45761857 AAGTTGCAGT-GGAGCAGACT-AAG-TAAGCAAGTCTTATC-CTTCTGAAGTTGCAGTGGGGCAG
1 AAGTTGCAGTGGGA-CAGACTGAAGAT-AGCAAGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAG
* * * * ** * *
45761918 ACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTTTAGTGGAGTAGATTAAAGCCGATA-ATCCTA
63 ACTAAAGACGACAA-TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-ATAGATCCTA
45761982 TCTC-CTTGAAGTTG
126 TCTCTC-TGAAGTTG
45761996 TAGTGGAGTG
Statistics
Matches: 116, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
171 2 0.02
172 46 0.40
173 66 0.57
174 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (173 bp):
AAGTTGCAGTGGGACAGACTGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
AAAGACGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATAGATCCTATCTCT
CTGAAGTTGCAGAGAGCAGATCGCATCAAATCTTATCTCCCTG
Found at i:45762337 original size:19 final size:19
Alignment explanation
Indices: 45762313--45762444 Score: 210
Period size: 19 Copynumber: 6.8 Consensus size: 19
45762303 AATTTTTGAG
45762313 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
45762332 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
*
45762351 GATAAGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
45762370 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
45762391 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
45762410 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
45762429 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
45762445 ATATATGGTT
Statistics
Matches: 103, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
19 85 0.83
21 18 0.17
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:45762381 original size:59 final size:57
Alignment explanation
Indices: 45762313--45762451 Score: 212
Period size: 59 Copynumber: 2.4 Consensus size: 57
45762303 AATTTTTGAG
45762313 GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATA-AGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATA-CAATCTTAGATAT
* *
45762370 GATATATGCAATCTTAGATATGATATGCAATCTTAGATATGATATATAATCTTAGATAT
1 G--ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATAT
45762429 GATATGCAATCTTAGA-AT-ATATG
1 GATATGCAATCTTAGATATGATATG
45762452 GTTTTGTAAT
Statistics
Matches: 77, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
55 5 0.06
56 2 0.03
57 16 0.21
59 53 0.69
60 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (57 bp):
GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATAT
Found at i:45763248 original size:25 final size:26
Alignment explanation
Indices: 45763204--45763254 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
45763194 TGTACATGTA
45763204 TATATTTTTTTAAAACGAATATTTTCC
1 TATATTTTTTT-AAACGAATATTTTCC
*
45763231 TATATTTTTTT-AATGAATATTTTC
1 TATATTTTTTTAAACGAATATTTTC
45763255 ATATTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 12 0.52
27 11 0.48
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (26 bp):
TATATTTTTTTAAACGAATATTTTCC
Found at i:45765361 original size:16 final size:17
Alignment explanation
Indices: 45765327--45765383 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
45765317 TCGAAAGAGG
45765327 AAAAGAAAAACTAAAAA
1 AAAAGAAAAACTAAAAA
*
45765344 AAAAGTAAAATAATAAAAA
1 AAAAG-AAAA-ACTAAAAA
*
45765363 TAAAAGTAAAA-TAAATAA
1 -AAAAGAAAAACTAAA-AA
45765381 AAA
1 AAA
45765384 CTCAAGAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
17 12 0.35
18 7 0.21
19 10 0.29
20 5 0.15
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (17 bp):
AAAAGAAAAACTAAAAA
Found at i:45765367 original size:20 final size:20
Alignment explanation
Indices: 45765338--45765383 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
45765328 AAAGAAAAAC
45765338 TAAAAAAAAAGTAAAAT-AA
1 TAAAAAAAAAGTAAAATAAA
45765357 TAAAAATAAAAGTAAAATAAA
1 TAAAAA-AAAAGTAAAATAAA
45765378 TAAAAA
1 TAAAAA
45765384 CTCAAGAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 6 0.24
20 11 0.44
21 8 0.32
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.17
Consensus pattern (20 bp):
TAAAAAAAAAGTAAAATAAA
Found at i:45766660 original size:105 final size:105
Alignment explanation
Indices: 45766533--45766775 Score: 351
Period size: 105 Copynumber: 2.3 Consensus size: 105
45766523 TTTTAATCTG
** * * *
45766533 CTCCACTGTAACTTCAGGGAGATAAGACTTGTTGGCTTTAATCTACTCCATTGCAACTTTAACAA
1 CTCCACTACAACTTTAGGGAGATAAGACTTGTTGGCTTTAATCTACTCCACTGCAACTTCAACAA
* *
45766598 GATAATATTTGTTATGATAAGATCCGCTATCTACAGTCTA
66 GATAAGATTTGCTATGATAAGATCCGCTATCTACAGTCTA
* * ***
45766638 TTCCACTACAATTTTAGGGAGATAAGACTTGTTGGCTTTAATCTACTCCACTGCAACTTCAGGGA
1 CTCCACTACAACTTTAGGGAGATAAGACTTGTTGGCTTTAATCTACTCCACTGCAACTTCAACAA
* * *
45766703 GATAAGATTTGCTATGGTAAGATCTGCTATCTACAGTCTG
66 GATAAGATTTGCTATGATAAGATCCGCTATCTACAGTCTA
45766743 CTCCACTACAACTTTAGGGAGATAAGACTTGTT
1 CTCCACTACAACTTTAGGGAGATAAGACTTGTT
45766776 ATGATAGATT
Statistics
Matches: 121, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
105 121 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (105 bp):
CTCCACTACAACTTTAGGGAGATAAGACTTGTTGGCTTTAATCTACTCCACTGCAACTTCAACAA
GATAAGATTTGCTATGATAAGATCCGCTATCTACAGTCTA
Found at i:45766894 original size:41 final size:43
Alignment explanation
Indices: 45766837--45766947 Score: 154
Period size: 44 Copynumber: 2.6 Consensus size: 43
45766827 TTTTAATCCG
* *
45766837 CTCCACTGCAACTTCAGGGAGATAGGA-T-TAGCTTCAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTGTAGCTTCAACCTA
* *
45766878 CTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATT-GTAGCTTCAACCTA
*
45766922 CTCCACTGCAACTTCAAGGAGATAAG
1 CTCCACTGCAACTTCAGGGAGATAAG
45766948 GTTTGTTATC
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 26 0.42
42 1 0.02
44 35 0.56
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTGTAGCTTCAACCTA
Found at i:45768199 original size:21 final size:21
Alignment explanation
Indices: 45768173--45768219 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
45768163 GGTACAACAA
45768173 GATCAACATATGGCCCAATTT
1 GATCAACATATGGCCCAATTT
* * *
45768194 GATCAACATTTGGGCCACTTT
1 GATCAACATATGGCCCAATTT
45768215 GATCA
1 GATCA
45768220 CCTCGTGCCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (21 bp):
GATCAACATATGGCCCAATTT
Found at i:45775423 original size:18 final size:19
Alignment explanation
Indices: 45775394--45775429 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
45775384 GTGAAAATTT
*
45775394 TGAAATTTAGGGATTTAAG
1 TGAAATTTAGGGAGTTAAG
45775413 TGAAA-TTAGGGAGTTAA
1 TGAAATTTAGGGAGTTAA
45775430 ATTTAGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (19 bp):
TGAAATTTAGGGAGTTAAG
Found at i:45776921 original size:18 final size:19
Alignment explanation
Indices: 45776892--45776927 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
45776882 GTGAAAATTT
*
45776892 TGAAATTTAGGGATTTAAG
1 TGAAATTTAGGGAGTTAAG
45776911 TGAAA-TTAGGGAGTTAA
1 TGAAATTTAGGGAGTTAA
45776928 ATTTTGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (19 bp):
TGAAATTTAGGGAGTTAAG
Found at i:45786838 original size:122 final size:119
Alignment explanation
Indices: 45786647--45786920 Score: 451
Period size: 122 Copynumber: 2.3 Consensus size: 119
45786637 GAACCACAAA
* * *
45786647 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGCCTCAAGTCTTATCTCCCTAAGTAGTAGTGGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGCCACAAGTCTTATCTCCCTAAGCAGTAGTGGA
*
45786712 GCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
65 GCAGATCGCATCAAGTCTTACCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
45786767 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAACCACATA-TCTTATCTCCCTAAGCAGTAGT
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGAC-G--CCACA-AGTCTTATCTCCCTAAGCAGTAGT
45786831 GGAGCAGATCGCATCAAGTCTTACCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
62 GGAGCAGATCGCATCAAGTCTTACCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
*
45786889 TCTTATCTCCCTAAGCAATAGTGGAGCAGACG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACG
45786921 AAATCAACCT
Statistics
Matches: 145, Mismatches: 5, Indels: 7
0.92 0.03 0.04
Matches are distributed among these distances:
119 1 0.01
120 30 0.21
121 1 0.01
122 112 0.77
123 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (119 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGCCACAAGTCTTATCTCCCTAAGCAGTAGTGGAG
CAGATCGCATCAAGTCTTACCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
Found at i:45786927 original size:40 final size:40
Alignment explanation
Indices: 45786647--45786918 Score: 438
Period size: 40 Copynumber: 6.8 Consensus size: 40
45786637 GAACCACAAA
* *
45786647 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGCCTCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
*
45786687 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGCATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
45786727 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
* * *
45786767 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAACCACATA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GCATCA-A-G
45786809 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
*
45786849 TCTTACCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
*
45786889 TCTTATCTCCCTAAGCAATAGTGGAGCAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
45786919 CGAAATCAAC
Statistics
Matches: 217, Mismatches: 11, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
39 1 0.00
40 179 0.82
41 2 0.01
42 34 0.16
43 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
Found at i:45786954 original size:162 final size:162
Alignment explanation
Indices: 45786635--45786957 Score: 506
Period size: 162 Copynumber: 2.0 Consensus size: 162
45786625 TGGGATAGAT
* * *
45786635 CAGAACCACAAATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGCCTCAAGTCTTATCTCCCTA
1 CAGAACCACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTACCTCCCTA
* * *
45786700 AGTAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCA
66 AGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAATCA
* *
45786765 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGA
131 AGCCTTATCTCCCTAAGCAGCAGTGGAGCAGA
*
45786797 CAGAACCACATATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTACCTCCCTA
1 CAGAACCACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTACCTCCCTA
45786862 AGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAATAGTGGAGCAGA-CGAAATC
66 AGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAATAGTGGAGCAGATCG-AATC
* **
45786926 AA-CCTTATCTCCTTGAAGTTGCAGTGGAGCAG
130 AAGCCTTATCTCCCT-AAGCAGCAGTGGAGCAG
45786958 GCTGAAGATA
Statistics
Matches: 147, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
161 12 0.08
162 135 0.92
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (162 bp):
CAGAACCACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTACCTCCCTA
AGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAATCA
AGCCTTATCTCCCTAAGCAGCAGTGGAGCAGA
Found at i:45788448 original size:8 final size:9
Alignment explanation
Indices: 45788423--45788447 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
45788413 ATTATCATTG
45788423 TTTTTTTTA
1 TTTTTTTTA
45788432 TTTTTTTTA
1 TTTTTTTTA
45788441 TTTTTTT
1 TTTTTTT
45788448 ACTTTACGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:45788860 original size:2 final size:2
Alignment explanation
Indices: 45788853--45788881 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
45788843 CTTTATCTTT
45788853 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45788882 CTTTTTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:45789495 original size:107 final size:107
Alignment explanation
Indices: 45789309--45789516 Score: 335
Period size: 107 Copynumber: 1.9 Consensus size: 107
45789299 ACTATTCAAA
* * *
45789309 AAGATTTTCTAAATAAGGCAATATTTCACGTTTGGAAATTTGAGAAAACGTGCCTTAACGTGCTG
1 AAGATTTTCTAAATAAGGCAATATTTCACGTTTGAAAATTCGAGAAAACGTGCCCTAACGTGCTG
* *
45789374 GGTTTCGATTTCTCGTTTGACCAAATAGCCAAATATTCTTTT
66 GGTTTCAATTTCTCGTTCGACCAAATAGCCAAATATTCTTTT
** *
45789416 AAGATTTTCTAAATAAGGCAATATTTTGCGTTTGAAAATTCGAGAAAATGTGCCCTAACGTGCTG
1 AAGATTTTCTAAATAAGGCAATATTTCACGTTTGAAAATTCGAGAAAACGTGCCCTAACGTGCTG
*
45789481 GGTTTCAATTTCTCGTTCGACTAAATAGCCAAATAT
66 GGTTTCAATTTCTCGTTCGACCAAATAGCCAAATAT
45789517 CCTCTTAAAA
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
107 92 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (107 bp):
AAGATTTTCTAAATAAGGCAATATTTCACGTTTGAAAATTCGAGAAAACGTGCCCTAACGTGCTG
GGTTTCAATTTCTCGTTCGACCAAATAGCCAAATATTCTTTT
Found at i:45791817 original size:24 final size:22
Alignment explanation
Indices: 45791793--45791835 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
45791783 TTCAAAAATA
45791793 AAACATAATATAATATTTATCAT
1 AAACATAA-ATAATATTTATCAT
*
45791816 AAAGATAAATAATATTTATC
1 AAACATAAATAATATTTATC
45791836 TTAATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.37
Consensus pattern (22 bp):
AAACATAAATAATATTTATCAT
Found at i:45792709 original size:18 final size:18
Alignment explanation
Indices: 45792686--45792725 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
45792676 ACTTGAGATT
*
45792686 AATATTTCAATATTTTTA
1 AATATTTCAATATTTCTA
*
45792704 AATATTTTAATATTTCTA
1 AATATTTCAATATTTCTA
45792722 AATA
1 AATA
45792726 CCGTAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (18 bp):
AATATTTCAATATTTCTA
Found at i:45793214 original size:26 final size:27
Alignment explanation
Indices: 45793172--45793226 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
45793162 AAGTTTTCTA
45793172 TATTTTTTATTTAATTTAATGATGATG
1 TATTTTTTATTTAATTTAATGATGATG
* *
45793199 TATTTTGTTA-TT-ATTTATTGATGGTG
1 TATTTT-TTATTTAATTTAATGATGATG
45793225 TA
1 TA
45793227 CATCAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 14 0.56
27 8 0.32
28 3 0.12
ACGTcount: A:0.25, C:0.00, G:0.15, T:0.60
Consensus pattern (27 bp):
TATTTTTTATTTAATTTAATGATGATG
Found at i:45799287 original size:105 final size:105
Alignment explanation
Indices: 45799169--45799378 Score: 420
Period size: 105 Copynumber: 2.0 Consensus size: 105
45799159 CCAAAATTTA
45799169 AAAATAAATATATGAGCTAATTGCACCTTATGACCCTCATTCTAAATTGGTCCCTAAATTTCAAG
1 AAAATAAATATATGAGCTAATTGCACCTTATGACCCTCATTCTAAATTGGTCCCTAAATTTCAAG
45799234 TCATTCTAATTACATCTCCAACTATCAAGGTCATATCAAT
66 TCATTCTAATTACATCTCCAACTATCAAGGTCATATCAAT
45799274 AAAATAAATATATGAGCTAATTGCACCTTATGACCCTCATTCTAAATTGGTCCCTAAATTTCAAG
1 AAAATAAATATATGAGCTAATTGCACCTTATGACCCTCATTCTAAATTGGTCCCTAAATTTCAAG
45799339 TCATTCTAATTACATCTCCAACTATCAAGGTCATATCAAT
66 TCATTCTAATTACATCTCCAACTATCAAGGTCATATCAAT
45799379 TAAGCCATTT
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 105 1.00
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.33
Consensus pattern (105 bp):
AAAATAAATATATGAGCTAATTGCACCTTATGACCCTCATTCTAAATTGGTCCCTAAATTTCAAG
TCATTCTAATTACATCTCCAACTATCAAGGTCATATCAAT
Found at i:45802343 original size:78 final size:78
Alignment explanation
Indices: 45802259--45802424 Score: 296
Period size: 78 Copynumber: 2.1 Consensus size: 78
45802249 ATAATAGTGT
* * *
45802259 TCAGGTGATAGCGGATACAAACATAAGTTGGATGAGGAACTATTTGAGGACAATTTCTATCGATT
1 TCAGGTGACAACGGATACAAACATAAGTTGGATGAGGAACTATTTGAGGACAATTTCTACCGATT
45802324 GTAATAATAATCC
66 GTAATAATAATCC
45802337 TCAGGTGACAACGGATACAAACATAAGTTGGATGAGGAACTATTTGAGGACAATTTCTACCGATT
1 TCAGGTGACAACGGATACAAACATAAGTTGGATGAGGAACTATTTGAGGACAATTTCTACCGATT
45802402 GTAATAATAATCC
66 GTAATAATAATCC
*
45802415 TCAAGTGACA
1 TCAGGTGACA
45802425 GCTTCACATT
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 84 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (78 bp):
TCAGGTGACAACGGATACAAACATAAGTTGGATGAGGAACTATTTGAGGACAATTTCTACCGATT
GTAATAATAATCC
Found at i:45822700 original size:8 final size:8
Alignment explanation
Indices: 45822687--45822712 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
45822677 ATTGAAGAAC
45822687 TTACAGCA
1 TTACAGCA
45822695 TTACAGCA
1 TTACAGCA
45822703 TTACAGCA
1 TTACAGCA
45822711 TT
1 TT
45822713 TAATCTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.31
Consensus pattern (8 bp):
TTACAGCA
Found at i:45827126 original size:35 final size:36
Alignment explanation
Indices: 45827056--45827133 Score: 88
Period size: 35 Copynumber: 2.1 Consensus size: 36
45827046 TTTCGAAGCG
*
45827056 ACACCATGAAAATGGTTATCTATTGGCTCTTCAAAGTA
1 ACACCATGAAAATGG-T-TCTATAGGCTCTTCAAAGTA
* *
45827094 ACACCATGATAATGG-TCTATAGGCT-TTACAAAGTG
1 ACACCATGAAAATGGTTCTATAGGCTCTT-CAAAGTA
45827129 ACACC
1 ACACC
45827134 TCGAAAGAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
34 2 0.06
35 20 0.56
38 14 0.39
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (36 bp):
ACACCATGAAAATGGTTCTATAGGCTCTTCAAAGTA
Found at i:45828702 original size:19 final size:19
Alignment explanation
Indices: 45828678--45828714 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
45828668 TGCATGCATA
45828678 AATCGGTAGCATGTAACCC
1 AATCGGTAGCATGTAACCC
45828697 AATCGGTAGCATGTAACC
1 AATCGGTAGCATGTAACC
45828715 TAGAATCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (19 bp):
AATCGGTAGCATGTAACCC
Found at i:45830164 original size:68 final size:71
Alignment explanation
Indices: 45830036--45830173 Score: 192
Period size: 68 Copynumber: 2.0 Consensus size: 71
45830026 TGATTAAACT
* *
45830036 TAATCACTTTAATATTAAAATAATATAATACTTATCTACAAGATAAATATTAAACTAAATTTAAT
1 TAATCACTTTAATAGTAAAATAATAAAATACTTATCTA-AAGATAAATATTAAACTAAATTTAAT
45830101 ATTAAGA
65 ATTAAGA
* * * *
45830108 TAATTACTTTAATAGTAAATTAATAAAATAC-TAT-T-AAGATAAGTATTAAATTAAATTTAATA
1 TAATCACTTTAATAGTAAAATAATAAAATACTTATCTAAAGATAAATATTAAACTAAATTTAATA
45830170 TTAA
66 TTAA
45830174 AACTATTAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
68 29 0.48
70 1 0.02
71 3 0.05
72 27 0.45
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (71 bp):
TAATCACTTTAATAGTAAAATAATAAAATACTTATCTAAAGATAAATATTAAACTAAATTTAATA
TTAAGA
Found at i:45844694 original size:28 final size:28
Alignment explanation
Indices: 45844652--45844712 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
45844642 CTATTTAGTG
* *
45844652 ACAGT-ACAGTGTGGGCCTTAGTCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
45844679 ACAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
45844707 ACAGTA
1 ACAGTA
45844713 TCGGTATAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 5 0.16
28 26 0.84
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAGCCCAAT
Found at i:45845136 original size:54 final size:54
Alignment explanation
Indices: 45845078--45845245 Score: 257
Period size: 54 Copynumber: 3.1 Consensus size: 54
45845068 GGTATAACAG
* *
45845078 TCATTTTACCCTATTGGGGTAATTCGGTCATTTTACCCTGTAGGGGTAATTCGA
1 TCATTTTACCCTATAGGGGTAATTCGGTCATTTTACCCTGTAGGGGTAATTCTA
* *
45845132 TCATTTTACCCTATAAGGGTAATTCGGTCATTTTACCCTGTGGGGGTAATT-TA
1 TCATTTTACCCTATAGGGGTAATTCGGTCATTTTACCCTGTAGGGGTAATTCTA
* * *
45845185 GTCATTTTACCCTGTGGGGGTAATTTGGTCATTTTACCCTGTAGGGGTAATTCTA
1 -TCATTTTACCCTATAGGGGTAATTCGGTCATTTTACCCTGTAGGGGTAATTCTA
45845240 TCATTT
1 TCATTT
45845246 ATTGACCTCT
Statistics
Matches: 103, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
53 1 0.01
54 100 0.97
55 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.40
Consensus pattern (54 bp):
TCATTTTACCCTATAGGGGTAATTCGGTCATTTTACCCTGTAGGGGTAATTCTA
Found at i:45845236 original size:27 final size:27
Alignment explanation
Indices: 45845077--45845237 Score: 232
Period size: 27 Copynumber: 6.0 Consensus size: 27
45845067 GGGTATAACA
* *
45845077 GTCATTTTACCCTATTGGGGTAATTCG
1 GTCATTTTACCCTGTAGGGGTAATTCG
45845104 GTCATTTTACCCTGTAGGGGTAATTCG
1 GTCATTTTACCCTGTAGGGGTAATTCG
* * *
45845131 ATCATTTTACCCTATAAGGGTAATTCG
1 GTCATTTTACCCTGTAGGGGTAATTCG
* **
45845158 GTCATTTTACCCTGTGGGGGTAATTTA
1 GTCATTTTACCCTGTAGGGGTAATTCG
* *
45845185 GTCATTTTACCCTGTGGGGGTAATTTG
1 GTCATTTTACCCTGTAGGGGTAATTCG
45845212 GTCATTTTACCCTGTAGGGGTAATTC
1 GTCATTTTACCCTGTAGGGGTAATTC
45845238 TATCATTTAT
Statistics
Matches: 120, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 120 1.00
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (27 bp):
GTCATTTTACCCTGTAGGGGTAATTCG
Found at i:45848409 original size:24 final size:26
Alignment explanation
Indices: 45848356--45848411 Score: 82
Period size: 24 Copynumber: 2.2 Consensus size: 26
45848346 TCGGTAAATT
45848356 TTTTGACAATTTTACCCGCGATAAAA
1 TTTTGACAATTTTACCCGCGATAAAA
45848382 TTTTGAC-ATTTTACCCTG-G-TAAAA
1 TTTTGACAATTTTACCC-GCGATAAAA
45848406 TTTTGA
1 TTTTGA
45848412 GAAAATTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
24 11 0.38
25 10 0.34
26 8 0.28
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.41
Consensus pattern (26 bp):
TTTTGACAATTTTACCCGCGATAAAA
Found at i:45861893 original size:5 final size:5
Alignment explanation
Indices: 45861863--45861908 Score: 62
Period size: 5 Copynumber: 9.6 Consensus size: 5
45861853 AATATAGTAA
45861863 TATAT TAT-T TA-AT TATA- TATTAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TA-TAT TATAT TATAT TATAT TATAT TAT
45861909 CATGTAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
4 8 0.22
5 27 0.73
6 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:45862796 original size:16 final size:16
Alignment explanation
Indices: 45862775--45862812 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
45862765 TTATGTGTAT
45862775 GGTAAGCG-AATAATAA
1 GGTAAGCGAAAT-ATAA
*
45862791 GGTAAGTGAAATATAA
1 GGTAAGCGAAATATAA
45862807 GGTAAG
1 GGTAAG
45862813 TATTATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.47, C:0.03, G:0.29, T:0.21
Consensus pattern (16 bp):
GGTAAGCGAAATATAA
Found at i:45863113 original size:23 final size:24
Alignment explanation
Indices: 45863086--45863156 Score: 119
Period size: 23 Copynumber: 3.0 Consensus size: 24
45863076 GGCTTTGCCA
*
45863086 ATCAGACACTTTATGTGTCGTA-C
1 ATCAGGCACTTTATGTGTCGTATC
45863109 ATCAGGCACTTTATGTGTCGTATC
1 ATCAGGCACTTTATGTGTCGTATC
45863133 -TCAGGCACTTTATGTGTCGTATC
1 ATCAGGCACTTTATGTGTCGTATC
45863156 A
1 A
45863157 GGCAACTCGT
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
23 44 0.98
24 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.37
Consensus pattern (24 bp):
ATCAGGCACTTTATGTGTCGTATC
Found at i:45863159 original size:21 final size:21
Alignment explanation
Indices: 45863086--45863195 Score: 116
Period size: 23 Copynumber: 5.1 Consensus size: 21
45863076 GGCTTTGCCA
*
45863086 ATCAGACACTTTATGTGTCGT
1 ATCAGGCACTTTATGTGTCGT
45863107 ACATCAGGCACTTTATGTGTCGT
1 --ATCAGGCACTTTATGTGTCGT
45863130 ATCTCAGGCACTTTATGTGTCGT
1 A--TCAGGCACTTTATGTGTCGT
** *
45863153 ATCAGGCAAC-TCGTGTGTTGT
1 ATCAGGC-ACTTTATGTGTCGT
*
45863174 TTCAGGCAC-TTATGTGTCGT
1 ATCAGGCACTTTATGTGTCGT
45863194 AT
1 AT
45863196 ACTGATCAGG
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
20 11 0.15
21 21 0.28
22 2 0.03
23 41 0.55
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (21 bp):
ATCAGGCACTTTATGTGTCGT
Found at i:45865699 original size:5 final size:5
Alignment explanation
Indices: 45865689--45865724 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
45865679 GCTCTTGATC
45865689 TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
45865725 TATTAGCCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:45871812 original size:30 final size:26
Alignment explanation
Indices: 45871744--45871796 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
45871734 TGTATATGTA
*
45871744 TTTATACTATGTAATTGAGATATATT
1 TTTATATTATGTAATTGAGATATATT
45871770 TTTATATTATGTAATTGAGATATATT
1 TTTATATTATGTAATTGAGATATATT
45871796 T
1 T
45871797 GCATCTATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.34, C:0.02, G:0.11, T:0.53
Consensus pattern (26 bp):
TTTATATTATGTAATTGAGATATATT
Done.