Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold42
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: 3911082
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 18191 characters in sequence are not A, C, G, or T
File 12 of 24
Found at i:1766716 original size:177 final size:179
Alignment explanation
Indices: 1766424--1766833 Score: 463
Period size: 177 Copynumber: 2.3 Consensus size: 179
1766414 ATAATCAAGT
* * * * ***
1766424 GAGG-TAAGATTTGATCGAGTATAGTCAAATAAAGAAAGACTTGATCGAATGCAATTAAGCGGGG
1 GAGGATAAGATTTGATCGAGTATAGTCAAATGAAGAAAGACTTGACCGAATACAATCAAGAAAGG
* * * * *
1766488 AATTTGACTGAGTATAGTCAAATAAAGAAAGACTTAACCGAATATAGTCAAGCAA-GGT-AAGAT
66 AATTCGACTAAGTACAGTCAAATAAAGAAAGACTTAACCAAATACAGTCAAGCAAGGGTGAA-AT
* * * *
1766551 TTGACTGAGTACAGTCAAATAAGG-ATAGTCTTGACCAAATATAGTCAAAA
130 TTGACTAAATACAGTCAAATAAGGAAAAGT-TTAACCAAATATAGTCAAAA
*
1766601 GA-GATAAGATTTGATCGAGTATAGTCAAATGAAGAAAGACTTGACCGAATACAGTCAAGAAAGG
1 GAGGATAAGATTTGATCGAGTATAGTCAAATGAAGAAAGACTTGACCGAATACAATCAAGAAAGG
* * *
1766665 AATTCGACTAAGTACAGTCAAATAAAGAAAGGCTTGACTAAATACAGTCAAGCAAGGGTGAAATT
66 AATTCGACTAAGTACAGTCAAATAAAGAAAGACTTAACCAAATACAGTCAAGCAAGGGTGAAATT
* * * * *
1766730 TGACTAAATATAGTGAAATAAGGAAAAGTTTAACCGAATATAGTTAAAC
131 TGACTAAATACAGTCAAATAAGGAAAAGTTTAACCAAATATAGTCAAAA
* * * ** * * *
1766779 GAGGGT-GGATTTGACCGAACACAGTCAAATGAGGAAAGGCTTGACCGAATACAAT
1 GAGGATAAGATTTGATCGAGTATAGTCAAATGAAGAAAGACTTGACCGAATACAAT
1766834 TAGGCAAGAG
Statistics
Matches: 194, Mismatches: 34, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
176 1 0.01
177 101 0.52
178 84 0.43
179 8 0.04
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.23
Consensus pattern (179 bp):
GAGGATAAGATTTGATCGAGTATAGTCAAATGAAGAAAGACTTGACCGAATACAATCAAGAAAGG
AATTCGACTAAGTACAGTCAAATAAAGAAAGACTTAACCAAATACAGTCAAGCAAGGGTGAAATT
TGACTAAATACAGTCAAATAAGGAAAAGTTTAACCAAATATAGTCAAAA
Found at i:1766821 original size:121 final size:121
Alignment explanation
Indices: 1766678--1766966 Score: 389
Period size: 121 Copynumber: 2.4 Consensus size: 121
1766668 TCGACTAAGT
* * ** * *
1766678 ACAGTCAAATAAAGAAAGGCTTGACTAAATACAGTCAAGCAAGGGTGAAATTTGACTAAATATAG
1 ACAGTCAAATGAGGAAAGGCTTGACCGAATACAATCAAGCAAGGGTGAAATTTGACCAAATATAG
* * *
1766743 TGAAATAAGGAAAAGTTTAACCGAATATAGTTAAACGAGGGTGGATTTGACCGAAC
66 TCAAATAAGGAAAAGCTTAACCGAATACAGTTAAACGAGGGTGGATTTGACCGAAC
* * * *
1766799 ACAGTCAAATGAGGAAAGGCTTGACCGAATACAATTAGGCAAGAGTGAAATTTGACCGAATATAG
1 ACAGTCAAATGAGGAAAGGCTTGACCGAATACAATCAAGCAAGGGTGAAATTTGACCAAATATAG
* * * * *
1766864 TCAAATATGGAAACGCTTAACCGAATACAGTTAAACGAGGGTTGATTTGACTGAAT
66 TCAAATAAGGAAAAGCTTAACCGAATACAGTTAAACGAGGGTGGATTTGACCGAAC
* * *
1766920 ATAGTCAAATGAGGAAAGGTTTGACCGAATACAATCAAGCTAGGGTG
1 ACAGTCAAATGAGGAAAGGCTTGACCGAATACAATCAAGCAAGGGTG
1766967 GAAGAAGTTT
Statistics
Matches: 144, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
121 144 1.00
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (121 bp):
ACAGTCAAATGAGGAAAGGCTTGACCGAATACAATCAAGCAAGGGTGAAATTTGACCAAATATAG
TCAAATAAGGAAAAGCTTAACCGAATACAGTTAAACGAGGGTGGATTTGACCGAAC
Found at i:1766866 original size:61 final size:60
Alignment explanation
Indices: 1766432--1766966 Score: 311
Period size: 60 Copynumber: 9.0 Consensus size: 60
1766422 GTGAGGTAAG
* * * * * * * *
1766432 ATTTGATCGAGTATAGTCAAATAAAGAAAGACTTGATCGAATGCAATTAAGC--GGG-GA
1 ATTTGACCGAATATAGTCAAATGAGGAAAGGCTTGACCGAATACAGTTAAGCAAGGGTGA
* * * * * * * * *
1766489 ATTTGACTGAGTATAGTCAAATAAAGAAAGACTTAACCGAATATAGTCAAGCAA-GGTAA
1 ATTTGACCGAATATAGTCAAATGAGGAAAGGCTTGACCGAATACAGTTAAGCAAGGGTGA
* * * * * * * * * * *
1766548 GATTTGACTGAGTACAGTCAAATAAGGATAGTCTTGACCAAATATAGTCAA--AAGAGATAA
1 -ATTTGACCGAATATAGTCAAATGAGGAAAGGCTTGACCGAATACAGTTAAGCAAG-GGTGA
* * * * * *
1766608 GATTTGATCGAGTATAGTCAAATGAAGAAAGACTTGACCGAATACAGTCAAG-AA-AG-GA
1 -ATTTGACCGAATATAGTCAAATGAGGAAAGGCTTGACCGAATACAGTTAAGCAAGGGTGA
* * * * * ** *
1766666 ATTCGA-CTAAGTACAGTCAAATAAAGAAAGGCTTGACTAAATACAGTCAAGCAAGGGTGAA
1 ATTTGACCGAA-TATAGTCAAATGAGGAAAGGCTTGACCGAATACAGTTAAGCAAGGGTG-A
** * * * * * * * * *
1766727 ATTTGACTAAATATAGTGAAATAAGGAAAAGTTTAACCGAATATAGTTAAACGAGGGTGG
1 ATTTGACCGAATATAGTCAAATGAGGAAAGGCTTGACCGAATACAGTTAAGCAAGGGTGA
* * * * *
1766787 ATTTGACCGAACACAGTCAAATGAGGAAAGGCTTGACCGAATACAATTAGGCAAGAGTGAA
1 ATTTGACCGAATATAGTCAAATGAGGAAAGGCTTGACCGAATACAGTTAAGCAAGGGTG-A
* * * *
1766848 ATTTGACCGAATATAGTCAAAT-ATGGAAACGCTTAACCGAATACAGTTAAACGAGGGTTG-
1 ATTTGACCGAATATAGTCAAATGA-GGAAAGGCTTGACCGAATACAGTTAAGCAAGGG-TGA
* * * * *
1766908 ATTTGACTGAATATAGTCAAATGAGGAAAGGTTTGACCGAATACAATCAAGCTAGGGTG
1 ATTTGACCGAATATAGTCAAATGAGGAAAGGCTTGACCGAATACAGTTAAGCAAGGGTG
1766967 GAAGAAGTTT
Statistics
Matches: 375, Mismatches: 86, Indels: 32
0.76 0.17 0.06
Matches are distributed among these distances:
56 2 0.01
57 84 0.22
58 7 0.02
59 4 0.01
60 183 0.49
61 91 0.24
62 4 0.01
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (60 bp):
ATTTGACCGAATATAGTCAAATGAGGAAAGGCTTGACCGAATACAGTTAAGCAAGGGTGA
Found at i:1766943 original size:30 final size:30
Alignment explanation
Indices: 1766490--1766950 Score: 124
Period size: 30 Copynumber: 15.4 Consensus size: 30
1766480 AAGCGGGGAA
* * * * *
1766490 TTTGACTGAGTATAGTCAAATAAAGAAAGA
1 TTTGACCGAATATAGTCAAATGAGGAAAGG
* * *** * *
1766520 CTTAACCGAATATAGTCAAGCAAGGTAAGA
1 TTTGACCGAATATAGTCAAATGAGGAAAGG
* * * * *
1766550 TTTGACTGAGTACAGTCAAATAAGGATA-G
1 TTTGACCGAATATAGTCAAATGAGGAAAGG
* * *
1766579 TCTTGACCAAATATAGTCAAAAGA-GATAAGA
1 T-TTGACCGAATATAGTCAAATGAGGA-AAGG
* * * *
1766610 TTTGATCGAGTATAGTCAAATGAAGAAAGA
1 TTTGACCGAATATAGTCAAATGAGGAAAGG
* * *
1766640 CTTGACCGAATACAGTCAAGA-AAGG-AA--
1 TTTGACCGAATATAGTCAA-ATGAGGAAAGG
* * * * *
1766667 TTCGA-CTAAGTACAGTCAAATAAAGAAAGG
1 TTTGACCGAA-TATAGTCAAATGAGGAAAGG
* ** * * *
1766697 CTTGACTAAATACAGTCAAGCAAGGGTGAAA--
1 TTTGACCGAATATAGTCAA--ATGAG-GAAAGG
** * * *
1766728 TTTGACTAAATATAGTGAAATAAGGAAAAG
1 TTTGACCGAATATAGTCAAATGAGGAAAGG
* * * **
1766758 TTTAACCGAATATAGTTAAACGAGG-GTGG
1 TTTGACCGAATATAGTCAAATGAGGAAAGG
* *
1766787 ATTTGACCGAACACAGTCAAATGAGGAAAGG
1 -TTTGACCGAATATAGTCAAATGAGGAAAGG
* *
1766818 CTTGACCGAATACAATTAGGC-AA-GAGTGAAA--
1 TTTGACCGAAT---A-TAGTCAAATGAG-GAAAGG
*
1766849 TTTGACCGAATATAGTCAAAT-ATGGAAACG
1 TTTGACCGAATATAGTCAAATGA-GGAAAGG
* * * * * *** *
1766879 CTTAACCGAATACAGTTAAACGAGGGTTGA
1 TTTGACCGAATATAGTCAAATGAGGAAAGG
*
1766909 TTTGACTGAATATAGTCAAATGAGGAAAGG
1 TTTGACCGAATATAGTCAAATGAGGAAAGG
1766939 TTTGACCGAATA
1 TTTGACCGAATA
1766951 CAATCAAGCT
Statistics
Matches: 305, Mismatches: 97, Indels: 58
0.66 0.21 0.13
Matches are distributed among these distances:
26 4 0.01
27 19 0.06
28 14 0.05
29 9 0.03
30 206 0.68
31 35 0.11
32 4 0.01
33 11 0.04
34 3 0.01
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.23
Consensus pattern (30 bp):
TTTGACCGAATATAGTCAAATGAGGAAAGG
Found at i:1767960 original size:12 final size:13
Alignment explanation
Indices: 1767943--1767977 Score: 54
Period size: 12 Copynumber: 2.7 Consensus size: 13
1767933 ACATTGTTCA
1767943 TTTTTTTTGCTT-
1 TTTTTTTTGCTTC
1767955 TTTTTTTTGCTTC
1 TTTTTTTTGCTTC
1767968 TCTTTTTTTG
1 T-TTTTTTTG
1767978 ATTGCCCCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.57
13 1 0.05
14 8 0.38
ACGTcount: A:0.00, C:0.11, G:0.09, T:0.80
Consensus pattern (13 bp):
TTTTTTTTGCTTC
Found at i:1768317 original size:6 final size:6
Alignment explanation
Indices: 1768308--1768368 Score: 58
Period size: 6 Copynumber: 10.7 Consensus size: 6
1768298 CATTCTTTTT
* *
1768308 TTTTTA TTTTGT TTTTGA TTTTGA TTTTGA -TTTGA -TTTGA TTTT--
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
*
1768352 TTTTTA TTTTAGA TTTT
1 TTTTGA TTTT-GA TTTT
1768369 TCTATTATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
4 4 0.09
5 10 0.21
6 28 0.60
7 5 0.11
ACGTcount: A:0.15, C:0.00, G:0.11, T:0.74
Consensus pattern (6 bp):
TTTTGA
Found at i:1768871 original size:13 final size:13
Alignment explanation
Indices: 1768853--1768891 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
1768843 CATTATTCAA
1768853 TGTATCGATACAT
1 TGTATCGATACAT
1768866 TGTATCGATACAT
1 TGTATCGATACAT
1768879 TGTATCGATACAT
1 TGTATCGATACAT
1768892 CATTCAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1768904 original size:20 final size:20
Alignment explanation
Indices: 1768831--1768911 Score: 72
Period size: 20 Copynumber: 3.8 Consensus size: 20
1768821 TTGCCAAGGA
* *
1768831 AATGTATCTATACATTATTC
1 AATGTATCGATACATCATTC
*
1768851 AATGTATCGATACATTGTATCGATAC
1 AATGTATCGATAC-----ATC-ATTC
*
1768877 ATTGTATCGATACATCATTC
1 AATGTATCGATACATCATTC
1768897 AATGTATCGATACAT
1 AATGTATCGATACAT
1768912 ACAAGCAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
20 29 0.59
21 3 0.06
25 2 0.04
26 15 0.31
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (20 bp):
AATGTATCGATACATCATTC
Found at i:1775933 original size:19 final size:21
Alignment explanation
Indices: 1775890--1775941 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
1775880 TTTAATAATT
*
1775890 TGTATCGATACATTCAGTAAA
1 TGTATCGATACATTAAGTAAA
1775911 TGTATCGATACA-TAAGT-AA
1 TGTATCGATACATTAAGTAAA
1775930 TGTATCGATACA
1 TGTATCGATACA
1775942 GTGTATCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 14 0.47
20 4 0.13
21 12 0.40
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATTAAGTAAA
Found at i:1778438 original size:52 final size:53
Alignment explanation
Indices: 1778381--1778766 Score: 188
Period size: 52 Copynumber: 7.4 Consensus size: 53
1778371 CAATTGTTTA
* * *
1778381 TAATCGGGGGTACTCCAACTCCGGTTTTATTTTC-AAAACACCAATTTTCTTT
1 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTCTTT
**
1778433 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTT-TCA
1 TAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTTTCTTT
* * * ** * ** ** *
1778486 CAAGCGAGGATACTCCAAC-CTCG---TTATTTCATCGGGGATATGCCAA--CCCTGT
1 TAATCGGGGATACTCCAACTC-CGATTTTATTTC--C--AAAAACACCAATTTTCTTT
* * * * *** **
1778538 TACCTCCGAGAGGATACTCCAACCCCGACTTTATTTCC-AAAATATTGA-TTTCTCA
1 TA-AT-CG-G-GGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTCTTT
* * * * **
1778593 TAATCGGGGATACTCCAACCCCGGTTTTATTT-CTAAAACACTAATTTTC-CA
1 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTCTTT
* * * ** * *
1778644 CAATCGGGGATACTCCATCCCCGGCTTTATTTTC-AAAACACCAATTTTCCTT
1 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTCTTT
* * * **
1778696 TAATCGGGGATACTCCAACTCTGATTTTATTTCAAAAAACACTAATTTT-TCA
1 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTCTTT
*
1778748 TAATCGAGGATACTCCAAC
1 TAATCGGGGATACTCCAAC
1778767 CCCGTTATTT
Statistics
Matches: 256, Mismatches: 57, Indels: 42
0.72 0.16 0.12
Matches are distributed among these distances:
50 8 0.03
51 75 0.29
52 85 0.33
53 40 0.16
54 21 0.08
55 4 0.02
56 14 0.05
57 2 0.01
59 7 0.03
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (53 bp):
TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTCTTT
Found at i:1778614 original size:51 final size:51
Alignment explanation
Indices: 1778549--1778770 Score: 248
Period size: 51 Copynumber: 4.3 Consensus size: 51
1778539 ACCTCCGAGA
* * *
1778549 GGATACTCCAACCCCGACTTTATTTCCAAAATATTGA-TTTCTCATAATCGG
1 GGATACTCCAACCCCGACTTTATTTCCAAAACACTAATTTTC-CATAATCGG
** * *
1778600 GGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCACAATCGG
1 GGATACTCCAACCCCGACTTTATTTCCAAAACACTAATTTTCCATAATCGG
* * * * *
1778651 GGATACTCCATCCCCGGCTTTATTTTCAAAACACCAATTTTCCTTTAATCGG
1 GGATACTCCAACCCCGACTTTATTTCCAAAACACTAATTTTCC-ATAATCGG
* * * * * *
1778703 GGATACTCCAACTCTGATTTTATTTCAAAAAACACTAATTTTTCATAATCGA
1 GGATACTCCAACCCCGACTTTATTTC-CAAAACACTAATTTTCCATAATCGG
1778755 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
1778771 TTATTTCCGA
Statistics
Matches: 141, Mismatches: 27, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
51 77 0.55
52 50 0.35
53 14 0.10
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (51 bp):
GGATACTCCAACCCCGACTTTATTTCCAAAACACTAATTTTCCATAATCGG
Found at i:1783100 original size:25 final size:25
Alignment explanation
Indices: 1783069--1783159 Score: 67
Period size: 25 Copynumber: 3.5 Consensus size: 25
1783059 GTAATCAAGC
1783069 AATGTAACCGTATCAGGAATTTTCA
1 AATGTAACCGTATCAGGAATTTTCA
* * * ***
1783094 AATGTAATCGTAGATTATGTAATCAAGC-
1 AATGTAACCGT--ATCA-GGAAT-TTTCA
*
1783122 AATGTAACCGTATCAGGCATTTTCA
1 AATGTAACCGTATCAGGAATTTTCA
*
1783147 AATGTAATCGTAT
1 AATGTAACCGTAT
1783160 GTAATCAGGA
Statistics
Matches: 47, Mismatches: 14, Indels: 10
0.66 0.20 0.14
Matches are distributed among these distances:
24 1 0.02
25 25 0.53
26 3 0.06
27 3 0.06
28 14 0.30
29 1 0.02
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.33
Consensus pattern (25 bp):
AATGTAACCGTATCAGGAATTTTCA
Found at i:1783131 original size:53 final size:53
Alignment explanation
Indices: 1783051--1783158 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
1783041 CTGTACTTCC
1783051 TAGATTATGTAATCAAGCAATGTAACCGTATCAGGAATTTTCAAATGTAATCG
1 TAGATTATGTAATCAAGCAATGTAACCGTATCAGGAATTTTCAAATGTAATCG
*
1783104 TAGATTATGTAATCAAGCAATGTAACCGTATCAGGCATTTTCAAATGTAATCG
1 TAGATTATGTAATCAAGCAATGTAACCGTATCAGGAATTTTCAAATGTAATCG
1783157 TA
1 TA
1783159 TGTAATCAGG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (53 bp):
TAGATTATGTAATCAAGCAATGTAACCGTATCAGGAATTTTCAAATGTAATCG
Found at i:1783133 original size:28 final size:28
Alignment explanation
Indices: 1783051--1783133 Score: 75
Period size: 28 Copynumber: 3.1 Consensus size: 28
1783041 CTGTACTTCC
1783051 TAGATTATGTAATCAAGCAATGTAACCG
1 TAGATTATGTAATCAAGCAATGTAACCG
* * *** *
1783079 T--ATCA-GGAAT-TTTCAAATGTAATCG
1 TAGATTATGTAATCAAGC-AATGTAACCG
1783104 TAGATTATGTAATCAAGCAATGTAACCG
1 TAGATTATGTAATCAAGCAATGTAACCG
1783132 TA
1 TA
1783134 TCAGGCATTT
Statistics
Matches: 38, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
24 1 0.03
25 14 0.37
26 3 0.08
27 3 0.08
28 16 0.42
29 1 0.03
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (28 bp):
TAGATTATGTAATCAAGCAATGTAACCG
Found at i:1791326 original size:11 final size:10
Alignment explanation
Indices: 1791310--1791360 Score: 59
Period size: 11 Copynumber: 4.9 Consensus size: 10
1791300 ATTCCTTTTT
1791310 AAAAAAAACAC
1 AAAAAAAA-AC
1791321 AAAAAAAAA-
1 AAAAAAAAAC
1791330 ACAAAAAAAAC
1 A-AAAAAAAAC
*
1791341 AAAGAAAAAAG
1 AAA-AAAAAAC
1791352 AAAAAAAAA
1 AAAAAAAAA
1791361 GAATCTACTT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
9 1 0.03
10 17 0.47
11 18 0.50
ACGTcount: A:0.88, C:0.08, G:0.04, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:1791328 original size:13 final size:12
Alignment explanation
Indices: 1791310--1791360 Score: 59
Period size: 13 Copynumber: 4.1 Consensus size: 12
1791300 ATTCCTTTTT
1791310 AAAAAAAACACAA
1 AAAAAAAACA-AA
1791323 AAAAAAAACAAA
1 AAAAAAAACAAA
*
1791335 AAAAACAAAGAAA
1 AAAAA-AAACAAA
1791348 AAAGAAAAA-AAA
1 AAA-AAAAACAAA
1791360 A
1 A
1791361 GAATCTACTT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
12 11 0.31
13 22 0.63
14 2 0.06
ACGTcount: A:0.88, C:0.08, G:0.04, T:0.00
Consensus pattern (12 bp):
AAAAAAAACAAA
Found at i:1791337 original size:20 final size:20
Alignment explanation
Indices: 1791311--1791359 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
1791301 TTCCTTTTTA
1791311 AAAAAAACACAAAAAAAAAAC
1 AAAAAAA-ACAAAAAAAAAAC
* *
1791332 AAAAAAAACAAAGAAAAAAG
1 AAAAAAAACAAAAAAAAAAC
1791352 AAAAAAAA
1 AAAAAAAA
1791360 AGAATCTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.88, C:0.08, G:0.04, T:0.00
Consensus pattern (20 bp):
AAAAAAAACAAAAAAAAAAC
Found at i:1792438 original size:55 final size:55
Alignment explanation
Indices: 1792315--1792962 Score: 838
Period size: 55 Copynumber: 11.6 Consensus size: 55
1792305 CTCCTTCCGC
* *
1792315 TTTT-CAGTCCTCAAAGAGCAGGACACCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCC-TTTC-----AAAGCCCACACGAGTTGGTGGCA
* * * *
1792375 CTTCCCAGTCCTTAAAGAGCAGGACGCCTTTCAAAGCCCACCCGAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1792430 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
* *
1792485 TTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
** * * * *
1792540 CCTTCCAATCCTCAAAAAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
* * * *
1792595 CCTTT-CAGTCCTCAAAGAGTAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
* * *
1792650 CTTCCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTAGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
* *
1792705 TTTTCCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACATGAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
* * *
1792760 TTTTCCAGTCCTCAAAGAGTAGGACGCCTTTTAAAGCCTACACGAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
* * *
1792815 TTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTGCGAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGA--C--GC-CTTT-CAAAGCCCACACGAGTTGGTGGCA
1792876 CCTTTT--AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 --TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
*
1792931 CTTTT-TAGTCCTCAAAGAGCAGGACGCACTTT
1 -TTTTCCAGTCCTCAAAGAGCAGGACGC-CTTT
1792963 ATTTTCCTCT
Statistics
Matches: 527, Mismatches: 48, Indels: 30
0.87 0.08 0.05
Matches are distributed among these distances:
54 8 0.02
55 431 0.82
56 11 0.02
57 2 0.00
59 2 0.00
60 10 0.02
61 59 0.11
63 4 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (55 bp):
TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
Found at i:1793146 original size:40 final size:40
Alignment explanation
Indices: 1793094--1793186 Score: 177
Period size: 40 Copynumber: 2.3 Consensus size: 40
1793084 TTCTTCTCTC
*
1793094 CCTTTGTCCTCAAGGAGCAAGACTTATTTCATTCTCTTTT
1 CCTTTGTCCTCAAGGAGCAAGACTTATTTCATTCTATTTT
1793134 CCTTTGTCCTCAAGGAGCAAGACTTATTTCATTCTATTTT
1 CCTTTGTCCTCAAGGAGCAAGACTTATTTCATTCTATTTT
1793174 CCTTTGTCCTCAA
1 CCTTTGTCCTCAA
1793187 AAAGTGGGAC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.20, C:0.26, G:0.12, T:0.42
Consensus pattern (40 bp):
CCTTTGTCCTCAAGGAGCAAGACTTATTTCATTCTATTTT
Found at i:1793894 original size:13 final size:13
Alignment explanation
Indices: 1793876--1793901 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1793866 GCCAAGGAAA
1793876 TGTATCGATACAT
1 TGTATCGATACAT
1793889 TGTATCGATACAT
1 TGTATCGATACAT
1793902 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1795759 original size:20 final size:21
Alignment explanation
Indices: 1795728--1795786 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
1795718 GTCAAAACCC
* *
1795728 TGAAAAGTATCGATACACATT
1 TGAATAGTATCGATACACAAT
1795749 TGAAT-GTATCGATACA-AAT
1 TGAATAGTATCGATACACAAT
*
1795768 TGCATAGTATCGATACACA
1 TGAATAGTATCGATACACA
1795787 CAAATATGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 6 0.18
20 22 0.67
21 5 0.15
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (21 bp):
TGAATAGTATCGATACACAAT
Found at i:1795938 original size:13 final size:13
Alignment explanation
Indices: 1795920--1795945 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1795910 ACATATTTAT
1795920 GTGTATCGATACA
1 GTGTATCGATACA
1795933 GTGTATCGATACA
1 GTGTATCGATACA
1795946 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:1796487 original size:34 final size:35
Alignment explanation
Indices: 1796424--1796490 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1796414 CTAAGTGATT
1796424 GAGAGGTTCTATCTTAGCCTTTGTAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
1796460 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
1796491 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:1801428 original size:20 final size:21
Alignment explanation
Indices: 1801397--1801472 Score: 81
Period size: 20 Copynumber: 3.8 Consensus size: 21
1801387 GTTAAAACCC
* *
1801397 TGAAAAGTATCGATACACATT
1 TGAATAGTATCGATACACAAT
1801418 TGAAT-GTATCGATACA-AAT
1 TGAATAGTATCGATACACAAT
*
1801437 TGCATAGTATCGATACACAA-
1 TGAATAGTATCGATACACAAT
1801457 --AATATGTATCGATACA
1 TGAATA-GTATCGATACA
1801473 TTGGAAGTAG
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
18 3 0.06
19 17 0.35
20 22 0.46
21 6 0.12
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.29
Consensus pattern (21 bp):
TGAATAGTATCGATACACAAT
Found at i:1801511 original size:10 final size:10
Alignment explanation
Indices: 1801496--1801526 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
1801486 AATCTCATTT
1801496 TCACTGTTCA
1 TCACTGTTCA
1801506 TCACTGTTCA
1 TCACTGTTCA
1801516 TCACTGTTCA
1 TCACTGTTCA
1801526 T
1 T
1801527 GTATCGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.19, C:0.29, G:0.10, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:1801563 original size:13 final size:13
Alignment explanation
Indices: 1801545--1801570 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1801535 ACATATTTAT
1801545 GTGTATCGATACA
1 GTGTATCGATACA
1801558 GTGTATCGATACA
1 GTGTATCGATACA
1801571 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:1802112 original size:34 final size:35
Alignment explanation
Indices: 1802049--1802115 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1802039 CTAAGTGATT
1802049 GAGAGGTTCTATCTTAGCCTTTGTAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
1802085 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
1802116 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:1803246 original size:31 final size:28
Alignment explanation
Indices: 1803223--1803294 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
1803213 TCACAAGCGA
*
1803223 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTATTTCATCGG
** ***
1803251 GGATACTCCAACCCCGTTACCTCCGAGG
1 GGATACTCCAACCCCGTTATTTCATCGG
1803279 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
1803295 GTTTTATTTC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.22
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTATTTCATCGG
Found at i:1803340 original size:51 final size:51
Alignment explanation
Indices: 1803277--1803500 Score: 288
Period size: 51 Copynumber: 4.4 Consensus size: 51
1803267 TTACCTCCGA
* *** *
1803277 GGGGATACTCCAACCCCGGTTTTATTTCCAAAATATTGA-TTTCTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTC-CACAATC
* *
1803328 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCACAATC
* **
1803379 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCC-ACAATC
* * *
1803431 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCC-AAAACACCAATTTTCCACAATC
*
1803483 GGGGATACTTCAACCCCG
1 GGGGATACTCCAACCCCG
1803501 TTATTTCCGA
Statistics
Matches: 152, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
51 83 0.55
52 54 0.36
53 15 0.10
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCACAATC
Found at i:1803577 original size:79 final size:80
Alignment explanation
Indices: 1803431--1803603 Score: 217
Period size: 79 Copynumber: 2.2 Consensus size: 80
1803421 TCCTTTAATC
* *
1803431 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGGGGATACTTCAA
1 GGGGATACTCCAACTCCGATTTCATTTCCAAAAACACCAATTTTTCACAACCGGGGATACTTCAA
* *
1803496 CCCCGTTATTTCCGA
66 CCCCATTATTTCCAA
* * * *
1803511 GGGGATACTCCAA-TCCCGATTTCATTTCC-TAATCATCGATTTTTCACAACCGGGGATAC-TCT
1 GGGGATACTCCAACT-CCGATTTCATTTCCAAAAACACCAATTTTTCACAACCGGGGATACTTC-
**
1803573 AACCCCATTATTTTTAA
64 AACCCCATTATTTCCAA
1803590 GGGGATACTCCAAC
1 GGGGATACTCCAAC
1803604 CCCATTATTA
Statistics
Matches: 80, Mismatches: 10, Indels: 6
0.83 0.10 0.06
Matches are distributed among these distances:
78 2 0.03
79 52 0.65
80 26 0.32
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (80 bp):
GGGGATACTCCAACTCCGATTTCATTTCCAAAAACACCAATTTTTCACAACCGGGGATACTTCAA
CCCCATTATTTCCAA
Found at i:1804886 original size:80 final size:78
Alignment explanation
Indices: 1804801--1805079 Score: 299
Period size: 79 Copynumber: 3.5 Consensus size: 78
1804791 AATTTTGGAG
* *
1804801 ATAAAACCGAGGTTGGGGGTATCCCCTCAAAAATAACAGGGTCGAAGTATCCCCGATTGTGGAAA
1 ATAAAACCGAGGTT-GGAGTATCCCCTCAAAAATAACGGGGT-GAAGTATCCCCGATTGTGGAAA
1804866 ATTGGTGTTTTGAAA
64 ATTGGTGTTTTGAAA
** * * * * * *
1804881 ATAAAATTGGGGTTGGAGTATTCCCTCAGAAATAATGGGGTTAGAGTATCCCCGATTGTGAAAAA
1 ATAAAACCGAGGTTGGAGTATCCCCTCAAAAATAACGGGGTGA-AGTATCCCCGATTGTGGAAAA
* *
1804946 TTAGTGTTTTGGAA
65 TTGGTGTTTTGAAA
* * * * * *
1804960 ATAAAATCGAGGTTTGAGTATCTCCTCAGAAATAACGGGATTGGAGTATCCCCGATTGTGGAAAA
1 ATAAAACCGAGGTTGGAGTATCCCCTCAAAAATAACGGG-GTGAAGTATCCCCGATTGTGGAAAA
* *
1805025 TCGATGTTTT-AGAA
65 TTGGTGTTTTGA-AA
* * *
1805039 ATAAAACCGAGGTTAGAGTATCCCTTCGAAAATAACGGGGT
1 ATAAAACCGAGGTTGGAGTATCCCCTCAAAAATAACGGGGT
1805080 TGTGGAAAAT
Statistics
Matches: 163, Mismatches: 33, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
78 2 0.01
79 149 0.91
80 12 0.07
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (78 bp):
ATAAAACCGAGGTTGGAGTATCCCCTCAAAAATAACGGGGTGAAGTATCCCCGATTGTGGAAAAT
TGGTGTTTTGAAA
Found at i:1805135 original size:143 final size:148
Alignment explanation
Indices: 1804793--1805360 Score: 392
Period size: 143 Copynumber: 3.7 Consensus size: 148
1804783 AAAGTTTAAA
* * * * *** * *
1804793 TTTTGGAGATAAAACCGAGGTTGGGGGTATCCCCTCAAAAATAACAGGGTCGAAGTATCCCCGAT
1 TTTTGGAAATAAAATCGGGGTT-GGAGTATCCCCTTGGAAATAAC-GGGTTGGAGTATCCCCGAT
* * ** * **
1804858 TGTGGAAAATTGGTGTTTT-GAAAATAAAATTGGGGTTGGAGTATTCCC-TC-AGAAATAATGGG
64 TGTGGAAAATCGATGTTTTAG-AAATAAAACCGAGGTTGGAGTA-TCCCTTCGA-AAATAA-CAG
*
1804920 GTTAGAGTATCCCCGATTGTGAAAAATTAGTG
125 G-T-GAGTAT---CGA---TGAAAAACTAGTG
* * * **
1804952 TTTTGGAAATAAAATCGAGGTTTGAGTATCTCCTCAGAAATAACGGGATTGGAGTATCCCCGATT
1 TTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTTGGAAATAACGGG-TTGGAGTATCCCCGATT
*
1805017 GTGGAAAATCGATGTTTTAGAAATAAAACCGAGGTTAGAGTATCCCTTCGAAAATAAC-GG-G-G
65 GTGGAAAATCGATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCTTCGAAAATAACAGGTGAG
* * *
1805079 T-T-G-TGGAAAA-TTGATT
130 TATCGATGAAAAACTAG-TG
* * ** *
1805095 TTTTGGAAATGAAATCGGGGTTGGAGTATCCCCTTGGAAATAATGAGGTTGGAGTATCTTCAATT
1 TTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTTGGAAATAACG-GGTTGGAGTATCCCCGATT
* * * *
1805160 GTGAAAAATCG--GTATTTCGAAAGTAAAATCG-GAGTTGGAGTATCCCTTCGAAAATTACGAGG
65 GTGGAAAATCGATGT-TTTAGAAA-TAAAACCGAG-GTTGGAGTATCCCTTCGAAAATAAC-AGG
1805222 TTAGAGTATCCCGATTATGAAAAACTAGTG
126 -T-GAGTAT--CG---ATGAAAAACTAGTG
* * *
1805252 TTTTAGAAATAAAATCGGGCTTGGAGTAT-CCCTTCGAAAATAACAGGGTTGGAGTATCCCCGAT
1 TTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTT-GGAAATAAC-GGGTTGGAGTATCCCCGAT
* *
1805316 TATGGAAAATCGATGTTTTAAAAATAAAACC-AGGGTTGGAGTATC
64 TGTGGAAAATCGATGTTTTAGAAATAAAACCGA-GGTTGGAGTATC
1805361 TTTGACTATA
Statistics
Matches: 330, Mismatches: 49, Indels: 62
0.75 0.11 0.14
Matches are distributed among these distances:
141 2 0.01
142 10 0.03
143 99 0.30
144 2 0.01
145 2 0.01
147 1 0.00
148 1 0.00
149 2 0.01
150 1 0.00
151 1 0.00
152 2 0.01
153 2 0.01
156 7 0.02
157 89 0.27
158 85 0.26
159 24 0.07
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (148 bp):
TTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTTGGAAATAACGGGTTGGAGTATCCCCGATTG
TGGAAAATCGATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCTTCGAAAATAACAGGTGAGT
ATCGATGAAAAACTAGTG
Found at i:1805145 original size:64 final size:64
Alignment explanation
Indices: 1805015--1805145 Score: 156
Period size: 64 Copynumber: 2.0 Consensus size: 64
1805005 GTATCCCCGA
*
1805015 TTGTGGAAAATCGATGTTTTAGAAATAAAACCGAGGTTAGAGTATCCCTTCGAAAATAACGGGG
1 TTGTGGAAAATCGATGTTTTAGAAATAAAACCGAGGTTAGAGTATCCCTTCGAAAATAACGAGG
* * * * * * * * *
1805079 TTGTGGAAAATTGATTTTTTGGAAATGAAATCGGGGTTGGAGTATCCCCTT-GGAAATAATGAGG
1 TTGTGGAAAATCGATGTTTTAGAAATAAAACCGAGGTTAGAGTAT-CCCTTCGAAAATAACGAGG
1805143 TTG
1 TTG
1805146 GAGTATCTTC
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
64 51 0.91
65 5 0.09
ACGTcount: A:0.32, C:0.10, G:0.27, T:0.31
Consensus pattern (64 bp):
TTGTGGAAAATCGATGTTTTAGAAATAAAACCGAGGTTAGAGTATCCCTTCGAAAATAACGAGG
Found at i:1805276 original size:78 final size:76
Alignment explanation
Indices: 1805095--1805360 Score: 277
Period size: 79 Copynumber: 3.4 Consensus size: 76
1805085 AAAATTGATT
* * * * * *
1805095 TTTTGGAAATGAAATCGGGGTTGGAGTATCCCCTT-GGAAATAATGAGGTTGGAGTATCTTCAAT
1 TTTTAGAAATAAAATC-GGGTTGGAGTAT-CCCTTCGAAAATAACGAGGTTGGAGTATC-CCGAT
*
1805159 TGTGAAAAATCG-G
63 TATGAAAAATCGTG
* * *
1805172 TATTTCGAAAGTAAAATCGGAGTTGGAGTATCCCTTCGAAAATTACGAGGTTAGAGTATCCCGAT
1 T-TTTAGAAA-TAAAATCGG-GTTGGAGTATCCCTTCGAAAATAACGAGGTTGGAGTATCCCGAT
*
1805237 TATGAAAAACTAGTG
63 TATGAAAAA-TCGTG
1805252 TTTTAGAAATAAAATCGGGCTTGGAGTATCCCTTCGAAAATAAC-AGGGTTGGAGTATCCCCGAT
1 TTTTAGAAATAAAATCGGG-TTGGAGTATCCCTTCGAAAATAACGA-GGTTGGAGTAT-CCCGAT
*
1805316 TATGGAAAATCGATG
63 TATGAAAAATCG-TG
* *
1805331 TTTTAAAAATAAAACCAGGGTTGGAGTATC
1 TTTTAGAAATAAAATC-GGGTTGGAGTATC
1805361 TTTGACTATA
Statistics
Matches: 161, Mismatches: 17, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
77 3 0.02
78 69 0.43
79 84 0.52
80 5 0.03
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.29
Consensus pattern (76 bp):
TTTTAGAAATAAAATCGGGTTGGAGTATCCCTTCGAAAATAACGAGGTTGGAGTATCCCGATTAT
GAAAAATCGTG
Found at i:1805392 original size:51 final size:51
Alignment explanation
Indices: 1805295--1805392 Score: 117
Period size: 51 Copynumber: 1.9 Consensus size: 51
1805285 TCGAAAATAA
* * *
1805295 CAGGGTTGGAGTATCCCCGATTATGGAAAATCGATGTTTTAAAAATAAAAC
1 CAGGGTTGGAGTATCCCCGACTATAGAAAATCGATGTTTCAAAAATAAAAC
*** *
1805346 CAGGGTTGGAGTATCTTTGACTATAGAAAATC-AGTGTTTCAGAAATA
1 CAGGGTTGGAGTATCCCCGACTATAGAAAATCGA-TGTTTCAAAAATA
1805393 TATAGAGTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
50 1 0.03
51 38 0.97
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (51 bp):
CAGGGTTGGAGTATCCCCGACTATAGAAAATCGATGTTTCAAAAATAAAAC
Found at i:1807372 original size:21 final size:21
Alignment explanation
Indices: 1807348--1807397 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
1807338 CTTTTTTTTT
1807348 TTTGCTGAAAAAAGGATCCCC
1 TTTGCTGAAAAAAGGATCCCC
*
1807369 TTTGCTAAAAAAAGGATCCCC
1 TTTGCTGAAAAAAGGATCCCC
1807390 TTTGCTGA
1 TTTGCTGA
1807398 GCCAACAACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (21 bp):
TTTGCTGAAAAAAGGATCCCC
Found at i:1807826 original size:24 final size:20
Alignment explanation
Indices: 1807782--1807886 Score: 84
Period size: 20 Copynumber: 4.8 Consensus size: 20
1807772 AAAATGACTG
1807782 AATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
1807802 AATGTATCGATACATTTGGGTAAAACCCA
1 AATGTATCGATACA-TT--G---AA---A
* * *
1807831 GAATGTACCGATACAATGAAC
1 -AATGTATCGATACATTGAAA
*
1807852 AATGTATCGATACATTGAAC
1 AATGTATCGATACATTGAAA
1807872 AATGTATCGATACAT
1 AATGTATCGATACAT
1807887 CTAGATAAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 20
0.74 0.05 0.21
Matches are distributed among these distances:
20 47 0.67
21 2 0.03
23 1 0.01
24 2 0.03
26 2 0.03
27 1 0.01
29 2 0.03
30 13 0.19
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:1807865 original size:70 final size:70
Alignment explanation
Indices: 1807782--1807935 Score: 227
Period size: 70 Copynumber: 2.2 Consensus size: 70
1807772 AAAATGACTG
* * *
1807782 AATGTATCGATACATTGAAAAATGTATCGATACATTTGGGTAAAACCCAGAATGTACCGATACAA
1 AATGTATCGATACATTGAAAAATGTATCGATACATCTAGATAAAACCCAGAATGTACCGATACAA
1807847 TGAAC
66 TGAAC
* * **
1807852 AATGTATCGATACATTGAACAATGTATCGATACATCTAGATAAAACCTAGAATGTATTGATACAA
1 AATGTATCGATACATTGAAAAATGTATCGATACATCTAGATAAAACCCAGAATGTACCGATACAA
*
1807917 TGAAT
66 TGAAC
*
1807922 AATGTATCAATACA
1 AATGTATCGATACA
1807936 AATTGTGAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
70 75 1.00
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (70 bp):
AATGTATCGATACATTGAAAAATGTATCGATACATCTAGATAAAACCCAGAATGTACCGATACAA
TGAAC
Found at i:1812137 original size:11 final size:11
Alignment explanation
Indices: 1812123--1812151 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
1812113 CTATTTTCTC
1812123 TCTTTTTTATT
1 TCTTTTTTATT
1812134 TC-TTTTTATT
1 TCTTTTTTATT
1812144 TCTTTTTT
1 TCTTTTTT
1812152 CTCCCTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (11 bp):
TCTTTTTTATT
Found at i:1812164 original size:13 final size:13
Alignment explanation
Indices: 1812146--1812180 Score: 63
Period size: 12 Copynumber: 2.8 Consensus size: 13
1812136 TTTTTATTTC
1812146 TTTTTTCTCCCTT
1 TTTTTTCTCCCTT
1812159 TTTTTT-TCCCTT
1 TTTTTTCTCCCTT
1812171 TTTTTTCTCC
1 TTTTTTCTCC
1812181 ACCTACTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.57
13 9 0.43
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTTTCTCCCTT
Found at i:1812178 original size:32 final size:32
Alignment explanation
Indices: 1812102--1812178 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
1812092 CAAGGGTTTA
*
1812102 CCTTATTTTTTCTATTTTCTCTCTTTTTTATTT
1 CCTT-TTTTTTCTATTTTCTCCCTTTTTTATTT
*
1812135 -CTTTTTATTTCTTTTTTCTCCCTTTTTT-TTT
1 CCTTTTT-TTTCTATTTTCTCCCTTTTTTATTT
1812166 CCCTTTTTTTTCT
1 -CCTTTTTTTTCT
1812179 CCACCTACTA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
31 6 0.15
32 27 0.69
33 6 0.15
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (32 bp):
CCTTTTTTTTCTATTTTCTCCCTTTTTTATTT
Found at i:1812522 original size:10 final size:10
Alignment explanation
Indices: 1812494--1812523 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
1812484 AGAAAAAATG
1812494 AATAAAATTA
1 AATAAAATTA
1812504 AATTAAAATTA
1 AA-TAAAATTA
1812515 AATAAAATT
1 AATAAAATT
1812524 TCCAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AATAAAATTA
Found at i:1814415 original size:19 final size:16
Alignment explanation
Indices: 1814371--1814418 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
1814361 CTTATTCTTG
*
1814371 TCTTCAATAAATATTT
1 TCTTAAATAAATATTT
*
1814387 TCTCAAATAAATATATGT
1 TCTTAAATAAATAT-T-T
1814405 ATCTTAAATAAATA
1 -TCTTAAATAAATA
1814419 ATACAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 12 0.46
17 1 0.04
18 1 0.04
19 12 0.46
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (16 bp):
TCTTAAATAAATATTT
Found at i:1825019 original size:13 final size:13
Alignment explanation
Indices: 1825001--1825029 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1824991 AAATAGTACC
1825001 CAATGTATCGATA
1 CAATGTATCGATA
1825014 CAATGTATCGATA
1 CAATGTATCGATA
1825027 CAA
1 CAA
1825030 CATTCGATAC
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:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1831155 original size:13 final size:13
Alignment explanation
Indices: 1831137--1831167 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1831127 ACATTTCTTC
1831137 ATGTATCGATACA
1 ATGTATCGATACA
1831150 ATGTATCGATACA
1 ATGTATCGATACA
*
1831163 TTGTA
1 ATGTA
1831168 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1831159 original size:33 final size:33
Alignment explanation
Indices: 1831117--1831183 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
1831107 GTTATAAGCT
1831117 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTGTAC--CATGTATCGATACA
1831150 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
1831183 A
1 A
1831184 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:1831257 original size:19 final size:20
Alignment explanation
Indices: 1831233--1831285 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
1831223 ACAATTTGTC
*
1831233 CATGTATCGATACAATG-AA
1 CATGTATCGATACAAAGTAA
*
1831252 CATGTATCGATACAAAGTAG
1 CATGTATCGATACAAAGTAA
1831272 CATGTATCGATACA
1 CATGTATCGATACA
1831286 TCTGGGTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (20 bp):
CATGTATCGATACAAAGTAA
Found at i:1833682 original size:33 final size:33
Alignment explanation
Indices: 1833640--1833704 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1833630 TTAGAAGCAA
*
1833640 TGTATCGATACAAT-TCATCATCTATCGATACAT
1 TGTATCGATACAATGT-ACCATCTATCGATACAT
*
1833673 TGTATCGATACAATGTACCATGTATCGATACA
1 TGTATCGATACAATGTACCATCTATCGATACA
1833705 AATAGTGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAATGTACCATCTATCGATACAT
Found at i:1833778 original size:19 final size:20
Alignment explanation
Indices: 1833734--1833786 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
1833724 CTGTCAGTTT
* *
1833734 CATGTATCGATACAATTATC
1 CATGTATCGATACAATGATA
*
1833754 CATGTATCGATACAGTGA-A
1 CATGTATCGATACAATGATA
1833773 CATGTATCGATACA
1 CATGTATCGATACA
1833787 TCTGGGTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATGATA
Found at i:1840748 original size:15 final size:15
Alignment explanation
Indices: 1840718--1840754 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
1840708 AAGGGTTATG
*
1840718 AATCTC-AAACAATA
1 AATCTCAAAAAAATA
1840732 AATCTCAAAAAAATA
1 AATCTCAAAAAAATA
1840747 AATCTCAA
1 AATCTCAA
1840755 GATCTATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.59, C:0.19, G:0.00, T:0.22
Consensus pattern (15 bp):
AATCTCAAAAAAATA
Found at i:1841748 original size:153 final size:153
Alignment explanation
Indices: 1841471--1841746 Score: 394
Period size: 153 Copynumber: 1.8 Consensus size: 153
1841461 ACATGAAAGC
1841471 ATCTCGGTAACCCTAAAAGACTTAAAAATGATCATAAATAGGATGAACCTATCCTAAATGCACAC
1 ATCTCGGTAACCCTAAAAGACTTAAAAATGATCATAAATAGGATGAACCTATCCTAAATGCACAC
* ** * * * *
1841536 CTTTGGCATAAAAGCATCTTGATGATAACTTAGGACTTGATTTAGGAAAAATATGAAAATATCCT
66 CTTTGACATAAAAGCATCCCGATGAAAACCTAGAACTTCATTTAGGAAAAATATGAAAATATCCT
1841601 TGATATACCTTCAACTTGAAAAT
131 TGATATACCTTCAACTTGAAAAT
* * * * *
1841624 ATCTTGGTAACCCTAGAGGACTTAAAAATGATCATAAATGGGATGAACTTATCCTAAATGCACAC
1 ATCTCGGTAACCCTAAAAGACTTAAAAATGATCATAAATAGGATGAACCTATCCTAAATGCACAC
* * *
1841689 CTTTGACATAAAAGCATCCCGGTGAAAACCTAGAAC-TCATTCTATGAAAATTA-GAAAA
66 CTTTGACATAAAAGCATCCCGATGAAAACCTAGAACTTCATT-TAGGAAAAATATGAAAA
1841747 ATGCCTTTGG
Statistics
Matches: 107, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
152 9 0.08
153 98 0.92
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (153 bp):
ATCTCGGTAACCCTAAAAGACTTAAAAATGATCATAAATAGGATGAACCTATCCTAAATGCACAC
CTTTGACATAAAAGCATCCCGATGAAAACCTAGAACTTCATTTAGGAAAAATATGAAAATATCCT
TGATATACCTTCAACTTGAAAAT
Found at i:1852958 original size:65 final size:65
Alignment explanation
Indices: 1852776--1853732 Score: 812
Period size: 65 Copynumber: 15.0 Consensus size: 65
1852766 AAGCTTTTAT
** * * * *
1852776 CTTTTAGTCCTCAAAGAGCAGGATGCTTTTATTTTTCTTTTAAACCCCACACAAATTGGTAGCAC
1 CTTTTAGTCCTCAAAGAGCAGGACACTTTTCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * * * * *
1852841 CTTTTAGTCCTTAAAAAGTAAGACGCCTTTTC---TT-TTTAAAAG-CCACACAAGTTGGTGGTA
1 CTTTTAGTCCTCAAAGAGCAGGAC-ACTTTTCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1852901 C
65 C
* * * *
1852902 CTTTTAGTCCTCAAAGAGCGGGATACTTTTCTTTTTCTTTTAAAGCCCACATAAGTTGGTGGCAT
1 CTTTTAGTCCTCAAAGAGCAGGACACTTTTCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * *
1852967 CTTTTAGTCCTCAAAGAGCAAGACAC----CTTTTCCTTTTAAAAGCTCATACAAGTTGGTGGCA
1 CTTTTAGTCCTCAAAGAGCAGGACACTTTTCTTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA
1853028 C
65 C
* ** * * *
1853029 CTTTTAGTCCTCAAAGAGCAAGATGCCTTTCTTTTTCCTTTTAAAGCCAACACAAGTTGGTGCCA
1 CTTTTAGTCCTCAAAGAGCAGGACACTTTTCTTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCA
1853094 C
65 C
* **
1853095 CTTTTAGTCCTCAAAGACCAGGACA----T-TTTTT-TTTTAAAGCCCATGCAAGTTGGTGGCAC
1 CTTTTAGTCCTCAAAGAGCAGGACACTTTTCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * * *
1853154 CTTTTAGTCCTTAAAGAGTAGG--AC--GTCTTTTCCTTTTAAAAGCGCACACAAGTTGGTGGCA
1 CTTTTAGTCCTCAAAGAGCAGGACACTTTTCTTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA
1853215 C
65 C
* * * *
1853216 CTTTTAGTCCTTAAAGAGTAGG--AC--GTCTTTTCCTTTTAAAAGCCCACACAAGTTGGTGGCA
1 CTTTTAGTCCTCAAAGAGCAGGACACTTTTCTTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA
1853277 C
65 C
* * * ** * *
1853278 CTTTTAGTCTTCAAAGAACAGTATGC-TTT-TTTTTCTTTTAAAGGCCACATAAGTTGGTGGCAC
1 CTTTTAGTCCTCAAAGAGCAGGACACTTTTCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * * *
1853341 CTTTTAGTCCTCAAAGAGCAAGACATTTTTCTTTTACTTTTAAAGCCCACACAAGTTAGTGGTAC
1 CTTTTAGTCCTCAAAGAGCAGGACACTTTTCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * *
1853406 CTCTTAGTCCTCAAAGAGTAGGACGCTTTTCTTTTCCTTTTAAAAGCCCACACAAGTTGGTGGCA
1 CTTTTAGTCCTCAAAGAGCAGGACACTTTTCTTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA
1853471 C
65 C
* * * * * *
1853472 C-TTTAGTCCTTAAAGAGCAGGGCGCTTTTCTTTTCCTTTTAAAGCCCATACAAGTTGGTGGCAT
1 CTTTTAGTCCTCAAAGAGCAGGACACTTTTCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * * * *
1853536 CTTTTAGTCTTTAAAGAGCA--AGA-TGTT-TTTTCCTTTTCAAAAGCCCACACAAGCTT-ATGG
1 CTTTTAGTCCTCAAAGAGCAGGACACTTTTCTTTTTCTTTT--AAAGCCCACACAAG-TTGGTGG
1853596 CAC
63 CAC
* * **
1853599 CTTTTAGTCCTTAAAGAGTAGGACACTTTTTTTTTCTTTTTCTTTTAAAAGCCCACACAAGTTTA
1 CTTTTAGTCCTCAAAGAGCAGGACAC-----TTTTCTTTTTCTTTT-AAAGCCCACACAAGTTGG
1853664 TGGCAC
60 TGGCAC
* * * * * * *
1853670 TTTTTTTTAGTCCTCAAAGAACATGACTCTTTT-TCTTTC--TCAAAGCCCATACAAGTTGGTGG
1 ---CTTTTAGTCCTCAAAGAGCAGGACACTTTTCTTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1853732 C
63 C
1853733 GCCTATCTAC
Statistics
Matches: 738, Mismatches: 114, Indels: 80
0.79 0.12 0.09
Matches are distributed among these distances:
57 1 0.00
59 44 0.06
60 10 0.01
61 63 0.09
62 153 0.21
63 81 0.11
64 45 0.06
65 196 0.27
66 75 0.10
67 5 0.01
68 5 0.01
69 4 0.01
70 2 0.00
71 25 0.03
72 9 0.01
74 20 0.03
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (65 bp):
CTTTTAGTCCTCAAAGAGCAGGACACTTTTCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC
Found at i:1853150 original size:187 final size:189
Alignment explanation
Indices: 1852807--1853732 Score: 932
Period size: 187 Copynumber: 4.8 Consensus size: 189
1852797 GATGCTTTTA
* * * * *
1852807 TTTTTCTTTT-AAACCCCACACAAATTGGTAGCACCTTTTAGTCCTTAAAAAGTAAGACG-C--C
1 TTTTCCTTTTAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAAGACGCCTTC
* * *
1852868 TTTTCTTTTTAAAAG-CCACACAAGTTGGTGGTACCTTTTAGTCCTCAAAGAGCGGGATACTTTT
66 TTTTCCTTTTAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGA-AC-TTT
* * * *
1852932 CTTTTTCTTTTAAAGCCCACATAAGTTGGTGGCATCTTTTAGTCCTCAAAGAGCAAGACACC
129 -TTTTTCTTTTAAAGCCCATACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACATC
* * * * *
1852994 TTTTCCTTTTAAAAGCTCATACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGATGCCTTT
1 TTTTCCTTTTAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAAGACGCC-TT
* * * *
1853059 CTTTTTCCTTTT-AAAGCCAACACAAGTTGGTGCCACCTTTTAGTCCTCAAAGACCAGG-AC-AT
65 C-TTTTCCTTTTAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGAACTTT
* * * * *
1853121 TTTTT-TTTTAAAGCCCATGCAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGACGTC
129 TTTTTCTTTTAAAGCCCATACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACATC
* *
1853181 TTTTCCTTTTAAAAGCGCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGACG---TC
1 TTTTCCTTTTAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAAGACGCCTTC
* * * *
1853243 TTTTCCTTTTAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCTTCAAAGAACAGTATGCTTTT
66 TTTTCCTTTTAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGA-ACTTTT
* * *
1853308 TTTTCTTTTAAAGGCCACATAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACATTTTTC
130 TTTTCTTTTAAAGCCCATACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACA----TC
* * * * * * *
1853372 TTTTACTTTT-AAAGCCCACACAAGTTAGTGGTACCTCTTAGTCCTCAAAGAGTAGGACGCTTTT
1 TTTTCCTTTTAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAAGACGC-CTT
* **
1853436 CTTTTCCTTTTAAAAGCCCACACAAGTTGGTGGCACC-TTTAGTCCTTAAAGAGCAGGGCGCTTT
65 CTTTTCCTTTTAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCA-GGAACTTT
* * * ** *
1853500 TCTTTTCCTTTTAAAGCCCATACAAGTTGGTGGCATCTTTTAGTCTTTAAAGAGCAAGATGTT
129 T-TTTT-CTTTTAAAGCCCATACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACATC
* * *
1853563 TTTTCCTTTTCAAAAGCCCACACAAGCTT-ATGGCACCTTTTAGTCCTTAAAGAGTAGGACACTT
1 TTTTCCTTTT-AAAAGCCCACACAAG-TTGGTGGCACCTTTTAGTCCTTAAAGAGTAAGACGC--
* * ** * *
1853627 TTTTTTTCTTTTTCTTTTAAAAGCCCACACAAGTTTATGGCACTTTTTTTTAGTCCTCAAAGAAC
62 ----CTTCTTTTCCTTTTAAAAGCCCACACAAGTTGGTGGCAC---CTTTTAGTCCTCAAAGAGC
* *
1853692 ATG-AC-TCTTTTTCTTTCTCAAAGCCCATACAAGTTGGTGGC
120 AGGAACTTTTTTTTCTTT-T-AAAGCCCATACAAGTTGGTGGC
1853733 GCCTATCTAC
Statistics
Matches: 620, Mismatches: 82, Indels: 62
0.81 0.11 0.08
Matches are distributed among these distances:
182 10 0.02
183 43 0.07
185 1 0.00
186 6 0.01
187 154 0.25
188 45 0.07
189 2 0.00
190 44 0.07
191 23 0.04
192 5 0.01
193 108 0.17
194 45 0.07
195 46 0.07
197 4 0.01
198 42 0.07
199 24 0.04
200 1 0.00
201 1 0.00
202 16 0.03
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (189 bp):
TTTTCCTTTTAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAAGACGCCTTC
TTTTCCTTTTAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGAACTTTTT
TTTCTTTTAAAGCCCATACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACATC
Found at i:1853702 original size:74 final size:73
Alignment explanation
Indices: 1853562--1853709 Score: 183
Period size: 74 Copynumber: 2.0 Consensus size: 73
1853552 AGCAAGATGT
* **
1853562 TTTTTCCTTTTCAAAAGCCCACACAAGCTTATGGCACCTTTTAGTCCTTAAAGAGTAGGACACTT
1 TTTTTCCTTTTCAAAAGCCCACACAAGCTTATGGCACCTTTTAGTCCTCAAAGAACAGGACACTT
*
1853627 TTTTTTTC
66 TTTCTTTC
* * * *
1853635 TTTTT-CTTTT-AAAAGCCCACACAAGTTTATGGCACTTTTTTTTAGTCCTCAAAGAACATGACT
1 TTTTTCCTTTTCAAAAGCCCACACAAGCTTATGGCAC---CTTTTAGTCCTCAAAGAACAGGACA
1853698 CTTTTTCTTTC
63 CTTTTTCTTTC
1853709 T
1 T
1853710 CAAAGCCCAT
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
71 24 0.38
72 5 0.08
73 5 0.08
74 30 0.47
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.43
Consensus pattern (73 bp):
TTTTTCCTTTTCAAAAGCCCACACAAGCTTATGGCACCTTTTAGTCCTCAAAGAACAGGACACTT
TTTCTTTC
Found at i:1853703 original size:71 final size:71
Alignment explanation
Indices: 1853562--1853707 Score: 156
Period size: 71 Copynumber: 2.0 Consensus size: 71
1853552 AGCAAGATGT
* **
1853562 TTTTTCCTTTTCAAAAGCCCACACAAGCTTATGGCACCTTTTAGTCCTTAAAGAGTAGGACACTT
1 TTTTTCCTTTTCAAAAGCCCACACAAGCTTATGGCACCTTTTAGTCCTCAAAGAACAGGA-AC-T
*
1853627 TTTTTTTC
64 TCTTTTTC
* * *
1853635 TTTTT-CTTTT-AAAAGCCCACACAAGTTTATGGCACTTTTTTTTAGTCCTCAAAGAACATG-AC
1 TTTTTCCTTTTCAAAAGCCCACACAAGCTTATGGCAC---CTTTTAGTCCTCAAAGAACAGGAAC
1853697 -TCTTTTTC
63 TTCTTTTTC
1853705 TTT
1 TTT
1853708 CTCAAAGCCC
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
70 10 0.16
71 24 0.38
72 7 0.11
73 5 0.08
74 17 0.27
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.42
Consensus pattern (71 bp):
TTTTTCCTTTTCAAAAGCCCACACAAGCTTATGGCACCTTTTAGTCCTCAAAGAACAGGAACTTC
TTTTTC
Found at i:1854236 original size:20 final size:21
Alignment explanation
Indices: 1854196--1854242 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
1854186 TTCTACATTG
1854196 TGTATCAATACAAATAGTGAA
1 TGTATCAATACAAATAGTGAA
**
1854217 TGTATCAATACGTA-AGTGAA
1 TGTATCAATACAAATAGTGAA
1854237 TGTATC
1 TGTATC
1854243 GCTACAGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (21 bp):
TGTATCAATACAAATAGTGAA
Found at i:1854361 original size:51 final size:52
Alignment explanation
Indices: 1854306--1854444 Score: 190
Period size: 51 Copynumber: 2.7 Consensus size: 52
1854296 TCTAGAAATA
* *
1854306 AAATGTATCGATACATTTTTCATTGTATTGATACATTCGGGGTTTTAG-CCC
1 AAATGTATCGATACATTTTTCATTGTATCGATACATTCGAGGTTTTAGACCC
* *
1854357 AAATGTATCGATACATTTTTCATTGTATCGATACATTCTAGGTTTTTGACCC
1 AAATGTATCGATACATTTTTCATTGTATCGATACATTCGAGGTTTTAGACCC
* * * **
1854409 AAATTTATAGATACATTCTTCAACGTATCGATACAT
1 AAATGTATCGATACATTTTTCATTGTATCGATACAT
1854445 GCAGGCTATT
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
51 44 0.56
52 34 0.44
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (52 bp):
AAATGTATCGATACATTTTTCATTGTATCGATACATTCGAGGTTTTAGACCC
Found at i:1857032 original size:79 final size:79
Alignment explanation
Indices: 1856901--1857051 Score: 223
Period size: 79 Copynumber: 1.9 Consensus size: 79
1856891 CATCTCGGGA
* * * *
1856901 ATACTCCAACCCTATTTTTATTTTCAAAATATTAAAATTTTCATCTCTAGGATACTTCAACCCCG
1 ATACTACAACCCTATTTTTATTTCCAAAATATTAAAATTTTCATCTCGAGGATACTTCAACCCCA
1856966 TTATTTCCGAAGGG
66 TTATTTCCGAAGGG
* * *
1856980 ATACTACAATCCC-ATTTTTATTTCCAAAATATTAAATTTTTCATCTCGAGGATACTTTAACCTC
1 ATACTACAA-CCCTATTTTTATTTCCAAAATATTAAAATTTTCATCTCGAGGATACTTCAACCCC
1857044 ATTATTTC
65 ATTATTTC
1857052 TGAGATATTA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
79 61 0.95
80 3 0.05
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (79 bp):
ATACTACAACCCTATTTTTATTTCCAAAATATTAAAATTTTCATCTCGAGGATACTTCAACCCCA
TTATTTCCGAAGGG
Found at i:1857128 original size:79 final size:79
Alignment explanation
Indices: 1857045--1857427 Score: 389
Period size: 79 Copynumber: 4.9 Consensus size: 79
1857035 TTTAACCTCA
* * * * * **
1857045 TTATTTCTGAGATATTAAAATTTTTATCTTGGGGATACTCCAACTCTGTTATTTTCGAAGGGATA
1 TTATTTCTAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCCATTATTTTCGAAGGGATA
1857110 -TCCCAACCCCATTT
66 CT-CCAACCCCATTT
* * *
1857124 TTATTTCTAAAATATTAAAATTTTCATCTCGGTGATACTCCAACCCTATTATTTT-TAAGGGGAT
1 TTATTTCTAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCCATTATTTTCGAA-GGGAT
**
1857188 ACTCCAACCTTATTT
65 ACTCCAACCCCATTT
* * * *
1857203 TTATTTTTGAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCCATTATTTTTGAGGGGATA
1 TTATTTCTAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCCATTATTTTCGAAGGGATA
* *
1857268 CTCCAACCTCGTTT
66 CTCCAACCCCATTT
* * * * * *
1857282 TTATTTCCAAAATATTCAATTTTTCATTTC-GGGATACTCCAACTCCATTATTTTCAAAGGGATA
1 TTATTTCTAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCCATTATTTTCGAAGGGATA
*
1857346 CTCCAACCCCGTTT
66 CTCCAACCCCATTT
* ** * * * * * *
1857360 TTATTTCCAAAATA-TCCATTTTTCACCATCGAGGATACTCAAACCCCA-TAATTTCTAAGGGGA
1 TTATTTCTAAAATATTAAAATTTTCATC-TCGGGGATACTCCAACCCCATTATTTTCGAA-GGGA
1857423 TACTC
64 TACTC
1857428 TAATCCCGAT
Statistics
Matches: 261, Mismatches: 37, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
77 10 0.04
78 69 0.26
79 180 0.69
80 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (79 bp):
TTATTTCTAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCCATTATTTTCGAAGGGATA
CTCCAACCCCATTT
Found at i:1857175 original size:127 final size:126
Alignment explanation
Indices: 1856890--1857178 Score: 334
Period size: 127 Copynumber: 2.2 Consensus size: 126
1856880 TATTTTTGAA
1856890 TCATCTCGGGAATACTCCAACCCTATTTTTATTTTCAAAATATTAAAATTTTCATCTCTAGGATA
1 TCATCTCGGG-ATACTCCAACCCTA---TTATTTTCAAAATATTAAAATTTTCATCTCTAGGATA
* * *
1856955 CTTCAACCCCGTTATTTCCGAAGGGATACTACAATCCCATTTTTATTTCCAAAATATTAAATTTT
62 CTCCAACCCCGTTATTTCCGAAGGGATACTACAACCCCATTTTTATTTCCAAAATATTAAAATTT
** * * * *
1857020 TCATCTCGAGGATACTTTAA-CCTCATTA-TTTCTGAGATATTAAAATTTTTATCT-TGGGGATA
1 TCATCTCG-GGATACTCCAACCCT-ATTATTTTC-AAAATATTAAAATTTTCATCTCT-AGGATA
* * * * *
1857082 CTCCAACTCTGTTATTTTCGAAGGGATA-TCCCAACCCCATTTTTATTTCTAAAATATTAAAATT
62 CTCCAACCCCGTTATTTCCGAAGGGATACT-ACAACCCCATTTTTATTTCCAAAATATTAAAATT
1857146 T
126 T
1857147 TCATCTCGGTGATACTCCAACCCTATTATTTT
1 TCATCTCGG-GATACTCCAACCCTATTATTTT
1857179 TAAGGGGATA
Statistics
Matches: 135, Mismatches: 16, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
126 7 0.05
127 101 0.75
128 6 0.04
129 3 0.02
130 16 0.12
131 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (126 bp):
TCATCTCGGGATACTCCAACCCTATTATTTTCAAAATATTAAAATTTTCATCTCTAGGATACTCC
AACCCCGTTATTTCCGAAGGGATACTACAACCCCATTTTTATTTCCAAAATATTAAAATTT
Found at i:1870491 original size:17 final size:17
Alignment explanation
Indices: 1870466--1870537 Score: 56
Period size: 17 Copynumber: 4.1 Consensus size: 17
1870456 GGGAGAAGAT
*
1870466 AATTATTTAAGGGGGAG
1 AATTTTTTAAGGGGGAG
* *
1870483 AATTTTTTAAGAAGGAGAT
1 AATTTTTTAAG--GGGGAG
** *
1870502 AATCGTTTAAGAGGGAG
1 AATTTTTTAAGGGGGAG
1870519 AATTTTTTTAA-GGGGAG
1 AA-TTTTTTAAGGGGGAG
1870536 AA
1 AA
1870538 AAACGAAAAC
Statistics
Matches: 41, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
17 22 0.54
18 6 0.15
19 13 0.32
ACGTcount: A:0.38, C:0.01, G:0.29, T:0.32
Consensus pattern (17 bp):
AATTTTTTAAGGGGGAG
Found at i:1871196 original size:20 final size:19
Alignment explanation
Indices: 1871171--1871223 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
1871161 TATCACTATT
1871171 TGTATCGATACATG-GTACAA
1 TGTATCGATACATGAG-A-AA
1871191 TGTATCGATACATGAAGAAA
1 TGTATCGATACATG-AGAAA
1871211 TGTATCGATACAT
1 TGTATCGATACAT
1871224 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (19 bp):
TGTATCGATACATGAGAAA
Found at i:1873112 original size:20 final size:20
Alignment explanation
Indices: 1873083--1873138 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
1873073 AGCCTAAGTA
1873083 AAAAGTATCGATACATGG-G
1 AAAAGTATCGATACATGGTG
*
1873102 AAATTGTATCGATACATGGTG
1 AAA-AGTATCGATACATGGTG
*
1873123 AAAAGTATTGATACAT
1 AAAAGTATCGATACAT
1873139 TGTGCTCAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.09
20 25 0.78
21 4 0.12
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (20 bp):
AAAAGTATCGATACATGGTG
Found at i:1875424 original size:49 final size:49
Alignment explanation
Indices: 1875215--1875919 Score: 901
Period size: 49 Copynumber: 14.7 Consensus size: 49
1875205 AAAAAGATGT
*
1875215 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* *
1875267 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1875310 CAATGTGCTGATTCAAGGCCAGCTACACTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1875358 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1875407 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * *
1875456 CAATATGCTGGTTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1875505 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * *
1875554 CAATATGCTAATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1875603 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1875652 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AT---GGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1875695 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1875744 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AT---GGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1875787 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1875835 CAATGTGTTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * *
1875884 CAATATGCTGATTTAGGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
1875920 GAAGGGTTGC
Statistics
Matches: 569, Mismatches: 65, Indels: 41
0.84 0.10 0.06
Matches are distributed among these distances:
43 113 0.20
45 2 0.00
46 7 0.01
47 2 0.00
48 92 0.16
49 321 0.56
52 32 0.06
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:1875492 original size:98 final size:98
Alignment explanation
Indices: 1875149--1875919 Score: 997
Period size: 98 Copynumber: 8.0 Consensus size: 98
1875139 TGAGAAAAGT
* * * * * * *
1875149 GATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAAGATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT--G----AAGGTG
* * *
1875214 TCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
60 CCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
1875253 GATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCA
1 GAT---AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCA
* *
1875312 ATGTGCTGATTCAAGGCCAGCTACACTGGACTTAAA
63 ATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
* * * *
1875348 GGT-GAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
*
1875412 TGCTGAGTCAAGGCCAGCTACATTGGTCTTAAA
66 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
* * *
1875445 GATAAAGGTGCCAATATGCTGGTTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
*
1875510 TGCTGAGTCAAGGCCAGCTACATTGGTCTTAAA
66 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
* * *
1875543 GATAAAGGTGCCAATATGCTAATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
1875608 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
66 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
1875641 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AT---GGTGCCAATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
1875700 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
66 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
1875733 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AT---GGTGCCAATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
1875792 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
66 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
* * * * * * *
1875825 GGT-GAGGTGCCAATGTGTTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
* * * * *
1875889 TGCTGATTTAGGGCCAGCTATATTGGGCTTA
66 TGCTGAGTCAAGGCCAGCTACATTGGACTTA
1875920 GAAGGGTTGC
Statistics
Matches: 609, Mismatches: 42, Indels: 39
0.88 0.06 0.06
Matches are distributed among these distances:
91 76 0.12
92 137 0.22
93 1 0.00
94 2 0.00
95 45 0.07
97 79 0.13
98 228 0.37
103 1 0.00
104 3 0.00
107 37 0.06
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (98 bp):
GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
Found at i:1876021 original size:33 final size:33
Alignment explanation
Indices: 1875912--1876030 Score: 176
Period size: 33 Copynumber: 3.7 Consensus size: 33
1875902 CCAGCTATAT
1875912 TGGGC-TTAGAAG--GGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
*
1875942 TGGGCTTTAG-AGAGTGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGA-AGGTTGCCACCGACTTGTG
*
1875975 TGGGCTTTGGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
1876008 TGGGCTTTAGAAGAAGG-TGCCAC
1 TGGGCTTTAGAAGAAGGTTGCCAC
1876031 GGAGTCATGG
Statistics
Matches: 81, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
30 7 0.09
31 4 0.05
32 6 0.07
33 61 0.75
34 3 0.04
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.27
Consensus pattern (33 bp):
TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
Found at i:1876089 original size:34 final size:34
Alignment explanation
Indices: 1876024--1876498 Score: 412
Period size: 33 Copynumber: 14.6 Consensus size: 34
1876014 TTAGAAGAAG
** * *
1876024 GTGCCACGGAGTCATGGACTTAAAAGG-AAAAGA
1 GTGCCACGGAGTTGTGGGCTTTAAAGGAAAAAGA
*
1876057 GTGCCACGTAGTTGTGGGCTTTAAAGGAAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTAAAGGAAAAAGA
*
1876091 -TGCCACGGAGTTGTGGGC-TT-----AAAATG-
1 GTGCCACGGAGTTGTGGGCTTTAAAGGAAAAAGA
** * *
1876117 GTGCCACAAAGTTGTGGACTTAAAAGG-AAAAGA
1 GTGCCACGGAGTTGTGGGCTTTAAAGGAAAAAGA
* *
1876150 GTGCCACGTAGTTGTGGGCTTTAAAGGAAAAAAGG
1 GTGCCACGGAGTTGTGGGCTTTAAAGG-AAAAAGA
* * * *
1876185 GTGCCACGGAGTCGTGGACTTAAAAGGAAAAAGG
1 GTGCCACGGAGTTGTGGGCTTTAAAGGAAAAAGA
*
1876219 GTGCCACGGAGTTGTGGGCTTTAAAGGAAAAAAGG
1 GTGCCACGGAGTTGTGGGCTTTAAAGG-AAAAAGA
* * * *
1876254 GTGCCACGGAGTCGTGGACTTAAAAGGAAAAAGG
1 GTGCCACGGAGTTGTGGGCTTTAAAGGAAAAAGA
* *
1876288 GTGCCACGGAGTTGTGGGCTTTGAA--AAGAAG-
1 GTGCCACGGAGTTGTGGGCTTTAAAGGAAAAAGA
1876319 GTGCCACGGAGTTGTGGGC-TTAGAAGGAAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTA-AAGGAAAAAGA
*
1876353 GTGCCACGGAGTTGTGGGC-TTAAACG-----G-
1 GTGCCACGGAGTTGTGGGCTTTAAAGGAAAAAGA
* * *
1876380 GTGCCACGAAGTTGTGGGC-TTAAAAGCAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTAAAGGAAAAAGA
** *
1876413 GTGCCACATAGTTGTGGGCTTT----GAAAAGGA
1 GTGCCACGGAGTTGTGGGCTTTAAAGGAAAAAGA
*
1876443 GGTGCCACGGAGTTGTGGACTTTGAAA-GAAAAAG-
1 -GTGCCACGGAGTTGTGGGCTTT-AAAGGAAAAAGA
* *
1876477 GTGCCACGGAGTCGTGGACTTT
1 GTGCCACGGAGTTGTGGGCTTT
1876499 GATGCCACTG
Statistics
Matches: 368, Mismatches: 46, Indels: 56
0.78 0.10 0.12
Matches are distributed among these distances:
27 44 0.12
28 2 0.01
30 8 0.02
31 40 0.11
32 12 0.03
33 108 0.29
34 89 0.24
35 65 0.18
ACGTcount: A:0.31, C:0.14, G:0.35, T:0.20
Consensus pattern (34 bp):
GTGCCACGGAGTTGTGGGCTTTAAAGGAAAAAGA
Found at i:1876190 original size:35 final size:34
Alignment explanation
Indices: 1876111--1876498 Score: 355
Period size: 34 Copynumber: 11.8 Consensus size: 34
1876101 TTGTGGGCTT
* ** * *
1876111 AAAATGGTGCCACAAAGTTGTGGACTTAAAAGG-
1 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAGGA
* *
1876144 AAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGGAA
1 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAGG-A
* * *
1876179 AAAAGGGTGCCACGGAGTCGTGGACTTAAAAGGA
1 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAGGA
1876213 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAGGAA
1 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAGG-A
* * *
1876248 AAAAGGGTGCCACGGAGTCGTGGACTTAAAAGGA
1 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAGGA
*
1876282 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAA--A
1 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAGGA
*
1876314 AGAA-GGTGCCACGGAGTTGTGGGC-TTAGAAGGA
1 AAAAGGGTGCCACGGAGTTGTGGGCTTTA-AAGGA
*
1876347 AAAAGAGTGCCACGGAGTTGTGGGC-TT------
1 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAGGA
* * * *
1876374 AAACGGGTGCCACGAAGTTGTGGGC-TTAAAAGC
1 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAGGA
* **
1876407 AAAAGAGTGCCACATAGTTGTGGGCTTT----GA
1 AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAGGA
* *
1876437 AAAGGAGGTGCCACGGAGTTGTGGACTTTGAAA-GA
1 AAAAG-GGTGCCACGGAGTTGTGGGCTTT-AAAGGA
* *
1876472 AAAA-GGTGCCACGGAGTCGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGGCTTT
1876499 GATGCCACTG
Statistics
Matches: 296, Mismatches: 40, Indels: 38
0.79 0.11 0.10
Matches are distributed among these distances:
27 24 0.08
30 7 0.02
31 41 0.14
32 4 0.01
33 74 0.25
34 82 0.28
35 64 0.22
ACGTcount: A:0.31, C:0.14, G:0.35, T:0.20
Consensus pattern (34 bp):
AAAAGGGTGCCACGGAGTTGTGGGCTTTAAAGGA
Found at i:1876240 original size:69 final size:65
Alignment explanation
Indices: 1876051--1876500 Score: 480
Period size: 69 Copynumber: 7.0 Consensus size: 65
1876041 ACTTAAAAGG
* * * *
1876051 AAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGGAAAAAGA-TGCCACGGAGTTGTGGGC-TT---
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAA
* ** *
1876111 AAAATGGTGCCACAAAGTTGTGGACTTAAAAGG-AAAAGAGTGCCACGTAGTTGTGGGCTTTAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT---
1876175 GGAA
63 -GAA
* *
1876179 AAAAGGGTGCCACGGAGTCGTGGACTTAAAAGGAAAAAGGGTGCCACGGAGTTGTGGGCTTTAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT---
1876244 GGAA
63 -GAA
* *
1876248 AAAAGGGTGCCACGGAGTCGTGGACTTAAAAGGAAAAAGGGTGCCACGGAGTTGTGGGCTTTGAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAA
* *
1876313 AAGAA-GGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT--
1 AA-AAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
1876374 -
65 A
* * * * **
1876374 AAACGGGTGCCACGAAGTTGTGGGCTTAAAA-GCAAAAGAGTGCCACATAGTTGTGGGCTTTG-A
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAA
* * * *
1876437 AAAGGAGGTGCCACGGAGTTGTGGACTTTGAAA-GAAAAAG-GTGCCACGGAGTCGTGGACTTTG
1 AAAAG-GGTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTG
1876500 A
64 A
1876501 TGCCACTGAG
Statistics
Matches: 340, Mismatches: 32, Indels: 31
0.84 0.08 0.08
Matches are distributed among these distances:
59 6 0.02
60 69 0.20
61 30 0.09
63 4 0.01
64 39 0.11
65 66 0.19
66 2 0.01
68 29 0.09
69 95 0.28
ACGTcount: A:0.31, C:0.14, G:0.35, T:0.20
Consensus pattern (65 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAA
Found at i:1876601 original size:31 final size:31
Alignment explanation
Indices: 1876500--1876828 Score: 264
Period size: 31 Copynumber: 10.7 Consensus size: 31
1876490 GTGGACTTTG
* *
1876500 ATGCCACTGAGTCGTGGAC-TT-AAAAG-GG
1 ATGCCACTGAGTCGTGGACTTTGAGAAGAGA
* * *
1876528 ATGCCACTGAATTGTGGACTTTTAAGACA-A-A
1 ATGCCACTGAGTCGTGGAC-TTTGAGA-AGAGA
* *
1876559 ATGCCATTGAGTCGTGGGCTTTGAGAAGAGA
1 ATGCCACTGAGTCGTGGACTTTGAGAAGAGA
* *
1876590 TTGCCACTGAGTCGTGGACTTTAAGAAG-GA
1 ATGCCACTGAGTCGTGGACTTTGAGAAGAGA
* * * * *
1876620 GATGCCACTGAATTGTGGACTTT-AGGACAAA
1 -ATGCCACTGAGTCGTGGACTTTGAGAAGAGA
* * * *
1876651 ATGCCATTGAGTCGCGGGCTTTGAGAAGAAA
1 ATGCCACTGAGTCGTGGACTTTGAGAAGAGA
* * * * *
1876682 AGGTGCCACGGAGTTGTGGACTTT-AGGACAAA
1 A--TGCCACTGAGTCGTGGACTTTGAGAAGAGA
* * * *
1876714 ATGCCACTGATTCGTGGGCTTTGAAGAAAAGG
1 ATGCCACTGAGTCGTGGACTTTG-AGAAGAGA
*
1876746 ATGCCACTAAGTCGTGGACTTTGAGACA-A-A
1 ATGCCACTGAGTCGTGGACTTTGAGA-AGAGA
1876776 ATGCCACTGAGTCGTGGACTTTGAGAAGAGA
1 ATGCCACTGAGTCGTGGACTTTGAGAAGAGA
*
1876807 TTGCCACTGAGTCGTGGACTTT
1 ATGCCACTGAGTCGTGGACTTT
1876829 AAAAAGGTAT
Statistics
Matches: 237, Mismatches: 47, Indels: 31
0.75 0.15 0.10
Matches are distributed among these distances:
28 17 0.07
29 2 0.01
30 74 0.31
31 95 0.40
32 33 0.14
33 16 0.07
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (31 bp):
ATGCCACTGAGTCGTGGACTTTGAGAAGAGA
Found at i:1876625 original size:62 final size:60
Alignment explanation
Indices: 1876499--1876829 Score: 294
Period size: 62 Copynumber: 5.4 Consensus size: 60
1876489 CGTGGACTTT
** * *
1876499 GATGCCACTGAGTCGTGGAC-TTA-AA-AGGGATGCCACTGAATTGTGGACTTTTAAGACAAA
1 GATGCCACTGAGTCGTGGACTTTAGAACA-AAATGCCACTGAGTCGTGGAC-TTTAAGA-AAA
* * * * * *
1876559 -ATGCCATTGAGTCGTGGGCTTTGAGAAGAGATTGCCACTGAGTCGTGGACTTTAAGAAGGA
1 GATGCCACTGAGTCGTGGACTTT-AGAACAAAATGCCACTGAGTCGTGGACTTTAAGAA-AA
* * * * * *
1876620 GATGCCACTGAATTGTGGACTTTAGGACAAAATGCCATTGAGTCGCGGGCTTTGAGAAGAAAA
1 GATGCCACTGAGTCGTGGACTTTAGAACAAAATGCCACTGAGTCGTGGACTTT---AAGAAAA
* * * * * *
1876683 GGTGCCACGGAGTTGTGGACTTTAGGACAAAATGCCACTGATTCGTGGGCTTTGAAGAAAA
1 GATGCCACTGAGTCGTGGACTTTAGAACAAAATGCCACTGAGTCGTGGACTTT-AAGAAAA
* * *
1876744 GGATGCCACTAAGTCGTGGACTTT-GAGACAAAATGCCACTGAGTCGTGGACTTTGAGAAGA
1 -GATGCCACTGAGTCGTGGACTTTAGA-ACAAAATGCCACTGAGTCGTGGACTTTAAGAAAA
1876805 GATTGCCACTGAGTCGTGGACTTTA
1 GA-TGCCACTGAGTCGTGGACTTTA
1876830 AAAAGGTATT
Statistics
Matches: 223, Mismatches: 35, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
59 17 0.08
60 5 0.02
61 66 0.30
62 81 0.36
63 49 0.22
64 5 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.25
Consensus pattern (60 bp):
GATGCCACTGAGTCGTGGACTTTAGAACAAAATGCCACTGAGTCGTGGACTTTAAGAAAA
Found at i:1876705 original size:63 final size:63
Alignment explanation
Indices: 1876591--1876829 Score: 276
Period size: 61 Copynumber: 3.9 Consensus size: 63
1876581 GAGAAGAGAT
* * * * * *
1876591 TGCCACTGAGTCGTGGACTTTAAGAAG--GAGATGCCACTGAATTGTGGACTTTAGGACAAAA
1 TGCCACTGAGTCGTGGGCTTTGAGAAGAAAAGGTGCCACTGAGTCGTGGACTTTAGGACAAAA
* * * *
1876652 TGCCATTGAGTCGCGGGCTTTGAGAAGAAAAGGTGCCACGGAGTTGTGGACTTTAGGACAAAA
1 TGCCACTGAGTCGTGGGCTTTGAGAAGAAAAGGTGCCACTGAGTCGTGGACTTTAGGACAAAA
* *
1876715 TGCCACTGATTCGTGGGCTTT--GAAGAAAAGGATGCCACTAAGTCGTGGACTTT-GAGACAAAA
1 TGCCACTGAGTCGTGGGCTTTGAGAAGAAAAGG-TGCCACTGAGTCGTGGACTTTAG-GACAAAA
* * *
1876777 TGCCACTGAGTCGTGGACTTTGAGAAG-AGA-TTGCCACTGAGTCGTGGACTTTA
1 TGCCACTGAGTCGTGGGCTTTGAGAAGAAAAGGTGCCACTGAGTCGTGGACTTTA
1876830 AAAAGGTATT
Statistics
Matches: 152, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
61 54 0.36
62 44 0.29
63 50 0.33
64 4 0.03
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (63 bp):
TGCCACTGAGTCGTGGGCTTTGAGAAGAAAAGGTGCCACTGAGTCGTGGACTTTAGGACAAAA
Found at i:1876751 original size:125 final size:122
Alignment explanation
Indices: 1876591--1876829 Score: 304
Period size: 125 Copynumber: 1.9 Consensus size: 122
1876581 GAGAAGAGAT
* *
1876591 TGCCACTGAGTCGTGGACTTTAAGAAGGAGATGCCACTGAA-TTGTGGACTTT-AGGACAAAATG
1 TGCCACTGAGTCGTGGACTTTAAGAAAGAGATGCCACT-AAGTCGTGGACTTTGA-GACAAAATG
* * *
1876654 CCATTGAGTCGCGGGCTTTGAGAAGAAAAGGTGCCACGGAGTTGTGGACTTTAGGACAAAA
64 CCACTGAGTCGCGGACTTTGAGAAG-AAA-GTGCCACGGAGTCGTGGACTTTAGGACAAAA
* *
1876715 TGCCACTGATTCGTGGGCTTTGAAGAAA-AGGATGCCACTAAGTCGTGGACTTTGAGACAAAATG
1 TGCCACTGAGTCGTGGACTTT-AAGAAAGA-GATGCCACTAAGTCGTGGACTTTGAGACAAAATG
* * * *
1876779 CCACTGAGTCGTGGACTTTGAGAAGAGATTGCCACTGAGTCGTGGACTTTA
64 CCACTGAGTCGCGGACTTTGAGAAGAAAGTGCCACGGAGTCGTGGACTTTA
1876830 AAAAGGTATT
Statistics
Matches: 100, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
123 20 0.20
124 24 0.24
125 55 0.55
126 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (122 bp):
TGCCACTGAGTCGTGGACTTTAAGAAAGAGATGCCACTAAGTCGTGGACTTTGAGACAAAATGCC
ACTGAGTCGCGGACTTTGAGAAGAAAGTGCCACGGAGTCGTGGACTTTAGGACAAAA
Found at i:1888599 original size:19 final size:20
Alignment explanation
Indices: 1888575--1888627 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
1888565 ATTGATACAG
**
1888575 TGTATCGATACATGTTC-AT
1 TGTATCGATACATGCACAAT
*
1888594 TGTATCGATACATACACAAT
1 TGTATCGATACATGCACAAT
1888614 TGTATCGATACATG
1 TGTATCGATACATG
1888628 AAACTGGCAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATGCACAAT
Found at i:1888701 original size:33 final size:32
Alignment explanation
Indices: 1888659--1888721 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
1888649 TCACTGTTTA
1888659 TATCGATACATG-GCACATTGTATCGATACAATG
1 TATCGATACATGAG-A-ATTGTATCGATACAATG
*
1888692 TATCTATACATGATGAATTGTATCGATACA
1 TATCGATACATGA-GAATTGTATCGATACA
1888722 TTGCTTCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 25 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (32 bp):
TATCGATACATGAGAATTGTATCGATACAATG
Found at i:1890329 original size:3 final size:3
Alignment explanation
Indices: 1890315--1890369 Score: 92
Period size: 3 Copynumber: 18.3 Consensus size: 3
1890305 CATAAAAGAC
*
1890315 GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
1890363 GGT GAT G
1 GAT GAT G
1890370 TGGACTCAGA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:1891253 original size:23 final size:23
Alignment explanation
Indices: 1891224--1891276 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
1891214 TTGATTGCTA
**
1891224 TTTTGCTGGTGTTTGCTTACTGT
1 TTTTGCTGGTACTTGCTTACTGT
*
1891247 TTTTGCTGGTACTTGCTTATTGT
1 TTTTGCTGGTACTTGCTTACTGT
1891270 TTTTGCT
1 TTTTGCT
1891277 AGTTTTGTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.06, C:0.13, G:0.23, T:0.58
Consensus pattern (23 bp):
TTTTGCTGGTACTTGCTTACTGT
Found at i:1891666 original size:69 final size:69
Alignment explanation
Indices: 1891535--1891882 Score: 511
Period size: 69 Copynumber: 5.0 Consensus size: 69
1891525 TCTCTTTTTT
*
1891535 TTGTTTCGATTTGATTCTCTCCTTTTTTTTTCACTCTCCCTCGTTAGCTGCTGTTTCGTTTCTCT
1 TTGTTTCGATTTGATTCTCTCC-TTTTTTTT-ACTCTCCCTCGTTAGCTGTTGTTTCGTTTCTCT
1891600 CCTTTC
64 CCTTTC
* *
1891606 TTGTTTTC-ATTTGATTCTCTCCTTTTTTTTACACTCCCTCATTAGCTGTTGTTTCGTTTCTCTC
1 TTG-TTTCGATTTGATTCTCTCCTTTTTTTTACTCTCCCTCGTTAGCTGTTGTTTCGTTTCTCTC
1891670 CTTTC
65 CTTTC
* * * * * * *
1891675 TTGTTTCGATTTGATTCTCTCC-TTTTTTCACTCTCCTTCGTTAGCTGCTATTTCATTTCTTTTC
1 TTGTTTCGATTTGATTCTCTCCTTTTTTTTACTCTCCCTCGTTAGCTGTTGTTTCGTTTCTCTCC
1891739 TTTC
66 TTTC
*
1891743 TTGTTTCGATTTGATTCTCTCCTTTTTTTTACACTCCCTCGTTAGCTGTTGTTTCGTTTCTCTCC
1 TTGTTTCGATTTGATTCTCTCCTTTTTTTTACTCTCCCTCGTTAGCTGTTGTTTCGTTTCTCTCC
1891808 TTTC
66 TTTC
* * * * *
1891812 TTGTTTCGATGTGATTCTCTCATTTTTTTCACTCTCCCTCGTTAGCTATTGTTTTGTTTCTCTCC
1 TTGTTTCGATTTGATTCTCTCCTTTTTTTTACTCTCCCTCGTTAGCTGTTGTTTCGTTTCTCTCC
1891877 TTTC
66 TTTC
1891881 TT
1 TT
1891883 CCTCCTTTTT
Statistics
Matches: 248, Mismatches: 26, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
68 63 0.25
69 156 0.63
70 8 0.03
71 17 0.07
72 4 0.02
ACGTcount: A:0.08, C:0.26, G:0.10, T:0.56
Consensus pattern (69 bp):
TTGTTTCGATTTGATTCTCTCCTTTTTTTTACTCTCCCTCGTTAGCTGTTGTTTCGTTTCTCTCC
TTTC
Found at i:1891720 original size:137 final size:137
Alignment explanation
Indices: 1891535--1891882 Score: 545
Period size: 137 Copynumber: 2.5 Consensus size: 137
1891525 TCTCTTTTTT
1891535 TTGTTTCGATTTGATTCTCTCCTTTTTTTTTCACTCTCCCTCGTTAGCTGCTGTTTCGTTTCTCT
1 TTGTTTCGATTTGATTCTCTCC---TTTTTTCACTCTCCCTCGTTAGCTGCTGTTTCGTTTCTCT
1891600 CCTTTCTTGTTTTC-ATTTGATTCTCTCCTTTTTTTTACACTCCCTCATTAGCTGTTGTTTCGTT
63 CCTTTCTTG-TTTCGATTTGATTCTCTCCTTTTTTTTACACTCCCTCATTAGCTGTTGTTTCGTT
1891664 TCTCTCCTTTC
127 TCTCTCCTTTC
* * * * *
1891675 TTGTTTCGATTTGATTCTCTCCTTTTTTCACTCTCCTTCGTTAGCTGCTATTTCATTTCTTTTCT
1 TTGTTTCGATTTGATTCTCTCCTTTTTTCACTCTCCCTCGTTAGCTGCTGTTTCGTTTCTCTCCT
*
1891740 TTCTTGTTTCGATTTGATTCTCTCCTTTTTTTTACACTCCCTCGTTAGCTGTTGTTTCGTTTCTC
66 TTCTTGTTTCGATTTGATTCTCTCCTTTTTTTTACACTCCCTCATTAGCTGTTGTTTCGTTTCTC
1891805 TCCTTTC
131 TCCTTTC
* * ** *
1891812 TTGTTTCGATGTGATTCTCTCATTTTTTTCACTCTCCCTCGTTAGCTATTGTTTTGTTTCTCTCC
1 TTGTTTCGATTTGATTCTCTC-CTTTTTTCACTCTCCCTCGTTAGCTGCTGTTTCGTTTCTCTCC
1891877 TTTCTT
65 TTTCTT
1891883 CCTCCTTTTT
Statistics
Matches: 190, Mismatches: 16, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
136 4 0.02
137 124 0.65
138 40 0.21
140 22 0.12
ACGTcount: A:0.08, C:0.26, G:0.10, T:0.56
Consensus pattern (137 bp):
TTGTTTCGATTTGATTCTCTCCTTTTTTCACTCTCCCTCGTTAGCTGCTGTTTCGTTTCTCTCCT
TTCTTGTTTCGATTTGATTCTCTCCTTTTTTTTACACTCCCTCATTAGCTGTTGTTTCGTTTCTC
TCCTTTC
Found at i:1891912 original size:44 final size:44
Alignment explanation
Indices: 1891862--1891950 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
1891852 GTTAGCTATT
*
1891862 GTTTTGTTTCTCTCCTTTCTTCCTCCTTTTTTTTTGCTTTTATA
1 GTTTTGTTTCTCTCCTTTCTTCCTCCTTTTTGTTTGCTTTTATA
* *
1891906 GTTTTGTTTCTCTCTTTTCTTCTTCCTTTTTGTTTGCTTTTATA
1 GTTTTGTTTCTCTCCTTTCTTCCTCCTTTTTGTTTGCTTTTATA
1891950 G
1 G
1891951 CAGCTTGCTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.04, C:0.20, G:0.09, T:0.66
Consensus pattern (44 bp):
GTTTTGTTTCTCTCCTTTCTTCCTCCTTTTTGTTTGCTTTTATA
Found at i:1892301 original size:14 final size:14
Alignment explanation
Indices: 1892282--1892415 Score: 95
Period size: 14 Copynumber: 9.9 Consensus size: 14
1892272 GAAAGAAAAC
1892282 ATGCATGAAATGTA
1 ATGCATGAAATGTA
* *
1892296 ATGCATGAAACGAA
1 ATGCATGAAATGTA
*
1892310 ATGCATGAAATGAA
1 ATGCATGAAATGTA
* *
1892324 CATTACATGAAATG-C
1 -A-TGCATGAAATGTA
1892339 ATGCATGAAATGTA
1 ATGCATGAAATGTA
* *
1892353 ATGTATGAAATG-C
1 ATGCATGAAATGTA
*
1892366 ATGAAATGAAAAT-T-
1 ATG-CATG-AAATGTA
*
1892380 ATG--TGAAATG-C
1 ATGCATGAAATGTA
1892391 ATGCATGAAA-GTA
1 ATGCATGAAATGTA
1892404 ATGCATGAAATG
1 ATGCATGAAATG
1892416 AAAATTACGT
Statistics
Matches: 97, Mismatches: 11, Indels: 24
0.73 0.08 0.18
Matches are distributed among these distances:
10 4 0.04
11 5 0.05
12 1 0.01
13 28 0.29
14 44 0.45
15 5 0.05
16 10 0.10
ACGTcount: A:0.45, C:0.09, G:0.21, T:0.25
Consensus pattern (14 bp):
ATGCATGAAATGTA
Found at i:1892349 original size:29 final size:27
Alignment explanation
Indices: 1892281--1892400 Score: 88
Period size: 29 Copynumber: 4.4 Consensus size: 27
1892271 TGAAAGAAAA
* ** *
1892281 CATGCATGAAATGTAATGCATGAAACG
1 CATGCATGAAATGAAATTAATGAAATG
*
1892308 AAATGCATGAAATGAACATTACATGAAATG
1 -CATGCATGAAATGAA-ATTA-ATGAAATG
*
1892338 CATGCATGAAATGTAATGT-ATG-AA--
1 CATGCATGAAATGAAAT-TAATGAAATG
*
1892362 -ATGCATGAAATGAAAATTATGTGAAATG
1 CATGCATGAAATG-AAATTA-ATGAAATG
1892390 CATGCATGAAA
1 CATGCATGAAA
1892401 GTAATGCATG
Statistics
Matches: 73, Mismatches: 9, Indels: 19
0.72 0.09 0.19
Matches are distributed among these distances:
23 13 0.18
24 3 0.04
25 2 0.03
26 4 0.05
27 3 0.04
28 15 0.21
29 26 0.36
30 7 0.10
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.25
Consensus pattern (27 bp):
CATGCATGAAATGAAATTAATGAAATG
Found at i:1892352 original size:57 final size:57
Alignment explanation
Indices: 1892281--1892418 Score: 198
Period size: 52 Copynumber: 2.5 Consensus size: 57
1892271 TGAAAGAAAA
* *
1892281 CATGCATGAAATGTAATGCATGAAACGAAATGCATGAAATGAACATTACATGAAATG
1 CATGCATGAAATGTAATGCATGAAATGAAATGCATGAAATGAAAATTACATGAAATG
**
1892338 CATGCATGAAATGTAATG--T---ATGAAATGCATGAAATGAAAATTATGTGAAATG
1 CATGCATGAAATGTAATGCATGAAATGAAATGCATGAAATGAAAATTACATGAAATG
1892390 CATGCATGAAA-GTAATGCATGAAATGAAA
1 CATGCATGAAATGTAATGCATGAAATGAAA
1892419 ATTACGTGAG
Statistics
Matches: 72, Mismatches: 4, Indels: 11
0.83 0.05 0.13
Matches are distributed among these distances:
51 6 0.08
52 40 0.56
53 1 0.01
55 1 0.01
56 6 0.08
57 18 0.25
ACGTcount: A:0.46, C:0.09, G:0.20, T:0.25
Consensus pattern (57 bp):
CATGCATGAAATGTAATGCATGAAATGAAATGCATGAAATGAAAATTACATGAAATG
Found at i:1892737 original size:17 final size:17
Alignment explanation
Indices: 1892690--1892737 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
1892680 TTTGTTATTA
*
1892690 TTATTATTAATATTTTT
1 TTATTATTAATGTTTTT
* * *
1892707 TTGTTTTTATTGTTTTT
1 TTATTATTAATGTTTTT
*
1892724 TTATTATTCATGTT
1 TTATTATTAATGTT
1892738 AAATAAACTG
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.73
Consensus pattern (17 bp):
TTATTATTAATGTTTTT
Found at i:1893310 original size:42 final size:41
Alignment explanation
Indices: 1893264--1893828 Score: 235
Period size: 42 Copynumber: 13.5 Consensus size: 41
1893254 AAACTCTATG
* * * * *
1893264 GGGTCAAAGCCAACAAGTAAACTTGAAGTGAGGCAGTCTCCA
1 GGGTCAAAGCCGACAGGCAGACTT-AAGTGAGGAAGTCTCCA
* * * * **
1893306 GGGTCTAAGCCGACAGGTAGAC-TAAGGGTAGGAAACTCTTTA
1 GGGTCAAAGCCGACAGGCAGACTTAAGTG-AGG-AAGTCTCCA
* *
1893348 GGGTCAAAGCCGACAGGCAGACTTTAGATGAGGTAGTCTCCA
1 GGGTCAAAGCCGACAGGCAGACTTAAG-TGAGGAAGTCTCCA
* *
1893390 GGGTCAAAGCCGACAGGCAAACTGAAG-GTAGGAAAGTCTCCA
1 GGGTCAAAGCCGACAGGCAGACTTAAGTG-AGG-AAGTCTCCA
* * * * * *
1893432 AGGTCAAATCCAATAGGCAGACTTTAGATGAGGCAGTCTCCA
1 GGGTCAAAGCCGACAGGCAGACTTAAG-TGAGGAAGTCTCCA
* **** * * * * *
1893474 AGGTCAAAG-CTTTTGGTAGACTGAAAGTAAGAAAGTCTCTA
1 GGGTCAAAGCCGACAGGCAGACT-TAAGTGAGGAAGTCTCCA
* ** * *
1893515 AGGTCAAAATCGACAGGCAGACTTTAGATGAGGTAGTCTCCA
1 GGGTCAAAGCCGACAGGCAGACTTAAG-TGAGGAAGTCTCCA
* * * * * * *
1893557 AGGTTAAACCCGACAAGCAGACTGAAGGGTAAGAAAGTC-CCTA
1 GGGTCAAAGCCGACAGGCAGACTTAA--GTGAGGAAGTCTCC-A
* * * * * *
1893600 GGGTCAAAGCCAACGGGTAGATTTTAGATGAGGTAGTCTCCA
1 GGGTCAAAGCCGACAGGCAGACTTAAG-TGAGGAAGTCTCCA
* * * * *
1893642 AGGTCAAAACCGACAGGCAAACTGAAAGT-AGGAAAGTCACCA
1 GGGTCAAAGCCGACAGGCAGACT-TAAGTGAGG-AAGTCTCCA
* * * * * **
1893684 GGATCAAAGCTGACGGGCAGACTTTAGATGAGGCAGTCTTTA
1 GGGTCAAAGCCGACAGGCAGACTTAAG-TGAGGAAGTCTCCA
** ** * * * *
1893726 GGGTCAAAG-TTAGCAGATAGACTAAAGGGTAAGAAAGCCTCCA
1 GGGTCAAAGCCGA-CAGGCAGACTTAA--GTGAGGAAGTCTCCA
* * * * *
1893769 AGGTCAAAGCCGATATGCA-ACTTTAGATGAGGCAGTCTCCA
1 GGGTCAAAGCCGACAGGCAGACTTAAG-TGAGGAAGTCTCCA
1893810 GGGTCAAAGCCGACAGGCA
1 GGGTCAAAGCCGACAGGCA
1893829 AACTAAAAGT
Statistics
Matches: 372, Mismatches: 126, Indels: 51
0.68 0.23 0.09
Matches are distributed among these distances:
40 6 0.02
41 70 0.19
42 233 0.63
43 58 0.16
44 5 0.01
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.19
Consensus pattern (41 bp):
GGGTCAAAGCCGACAGGCAGACTTAAGTGAGGAAGTCTCCA
Found at i:1893675 original size:252 final size:250
Alignment explanation
Indices: 1893292--1893834 Score: 655
Period size: 252 Copynumber: 2.2 Consensus size: 250
1893282 AAACTTGAAG
* * * **
1893292 TGAGGCAGTCTCCAGGGTCT-AAGCCGACAGGTAGACTAAGGGTAGGAAACTCTTTAGGGTCAAA
1 TGAGGCAGTCTCCAGGGT-TAAAGCCGACAAGCAGACTAAGGGTAAGAAACTCCCTAGGGTCAAA
* * * *
1893356 GCCGACAGGCAGACTTTAGATGAGGTAGTCTCCAGGGTCAAAGCCGACAGGCAAACTGAAGGTAG
65 GCCAACAGGCAGACTTTAGATGAGGTAGTCTCCAAGGTCAAAACCGACAGGCAAACTGAAAGTAG
* * *
1893421 GAAAGTCTCCAAGG-TCAAATCCAATAGGCAGACTTTAGATGAGGCAGTCTCCAAGGTCAAAGCT
130 GAAAGTCACC-AGGATCAAAGCCAACAGGCAGACTTTAGATGAGGCAGTCTCCAAGGTCAAAG--
* * * *
1893485 TTTG-G-TAGACTGAAA-GTAAGAAAGTCTCTAAGGTCAAAATCGACAGGCAGACTTTAGA
192 TTAGAGATAGACT-AAAGGTAAGAAAGCCTCCAAGGTCAAAACCGACAGGCA-ACTTTAGA
* * * *
1893543 TGAGGTAGTCTCCAAGGTTAAACCCGACAAGCAGACTGAAGGGTAAGAAAGTCCCTAGGGTCAAA
1 TGAGGCAGTCTCCAGGGTTAAAGCCGACAAGCAGACT-AAGGGTAAGAAACTCCCTAGGGTCAAA
* * *
1893608 GCCAACGGGTAGATTTTAGATGAGGTAGTCTCCAAGGTCAAAACCGACAGGCAAACTGAAAGTAG
65 GCCAACAGGCAGACTTTAGATGAGGTAGTCTCCAAGGTCAAAACCGACAGGCAAACTGAAAGTAG
** * ** *
1893673 GAAAGTCACCAGGATCAAAGCTGACGGGCAGACTTTAGATGAGGCAGTCTTTAGGGTCAAAGTTA
130 GAAAGTCACCAGGATCAAAGCCAACAGGCAGACTTTAGATGAGGCAGTCTCCAAGGTCAAAGTTA
* * *
1893738 GCAGATAGACTAAAGGGTAAGAAAGCCTCCAAGGTCAAAGCCGATATGCAACTTTAGA
195 G-AGATAGACTAAA-GGTAAGAAAGCCTCCAAGGTCAAAACCGACAGGCAACTTTAGA
* * *
1893796 TGAGGCAGTCTCCAGGGTCAAAGCCGACAGGCAAACTAA
1 TGAGGCAGTCTCCAGGGTTAAAGCCGACAAGCAGACTAA
1893835 AAGTAAGTAA
Statistics
Matches: 246, Mismatches: 38, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
250 4 0.02
251 33 0.13
252 136 0.55
253 45 0.18
254 28 0.11
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.19
Consensus pattern (250 bp):
TGAGGCAGTCTCCAGGGTTAAAGCCGACAAGCAGACTAAGGGTAAGAAACTCCCTAGGGTCAAAG
CCAACAGGCAGACTTTAGATGAGGTAGTCTCCAAGGTCAAAACCGACAGGCAAACTGAAAGTAGG
AAAGTCACCAGGATCAAAGCCAACAGGCAGACTTTAGATGAGGCAGTCTCCAAGGTCAAAGTTAG
AGATAGACTAAAGGTAAGAAAGCCTCCAAGGTCAAAACCGACAGGCAACTTTAGA
Found at i:1893834 original size:84 final size:84
Alignment explanation
Indices: 1893292--1893841 Score: 468
Period size: 84 Copynumber: 6.5 Consensus size: 84
1893282 AAACTTGAAG
* * * * ** *
1893292 TGAGGCAGTCTCCAGGGTCTAAGCCGACAGGTAGACTAAGGGTAGGAAA-CTCTTTAGGGTCAAA
1 TGAGGCAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAAGGTAAGAAAGC-CTCCAAGGTCAAA
1893356 GCCGACAGGCAGACTTTAGA
65 GCCGACAGGCAGACTTTAGA
* * * * * *
1893376 TGAGGTAGTCTCCAGGGTCAAAGCCGACAGGCAAACTGAAGGTAGGAAAGTCTCCAAGGTCAAAT
1 TGAGGCAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAAGGTAAGAAAGCCTCCAAGGTCAAAG
* *
1893441 CCAATAGGCAGACTTTAGA
66 CCGACAGGCAGACTTTAGA
* **** * * *
1893460 TGAGGCAGTCTCCAAGGTCAAAG-CTTTTGGTAGACTGAAA-GTAAGAAAGTCTCTAAGGTCAAA
1 TGAGGCAGTCTCCAGGGTCAAAGCCGACAGGCAGACT-AAAGGTAAGAAAGCCTCCAAGGTCAAA
**
1893523 ATCGACAGGCAGACTTTAGA
65 GCCGACAGGCAGACTTTAGA
* * * * * * * *
1893543 TGAGGTAGTCTCCAAGGTTAAACCCGACAAGCAGACTGAAGGGTAAGAAAGTCC-CTAGGGTCAA
1 TGAGGCAGTCTCCAGGGTCAAAGCCGACAGGCAGACT-AAAGGTAAGAAAG-CCTCCAAGGTCAA
* * * *
1893607 AGCCAACGGGTAGATTTTAGA
64 AGCCGACAGGCAGACTTTAGA
* * * * * * *
1893628 TGAGGTAGTCTCCAAGGTCAAAACCGACAGGCAAACTGAAA-GTAGGAAAGTCACC-AGGATCAA
1 TGAGGCAGTCTCCAGGGTCAAAGCCGACAGGCAGACT-AAAGGTAAGAAAGCCTCCAAGG-TCAA
* *
1893691 AGCTGACGGGCAGACTTTAGA
64 AGCCGACAGGCAGACTTTAGA
** ** **
1893712 TGAGGCAGTCTTTAGGGTCAAAG-TTAGCAGATAGACTAAAGGGTAAGAAAGCCTCCAAGGTCAA
1 TGAGGCAGTCTCCAGGGTCAAAGCCGA-CAGGCAGACTAAA-GGTAAGAAAGCCTCCAAGGTCAA
* *
1893776 AGCCGATATGCA-ACTTTAGA
64 AGCCGACAGGCAGACTTTAGA
* *
1893796 TGAGGCAGTCTCCAGGGTCAAAGCCGACAGGCAAACTAAAAGTAAG
1 TGAGGCAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAAGGTAAG
1893842 TAAATTCATA
Statistics
Matches: 370, Mismatches: 84, Indels: 25
0.77 0.18 0.05
Matches are distributed among these distances:
83 76 0.21
84 197 0.53
85 93 0.25
86 4 0.01
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.19
Consensus pattern (84 bp):
TGAGGCAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAAGGTAAGAAAGCCTCCAAGGTCAAAG
CCGACAGGCAGACTTTAGA
Found at i:1895314 original size:7 final size:7
Alignment explanation
Indices: 1895311--1895366 Score: 60
Period size: 7 Copynumber: 7.9 Consensus size: 7
1895301 ATTTTTTCTT
1895311 TTTTTTC
1 TTTTTTC
1895318 TTTTTTC
1 TTTTTTC
1895325 TTTTTT-
1 TTTTTTC
**
1895331 AATTTTC
1 TTTTTTC
*
1895338 TTTTTTAA
1 TTTTTT-C
1895346 TTTTTTC
1 TTTTTTC
1895353 TTTTTTTC
1 -TTTTTTC
1895361 TTTTTT
1 TTTTTT
1895367 TATGCATAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
6 4 0.10
7 23 0.57
8 13 0.32
ACGTcount: A:0.07, C:0.09, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:1895315 original size:8 final size:8
Alignment explanation
Indices: 1895302--1895367 Score: 55
Period size: 8 Copynumber: 7.8 Consensus size: 8
1895292 TTTCATTCGA
1895302 TTTTTTCT
1 TTTTTTCT
1895310 TTTTTT-T
1 TTTTTTCT
1895317 CTTTTTTCT
1 -TTTTTTCT
1895326 TTTTTAAT-T
1 TTTTT--TCT
*
1895335 TTCTTTTTT
1 TT-TTTTCT
1895344 AATTTTTTCT
1 --TTTTTTCT
1895354 TTTTTTCT
1 TTTTTTCT
1895362 TTTTTT
1 TTTTTT
1895368 ATGCATAATA
Statistics
Matches: 49, Mismatches: 1, Indels: 16
0.74 0.02 0.24
Matches are distributed among these distances:
7 1 0.02
8 32 0.65
9 5 0.10
10 9 0.18
11 2 0.04
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTTCT
Found at i:1895336 original size:13 final size:13
Alignment explanation
Indices: 1895320--1895366 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
1895310 TTTTTTTCTT
1895320 TTTTCTTTTTTAA
1 TTTTCTTTTTTAA
1895333 TTTTCTTTTTTAA
1 TTTTCTTTTTTAA
*
1895346 TTTT-TTCTTT--
1 TTTTCTTTTTTAA
1895356 TTTTCTTTTTT
1 TTTTCTTTTTT
1895367 TATGCATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 4 0.13
11 5 0.16
12 5 0.16
13 17 0.55
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCTTTTTTAA
Found at i:1895349 original size:20 final size:20
Alignment explanation
Indices: 1895313--1895350 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1895303 TTTTTCTTTT
**
1895313 TTTTCTTTTTTCTTTTTTAA
1 TTTTCTTTTTTAATTTTTAA
1895333 TTTTCTTTTTTAATTTTT
1 TTTTCTTTTTTAATTTTT
1895351 TCTTTTTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTCTTTTTTAATTTTTAA
Found at i:1895359 original size:29 final size:29
Alignment explanation
Indices: 1895304--1895358 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
1895294 TCATTCGATT
**
1895304 TTTTCTTTTTTTTCTTTTTTCTTTTTTAA
1 TTTTCTTTTTTTAATTTTTTCTTTTTTAA
1895333 TTTTC-TTTTTTAATTTTTTCTTTTTT
1 TTTTCTTTTTTTAATTTTTTCTTTTTT
1895359 TCTTTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.07, C:0.09, G:0.00, T:0.84
Consensus pattern (29 bp):
TTTTCTTTTTTTAATTTTTTCTTTTTTAA
Found at i:1900637 original size:13 final size:13
Alignment explanation
Indices: 1900619--1900644 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1900609 TACAGCAAGT
1900619 ATGTATCGATACA
1 ATGTATCGATACA
1900632 ATGTATCGATACA
1 ATGTATCGATACA
1900645 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1908066 original size:190 final size:189
Alignment explanation
Indices: 1907759--1908187 Score: 585
Period size: 190 Copynumber: 2.3 Consensus size: 189
1907749 AATTTTTTAT
* * * * * **
1907759 TTTTCATACCCCTATGGAAAACCCATAAGAATAGGAAAATATGACTCGAGTGAATAACCATCCAC
1 TTTTCATACCCCTACGGAAAA-CCATAGGAATATGAAAACATGACTCAAGCAAATAACCATCCAC
*
1907824 ATTTTTTTAAAAATATTAATTTTAGGGAAACCAAATTTTTCTAAATTTTTAAATTTACCTTCTAA
65 ATTTTTTTAAAAATATTAATTTTAGGGAAACCAAATTTTTCTAAATTTTTAAATTTAACTTCTAA
*
1907889 ATTTCAAAAATTATGTTTCGTACCCGACGAAAAACTAGGAGATATGAAAGGTATTAAAAAAA
130 ATTTCAAAAATTATGTTTCGTACCCGACGAAAAACCAGGAGATATGAAAGGTATT--AAAAA
* * *
1907951 TTTTCATACCCCTACGGAAAACTATAGGAATATGAAAACATGACTCAAGCAAATAAACGAT-CAT
1 TTTTCATACCCCTACGGAAAACCATAGGAATATGAAAACATGACTCAAGCAAAT-AACCATCCAC
* * *
1908015 ATATTTTTT-AAAATATTAA-TTTAGGGAAACTAAATTTTTCTGAATTTTTAAATTTAACTTTTA
65 AT-TTTTTTAAAAATATTAATTTTAGGGAAACCAAATTTTTCTAAATTTTTAAATTTAACTTCTA
* * * * * * *
1908078 ATTTTTAAACATTATGTTTTGTACCCGACGGAAAACCAGGGGATATGAAAGGTGTTAAAAA
129 AATTTCAAAAATTATGTTTCGTACCCGACGAAAAACCAGGAGATATGAAAGGTATTAAAAA
*
1908139 TTTTCATACCCCTACGGAAAACCATAGGAATATGAAAACATAACTCAAG
1 TTTTCATACCCCTACGGAAAACCATAGGAATATGAAAACATGACTCAAG
1908188 TGGGCAAAAA
Statistics
Matches: 211, Mismatches: 24, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
188 52 0.25
190 88 0.42
191 40 0.19
192 31 0.15
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.32
Consensus pattern (189 bp):
TTTTCATACCCCTACGGAAAACCATAGGAATATGAAAACATGACTCAAGCAAATAACCATCCACA
TTTTTTTAAAAATATTAATTTTAGGGAAACCAAATTTTTCTAAATTTTTAAATTTAACTTCTAAA
TTTCAAAAATTATGTTTCGTACCCGACGAAAAACCAGGAGATATGAAAGGTATTAAAAA
Found at i:1908982 original size:23 final size:23
Alignment explanation
Indices: 1908956--1909014 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
1908946 TTGATTGATA
1908956 TTTTGCTGGTGTTTGCTTGCTGT
1 TTTTGCTGGTGTTTGCTTGCTGT
** * *
1908979 TTTTGCTGGTACTTGTTTGTTGT
1 TTTTGCTGGTGTTTGCTTGCTGT
*
1909002 TTTTGCTAGTGTT
1 TTTTGCTGGTGTT
1909015 GTTTTCATTG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.03, C:0.10, G:0.27, T:0.59
Consensus pattern (23 bp):
TTTTGCTGGTGTTTGCTTGCTGT
Found at i:1909066 original size:33 final size:35
Alignment explanation
Indices: 1908988--1909068 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 35
1908978 TTTTTGCTGG
* * *
1908988 TACTTGTTTGTTGTTTTTGCTAGTGTTGTTTTCAT
1 TACTTGTTTGCTGTATTTGCTAGTGCTGTTTTCAT
* * *
1909023 TGCTTG-TTGCT-TATTTGCTTGTGCTG-TTTCGT
1 TACTTGTTTGCTGTATTTGCTAGTGCTGTTTTCAT
1909055 TACTTGTTTGCTGT
1 TACTTGTTTGCTGT
1909069 TTGCTGTTGC
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
32 10 0.27
33 17 0.46
34 5 0.14
35 5 0.14
ACGTcount: A:0.06, C:0.12, G:0.22, T:0.59
Consensus pattern (35 bp):
TACTTGTTTGCTGTATTTGCTAGTGCTGTTTTCAT
Found at i:1909132 original size:20 final size:21
Alignment explanation
Indices: 1909107--1909146 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
1909097 TTGCTGCTTA
*
1909107 CTTTTTTTTTTGTT-TTTTCC
1 CTTTTTTTATTGTTGTTTTCC
1909127 CTTTTTTTATTGTTGTTTTC
1 CTTTTTTTATTGTTGTTTTC
1909147 TTTTGTTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.03, C:0.12, G:0.07, T:0.78
Consensus pattern (21 bp):
CTTTTTTTATTGTTGTTTTCC
Found at i:1909473 original size:67 final size:68
Alignment explanation
Indices: 1909274--1909480 Score: 272
Period size: 68 Copynumber: 3.0 Consensus size: 68
1909264 TCTTTTTTTA
* * *
1909274 TTTCGATTTGATTCTCTCCTTCTTTTTTTTCACTCCCCCTTATTAGCTGTTGTTTCGTTTCTCTC
1 TTTCGATTTGATTCTCT-C--C--TTTTTTCACTCTCCCTCATTAGCTGCTGTTTCGTTTCTCTC
1909339 CTTTCTTG
61 CTTTCTTG
* * * * *
1909347 TTTCGATTTGATTCTCTCCTTTTTTCACTCTCTCTCTTTTGTTGCTGTTTTGTTTCTCTCCTTTC
1 TTTCGATTTGATTCTCTCCTTTTTTCACTCTCCCTCATTAGCTGCTGTTTCGTTTCTCTCCTTTC
1909412 TTG
66 TTG
* *
1909415 TTTCGATTTGATTCTCT-CTTTTTTCACTCTCCCTCGTTAGCTGCTGTTTCGTTTCTCTCTTTTC
1 TTTCGATTTGATTCTCTCCTTTTTTCACTCTCCCTCATTAGCTGCTGTTTCGTTTCTCTCCTTTC
1909479 TT
66 TT
1909481 CCTCATTTTT
Statistics
Matches: 120, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
67 43 0.36
68 58 0.48
70 1 0.01
72 1 0.01
73 17 0.14
ACGTcount: A:0.06, C:0.27, G:0.10, T:0.57
Consensus pattern (68 bp):
TTTCGATTTGATTCTCTCCTTTTTTCACTCTCCCTCATTAGCTGCTGTTTCGTTTCTCTCCTTTC
TTG
Found at i:1909953 original size:14 final size:13
Alignment explanation
Indices: 1909843--1910050 Score: 79
Period size: 13 Copynumber: 15.4 Consensus size: 13
1909833 GAAATGTTTT
*
1909843 TGAAATGCATGCA
1 TGAAATGAATGCA
*
1909856 TGAAATGAATTCA
1 TGAAATGAATGCA
*** *
1909869 TGGCGTGAA-ACA
1 TGAAATGAATGCA
**
1909881 TGAAA-GAAAACA
1 TGAAATGAATGCA
*
1909893 TG-CATGAAATGCA
1 TGAAATG-AATGCA
*
1909906 TGAAATGAACATTACA
1 TGAAATG-A-A-TGCA
*
1909922 TGAAATGCATGCA
1 TGAAATGAATGCA
*
1909935 TGAAATGTAATGTA
1 TGAAATG-AATGCA
*
1909949 TGAAA-GAAAAT-TA
1 TGAAATG--AATGCA
*
1909962 TGTAAAATGCATGCA
1 TG--AAATGAATGCA
1909977 TGAAATGTAATGCA
1 TGAAATG-AATGCA
*
1909991 TGAAATGAAAATTACA
1 TGAAATG--AA-TGCA
*
1910007 TGAAATGCATGCA
1 TGAAATGAATGCA
1910020 TGAAAT-ATAGTGCA
1 TGAAATGA-A-TGCA
*
1910034 TGAAA-GTATGCA
1 TGAAATGAATGCA
1910046 TGAAA
1 TGAAA
1910051 GTAAAAGCAT
Statistics
Matches: 149, Mismatches: 28, Indels: 37
0.70 0.13 0.17
Matches are distributed among these distances:
11 4 0.03
12 19 0.13
13 54 0.36
14 42 0.28
15 9 0.06
16 21 0.14
ACGTcount: A:0.46, C:0.10, G:0.20, T:0.25
Consensus pattern (13 bp):
TGAAATGAATGCA
Found at i:1910015 original size:43 final size:43
Alignment explanation
Indices: 1909900--1910038 Score: 208
Period size: 43 Copynumber: 3.3 Consensus size: 43
1909890 ACATGCATGA
*
1909900 AATGCATGAAATGAACATTACATGAAATGCATGCATGAAATGT
1 AATGCATGAAATGAAAATTACATGAAATGCATGCATGAAATGT
* ** *
1909943 AATGTATGAAA-GAAAATTATGTAAAATGCATGCATGAAATGT
1 AATGCATGAAATGAAAATTACATGAAATGCATGCATGAAATGT
*
1909985 AATGCATGAAATGAAAATTACATGAAATGCATGCATGAAATAT
1 AATGCATGAAATGAAAATTACATGAAATGCATGCATGAAATGT
*
1910028 AGTGCATGAAA
1 AATGCATGAAA
1910039 GTATGCATGA
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
42 37 0.44
43 47 0.56
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.26
Consensus pattern (43 bp):
AATGCATGAAATGAAAATTACATGAAATGCATGCATGAAATGT
Found at i:1910053 original size:12 final size:13
Alignment explanation
Indices: 1909966--1910050 Score: 73
Period size: 14 Copynumber: 6.2 Consensus size: 13
1909956 AAATTATGTA
*
1909966 AAATGCATGCATG
1 AAATGTATGCATG
1909979 AAATGTAATGCATG
1 AAATGT-ATGCATG
* *
1909993 AAATGAAAATTACATG
1 AAATG--TA-TGCATG
*
1910009 AAATGCATGCATG
1 AAATGTATGCATG
*
1910022 AAATATAGTGCATG
1 AAATGTA-TGCATG
1910036 AAA-GTATGCATG
1 AAATGTATGCATG
1910048 AAA
1 AAA
1910051 GTAAAAGCAT
Statistics
Matches: 59, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
12 9 0.15
13 17 0.29
14 22 0.37
15 1 0.02
16 10 0.17
ACGTcount: A:0.46, C:0.09, G:0.20, T:0.25
Consensus pattern (13 bp):
AAATGTATGCATG
Found at i:1910281 original size:11 final size:11
Alignment explanation
Indices: 1910267--1910342 Score: 64
Period size: 11 Copynumber: 6.7 Consensus size: 11
1910257 AATTAATTAA
*
1910267 TTATTACTATT
1 TTATTATTATT
1910278 TTATTATTATTAT
1 TTATTATTA-T-T
*
1910291 ATTATTAATATT
1 -TTATTATTATT
1910303 TTATTATTATT
1 TTATTATTATT
* *
1910314 TTTTTGTT-TT
1 TTATTATTATT
* *
1910324 TTATTGTTTTT
1 TTATTATTATT
1910335 TTATTATT
1 TTATTATT
1910343 CATGTTAAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
10 9 0.17
11 33 0.61
12 2 0.04
13 2 0.04
14 8 0.15
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.72
Consensus pattern (11 bp):
TTATTATTATT
Found at i:1910294 original size:25 final size:24
Alignment explanation
Indices: 1910262--1910313 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 24
1910252 TTGTTAATTA
*
1910262 ATTAATTATTACTATTTTATTATT
1 ATTAATTATTAATATTTTATTATT
1910286 ATTATATTATTAATATTTTATTATT
1 ATTA-ATTATTAATATTTTATTATT
1910311 ATT
1 ATT
1910314 TTTTTGTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 4 0.15
25 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTAATTATTAATATTTTATTATT
Found at i:1910318 original size:14 final size:14
Alignment explanation
Indices: 1910266--1910342 Score: 64
Period size: 14 Copynumber: 5.4 Consensus size: 14
1910256 TAATTAATTA
* *
1910266 ATTATTACTATTTT
1 ATTATTATTTTTTT
* *
1910280 ATTATTATTATATT
1 ATTATTATTTTTTT
* *
1910294 ATTAATATTTTATT
1 ATTATTATTTTTTT
*
1910308 ATTATTTTTTTGTTT
1 ATTATTATTTT-TTT
* *
1910323 TTTATTGTTTTTTT
1 ATTATTATTTTTTT
1910337 ATTATT
1 ATTATT
1910343 CATGTTAAAT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
14 41 0.79
15 11 0.21
ACGTcount: A:0.25, C:0.01, G:0.03, T:0.71
Consensus pattern (14 bp):
ATTATTATTTTTTT
Found at i:1910333 original size:18 final size:19
Alignment explanation
Indices: 1910301--1910336 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1910291 ATTATTAATA
1910301 TTTTATTATTATTTTTTTG
1 TTTTATTATTATTTTTTTG
*
1910320 TTTT-TTATTGTTTTTTT
1 TTTTATTATTATTTTTTT
1910337 ATTATTCATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (19 bp):
TTTTATTATTATTTTTTTG
Found at i:1914179 original size:20 final size:20
Alignment explanation
Indices: 1914154--1914207 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
1914144 ATTACAAGTA
*
1914154 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
1914174 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
1914194 ATGTATCGATACAA
1 ATGTATCGATACAA
1914208 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:1914281 original size:19 final size:19
Alignment explanation
Indices: 1914236--1914291 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
1914226 CTGCCAGTTT
**
1914236 CATGTATCGATACAACTGTC
1 CATGTATCGATACAA-TGAA
1914256 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
1914275 TATGTATCGATACAATG
1 CATGTATCGATACAATG
1914292 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1914294 original size:13 final size:13
Alignment explanation
Indices: 1914276--1914301 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1914266 TACAATGAAT
1914276 ATGTATCGATACA
1 ATGTATCGATACA
1914289 ATGTATCGATACA
1 ATGTATCGATACA
1914302 TCTGGGTGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1914916 original size:22 final size:21
Alignment explanation
Indices: 1914877--1914917 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
1914867 AGATAAACAT
*
1914877 ATTTCTCCTCTTTATCAAAGC
1 ATTTCTCCCCTTTATCAAAGC
*
1914898 ATTTCTCCCCCTTTGTCAAA
1 ATTTCT-CCCCTTTATCAAA
1914918 TCAATAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.22, C:0.32, G:0.05, T:0.41
Consensus pattern (21 bp):
ATTTCTCCCCTTTATCAAAGC
Found at i:1920715 original size:21 final size:20
Alignment explanation
Indices: 1920682--1920739 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
1920672 GAATCATGTA
* * *
1920682 AATTCTTGTTTTCCTTAGCT
1 AATTCTTATTTTCATCAGCT
1920702 AATTCATTATTTTCATCAGCT
1 AATTC-TTATTTTCATCAGCT
* *
1920723 AACTTTTTAATTTCATC
1 AA-TTCTTATTTTCATC
1920740 TTGAAATTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 5 0.16
21 24 0.77
22 2 0.06
ACGTcount: A:0.24, C:0.19, G:0.05, T:0.52
Consensus pattern (20 bp):
AATTCTTATTTTCATCAGCT
Found at i:1922963 original size:20 final size:20
Alignment explanation
Indices: 1922938--1922991 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1922928 GTTACAAGCA
*
1922938 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
1922958 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
*
1922978 ATGTATTGATACAA
1 ATGTATCGATACAA
1922992 ACAGTGGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:1929464 original size:34 final size:35
Alignment explanation
Indices: 1929426--1929492 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1929416 CCTTACAACA
1929426 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1929460 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1929493 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1929969 original size:13 final size:13
Alignment explanation
Indices: 1929951--1929976 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1929941 CAATTTTTTG
1929951 TGTATCGATACAT
1 TGTATCGATACAT
1929964 TGTATCGATACAT
1 TGTATCGATACAT
1929977 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1930041 original size:21 final size:21
Alignment explanation
Indices: 1930015--1930090 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
1930005 CTGCCAAGAA
1930015 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
1930036 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1930056 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1930077 ATGTATCGATACAT
1 ATGTATCGATACAT
1930091 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1930060 original size:20 final size:20
Alignment explanation
Indices: 1930035--1930108 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
1930025 ACATCTTTTT
1930035 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
1930055 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
1930076 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
1930096 CATGTATCGATAC
1 CATGTATCGATAC
1930109 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:1930072 original size:41 final size:41
Alignment explanation
Indices: 1930015--1930108 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
1930005 CTGCCAAGAA
1930015 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1930056 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1930097 ATGTATCGATAC
1 ATGTATCGATAC
1930109 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1930768 original size:21 final size:21
Alignment explanation
Indices: 1930727--1930770 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1930717 CTCCCCTTTA
* *
1930727 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
1930748 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
1930769 TC
1 TC
1930771 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:1931890 original size:13 final size:13
Alignment explanation
Indices: 1931872--1931896 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1931862 ACTGAAGCAA
1931872 TGTATCGATACAT
1 TGTATCGATACAT
1931885 TGTATCGATACA
1 TGTATCGATACA
1931897 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1935062 original size:34 final size:35
Alignment explanation
Indices: 1935024--1935090 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1935014 CCTTACAACA
1935024 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1935058 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1935091 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1935567 original size:13 final size:13
Alignment explanation
Indices: 1935549--1935574 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1935539 CAATTTTTTG
1935549 TGTATCGATACAT
1 TGTATCGATACAT
1935562 TGTATCGATACAT
1 TGTATCGATACAT
1935575 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Done.