Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold31
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: 2401195
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 123915 characters in sequence are not A, C, G, or T
File 7 of 16
Found at i:916789 original size:41 final size:39
Alignment explanation
Indices: 916733--916888 Score: 129
Period size: 40 Copynumber: 3.8 Consensus size: 39
916723 GGCGTCCTCC
* ** **
916733 AAAACAAAAAAAA-AAACGAAAAAAATGAAAAACCAAAA
1 AAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAACCAAAA
** *
916771 AAAAAAAATGAATGAAAAAAAAGAAAAACCAAAAAA--AAAA
1 AAAAAAAAAAAAAGAAAAAAAA-AAAAA--AAAAAACCAAAA
916811 AAAAAAAAAAAAAGAAAAAAAAACAAAAAAAAAACCAAAAA
1 AAAAAAAAAAAAAGAAAAAAAAA-AAAAAAAAAACC-AAAA
*
916852 AAAAAAACAAAAAACAATAAAAAAACAAACAAAAAAA
1 AAAAAAA-AAAAAAGAA-AAAAAAA-AAA-AAAAAAA
916889 AAGGGGGTCC
Statistics
Matches: 95, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
38 15 0.16
39 7 0.07
40 31 0.33
41 11 0.12
42 13 0.14
43 11 0.12
44 7 0.07
ACGTcount: A:0.85, C:0.08, G:0.04, T:0.03
Consensus pattern (39 bp):
AAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAACCAAAA
Found at i:916797 original size:25 final size:21
Alignment explanation
Indices: 916733--916891 Score: 131
Period size: 22 Copynumber: 7.2 Consensus size: 21
916723 GGCGTCCTCC
* *
916733 AAAACAAAAAAAAAAACGAAAA
1 AAAAGAAAAAAAAAAA-AAAAA
* **
916755 AAATGAAAAACCAAAAAAAAA
1 AAAAGAAAAAAAAAAAAAAAA
* *
916776 AAATGAATGAAAAAAAAGAAAAAC
1 AAAAGAA--AAAAAAAA-AAAAAA
*
916800 CAAA-AAAAAAAAAAAAAAAA
1 AAAAGAAAAAAAAAAAAAAAA
916820 AAAAGAAAAAAAAACAAAAAAA
1 AAAAGAAAAAAAAA-AAAAAAA
**
916842 AAACCAAAAAAAAAAAACAAAA
1 AAAAGAAAAAAAAAAAA-AAAA
* *
916864 AACAATAAAAAAACAAACAAAAA
1 AA-AAGAAAAAAA-AAAAAAAAA
916887 AAAAG
1 AAAAG
916892 GGGGTCCGGA
Statistics
Matches: 111, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
20 8 0.07
21 31 0.28
22 39 0.35
23 22 0.20
24 11 0.10
ACGTcount: A:0.85, C:0.08, G:0.04, T:0.03
Consensus pattern (21 bp):
AAAAGAAAAAAAAAAAAAAAA
Found at i:918387 original size:30 final size:29
Alignment explanation
Indices: 918332--918802 Score: 339
Period size: 30 Copynumber: 15.9 Consensus size: 29
918322 TCACCCTTCA
* *
918332 AAAGTCCACAAGTCAGTGGCATTTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
*
918361 AAAGCCCACAAGTCAGTGGCATTTTTTTTTTC
1 AAAGCCCACAAGTCAGTGGCA---TCTTTTTC
* *
918393 GAAAGCCCACAAGTCAGTGGCAAC--CTTC
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
918421 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * *
918451 GAAGCCCACAAGTCGGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
918480 AAAGTCCACAACTCCGTGGCACTCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * * *
918510 TTTTGTAAGCTCACAACTCTA-TAGCA-CTCTTTTC
1 -----AAAGCCCACAAGTC-AGTGGCATCT-TTTTC
* * *
918544 --AGCCCACAAGTTAGTGGCACCCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
*
918571 AAAAGCCCACAAGTCAGTGGCATATTTTTC
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
918601 AAAAGCCCACAAGTCAGTGGCAAC-CTTTA
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * * *
918630 AAAGCCCACAAGTTAGTGGCACCCTGTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
*
918659 AAAAGCCCACAAGTCAGTGGCATATTTTTC
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * **
918689 AAAAGCCCACAAGTCAGTGGCAACCTTTAA
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
918719 AAAGCCCACAAGTCAGTGGCAAC--CTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
918746 AAAGCCCACAAATCAGTGGCACCCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * * *
918776 GAAGCCCACAAATCGGTGGCACCTTTT
1 AAAGCCCACAAGTCAGTGGCATCTTTT
918803 CCATCTTTAA
Statistics
Matches: 359, Mismatches: 58, Indels: 50
0.77 0.12 0.11
Matches are distributed among these distances:
26 1 0.00
27 59 0.16
28 27 0.08
29 78 0.22
30 143 0.40
32 8 0.02
33 23 0.06
34 5 0.01
35 15 0.04
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTTC
Found at i:918436 original size:27 final size:27
Alignment explanation
Indices: 918394--918446 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
918384 TTTTTTTTCG
*
918394 AAAGCCCACAAGTCAGTGGCAACCTTC
1 AAAGCCCACAAATCAGTGGCAACCTTC
*
918421 AAAGCCCACAAATCAGTGGCACCCTT
1 AAAGCCCACAAATCAGTGGCAACCTT
918447 TTCCGAAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.34, C:0.34, G:0.17, T:0.15
Consensus pattern (27 bp):
AAAGCCCACAAATCAGTGGCAACCTTC
Found at i:918577 original size:121 final size:119
Alignment explanation
Indices: 918328--918739 Score: 363
Period size: 121 Copynumber: 3.5 Consensus size: 119
918318 TTCATCACCC
* *
918328 TTCAAAAGTCCACAAGTCAGTGGCATTTTTTTCAAAGCCCACAAGTCAGTGGCATTTTTTTTTTC
1 TTCAAAAGCCCACAAGTCAGTGGCATTTTTTCCAAAGCCCACAAGTCAGTGGCATTTTTTTTTTC
* *
918393 GAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTT
66 GAAAGCCCACAACTCAGTAGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTT
** * * * * *
918447 TTCCGAAGCCCACAAGTCGGTGGCATCTTTTCCAAAGTCCACAACTCCGTGGCACTCTTTTTCTT
1 TTCAAAAGCCCACAAGTCAGTGGCATTTTTTCCAAAGCCCACAAGTCAGTGGCA-T-TTTTT-TT
* * *** * *
918512 TT-GTAAGCTCACAACTCTA-TAGC-ACTCTTTTCAGCCCACAAGTTAGTGGCACCCTT
63 TTCGAAAGCCCACAACTC-AGTAGCAAC-CTTCAAAGCCCACAAATCAGTGGCACCCTT
* ***
918568 TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCA----ACCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAT-TTTTTCCAAAGCCCACAAGTCAGTGGCATTTTTTTTTT
* * * * * * ***
918629 -AAAAGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCACAAGTCAGTGGCATATTT
65 CGAAAGCCCACAACTCAGTAGCAACC--TTC-AAAGCCCACAAATCAGTGGCACCCTT
*** **
918686 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAAGCCCACAAGTCAGTGGCA
1 TTCAAAAGCCCACAAGTCAGTGGCATTTTTTCCAAAGCCCACAAGTCAGTGGCA
918740 ACCTTCAAAG
Statistics
Matches: 235, Mismatches: 47, Indels: 24
0.77 0.15 0.08
Matches are distributed among these distances:
114 1 0.00
115 17 0.07
116 1 0.00
117 27 0.11
118 45 0.19
119 45 0.19
120 3 0.01
121 68 0.29
122 28 0.12
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (119 bp):
TTCAAAAGCCCACAAGTCAGTGGCATTTTTTCCAAAGCCCACAAGTCAGTGGCATTTTTTTTTTC
GAAAGCCCACAACTCAGTAGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTT
Found at i:918649 original size:88 final size:88
Alignment explanation
Indices: 918544--918801 Score: 382
Period size: 88 Copynumber: 3.0 Consensus size: 88
918534 CACTCTTTTC
918544 AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
1 AGCCCACAAGTTAGTGGCACCC-TTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
918609 ACAAGTCAGTGGCAACCTTT-AAA
65 ACAAGTCAGTGGCAACCTTTAAAA
918632 AGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
1 AGCCCACAAGTTAGTGGCACCCT-TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
918697 ACAAGTCAGTGGCAACCTTTAAAA
65 ACAAGTCAGTGGCAACCTTTAAAA
* * * ** *
918721 AGCCCACAAGTCAGTGGCAACC-TTC-AAAGCCCACAAATCAGTGGCACCCTTTTTC-GAAGCCC
1 AGCCCACAAGTTAGTGGCACCCTTTCAAAAGCCCACAAGTCAGTGGCA-TATTTTTCAAAAGCCC
* *
918783 ACAAATCGGTGGC-ACCTTT
65 ACAAGTCAGTGGCAACCTTT
918802 TCCATCTTTA
Statistics
Matches: 159, Mismatches: 8, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
85 6 0.04
86 37 0.23
87 10 0.06
88 83 0.52
89 23 0.14
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (88 bp):
AGCCCACAAGTTAGTGGCACCCTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCA
CAAGTCAGTGGCAACCTTTAAAA
Found at i:918875 original size:43 final size:43
Alignment explanation
Indices: 918807--918896 Score: 144
Period size: 43 Copynumber: 2.1 Consensus size: 43
918797 CCTTTTCCAT
*
918807 CTTTAAGTCCAATGTAGCCGACCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
* * *
918850 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
918893 CTTT
1 CTTT
918897 TCCATCTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
Found at i:918928 original size:52 final size:53
Alignment explanation
Indices: 918850--918987 Score: 161
Period size: 52 Copynumber: 2.6 Consensus size: 53
918840 ACATTGGCAC
* *
918850 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTCCAT
* * *
918902 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCC-TTTTC-CAT
* * * * *
918957 CTTTAAGCCCCATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
918988 ACATATTGGC
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 38 0.54
53 2 0.03
54 5 0.07
55 26 0.37
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTCCAT
Found at i:920300 original size:21 final size:21
Alignment explanation
Indices: 920274--920325 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
920264 TTTTACAATT
*
920274 TGTATCGATATGA-ACAGTAAA
1 TGTATCGATATCATA-AGTAAA
*
920295 TGTATCGATA-CATAAGTGAA
1 TGTATCGATATCATAAGTAAA
920315 TGTATCGATAT
1 TGTATCGATAT
920326 ATTTTCTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (21 bp):
TGTATCGATATCATAAGTAAA
Found at i:920958 original size:13 final size:13
Alignment explanation
Indices: 920940--920964 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
920930 CATAAAGTGT
920940 TGTATCGATACAA
1 TGTATCGATACAA
920953 TGTATCGATACA
1 TGTATCGATACA
920965 TGTTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:921045 original size:13 final size:13
Alignment explanation
Indices: 921027--921051 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
921017 ATCACTTAAA
921027 TGTATCGATACAT
1 TGTATCGATACAT
921040 TGTATCGATACA
1 TGTATCGATACA
921052 CTGATCTTTG
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:921104 original size:52 final size:52
Alignment explanation
Indices: 921060--921240 Score: 344
Period size: 52 Copynumber: 3.5 Consensus size: 52
921050 CACTGATCTT
921060 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
921112 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
921164 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
921216 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
921241 TCATATTTCG
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 127 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:924889 original size:20 final size:20
Alignment explanation
Indices: 924864--924917 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
924854 GTTATAAGCA
*
924864 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
924884 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
924904 ATGTATCGATACAA
1 ATGTATCGATACAA
924918 ATAGTGGTAG
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:924971 original size:20 final size:20
Alignment explanation
Indices: 924946--925014 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
924936 CTGCCAGTTT
924946 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTC
924966 CATGTATCGATAC-A-----
1 CATGTATCGATACAATTGTC
924980 -ATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTC
924999 CATGTATCGATACAAT
1 CATGTATCGATACAAT
925015 GTATCGATAC
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
13 12 0.29
14 1 0.02
19 1 0.02
20 28 0.67
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGTC
Found at i:924985 original size:13 final size:13
Alignment explanation
Indices: 924967--925057 Score: 82
Period size: 13 Copynumber: 8.0 Consensus size: 13
924957 ACAATTGTCC
924967 ATGTATCGATACA
1 ATGTATCGATACA
924980 ATGTATCGATACA
1 ATGTATCGATACA
*
924993 A--T-T-G-T-CC
1 ATGTATCGATACA
925000 ATGTATCGATACA
1 ATGTATCGATACA
925013 ATGTATCGATACA
1 ATGTATCGATACA
925026 ATG-A---AT---
1 ATGTATCGATACA
925032 ATGTATCGATACA
1 ATGTATCGATACA
925045 ATGTATCGATACA
1 ATGTATCGATACA
925058 TCTGGGTGTG
Statistics
Matches: 63, Mismatches: 2, Indels: 26
0.69 0.02 0.29
Matches are distributed among these distances:
6 3 0.05
7 3 0.05
8 1 0.02
9 4 0.06
10 4 0.06
11 2 0.03
12 2 0.03
13 44 0.70
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:924989 original size:33 final size:33
Alignment explanation
Indices: 924947--925057 Score: 188
Period size: 33 Copynumber: 3.4 Consensus size: 33
924937 TGCCAGTTTC
924947 ATGTATCGATACAATTGTCCATGTATCGATACA
1 ATGTATCGATACAATTGTCCATGTATCGATACA
924980 ATGTATCGATACAATTGTCCATGTATCGATACA
1 ATGTATCGATACAATTGTCCATGTATCGATACA
***
925013 ATGTATCGATACAA-TGAATATGTATCGATACA
1 ATGTATCGATACAATTGTCCATGTATCGATACA
925045 ATGTATCGATACA
1 ATGTATCGATACA
925058 TCTGGGTGTG
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
32 28 0.37
33 47 0.63
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACAATTGTCCATGTATCGATACA
Found at i:925075 original size:33 final size:32
Alignment explanation
Indices: 924947--925077 Score: 145
Period size: 33 Copynumber: 4.0 Consensus size: 32
924937 TGCCAGTTTC
***
924947 ATGTATCGATACAATTGTCCATGTATCGATACA
1 ATGTATCGATAC-ATTGAATATGTATCGATACA
***
924980 ATGTATCGATACAATTGTCCATGTATCGATACA
1 ATGTATCGATAC-ATTGAATATGTATCGATACA
*
925013 ATGTATCGATACAATGAATATGTATCGATACA
1 ATGTATCGATACATTGAATATGTATCGATACA
** *
925045 ATGTATCGATACATCTGGGTGTGTATCGATACA
1 ATGTATCGATACAT-TGAATATGTATCGATACA
925078 TTCAAAGGTT
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
32 29 0.33
33 60 0.67
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.33
Consensus pattern (32 bp):
ATGTATCGATACATTGAATATGTATCGATACA
Found at i:925656 original size:22 final size:22
Alignment explanation
Indices: 925631--925672 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
925621 AGATAAACAT
925631 ATTTCTCCCCATTTATCAAAGC
1 ATTTCTCCCCATTTATCAAAGC
* *
925653 ATTTCTCCCCCTTTGTCAAA
1 ATTTCTCCCCATTTATCAAA
925673 TCTTAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.33, G:0.05, T:0.38
Consensus pattern (22 bp):
ATTTCTCCCCATTTATCAAAGC
Found at i:927572 original size:13 final size:13
Alignment explanation
Indices: 927554--927578 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
927544 TAGTAACCTA
927554 TGTATCGATACAT
1 TGTATCGATACAT
927567 TGTATCGATACA
1 TGTATCGATACA
927579 AGGAATGTTG
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:933779 original size:20 final size:20
Alignment explanation
Indices: 933754--933803 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
933744 TAAGCAATGT
*
933754 ATCGATACAAT-TCATCATGA
1 ATCGATACAATGT-ACCATGA
*
933774 ATCGATACAATGTACCATGT
1 ATCGATACAATGTACCATGA
933794 ATCGATACAA
1 ATCGATACAA
933804 ACAGTAGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (20 bp):
ATCGATACAATGTACCATGA
Found at i:933877 original size:19 final size:19
Alignment explanation
Indices: 933832--933887 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
933822 CTGCCAGTTT
**
933832 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
933852 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
933871 TATGTATCGATACAATG
1 CATGTATCGATACAATG
933888 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:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:933890 original size:13 final size:13
Alignment explanation
Indices: 933872--933897 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
933862 TACAATGAAT
933872 ATGTATCGATACA
1 ATGTATCGATACA
933885 ATGTATCGATACA
1 ATGTATCGATACA
933898 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:934539 original size:12 final size:12
Alignment explanation
Indices: 934522--934557 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
934512 GGTCTCTCTC
934522 TTTCAACCACAT
1 TTTCAACCACAT
934534 TTTCAACCACAT
1 TTTCAACCACAT
* *
934546 TATCAGCCACAT
1 TTTCAACCACAT
934558 CTCAGCCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.31
Consensus pattern (12 bp):
TTTCAACCACAT
Found at i:939290 original size:100 final size:101
Alignment explanation
Indices: 939160--939354 Score: 263
Period size: 100 Copynumber: 1.9 Consensus size: 101
939150 TCTATTCCTA
* * * *
939160 TTTTCAAACTTGTTAAGATTTAAATCTTATTTTTG-TCTAAATTGTCATCATTG-GGACACTCCA
1 TTTTAAAACTTGTCAAGATTTAAATCTTATTTTTGCT-TAAATTATCATCATCGAGGACACTCCA
*
939223 ATCCC-ATTCTTTCA-AAAGGATACTCCAACCCTTTTTT
65 A-CCCTATTC-CTCAGAAAGGATACTCCAACCCTTTTTT
**
939260 TTTTAAAACTTGTCAAGATTTAAATCTTATTTTTGCTTGGATTATCATCATCGAGGACACTCCAA
1 TTTTAAAACTTGTCAAGATTTAAATCTTATTTTTGCTTAAATTATCATCATCGAGGACACTCCAA
*
939325 CCCTATTCCTCAGAAAGGATACTCTAACCC
66 CCCTATTCCTCAGAAAGGATACTCCAACCC
939355 CATTTTTCAA
Statistics
Matches: 83, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
100 51 0.61
101 32 0.39
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.38
Consensus pattern (101 bp):
TTTTAAAACTTGTCAAGATTTAAATCTTATTTTTGCTTAAATTATCATCATCGAGGACACTCCAA
CCCTATTCCTCAGAAAGGATACTCCAACCCTTTTTT
Found at i:944173 original size:107 final size:107
Alignment explanation
Indices: 943344--944267 Score: 760
Period size: 107 Copynumber: 8.7 Consensus size: 107
943334 TATGTGATCA
* * *
943344 TAATGTCTTTTAATTTCATCAAATATTGAAAAAATTTCTACCTAT-CCAATTATTACT-TGGTAA
1 TAATGTCTTTCAATTTCATTAAATATTGAAAAAA-ATCTACCT-TCCCAATTATTA-TATGGTAA
* * * ** * * * *
943407 ATTAGGTGTTATGTGTCG-CAACCACATATAATATTTATGTAATCG
63 ATTAAGTGTAACGCCTTGCCAA-CATATATAACATTTATGTAATTG
* * * *
943452 TAATATCTTTCAATTTCATTAAATATTAAAAAATAAT-TA---T-CCAATTA-TAAATTTGT-AA
1 TAATGTCTTTCAATTTCATTAAATATTGAAAAA-AATCTACCTTCCCAATTATTATA-TGGTAAA
*** * * * *
943510 TTAAGTGTAACATGTTGCCATCATACATTACATTTTTGTAATTG
64 TTAAGTGTAACGCCTTGCCAACATATATAACATTTATGTAATTG
* * * * * ** * *
943554 CAATATCTTTCAATTTTATTAAATATGGAAAAAAATCCACC-AGCC--TAATTATATGATAAATT
1 TAATGTCTTTCAATTTCATTAAATATTGAAAAAAATCTACCTTCCCAATTATTATATGGTAAATT
* ** * * * * **
943616 AAGT-TAATGTGTTACC-A-ATA-GT-ACATTTTTGTACTCA
66 AAGTGTAACGCCTTGCCAACATATATAACATTTATGTAATTG
* *** **
943653 TAATATCTTTCAA-TTCTATTCAGAATTAAAAAAAAAAAATC-ACCAACCCAATTATTATATGGT
1 TAATGTCTTTCAATTTC-ATT-A-AA-T-ATTGAAAAAAATCTACCTTCCCAATTATTATATGGT
* * *** * ** *
943716 AAA-TAAGTGTAACACATTGCCATTGTATGTAACAAATATTTAATTG
61 AAATTAAGTGTAACGCCTTGCCAACATATATAACATTTATGTAATTG
** * *
943762 TAACATCTTTCAATTTCATTAAACATTGAAAAAAAAGTCTACC-TCTCTAATTATTATATGGTAA
1 TAATGTCTTTCAATTTCATTAAATATTG-AAAAAAA-TCTACCTTC-CCAATTATTATATGGTAA
** * * * * * **
943826 ATTAAGTGTAACGTGTTGCCAATAAACATGACATTTATATAAGCG
63 ATTAAGTGTAACGCCTTGCCAACATATATAACATTTATGTAATTG
* * *
943871 TAACGTCTTTCAATTTCATTAAATATTTGAAAAAAATCTACCTACCTAATTATTATATGGTAAAT
1 TAATGTCTTTCAATTTCATTAAATA-TTGAAAAAAATCTACCTTCCCAATTATTATATGGTAAAT
* *
943936 TAAGTGTAACGTCTTGCCAACATAAATAACATTTATGTAATTG
65 TAAGTGTAACGCCTTGCCAACATATATAACATTTATGTAATTG
* * * * * *
943979 TAACGTTTTTTAATTTCATTAAATATTG-AAAAAATCTACGTTCCTAATCATTATATGGTAAATT
1 TAATGTCTTTCAATTTCATTAAATATTGAAAAAAATCTACCTTCCCAATTATTATATGGTAAATT
*
944043 AAGTGTAACGCCTTGCCAACATATATAATATTTATGTAATTG
66 AAGTGTAACGCCTTGCCAACATATATAACATTTATGTAATTG
*
944085 TAATGTCTTTCAATTTCATTAAATATTGAAAAATATCTACCTTCCCAATTATTATATGGTAAATT
1 TAATGTCTTTCAATTTCATTAAATATTGAAAAAAATCTACCTTCCCAATTATTATATGGTAAATT
* * *
944150 AAGTGTAATGCCTTGCCAGCATATATAACATTTATGTAATTT
66 AAGTGTAACGCCTTGCCAACATATATAACATTTATGTAATTG
* * *
944192 TAACGTCTTTCAATTTCATTAAATATTGAAAAATATCTACCTTACCAATTATTATATGGTAAATT
1 TAATGTCTTTCAATTTCATTAAATATTGAAAAAAATCTACCTTCCCAATTATTATATGGTAAATT
944257 AAGTGTAACGC
66 AAGTGTAACGC
944268 TTCACCAACC
Statistics
Matches: 671, Mismatches: 113, Indels: 65
0.79 0.13 0.08
Matches are distributed among these distances:
98 2 0.00
99 27 0.04
100 2 0.00
101 8 0.01
102 67 0.10
103 39 0.06
104 16 0.02
105 23 0.03
106 104 0.15
107 155 0.23
108 138 0.21
109 84 0.13
110 6 0.01
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (107 bp):
TAATGTCTTTCAATTTCATTAAATATTGAAAAAAATCTACCTTCCCAATTATTATATGGTAAATT
AAGTGTAACGCCTTGCCAACATATATAACATTTATGTAATTG
Found at i:947149 original size:89 final size:89
Alignment explanation
Indices: 947019--947193 Score: 350
Period size: 89 Copynumber: 2.0 Consensus size: 89
947009 TATAAGTAAT
947019 AGAAATCTAAAACCAAACATTCTCTATCACTTGATTTTATCATTTTTGCTCATTTTTAAGTTTTG
1 AGAAATCTAAAACCAAACATTCTCTATCACTTGATTTTATCATTTTTGCTCATTTTTAAGTTTTG
947084 TTCTTTCAATATCAAAACTAGAAG
66 TTCTTTCAATATCAAAACTAGAAG
947108 AGAAATCTAAAACCAAACATTCTCTATCACTTGATTTTATCATTTTTGCTCATTTTTAAGTTTTG
1 AGAAATCTAAAACCAAACATTCTCTATCACTTGATTTTATCATTTTTGCTCATTTTTAAGTTTTG
947173 TTCTTTCAATATCAAAACTAG
66 TTCTTTCAATATCAAAACTAG
947194 GGTGATTAAC
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 86 1.00
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.42
Consensus pattern (89 bp):
AGAAATCTAAAACCAAACATTCTCTATCACTTGATTTTATCATTTTTGCTCATTTTTAAGTTTTG
TTCTTTCAATATCAAAACTAGAAG
Found at i:949934 original size:13 final size:13
Alignment explanation
Indices: 949916--949941 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
949906 ACATAAGTTT
949916 TGTATCGATACAA
1 TGTATCGATACAA
949929 TGTATCGATACAA
1 TGTATCGATACAA
949942 AACTACCTTG
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):
TGTATCGATACAA
Found at i:951383 original size:20 final size:20
Alignment explanation
Indices: 951348--951404 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
951338 GTCAAAACCC
* *
951348 TGAAAAGTATCAATACACAT
1 TGAAATGTATCGATACACAT
* *
951368 TTAAATGTATCGATACAGAT
1 TGAAATGTATCGATACACAT
* *
951388 TGCATTGTATCGATACA
1 TGAAATGTATCGATACA
951405 TTGTATCGAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (20 bp):
TGAAATGTATCGATACACAT
Found at i:951408 original size:13 final size:13
Alignment explanation
Indices: 951390--951418 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
951380 ATACAGATTG
951390 CATTGTATCGATA
1 CATTGTATCGATA
951403 CATTGTATCGATA
1 CATTGTATCGATA
951416 CAT
1 CAT
951419 GACCAAATGT
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:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:951431 original size:20 final size:21
Alignment explanation
Indices: 951406--951458 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
951396 ATCGATACAT
**
951406 TGTATCGATACATGACCA-AA
1 TGTATCGATACATGAAAAGAA
*
951426 TGTATCGATACTTGAAAAGAA
1 TGTATCGATACATGAAAAGAA
951447 TGTATCGATACA
1 TGTATCGATACA
951459 AGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAGAA
Found at i:957635 original size:13 final size:13
Alignment explanation
Indices: 957617--957655 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
957607 CAGCATTCTC
957617 TGTATCGATACAA
1 TGTATCGATACAA
*
957630 TGTATCGATACAG
1 TGTATCGATACAA
957643 TGTATCGATACAA
1 TGTATCGATACAA
957656 GGGGTTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:959542 original size:22 final size:21
Alignment explanation
Indices: 959517--959560 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
959507 TGAAATTGTC
*
959517 AAATTATTTTACTAAGGGGGAG
1 AAATT-TTTGACTAAGGGGGAG
*
959539 AAATTTTTGATTAAGGGGGAG
1 AAATTTTTGACTAAGGGGGAG
959560 A
1 A
959561 GAAAAGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.36, C:0.02, G:0.30, T:0.32
Consensus pattern (21 bp):
AAATTTTTGACTAAGGGGGAG
Found at i:960101 original size:20 final size:20
Alignment explanation
Indices: 960070--960126 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
960060 GTCAAAACCC
*
960070 TGAAAAGTATCGATACACAT
1 TGAAATGTATCGATACACAT
* *
960090 TTAAATGTATCGATACAGAT
1 TGAAATGTATCGATACACAT
* *
960110 TGCATTGTATCGATACA
1 TGAAATGTATCGATACA
960127 TTGTATCAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
TGAAATGTATCGATACACAT
Found at i:960230 original size:13 final size:13
Alignment explanation
Indices: 960212--960237 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
960202 ACACACAGTA
960212 TGTATCGATACAT
1 TGTATCGATACAT
960225 TGTATCGATACAT
1 TGTATCGATACAT
960238 CATAAAATGT
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:964368 original size:55 final size:55
Alignment explanation
Indices: 964284--964608 Score: 496
Period size: 55 Copynumber: 5.9 Consensus size: 55
964274 TAAAGAGTAC
* * *
964284 CCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGT
1 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGT
* *
964339 CCTGCTTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGGCGT
1 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGT
*
964394 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGT
1 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCGT
* *
964449 CCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGCGT
1 CCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGT
* *
964504 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGTTTTGAAAGGCGT
1 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGT
964559 CCTGCTCTTTGAGGACTGGGAAA--TGCCACCAACTTGTGTGGGCTTTGAAA
1 CCTGCTCTTTGAGGACT--GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA
964609 AGAGAAGGCA
Statistics
Matches: 249, Mismatches: 15, Indels: 12
0.90 0.05 0.04
Matches are distributed among these distances:
54 6 0.02
55 233 0.94
56 6 0.02
57 4 0.02
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (55 bp):
CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGT
Found at i:965619 original size:1 final size:1
Alignment explanation
Indices: 965613--965673 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
965603 GATTCTTCTC
* * * * * * * *
965613 TTTTTTTTTCTTTTTTTTGTTTTTTTTTTGTTCTTTTGTTTTTTTGTTGTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
965674 GAAAAAGGAA
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.87
Consensus pattern (1 bp):
T
Found at i:965629 original size:11 final size:12
Alignment explanation
Indices: 965608--965670 Score: 67
Period size: 11 Copynumber: 5.2 Consensus size: 12
965598 AAGCAGATTC
965608 TTCTCTTTTTTT-
1 TTCT-TTTTTTTG
965620 TTCTTTTTTTTG
1 TTCTTTTTTTTG
965632 TT-TTTTTTTTG
1 TTCTTTTTTTTG
*
965643 TTCTTTTGTTTTT
1 TTCTTTT-TTTTG
*
965656 TTGTTGTTTTTTG
1 TTCTT-TTTTTTG
965669 TT
1 TT
965671 TTTGAAAAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
11 18 0.41
12 10 0.23
13 14 0.32
14 2 0.05
ACGTcount: A:0.00, C:0.06, G:0.10, T:0.84
Consensus pattern (12 bp):
TTCTTTTTTTTG
Found at i:965637 original size:19 final size:18
Alignment explanation
Indices: 965613--965673 Score: 77
Period size: 19 Copynumber: 3.3 Consensus size: 18
965603 GATTCTTCTC
965613 TTTTTTTTTCTTTTTTTTG
1 TTTTTTTTT-TTTTTTTTG
*
965632 TTTTTTTTTTGTTCTTTTG
1 TTTTTTTTTT-TTTTTTTG
* *
965651 TTTTTTTGTTGTTTTTTG
1 TTTTTTTTTTTTTTTTTG
965669 TTTTT
1 TTTTT
965674 GAAAAAGGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 12 0.32
19 25 0.68
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.87
Consensus pattern (18 bp):
TTTTTTTTTTTTTTTTTG
Found at i:965674 original size:16 final size:15
Alignment explanation
Indices: 965616--965674 Score: 66
Period size: 16 Copynumber: 3.8 Consensus size: 15
965606 TCTTCTCTTT
*
965616 TTTTTTCTTTTTTTTG
1 TTTTTT-TTTTTGTTG
*
965632 -TTTTTTTTTTGTTC
1 TTTTTTTTTTTGTTG
965646 TTTTGTTTTTTTGTTG
1 TTTT-TTTTTTTGTTG
965662 TTTTTTGTTTTTG
1 TTTTTT-TTTTTG
965675 AAAAAGGAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
14 7 0.19
15 10 0.27
16 20 0.54
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (15 bp):
TTTTTTTTTTTGTTG
Found at i:975988 original size:4 final size:4
Alignment explanation
Indices: 975981--976005 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
975971 AAACAAACAG
975981 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
976006 CACCTCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:978188 original size:79 final size:79
Alignment explanation
Indices: 978086--978287 Score: 241
Period size: 79 Copynumber: 2.6 Consensus size: 79
978076 AAAAACGGGG
* * *
978086 TTGGAGTATCCCCTTGA-AAATAACGGGGTTGGAGTATCCCCGGTTGTGAAAAATCGATGA-TTA
1 TTGGAGTATCCCC-TGAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAAT-ATTTA
*
978149 GAAAATAGAA-TCGAGA
64 GAAAATA-AAGCCGAGA
* * *
978165 TTGGAGTATCCCCTGAGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCCTGAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTAGA
* *
978230 AAATAAAGCCGGGG
66 AAATAAAGCCGAGA
**
978244 TTGGAGTATCCCCTCG-GAGGTAACGGGGTTGGAGTATCCCCGAT
1 TTGGAGTATCCCCT-GAGAAATAACGGGGTTGGAGTATCCCCGAT
978288 GAAATAACGA
Statistics
Matches: 108, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
78 6 0.06
79 101 0.94
80 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (79 bp):
TTGGAGTATCCCCTGAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTAGA
AAATAAAGCCGAGA
Found at i:978292 original size:107 final size:108
Alignment explanation
Indices: 978165--978364 Score: 278
Period size: 107 Copynumber: 1.9 Consensus size: 108
978155 AGAATCGAGA
* *
978165 TTGGAGTATCCCCTGAGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTTG
1 TTGGAGTATCCCCTGAGAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATCAATGATTTTG
* *
978229 GAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAGGTAACGGGG
66 GAAATAAAACCGGAGTTGGAGTATCCCCTCGGAGGTAACGGGG
* * *** *
978272 TTGGAGTATCCCC-GATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTT
1 TTGGAGTATCCCCTGA-GAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATCAATGATTTT
*
978336 GGAAATAAAATCGGAGTTGGAGTATCCCC
65 GGAAATAAAACCGGAGTTGGAGTATCCCC
978365 GATTAAAGGA
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
106 2 0.03
107 48 0.60
108 30 0.38
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.27
Consensus pattern (108 bp):
TTGGAGTATCCCCTGAGAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATCAATGATTTTG
GAAATAAAACCGGAGTTGGAGTATCCCCTCGGAGGTAACGGGG
Found at i:978295 original size:28 final size:28
Alignment explanation
Indices: 978239--978315 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
978229 GAAATAAAGC
*** **
978239 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
978267 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
978295 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
978316 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:978368 original size:52 final size:51
Alignment explanation
Indices: 978299--978431 Score: 167
Period size: 52 Copynumber: 2.6 Consensus size: 51
978289 AAATAACGAG
* * *
978299 GTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTG-TTTTGAAAATAAAACCGGA
** * * *
978351 GTTGGAGTATCCCCGATTAAAGGAAAATTAGTGTTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTGAAAATAAAACCGGA
*
978403 GTTGGAGTATCCCCGATTGTGAACAATTG
1 GTTGGAGTATCCCCGATTGTGAAAAATTG
978432 AGAAACTTAA
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
51 6 0.09
52 51 0.76
53 10 0.15
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAACCGGA
Found at i:980810 original size:13 final size:13
Alignment explanation
Indices: 980792--980817 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
980782 CAAAGAATAG
980792 ATGTATCGATACA
1 ATGTATCGATACA
980805 ATGTATCGATACA
1 ATGTATCGATACA
980818 CCGAAAAATG
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:980879 original size:13 final size:13
Alignment explanation
Indices: 980861--980912 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
980851 AGCTTCCTAG
980861 CGATACATTGTAT
1 CGATACATTGTAT
980874 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
980893 CGATACATTGTAT
1 CGATACATTGTAT
980906 CGATACA
1 CGATACA
980913 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:980893 original size:19 final size:19
Alignment explanation
Indices: 980869--980954 Score: 76
Period size: 19 Copynumber: 4.7 Consensus size: 19
980859 AGCGATACAT
980869 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
980888 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
980901 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
** *
980920 TGTATCGATACATTTACTGAA
1 TGTATCGATACA-AAACT-TA
980941 TGTATCGATACAAA
1 TGTATCGATACAAA
980955 TTATTGGAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
13 11 0.20
14 1 0.02
16 2 0.04
18 1 0.02
19 23 0.43
20 3 0.06
21 13 0.24
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:980902 original size:32 final size:32
Alignment explanation
Indices: 980861--980933 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
980851 AGCTTCCTAG
980861 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
980893 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
980925 CGATACATT
1 CGATACATT
980934 TACTGAATGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:981016 original size:21 final size:22
Alignment explanation
Indices: 980990--981047 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
980980 GTTGGGACCT
* *
980990 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACATTTGCACAAA
*
981011 TGTATCGATACA-TTCCACAAA
1 TGTATCGATACATTTGCACAAA
981032 TGTATCGATACATTTG
1 TGTATCGATACATTTG
981048 GATAAAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 3 0.10
21 26 0.84
22 2 0.06
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (22 bp):
TGTATCGATACATTTGCACAAA
Found at i:984751 original size:2 final size:2
Alignment explanation
Indices: 984746--984778 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
984736 TATTTATTTC
984746 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
984779 GTGAATATGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:985230 original size:102 final size:105
Alignment explanation
Indices: 985124--985427 Score: 234
Period size: 102 Copynumber: 2.9 Consensus size: 105
985114 GATCATATTA
* * * * * * *
985124 TAAATGTCATGTATGCTAGTGAT-GCGTTACATTTATTTTATCATATAA-AATT-G-GGTAGGTA
1 TAAATATCACGTATGCT-G-GATAGCATTACACTTAATTTACCATATAATAATTGGTGGTAGATA
985185 -GTTTTTAATATTTAATGAAATTGAAAGACATTACGGTTATG
64 TGTTTTTAATATTTAATGAAATTGAAAGACATTACGGTTATG
* *
985226 TAAATATTACGTATGCTGGATAAGCATTACACTTAATTTACCTTATAATAATTGGATTGGTAGAT
1 TAAATATCACGTATGCTGGAT-AGCATTACACTTAATTTACCATATAATAATTGG--TGGTAGAT
* * ** **
985291 ATTTTTTTAATATTTAATGAAATTGAAAGACGTTACAATTACA
63 ATGTTTTTAATATTTAATGAAATTGAAAGACATTACGGTTATG
* ** * * * * *
985334 TAAATATTATATATGCTGAAAAG--GT---GTTAATTTACCATATAATAATTAGGTAAGTAGAT-
1 TAAATATCACGTATGCTGGATAGCATTACACTTAATTTACCATATAATAATT-GGT-GGTAGATA
* * *
985393 TTTTTTTAATATTTAATAAAATTGAAAGACGTTAC
64 TGTTTTTAATATTTAATGAAATTGAAAGACATTAC
985428 AATTGCATAA
Statistics
Matches: 168, Mismatches: 24, Indels: 21
0.79 0.11 0.10
Matches are distributed among these distances:
100 3 0.02
101 36 0.21
102 60 0.36
103 6 0.04
104 1 0.01
105 1 0.01
107 9 0.05
108 52 0.31
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (105 bp):
TAAATATCACGTATGCTGGATAGCATTACACTTAATTTACCATATAATAATTGGTGGTAGATATG
TTTTTAATATTTAATGAAATTGAAAGACATTACGGTTATG
Found at i:985315 original size:108 final size:101
Alignment explanation
Indices: 985186--985632 Score: 303
Period size: 108 Copynumber: 4.3 Consensus size: 101
985176 GGGTAGGTAG
* ** ** * *
985186 TTTTTAATATTTAATGAAATTGAAAGACATTACGGTTATGTAAATATTACGTATGCTGGATAAGC
1 TTTTTAATATTTAATGAAATTGAAAGACGTTACAATTACATAAATATTACATATGCT-GAAAAG-
* * **
985251 ATTACACTTAATTTACCTTATAATAATT-GGATTGGTAGATATT
64 -GT---CTTAATTTACCATATAATAATTAGG-TAAGTAGAT-TT
*
985294 TTTTTAATATTTAATGAAATTGAAAGACGTTACAATTACATAAATATTATATATGCTGAAAAGGT
1 TTTTTAATATTTAATGAAATTGAAAGACGTTACAATTACATAAATATTACATATGCTGAAAAGGT
*
985359 GTTAATTTACCATATAATAATTAGGTAAGTAGATTT
66 CTTAATTTACCATATAATAATTAGGTAAGTAGATTT
* * * * * *
985395 TTTTTAATATTTAATAAAATTGAAAGACGTTACAATTGCATAAATGTTATATGTGGTAGCAAGAA
1 TTTTTAATATTTAATGAAATTGAAAGACGTTACAATTACATAAATATTACATATGCT-G-AA-AA
** * * * **
985460 TTTTGCAATTAATTTAGCATGTAATTAGTTAGGT-AGT-TTTTT
63 -GGT-C--TTAATTTACCATATAA-TAATTAGGTAAGTAGATTT
* * * ** *
985502 CTTTTTAATATTTAATAAAATTAAAAGACGTTACAATTATATAAATATTGTATATGCTATGACAA
1 -TTTTTAATATTTAATGAAATTGAAAGACGTTACAATTACATAAATATTACATATGC--TGAAAA
* * * * * *
985567 GATACACTTAATGTACCATATAGTCA--A-GTAAGTAAATTA
63 GGT---CTTAATTTACCATATAATAATTAGGTAAGTAGATTT
*
985606 TTTTTAATATTTAATTAAATTGAAAGA
1 TTTTTAATATTTAATGAAATTGAAAGA
985633 TTATACAATA
Statistics
Matches: 275, Mismatches: 48, Indels: 37
0.76 0.13 0.10
Matches are distributed among these distances:
101 54 0.20
102 30 0.11
103 33 0.12
104 4 0.01
105 3 0.01
106 13 0.05
107 10 0.04
108 118 0.43
109 9 0.03
110 1 0.00
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (101 bp):
TTTTTAATATTTAATGAAATTGAAAGACGTTACAATTACATAAATATTACATATGCTGAAAAGGT
CTTAATTTACCATATAATAATTAGGTAAGTAGATTT
Found at i:985429 original size:101 final size:105
Alignment explanation
Indices: 985258--985560 Score: 332
Period size: 108 Copynumber: 2.9 Consensus size: 105
985248 AGCATTACAC
* * *
985258 TTAATTTACCTTATAATAATT-GGATTGGTAGATATTTTTTTAATATTTAATGAAATTGAAAGAC
1 TTAATTTACCATATAATAATTAGG--TAGTAGAT-TTTTTTTAATATTTAATAAAATTGAAAGAC
985322 GTTACAATTACATAAATATTATATATGCT-G-AA-AA-GGTG-
63 GTTACAATTACATAAATATTATATATGCTAGCAAGAATGGTGA
985360 TTAATTTACCATATAATAATTAGGTAAGTAGATTTTTTTTAATATTTAATAAAATTGAAAGACGT
1 TTAATTTACCATATAATAATTAGGT-AGTAGATTTTTTTTAATATTTAATAAAATTGAAAGACGT
* * * * **
985425 TACAATTGCATAAATGTTATATGTGGTAGCAAGAATTTTGCAA
65 TACAATTACATAAATATTATATATGCTAGCAAGAATGGTG--A
* * * ** *
985468 TTAATTTAGCATGTAATTAGTTAGGTAGT-TTTTTCTTTTTAATATTTAATAAAATTAAAAGACG
1 TTAATTTACCATATAA-TAATTAGGTAGTAGATTT-TTTTTAATATTTAATAAAATTGAAAGACG
* *
985532 TTACAATTATATAAATATTGTATATGCTA
64 TTACAATTACATAAATATTATATATGCTA
985561 TGACAAGATA
Statistics
Matches: 169, Mismatches: 21, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
101 55 0.33
102 27 0.16
103 4 0.02
104 2 0.01
105 2 0.01
107 3 0.02
108 68 0.40
109 8 0.05
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (105 bp):
TTAATTTACCATATAATAATTAGGTAGTAGATTTTTTTTAATATTTAATAAAATTGAAAGACGTT
ACAATTACATAAATATTATATATGCTAGCAAGAATGGTGA
Found at i:985848 original size:2 final size:2
Alignment explanation
Indices: 985841--985869 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
985831 AAATAAATGT
985841 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
985870 GCTCACAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:987844 original size:24 final size:24
Alignment explanation
Indices: 987792--987846 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
987782 ATATTTTTTA
987792 TTTAAAT-TTAATTATAAAAATAT
1 TTTAAATATTAATTATAAAAATAT
**
987815 AATAAATATTAA-TATAAAAATAAT
1 TTTAAATATTAATTATAAAAAT-AT
987839 TTTAAATA
1 TTTAAATA
987847 GTGAAATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
TTTAAATATTAATTATAAAAATAT
Found at i:992077 original size:20 final size:20
Alignment explanation
Indices: 992035--992088 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
992025 TTCTATAATT
* *
992035 TGTATCGATACAACAAGTTAA
1 TGTATCGATAC-ATAAGTGAA
992056 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
*
992076 TGTATTGATACAT
1 TGTATCGATACAT
992089 GTTTGAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:992173 original size:21 final size:21
Alignment explanation
Indices: 992147--992221 Score: 98
Period size: 21 Copynumber: 3.6 Consensus size: 21
992137 TTGAAAAAAT
992147 TGTATCGATACATGCTTTGAA
1 TGTATCGATACATGCTTTGAA
* *
992168 TGTATCGATATATGCTTGGAA
1 TGTATCGATACATGCTTTGAA
* * *
992189 TGTATCGATACAT-TTTTCAT
1 TGTATCGATACATGCTTTGAA
992209 TGTATCGATACAT
1 TGTATCGATACAT
992222 TTTGGGGTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
20 16 0.34
21 31 0.66
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.41
Consensus pattern (21 bp):
TGTATCGATACATGCTTTGAA
Found at i:993751 original size:21 final size:21
Alignment explanation
Indices: 993725--993764 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
993715 AATCATTTTA
993725 AAATTTCA-AATGATTTTTCAT
1 AAATTTCATAAT-ATTTTTCAT
*
993746 AAATTTTATAATATTTTTC
1 AAATTTCATAATATTTTTC
993765 CTTAAAAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (21 bp):
AAATTTCATAATATTTTTCAT
Found at i:996278 original size:123 final size:123
Alignment explanation
Indices: 996059--996306 Score: 460
Period size: 123 Copynumber: 2.0 Consensus size: 123
996049 GAACATGCTG
996059 TTAGTATGCGAGCTTCTTGGATAAACATGGTTAGCAATTTATATTTATGTTCTTTTTAACATGAA
1 TTAGTATGCGAGCTTCTTGGATAAACATGGTTAGCAATTTATATTTATGTTCTTTTTAACATGAA
*
996124 ATTATCTTATACATTAATAATATAATTTAGATTCCATCAACAAATTTTAAAAAAATAA
66 ATTATCTTATACATTAACAATATAATTTAGATTCCATCAACAAATTTTAAAAAAATAA
* * *
996182 TTAGTATGTGAGCTTCTTGTATAAACATGGTTAGCAATTTATATTTATGTTCTTTTTAACGTGAA
1 TTAGTATGCGAGCTTCTTGGATAAACATGGTTAGCAATTTATATTTATGTTCTTTTTAACATGAA
996247 ATTATCTTATACATTAACAATATAATTTAGATTCCATCAACAAATTTTAAAAAAATAA
66 ATTATCTTATACATTAACAATATAATTTAGATTCCATCAACAAATTTTAAAAAAATAA
996305 TT
1 TT
996307 TTATTTATTA
Statistics
Matches: 121, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
123 121 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (123 bp):
TTAGTATGCGAGCTTCTTGGATAAACATGGTTAGCAATTTATATTTATGTTCTTTTTAACATGAA
ATTATCTTATACATTAACAATATAATTTAGATTCCATCAACAAATTTTAAAAAAATAA
Found at i:1000732 original size:18 final size:17
Alignment explanation
Indices: 1000692--1000734 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
1000682 CTTCTAAATC
* *
1000692 ATTAATTAATTTTATTA
1 ATTATTTAAATTTATTA
*
1000709 ATTATTTAAATTTATTT
1 ATTATTTAAATTTATTA
1000726 ATGTATTTA
1 AT-TATTTA
1000735 TCTTTTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
ATTATTTAAATTTATTA
Found at i:1001081 original size:55 final size:55
Alignment explanation
Indices: 1000998--1001107 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
1000988 TGTTATGCCT
*
1000998 CCACCACTAAGGGATGCAATTGATTAGTATTTCTCATCTGGTCCCTAGAGTTTGA
1 CCACCACTAAGGGATGCAATTGATTAGTATTTCTCATCTGATCCCTAGAGTTTGA
1001053 CCACCACTAAGGGATGCAATTGATTAGTATTTCTCATCTGATCCCTAGAGTTTGA
1 CCACCACTAAGGGATGCAATTGATTAGTATTTCTCATCTGATCCCTAGAGTTTGA
1001108 AATGGATGAC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (55 bp):
CCACCACTAAGGGATGCAATTGATTAGTATTTCTCATCTGATCCCTAGAGTTTGA
Found at i:1002129 original size:2 final size:2
Alignment explanation
Indices: 1002122--1002151 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1002112 GCAATTCAGA
1002122 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1002152 TATTTCCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1002403 original size:2 final size:2
Alignment explanation
Indices: 1002396--1002435 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
1002386 AAACAGTGAT
* *
1002396 TA TA TA TA TA CA TA TA TT TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1002436 TCATACAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1004900 original size:16 final size:16
Alignment explanation
Indices: 1004875--1004943 Score: 68
Period size: 16 Copynumber: 4.4 Consensus size: 16
1004865 AATAAAGTTT
* *
1004875 ATTTACTTTTAGTGCA
1 ATTTATTTTTATTGCA
1004891 ATTTATTTTTATTGCA
1 ATTTATTTTTATTGCA
** *
1004907 ATTTAAATTTA-TACA
1 ATTTATTTTTATTGCA
*
1004922 CTTTATTTTTATTGCA
1 ATTTATTTTTATTGCA
*
1004938 AATTAT
1 ATTTAT
1004944 GCACTTTACT
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
15 11 0.27
16 30 0.73
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.55
Consensus pattern (16 bp):
ATTTATTTTTATTGCA
Found at i:1006721 original size:78 final size:79
Alignment explanation
Indices: 1006629--1006802 Score: 210
Period size: 79 Copynumber: 2.2 Consensus size: 79
1006619 CCATTACATG
* * * * **
1006629 AAAACTAGGTCTTTATGCTTATGTTAGC-TTTTTGTATCAAAACA-AGTCCATT-AAGATCATTT
1 AAAACTAAGTCTTTAGGCTTATGTTAACATTGTCATATCAAAACATA-TCCATTAAAG-TCATTT
1006691 TAGTAATTTTCATATA
64 TAGTAATTTTCATATA
* **
1006707 AAAACTAAGTCTTTAGGGTTATGTTAACATTGTCATATCAAAACATATTTATTAAAGTCATTTTA
1 AAAACTAAGTCTTTAGGCTTATGTTAACATTGTCATATCAAAACATATCCATTAAAGTCATTTTA
* *
1006772 GTAATTTTGATATG
66 GTAATTTTCATATA
1006786 AAAACTAAGTCTTTAGG
1 AAAACTAAGTCTTTAGG
1006803 GCCATGATAG
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
78 24 0.29
79 54 0.66
80 4 0.05
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.41
Consensus pattern (79 bp):
AAAACTAAGTCTTTAGGCTTATGTTAACATTGTCATATCAAAACATATCCATTAAAGTCATTTTA
GTAATTTTCATATA
Found at i:1007439 original size:2 final size:2
Alignment explanation
Indices: 1007432--1007464 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1007422 TAAAGATGAA
1007432 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1007465 AAATTGATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1007811 original size:2 final size:2
Alignment explanation
Indices: 1007804--1007834 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1007794 CTGATTAGTT
1007804 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1007835 TACTAAGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1008707 original size:2 final size:2
Alignment explanation
Indices: 1008700--1008727 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1008690 GCCTATATGC
1008700 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1008728 GTAAACTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1010678 original size:2 final size:2
Alignment explanation
Indices: 1010673--1010712 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
1010663 ACATCTACAC
* *
1010673 AT AT AT AT AT AT AT AC AC AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1010713 GTAGTAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:1010691 original size:18 final size:18
Alignment explanation
Indices: 1010668--1010705 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
1010658 CACACACATC
1010668 TACACATATATATATATA
1 TACACATATATATATATA
1010686 TACACATATATATATATA
1 TACACATATATATATATA
1010704 TA
1 TA
1010706 TAATATAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (18 bp):
TACACATATATATATATA
Found at i:1012077 original size:18 final size:18
Alignment explanation
Indices: 1012049--1012086 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
1012039 ATTAATTATA
1012049 AAAATATAAATATTAAGAT
1 AAAATATAAAT-TTAAGAT
*
1012068 AAAA-ATAAATTTTAGAT
1 AAAATATAAATTTAAGAT
1012085 AA
1 AA
1012087 TAAAATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 8 0.44
18 6 0.33
19 4 0.22
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (18 bp):
AAAATATAAATTTAAGAT
Found at i:1015084 original size:36 final size:33
Alignment explanation
Indices: 1015031--1015155 Score: 116
Period size: 32 Copynumber: 3.8 Consensus size: 33
1015021 TTGACAATTA
1015031 AAATA-TT-TATA-TTATATTTATATATTTTTT
1 AAATATTTATATATTTATATTTATATATTTTTT
* *
1015061 ATAATATAATTATATTTTTATATTTATATAAATTTTT
1 A-AATAT--TTATATATTTATATTTATAT-ATTTTTT
* *
1015098 AAATATTTATATATTCATATTTAT-TATATTTT
1 AAATATTTATATATTTATATTTATATATTTTTT
* * *
1015130 AATTATTTTTATA-TTATATCTATATA
1 AAATATTTATATATTTATATTTATATA
1015156 ATTATATCAA
Statistics
Matches: 77, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
30 1 0.01
31 12 0.16
32 18 0.23
33 1 0.01
34 18 0.23
35 3 0.04
36 17 0.22
37 7 0.09
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (33 bp):
AAATATTTATATATTTATATTTATATATTTTTT
Found at i:1015517 original size:14 final size:14
Alignment explanation
Indices: 1015488--1015516 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1015478 TAATAAAATA
1015488 TTATAATTATTATT
1 TTATAATTATTATT
1015502 TTATAA-TATTATT
1 TTATAATTATTATT
1015515 TT
1 TT
1015517 TTCGTCACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATAATTATTATT
Found at i:1015657 original size:13 final size:13
Alignment explanation
Indices: 1015639--1015665 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1015629 TTATGTCCTC
1015639 TTTTCCACAAACA
1 TTTTCCACAAACA
1015652 TTTTCCACAAACA
1 TTTTCCACAAACA
1015665 T
1 T
1015666 CAAAGAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (13 bp):
TTTTCCACAAACA
Found at i:1018661 original size:15 final size:15
Alignment explanation
Indices: 1018641--1018677 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
1018631 GCTCCCCCTA
1018641 ATCAGCACTTCTTAT
1 ATCAGCACTTCTTAT
1018656 ATCAGCACTTCTTAT
1 ATCAGCACTTCTTAT
1018671 ATCAGCA
1 ATCAGCA
1018678 ATTTCTTCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (15 bp):
ATCAGCACTTCTTAT
Found at i:1022249 original size:325 final size:325
Alignment explanation
Indices: 1021520--1022961 Score: 1575
Period size: 342 Copynumber: 4.3 Consensus size: 325
1021510 TGTTCTTCCC
* *
1021520 TTTCCACAAACATCAAAGAAGACTAACAAATTTCTTTAACATGTTGAAAATTTTACCATGAATTT
1 TTTCCACAAACATCAAAGAAGACTAACAAATTCCTTTAACATGTTGAAAATTTTAACATGAATTT
* * *
1021585 TTCTATTCATCAATTTA-TTTTT-TAAAACAAATTCTAAAAAATAAT-AAAAAATGCCAAAACCA
66 TTCTGTTCATCAGTTTATTTTTTCTAAAACAAATT-T-AAAAATAATAAAAAAAAGCCAAAACCA
* * * **
1021647 CTTGGTTGGAATAAATTTATGCTAAAAATAAAATTTTAAAAAAATTTATGTTAGGAAAGCTTATT
129 CTTGGTTGGAATAAATTTCTGCTAAAAATAAAA-TTTAAAAAAATTTATGTCAAGAAAGCTTGCT
* * * * * * *
1021712 ATGTATCATGTTCTAAGTAAATCTAATAATATCAAACGTCACATAAATTTAACACGAAAAAATAC
193 ATGTATCTTATTCTAAGTAGATCTAATAATATTAAACATCACATAAATTTAACACAAAAAAATAA
* *
1021777 TTAAAATATGATACAAAAAACATGAATATGATATAATACTTAAATATGACAAAGAAAATGCATTT
258 TTAAAATATGATATAAAAAATATGAATATG-------AC---------A-AAAG-AAATGCATTT
*
1021842 GCATCAATCATGTCCTCCC-T
305 ACATCAATCATGTCCTCCCAT
* * * * * * *
1021862 TTACCGCAAACATTAAAGAAAACTAACAAATTCCTTTAACGTGTTGGAAATTTTAGCATGAATTT
1 TTTCCACAAACATCAAAGAAGACTAACAAATTCCTTTAACATGTTGAAAATTTTAACATGAATTT
* * * **
1021927 TTCTATTTATCAGTTTATTTTTTCTAAAAAAAATTTAAAAATTTTAAAAAAAAGCCAAAACCACT
66 TTCTGTTCATCAGTTTATTTTTTCTAAAACAAATTTAAAAATAATAAAAAAAAGCCAAAACCACT
1021992 TGGTTGGAATAAATTTCTGCTAAAAATAAAATTTAAAAAAATTTATGTCAAGAAAGCTTGCTATG
131 TGGTTGGAATAAATTTCTGCTAAAAATAAAATTTAAAAAAATTTATGTCAAGAAAGCTTGCTATG
*
1022057 TATCTTATTCTAAGTAGATCTACTAATATTAAACATCACATAAATTTAACACAAAAAAATAATTA
196 TATCTTATTCTAAGTAGATCTAATAATATTAAACATCACATAAATTTAACACAAAAAAATAATTA
1022122 AAATATGATATAAAAAATATGAATATGACAAAAGAAATGCATTTACATCAATCATGTCCTCCCAT
261 AAATATGATATAAAAAATATGAATATGACAAAAGAAATGCATTTACATCAATCATGTCCTCCCAT
* *
1022187 TTTCCATAAACATCAAAGAAGACTAACAAATTCCTTTAACATGTTGGAAATTTTAACATGAATTT
1 TTTCCACAAACATCAAAGAAGACTAACAAATTCCTTTAACATGTTGAAAATTTTAACATGAATTT
* *
1022252 TTTTGTTCATCA-TTTATTTTTTCT-AAACAAATTTAAAAAAATAATAAAAAAAAGCCAAAACTA
66 TTCTGTTCATCAGTTTATTTTTTCTAAAACAAATTT--AAAAATAATAAAAAAAAGCCAAAACCA
* * *
1022315 CTTGGTTGGAATAAATTTCTGCTAAAAACAAAATTTATAAAATTTTATGTCAAGAAAGCTTGCTA
129 CTTGGTTGGAATAAATTTCTGCTAAAAATAAAATTTAAAAAAATTTATGTCAAGAAAGCTTGCTA
* * ** ** *
1022380 TGTATCTTATTCTAAGTATATCTAATAATATTCAATGTCACATATGTTTAATACAAAAAAATAAT
194 TGTATCTTATTCTAAGTAGATCTAATAATATTAAACATCACATAAATTTAACACAAAAAAATAAT
* *
1022445 TAAAATATGATATAAAAATATAAATATGATATGAAAACTTAAATATGACAAAAGAAATACATTTG
259 TAAAATATG--AT----ATA-AAA-A--ATATG--------AATATGACAAAAGAAATGCATTTA
1022510 CATCAATCATGTCCTCCCAT
306 CATCAATCATGTCCTCCCAT
* *
1022530 TTTCCACAAACATCAAAGAAGACTAGCAAATGCCTTTAACATGTTGAAAATTTTAACATGAATTT
1 TTTCCACAAACATCAAAGAAGACTAACAAATTCCTTTAACATGTTGAAAATTTTAACATGAA-TT
* * *
1022595 TTTCTGTTCACCAGTTTATTTTTTTCT-AAACAAATTTAAAAAAAAT-AAAAAAAG-CTAAACCA
65 TTTCTGTTCATCAGTTTA-TTTTTTCTAAAACAAATTTAAAAATAATAAAAAAAAGCCAAAACCA
* * * *
1022657 CTTGGTTGGAATAAATTTCTGCTAAAAA-AAAATTT-TAAAAAGTCATGTCAAGAATGCTTGCTA
129 CTTGGTTGGAATAAATTTCTGCTAAAAATAAAATTTAAAAAAATTTATGTCAAGAAAGCTTGCTA
* * * * * * *
1022720 TGTATCCTATTCTAAGTAGATTTAAACGTCACATAAATTTAACATGA-AAAAATAATTAAAATAT
194 TGTATCTTATTCTAAGTAGATCT-AA--T-A-AT--ATTAAACATCACATAAAT--TTAACACA-
* * * * *
1022784 GATATAAAA-AA-TAAGAATATGATAT-GAATATTTGAATATGACAAAGGAAATGCATTTACATT
249 -A-A-AAAATAATTAA-AATATGATATAAAAAATATGAATATGACAAAAGAAATGCATTTACATC
* *
1022846 AATCAAGTCCTCCCCT
310 AATCATGTCCTCCCAT
* *
1022862 TTTCCACAAACATCAAAGAAGACTAACAAATTCCTTTAACATGTTGAAAATTTTAATATAAATTT
1 TTTCCACAAACATCAAAGAAGACTAACAAATTCCTTTAACATGTTGAAAATTTTAACATGAATTT
* *
1022927 TTTTGTTCGTCAGTTTATTTTTTCT-AAACAAATTT
66 TTCTGTTCATCAGTTTATTTTTTCTAAAACAAATTT
1022962 TTTTTAAAAA
Statistics
Matches: 961, Mismatches: 98, Indels: 94
0.83 0.08 0.08
Matches are distributed among these distances:
323 9 0.01
324 40 0.04
325 224 0.23
326 1 0.00
327 2 0.00
330 18 0.02
331 20 0.02
332 99 0.10
333 1 0.00
335 7 0.01
340 48 0.05
341 9 0.01
342 225 0.23
343 165 0.17
344 32 0.03
345 8 0.01
346 21 0.02
347 7 0.01
348 6 0.01
349 2 0.00
350 4 0.00
351 9 0.01
352 4 0.00
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.34
Consensus pattern (325 bp):
TTTCCACAAACATCAAAGAAGACTAACAAATTCCTTTAACATGTTGAAAATTTTAACATGAATTT
TTCTGTTCATCAGTTTATTTTTTCTAAAACAAATTTAAAAATAATAAAAAAAAGCCAAAACCACT
TGGTTGGAATAAATTTCTGCTAAAAATAAAATTTAAAAAAATTTATGTCAAGAAAGCTTGCTATG
TATCTTATTCTAAGTAGATCTAATAATATTAAACATCACATAAATTTAACACAAAAAAATAATTA
AAATATGATATAAAAAATATGAATATGACAAAAGAAATGCATTTACATCAATCATGTCCTCCCAT
Found at i:1022469 original size:19 final size:19
Alignment explanation
Indices: 1022442--1022492 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
1022432 ACAAAAAAAT
1022442 AATTAAAATATGATAT-AAA
1 AATT-AAATATGATATGAAA
1022461 AATATAAATATGATATGAAA
1 AAT-TAAATATGATATGAAA
*
1022481 ACTTAAATATGA
1 AATTAAATATGA
1022493 CAAAAGAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 23 0.79
20 6 0.21
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (19 bp):
AATTAAATATGATATGAAA
Found at i:1022811 original size:667 final size:663
Alignment explanation
Indices: 1021520--1022961 Score: 1908
Period size: 667 Copynumber: 2.1 Consensus size: 663
1021510 TGTTCTTCCC
* *
1021520 TTTCCACAAACATCAAAGAAGACTAACAAATTTCTTTAACATGTTGAAAATTTTACCATGAATTT
1 TTTCCACAAACATCAAAGAAGACTAACAAATTCCTTTAACATGTTGAAAATTTTAACATGAATTT
* * * *
1021585 TTCTATTCATCAATTTATTTTTT-AAAACAAATTCTAAAAAATAATAAAAAATGCCAAAACCACT
66 TTTTGTTCATC-ATTTATTTTTTCTAAACAAATT-TAAAAAATAATAAAAAAAGCCAAAACCACT
* * * *
1021649 TGGTTGGAATAAATTTATGCTAAAAATAAAATTTTAAAAAAATTTATGTTAGGAAAGCTTATTAT
129 TGGTTGGAATAAATTTATGCTAAAAACAAAATTTTAAAAAAATTTATGTCAAGAAAGCTTACTAT
* * *
1021714 GTATCATGTTCTAAGTAAATCTAATAATATCAAACGTCACATAAATTTAACACGAAAAAATACTT
194 GTATCATATTCTAAGTAAATCTAATAATATCAAACGTCACATAAATTTAACACAAAAAAATAATT
* * *
1021779 AAAATATGATACAAAAAACATGAATATGATATAATACTTAAATATGACAAAGAAAATGCATTTGC
259 AAAATATGATACAAAAAACATAAATATGATATAAAACTTAAATATGACAAAGAAAATACATTTGC
* * * * *
1021844 ATCAATCATGTCCTCCCTTTACCGCAAACATTAAAGAAAACTAACAAATTCCTTTAACGTGTTGG
324 ATCAATCATGTCCTCCCTTTACCACAAACATCAAAGAAAACTAACAAATGCCTTTAACATGTTGA
* * * ***
1021909 AAATTTTAGCATGAATTTTTCTATTTATCAGTTTATTTTTTCTAAAAAAAATTTAAAAATTTTAA
389 AAATTTTAACATGAATTTTTCTATTCACCAGTTTATTTTTTCTAAAAAAAATTTAAAAAAAATAA
* *
1021974 AAAAAAGCCAAAACCACTTGGTTGGAATAAATTTCTGCTAAAAATAAAATTTAAAAAAATTTATG
454 AAAAAAGCCAAAACCACTTGGTTGGAATAAATTTCTGCTAAAAATAAAATTTAAAAAAAGTCATG
*
1022039 TCAAGAAAGCTTGCTATGTATCTTATTCTAAGTAGATCTACTAATATTAAACATCACATAAATTT
519 TCAAGAAAGCTTGCTATGTATCCTATTCTAAGTAG-------AATATTAAACATCACATAAATTT
1022104 AACACAAAAAAATAATTAAAATATGATAT--AA-AAAATA-TGAATATGACAAAAGAAATGCATT
577 AACACAAAAAAATAATTAAAATATGATATAAAAGAAAATATTGAATATGACAAAAGAAATGCATT
*
1022165 TACATCAATCATGTCCTCCCAT
642 TACATCAATCAAGTCCTCCCAT
* *
1022187 TTTCCATAAACATCAAAGAAGACTAACAAATTCCTTTAACATGTTGGAAATTTTAACATGAATTT
1 TTTCCACAAACATCAAAGAAGACTAACAAATTCCTTTAACATGTTGAAAATTTTAACATGAATTT
*
1022252 TTTTGTTCATCATTTATTTTTTCTAAACAAATTTAAAAAAATAATAAAAAAAAGCCAAAACTACT
66 TTTTGTTCATCATTTATTTTTTCTAAACAAATTT-AAAAAATAAT-AAAAAAAGCCAAAACCACT
* * * *
1022317 TGGTTGGAATAAATTTCTGCTAAAAACAAAA-TTTATAAAATTTTATGTCAAGAAAGCTTGCTAT
129 TGGTTGGAATAAATTTATGCTAAAAACAAAATTTTAAAAAAATTTATGTCAAGAAAGCTTACTAT
* * * ** *
1022381 GTATCTTATTCTAAGTATATCTAATAATATTC-AATGTCACATATGTTTAATACAAAAAAATAAT
194 GTATCATATTCTAAGTAAATCTAATAATA-TCAAACGTCACATAAATTTAACACAAAAAAATAAT
* *
1022445 TAAAATATGATA-TAAAAATATAAATATGATATGAAAACTTAAATATGACAAA-AGAAATACATT
258 TAAAATATGATACAAAAAACATAAATATGATAT-AAAACTTAAATATGACAAAGA-AAATACATT
* * *
1022508 TGCATCAATCATGTCCTCCCATTTTCCACAAACATCAAAGAAGACTAGCAAATGCCTTTAACATG
321 TGCATCAATCATGTCCTCCC-TTTACCACAAACATCAAAGAAAACTAACAAATGCCTTTAACATG
* *
1022573 TTGAAAATTTTAACATGAATTTTTTCTGTTCACCAGTTTATTTTTTTCT-AAACAAATTTAAAAA
385 TTGAAAATTTTAACATGAA-TTTTTCTATTCACCAGTTTA-TTTTTTCTAAAAAAAATTTAAAAA
* *
1022637 AAAT-AAAAAAAG-CTAAACCACTTGGTTGGAATAAATTTCTGCTAAAAA-AAAATTT-TAAAAA
448 AAATAAAAAAAAGCCAAAACCACTTGGTTGGAATAAATTTCTGCTAAAAATAAAATTTAAAAAAA
* *
1022698 GTCATGTCAAGAATGCTTGCTATGTATCCTATTCTAAGTAG-AT-TTAAACGTCACATAAATTTA
513 GTCATGTCAAGAAAGCTTGCTATGTATCCTATTCTAAGTAGAATATTAAACATCACATAAATTTA
**
1022761 ACATGAAAAAATAATTAAAATATGATATAAAAAATAAGAATATGATATGAATATTTGAATATGAC
578 ACACAAAAAAATAATTAAAATATG--AT-----AT-A-AA-A-GA-A--AATA-TTGAATATGAC
* * *
1022826 AAAGGAAATGCATTTACATTAATCAAGTCCTCCCCT
628 AAAAGAAATGCATTTACATCAATCAAGTCCTCCCAT
* *
1022862 TTTCCACAAACATCAAAGAAGACTAACAAATTCCTTTAACATGTTGAAAATTTTAATATAAATTT
1 TTTCCACAAACATCAAAGAAGACTAACAAATTCCTTTAACATGTTGAAAATTTTAACATGAATTT
*
1022927 TTTTGTTCGTCAGTTTATTTTTTCTAAACAAATTT
66 TTTTGTTCATCA-TTTATTTTTTCTAAACAAATTT
1022962 TTTTTAAAAA
Statistics
Matches: 681, Mismatches: 65, Indels: 49
0.86 0.08 0.06
Matches are distributed among these distances:
656 41 0.06
657 2 0.00
658 2 0.00
663 2 0.00
665 42 0.06
666 37 0.05
667 262 0.38
668 111 0.16
669 32 0.05
670 9 0.01
671 1 0.00
673 4 0.01
675 114 0.17
676 22 0.03
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.34
Consensus pattern (663 bp):
TTTCCACAAACATCAAAGAAGACTAACAAATTCCTTTAACATGTTGAAAATTTTAACATGAATTT
TTTTGTTCATCATTTATTTTTTCTAAACAAATTTAAAAAATAATAAAAAAAGCCAAAACCACTTG
GTTGGAATAAATTTATGCTAAAAACAAAATTTTAAAAAAATTTATGTCAAGAAAGCTTACTATGT
ATCATATTCTAAGTAAATCTAATAATATCAAACGTCACATAAATTTAACACAAAAAAATAATTAA
AATATGATACAAAAAACATAAATATGATATAAAACTTAAATATGACAAAGAAAATACATTTGCAT
CAATCATGTCCTCCCTTTACCACAAACATCAAAGAAAACTAACAAATGCCTTTAACATGTTGAAA
ATTTTAACATGAATTTTTCTATTCACCAGTTTATTTTTTCTAAAAAAAATTTAAAAAAAATAAAA
AAAAGCCAAAACCACTTGGTTGGAATAAATTTCTGCTAAAAATAAAATTTAAAAAAAGTCATGTC
AAGAAAGCTTGCTATGTATCCTATTCTAAGTAGAATATTAAACATCACATAAATTTAACACAAAA
AAATAATTAAAATATGATATAAAAGAAAATATTGAATATGACAAAAGAAATGCATTTACATCAAT
CAAGTCCTCCCAT
Found at i:1023098 original size:19 final size:19
Alignment explanation
Indices: 1023070--1023114 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
1023060 AAATAATTAA
1023070 AATATAATATAAAAACATG
1 AATATAATATAAAAACATG
* * * *
1023089 AATATGATATGAATACTTG
1 AATATAATATAAAAACATG
1023108 AATATAA
1 AATATAA
1023115 CAAAGGTAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.56, C:0.04, G:0.09, T:0.31
Consensus pattern (19 bp):
AATATAATATAAAAACATG
Found at i:1023557 original size:629 final size:619
Alignment explanation
Indices: 1022358--1023590 Score: 1635
Period size: 622 Copynumber: 2.0 Consensus size: 619
1022348 TTTATAAAAT
* * **
1022358 TTTATGTCAAGAAAGCTTGCTATGTATCTTATTCTAAGTATATCTAATAATATTCAATGTCACAT
1 TTTATATCAAGAAAGCTTGCTATGTATCTTATTCTAAGTAAATCTAATAATATTCAACATCACAT
** * * *
1022423 ATGTTTAATACAAAAAAATAATTAAAATATGATATAAAAATATAAATATGATATGAAAACTTAAA
66 AAATTTAACACAAAAAAATAATTAAAATATAATATAAAAACATAAATATGATATGAAAACTTAAA
* *
1022488 TATGACAAAAGAAATACATTTGCATCAATCATGTCCTCCCATTTTCCACAAACATCAAAGAAGAC
131 TATAACAAAAGAAATACATTTACATCAATCATGTCCTCCCATTTTCCACAAACATCAAAGAAGAC
*
1022553 TAGCAAATGCCTTTAACATGTTGAAAATTTTAACATGAATTTTTTCTGTTCACCAGTTTATTTTT
196 TAGCAAATGCCTTTAACATGTTGAAAATTTTAACATAAATTTTTTCTGTT--CCAGTTTA-TTTT
* *
1022618 TTCTAAACAAATTTAAAAAAAATAAAAAAAGCTAAACCACTTGGTTGGAATAAATTTCTGCTAAA
258 TTCTAAACAAATTTAAAAAAAATAAAAAAAGCAAAACCACTTGGTTGGAATAAATTTCAGCTAAA
* * * *
1022683 AAAAAATTTTAAAAAGTCATGTCAAGAATGCTTGCTATGTATCCTATTCTAAGTAGATTTAAACG
323 AAAAAATTTAAAAAAATCATGTCAAGAAAGCTTGCTATGTATCATATTCTAAGTAGATTTAAACG
*
1022748 TCACATAAATTTAACATGAAAAAATAATTAAAATATGATATAAAAAATAAGAATATGATATGAAT
388 TCACATAAATTTAACACGAAAAAATAATTAAAATATGATATAAAAAATAAGAATATGATATGAAT
* * * * *
1022813 ATTTGAATATGACAAAGGAAATGCATTTACATTAATCAAGTCCTCCCCTTTTCCACAAACATCAA
453 ACTTGAATATGACAAAAGAAATGCATTTAAATCAATCAAGTCCTCCCATTTTCCACAAACATCAA
* * * *
1022878 AGAAGACTAACAAATTCCTTTAACATGTTGAAAATTTTAATATAAATTTTTTTGTTCGTCAGTTT
518 AGAAGACTAAAAAATTCCTTTAACATGTTGAAAATTTTAACATAAATTTTTCTGTTCATCAGTTT
*
1022943 ATTTTTTCTAAACAAATTTTTTTTAAAAAATGTCATA
583 ATTTTTACTAAACAAATTTTTTTTAAAAAATGTCATA
* * * *
1022980 TTTATATCAAGAATGCTTGCTTTGTAT-TCTATTCTAAGTAAATTTAATAATATTGAACATCACA
1 TTTATATCAAGAAAGCTTGCTATGTATCT-TATTCTAAGTAAATCTAATAATATTCAACATCACA
* * *
1023044 TAAATTTAACACAAAAAAATAATTAAAATATAATATAAAAACATGAATATGATATGAATACTTGA
65 TAAATTTAACACAAAAAAATAATTAAAATATAATATAAAAACATAAATATGATATGAAAACTTAA
* * * * * * * *
1023109 ATATAACAAAGGTAATGCATTTACATCAATCATGTCTTTCCTTTTTCCACAAACATTAGAGAAGA
130 ATATAACAAAAGAAATACATTTACATCAATCATGTCCTCCCATTTTCCACAAACATCAAAGAAGA
* * * * *
1023174 CTATCAAATTCCTTTGAA-GTGTTGGAAATTTTAACCTAAATTTTTT-TGTT-CA-TTTA-TTTT
195 CTAGCAAATGCCTTT-AACATGTTGAAAATTTTAACATAAATTTTTTCTGTTCCAGTTTATTTTT
***
1023234 T-TAAA-TTTTTTAAAAAATAATTTAAAAAAAGCCAAAACCACTTGGTTGGAATAAATTTCAGCT
259 TCTAAACAAATTTAAAAAA-AA--TAAAAAAAG-CAAAACCACTTGGTTGGAATAAATTTCAGCT
* *
1023297 AAAAACAAAATTTAAAAAAAAATTATGTCAAGAAAGGTTGCTATGTATCATATTCTAAGTAGATC
320 AAAAA-AAAATTT--AAAAAAATCATGTCAAGAAAGCTTGCTATGTATCATATTCTAAGTAGA--
1023362 TAATAATATTGAACGTCACATAAATTTAACACGAAAAAATAATTAAAATATGA-AGTTAAAAACA
380 T--T--TA---AACGTCACATAAATTTAACACGAAAAAATAATTAAAATATGATA--TAAAAA-A
* * *
1023426 TAA-AA-ATGATATGAATACTTGAATATGACAAAAGAAATGCATTTAAATCAATTATGTCCTCGC
435 TAAGAATATGATATGAATACTTGAATATGACAAAAGAAATGCATTTAAATCAATCAAGTCCTCCC
*
1023489 ATTTTCCACAAACATCAAAGAAGACTAAAAAATTCCTTTAA-AGTGTTGAAAATTTTAACATGAA
500 ATTTTCCACAAACATCAAAGAAGACTAAAAAATTCCTTTAACA-TGTTGAAAATTTTAACATAAA
1023553 TTTTTCTGTTCATCAGTTTATTTTTACTAAACAAATTT
564 TTTTTCTGTTCATCAGTTTATTTTTACTAAACAAATTT
1023591 AAAAAAATAA
Statistics
Matches: 531, Mismatches: 58, Indels: 37
0.85 0.09 0.06
Matches are distributed among these distances:
613 9 0.02
614 6 0.01
615 5 0.01
616 9 0.02
617 38 0.07
618 9 0.02
620 42 0.08
621 5 0.01
622 204 0.38
623 2 0.00
624 1 0.00
626 2 0.00
628 2 0.00
629 185 0.35
630 8 0.02
631 4 0.01
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.35
Consensus pattern (619 bp):
TTTATATCAAGAAAGCTTGCTATGTATCTTATTCTAAGTAAATCTAATAATATTCAACATCACAT
AAATTTAACACAAAAAAATAATTAAAATATAATATAAAAACATAAATATGATATGAAAACTTAAA
TATAACAAAAGAAATACATTTACATCAATCATGTCCTCCCATTTTCCACAAACATCAAAGAAGAC
TAGCAAATGCCTTTAACATGTTGAAAATTTTAACATAAATTTTTTCTGTTCCAGTTTATTTTTTC
TAAACAAATTTAAAAAAAATAAAAAAAGCAAAACCACTTGGTTGGAATAAATTTCAGCTAAAAAA
AAATTTAAAAAAATCATGTCAAGAAAGCTTGCTATGTATCATATTCTAAGTAGATTTAAACGTCA
CATAAATTTAACACGAAAAAATAATTAAAATATGATATAAAAAATAAGAATATGATATGAATACT
TGAATATGACAAAAGAAATGCATTTAAATCAATCAAGTCCTCCCATTTTCCACAAACATCAAAGA
AGACTAAAAAATTCCTTTAACATGTTGAAAATTTTAACATAAATTTTTCTGTTCATCAGTTTATT
TTTACTAAACAAATTTTTTTTAAAAAATGTCATA
Found at i:1023620 original size:339 final size:336
Alignment explanation
Indices: 1022981--1023627 Score: 842
Period size: 339 Copynumber: 1.9 Consensus size: 336
1022971 AATGTCATAT
* * *
1022981 TTATATCAAGAATGCTTGCTTTGTATTCTATTCTAAGTAAATTTAATAATATTGAACATCACATA
1 TTATATCAAGAAAGCTTGCTATGTATTCTATTCTAAGTAAATCTAATAATATTGAACATCACATA
* *
1023046 AATTTAACACAAAAAAATAATTAAAATATAATATAAAAACATGAATATGATATGAATACTTGAAT
66 AATTTAACACAAAAAAATAATTAAAATATAATATAAAAACATAAAAATGATATGAATACTTGAAT
* * * * * * *
1023111 ATAACAAAGGTAATGCATTTACATCAATCATGTCTTTCCTTTTTCCACAAACATTAGAGAAGACT
131 ATAACAAAAGAAATGCATTTAAATCAATCATGTCTCTCCATTTTCCACAAACATCAAAGAAGACT
** * * * * **
1023176 ATCAAATTCCTTTGAAGTGTTGGAAATTTTAACCTAAATTTTTTTGTTCATTTATTTTTTAAATT
196 AAAAAATTCCTTTAAAGTGTTGAAAATTTTAACATAAATTTTTCTGTTCATTTATTTTTTAAAAA
*
1023241 TTTTAAAAAATAATTTAAAAAAAGCCAAAACCACTTGGTTGGAATAAATTTCAGCTAAAAACAAA
261 ATTTAAAAAATAA-TTAAAAAAAGCC-AAACCACTTGGTTGGAATAAATTTCAGCTAAAAACAAA
1023306 ATTTAAAAAAAAA
324 ATTTAAAAAAAAA
* * * *
1023319 TTATGTCAAGAAAGGTTGCTATGTA-TCATATTCTAAGTAGATCTAATAATATTGAACGTCACAT
1 TTATATCAAGAAAGCTTGCTATGTATTC-TATTCTAAGTAAATCTAATAATATTGAACATCACAT
*
1023383 AAATTTAACACGAAAAAATAATTAAAATATGAAGT-TAAAAACATAAAAATGATATGAATACTTG
65 AAATTTAACACAAAAAAATAATTAAAATAT-AA-TATAAAAACATAAAAATGATATGAATACTTG
* *
1023447 AATATGACAAAAGAAATGCATTTAAATCAATTATGTC-CTCGCATTTTCCACAAACATCAAAGAA
128 AATATAACAAAAGAAATGCATTTAAATCAATCATGTCTCTC-CATTTTCCACAAACATCAAAGAA
*
1023511 GACTAAAAAATTCCTTTAAAGTGTTGAAAATTTTAACATGAATTTTTCTGTTCATCAGTTTATTT
192 GACTAAAAAATTCCTTTAAAGTGTTGAAAATTTTAACATAAATTTTTCTG-T--TCA-TTTATTT
* *
1023576 TTACTAAACAAATTT-AAAAA-AA-TAAAAAAAGCC-AA-GATTTGGTTGGAATAAA
253 TT--TAAA-AAATTTAAAAAATAATTAAAAAAAGCCAAACCACTTGGTTGGAATAAA
1023628 ATAAAATACA
Statistics
Matches: 267, Mismatches: 31, Indels: 21
0.84 0.10 0.07
Matches are distributed among these distances:
337 2 0.01
338 85 0.32
339 139 0.52
340 4 0.01
342 14 0.05
343 9 0.03
344 2 0.01
345 9 0.03
346 3 0.01
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.34
Consensus pattern (336 bp):
TTATATCAAGAAAGCTTGCTATGTATTCTATTCTAAGTAAATCTAATAATATTGAACATCACATA
AATTTAACACAAAAAAATAATTAAAATATAATATAAAAACATAAAAATGATATGAATACTTGAAT
ATAACAAAAGAAATGCATTTAAATCAATCATGTCTCTCCATTTTCCACAAACATCAAAGAAGACT
AAAAAATTCCTTTAAAGTGTTGAAAATTTTAACATAAATTTTTCTGTTCATTTATTTTTTAAAAA
ATTTAAAAAATAATTAAAAAAAGCCAAACCACTTGGTTGGAATAAATTTCAGCTAAAAACAAAAT
TTAAAAAAAAA
Found at i:1024504 original size:17 final size:19
Alignment explanation
Indices: 1024482--1024516 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
1024472 TATTTTATTT
1024482 ATTTATT-TTT-CTTTAAA
1 ATTTATTATTTCCTTTAAA
1024499 ATTTATTATTTCCTTTAA
1 ATTTATTATTTCCTTTAA
1024517 GAAAGCTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTATTATTTCCTTTAAA
Found at i:1024851 original size:20 final size:21
Alignment explanation
Indices: 1024828--1024867 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
1024818 TTTTTAATTT
*
1024828 TAAATAAATAAT-AAATATAA
1 TAAAGAAATAATAAAATATAA
*
1024848 TAAAGAATTAATAAAATATA
1 TAAAGAAATAATAAAATATA
1024868 TATTTTAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (21 bp):
TAAAGAAATAATAAAATATAA
Found at i:1025573 original size:15 final size:15
Alignment explanation
Indices: 1025527--1025620 Score: 63
Period size: 16 Copynumber: 6.3 Consensus size: 15
1025517 AAAATATAAA
* *
1025527 AATATTTTAAAATTT
1 AATATATTAATATTT
*
1025542 AATA-ATATAAGTTTTT
1 AATATAT-TAA-TATTT
1025558 AATATATTAATA-TT
1 AATATATTAATATTT
*
1025572 --TATATTAATATAT
1 AATATATTAATATTT
*
1025585 AATATATTAAATATTA
1 AATATATT-AATATTT
1025601 AATATTATT-ATATTTT
1 AATA-TATTAATA-TTT
1025617 AATA
1 AATA
1025621 AAATATTTAA
Statistics
Matches: 62, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
12 10 0.16
13 1 0.02
14 3 0.05
15 17 0.27
16 25 0.40
17 6 0.10
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (15 bp):
AATATATTAATATTT
Found at i:1025587 original size:27 final size:29
Alignment explanation
Indices: 1025557--1025613 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
1025547 TATAAGTTTT
*
1025557 TAATATATT-AATATT-TATATTAATATA
1 TAATATATTAAATATTAAATATTAATATA
*
1025584 TAATATATTAAATATTAAATATTATTATA
1 TAATATATTAAATATTAAATATTAATATA
1025613 T
1 T
1025614 TTTAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 9 0.35
28 6 0.23
29 11 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
TAATATATTAAATATTAAATATTAATATA
Found at i:1025640 original size:37 final size:38
Alignment explanation
Indices: 1025568--1025640 Score: 89
Period size: 37 Copynumber: 1.9 Consensus size: 38
1025558 AATATATTAA
*
1025568 TATTTATATTAATATATAATATATTAAATATTAAATAT
1 TATTTATATTAATATATAATATATTAAATAATAAATAT
*
1025606 TATTATATTTTAATA-A-AATAT-TTAAATAAATAAAT
1 TATT-TATATTAATATATAATATATTAAAT-AATAAAT
1025641 TATCAGATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
36 6 0.19
37 11 0.35
38 5 0.16
39 9 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (38 bp):
TATTTATATTAATATATAATATATTAAATAATAAATAT
Found at i:1026133 original size:20 final size:18
Alignment explanation
Indices: 1026095--1026143 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
1026085 ATATATTCTT
1026095 ATTAAAAAATAAAAAATA
1 ATTAAAAAATAAAAAATA
*
1026113 ATTATAAAAATATAAACATA
1 ATTA-AAAAATA-AAAAATA
1026133 A-TAAAAAATAA
1 ATTAAAAAATAA
1026144 TATTAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 1 0.04
18 11 0.39
19 9 0.32
20 7 0.25
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (18 bp):
ATTAAAAAATAAAAAATA
Found at i:1028206 original size:12 final size:12
Alignment explanation
Indices: 1028189--1028214 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1028179 CCAACATTCA
1028189 AAGCTTAGATCT
1 AAGCTTAGATCT
1028201 AAGCTTAGATCT
1 AAGCTTAGATCT
1028213 AA
1 AA
1028215 TCTAGCCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (12 bp):
AAGCTTAGATCT
Found at i:1029223 original size:20 final size:20
Alignment explanation
Indices: 1029200--1029248 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
1029190 TTTATGTCTG
*
1029200 AAAATATTATAAATTTCATAA
1 AAAATATT-TAAATTTAATAA
* *
1029221 AAAATACTTCAATTTAAT-A
1 AAAATATTTAAATTTAATAA
1029240 AAAATATTT
1 AAAATATTT
1029249 TTTAGCTCGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 9 0.38
20 8 0.33
21 7 0.29
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAATATTTAAATTTAATAA
Found at i:1037861 original size:45 final size:45
Alignment explanation
Indices: 1037805--1037947 Score: 117
Period size: 45 Copynumber: 3.3 Consensus size: 45
1037795 AAGATGCGGT
1037805 AATTAATTTAAATTTTAATTTCAATGTTTAAATGACATTAATTCGA
1 AATTAATTTAAATTTTAATTTCAAT-TTTAAATGACATTAATTCGA
* * *
1037851 AATT-ATTTAAATTTAAAATT-GA-TTTAAAT--C--TAA-T-GA
1 AATTAATTTAAATTTTAATTTCAATTTTAAATGACATTAATTCGA
*** *
1037887 TAATTAAGCCAAATTTTAATTTCAATATTTAAATGACATTAATTCAA
1 -AATTAATTTAAATTTTAATTTCAAT-TTTAAATGACATTAATTCGA
*
1037934 AATT-ATTTGAATTT
1 AATTAATTTAAATTT
1037948 AAAATTAATC
Statistics
Matches: 72, Mismatches: 14, Indels: 23
0.66 0.13 0.21
Matches are distributed among these distances:
36 2 0.03
37 5 0.07
38 14 0.19
39 1 0.01
40 1 0.01
41 7 0.10
42 7 0.10
43 1 0.01
44 1 0.01
45 23 0.32
46 9 0.12
47 1 0.01
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (45 bp):
AATTAATTTAAATTTTAATTTCAATTTTAAATGACATTAATTCGA
Found at i:1038233 original size:26 final size:26
Alignment explanation
Indices: 1038204--1038258 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
1038194 ATATTTATTA
* *
1038204 TTTAAAATAAAAATCATTTTAATACT
1 TTTAAAATAAAAATAATTTTAATAAT
* **
1038230 TTTAATATAAATGTAATTTTAATAAT
1 TTTAAAATAAAAATAATTTTAATAAT
1038256 TTT
1 TTT
1038259 TAATTATTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (26 bp):
TTTAAAATAAAAATAATTTTAATAAT
Found at i:1038324 original size:25 final size:26
Alignment explanation
Indices: 1038295--1038349 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
1038285 TTTATTTATA
1038295 TTTT-ATTACTTA-AAATAAATATAAT
1 TTTTAATTA-TTATAAATAAATATAAT
*
1038320 TTTTAATTATTATTATATAAATATAAT
1 TTTTAATTATTA-TAAATAAATATAAT
1038347 TTT
1 TTT
1038350 AATCTAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 7 0.27
26 4 0.15
27 15 0.58
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (26 bp):
TTTTAATTATTATAAATAAATATAAT
Found at i:1038360 original size:27 final size:27
Alignment explanation
Indices: 1038309--1038360 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
1038299 ATTACTTAAA
*
1038309 ATAAATATAATTTTTAATTATTATTAT
1 ATAAATATAATTTTTAATTAATATTAT
1038336 ATAAATATAA-TTTTAATCTAATATT
1 ATAAATATAATTTTTAAT-TAATATT
1038361 TTTAATAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
ATAAATATAATTTTTAATTAATATTAT
Found at i:1038899 original size:17 final size:18
Alignment explanation
Indices: 1038877--1038913 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1038867 TTGAATTGTA
*
1038877 TTTAAAT-AAATTTTTAT
1 TTTAAATAAAATATTTAT
1038894 TTTAAATAAAATATTTAT
1 TTTAAATAAAATATTTAT
1038912 TT
1 TT
1038914 ATGTTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTAAATAAAATATTTAT
Found at i:1038914 original size:17 final size:16
Alignment explanation
Indices: 1038875--1038914 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
1038865 ATTTGAATTG
*
1038875 TATTTAAATAAATTTT
1 TATTTAAATAAATATT
1038891 TATTTTAAATAAAATATT
1 TA-TTTAAAT-AAATATT
1038909 TATTTA
1 TATTTA
1038915 TGTTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 2 0.10
17 11 0.52
18 8 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTTAAATAAATATT
Found at i:1039665 original size:32 final size:32
Alignment explanation
Indices: 1039581--1039665 Score: 86
Period size: 32 Copynumber: 2.7 Consensus size: 32
1039571 TAAGTTGAAT
* **
1039581 TTAATTATAATTTTTTTAA-TTCATTATTTAAA
1 TTAA-TATAATTTTTTTAATTTAATTATAAAAA
*
1039613 -TAATA-ATTTTTTTTAAAATTTAATTATAAAAA
1 TTAATATAATTTTTTT--AATTTAATTATAAAAA
1039645 TTAATATAATTTTTTTAATTT
1 TTAATATAATTTTTTTAATTT
1039666 TTTAATATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
29 8 0.19
30 2 0.05
31 5 0.12
32 15 0.35
33 5 0.12
34 8 0.19
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (32 bp):
TTAATATAATTTTTTTAATTTAATTATAAAAA
Found at i:1039853 original size:17 final size:19
Alignment explanation
Indices: 1039826--1039872 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
1039816 GATAATAATT
1039826 TATATTATATAAATTT-TAA
1 TATATT-TATAAATTTATAA
* *
1039845 T-TATTTATATATTTATAT
1 TATATTTATAAATTTATAA
1039863 TATATTTATA
1 TATATTTATA
1039873 TTATTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 8 0.33
18 7 0.29
19 9 0.38
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TATATTTATAAATTTATAA
Found at i:1039868 original size:55 final size:56
Alignment explanation
Indices: 1039808--1039918 Score: 138
Period size: 55 Copynumber: 2.0 Consensus size: 56
1039798 TTATATAATA
1039808 TATATTT-TGATAATAATTTATATTATA-TAAATTTTAATTATTTATATA-TTTATAT
1 TATATTTAT-ATAATAATTTATATTATATTAAATTTTAATT-TTTATATATTTTATAT
* ** * *
1039863 TATATTTATATTATTTTTTATATTATATTATATTTTAATTTTTTTATATTTTATAT
1 TATATTTATATAATAATTTATATTATATTAAATTTTAATTTTTATATATTTTATAT
1039919 ATAATCGTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
55 29 0.60
56 19 0.40
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (56 bp):
TATATTTATATAATAATTTATATTATATTAAATTTTAATTTTTATATATTTTATAT
Found at i:1039873 original size:17 final size:17
Alignment explanation
Indices: 1039823--1039918 Score: 61
Period size: 16 Copynumber: 6.1 Consensus size: 17
1039813 TTTGATAATA
**
1039823 ATTTATATTATATAAAT
1 ATTTATATTATATTTAT
1039840 -TTTA-ATTAT-TTATAT
1 ATTTATATTATATT-TAT
1039855 ATTTATATTATATTTAT
1 ATTTATATTATATTTAT
1039872 A--T-TATT-T-TTTAT
1 ATTTATATTATATTTAT
1039884 A-TTATATTATATTT-T
1 ATTTATATTATATTTAT
*
1039899 AATTT-TTTTATATTTTAT
1 -ATTTATATTATA-TTTAT
1039917 AT
1 AT
1039919 ATAATCGTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 24
0.70 0.03 0.26
Matches are distributed among these distances:
12 6 0.09
13 2 0.03
14 9 0.14
15 10 0.16
16 18 0.28
17 16 0.25
18 3 0.05
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTTATATTATATTTAT
Found at i:1039877 original size:28 final size:27
Alignment explanation
Indices: 1039824--1039918 Score: 90
Period size: 28 Copynumber: 3.5 Consensus size: 27
1039814 TTGATAATAA
*
1039824 TTTATA-TTATA-TAAATTT-TAATTAT
1 TTTATATTTATATTATATTTAT-ATTAT
1039849 TTATATATTTATATTATATTTATATTAT
1 TT-TATATTTATATTATATTTATATTAT
* *
1039877 TTTTTATATTATATTATATTT-TAATTTT
1 TTTATAT-TTATATTATATTTAT-ATTAT
1039905 TTTATATTTTATAT
1 TTTATA-TTTATAT
1039919 ATAATCGTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
25 2 0.03
26 4 0.07
27 10 0.17
28 41 0.69
29 2 0.03
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (27 bp):
TTTATATTTATATTATATTTATATTAT
Found at i:1039882 original size:23 final size:25
Alignment explanation
Indices: 1039856--1039921 Score: 82
Period size: 26 Copynumber: 2.7 Consensus size: 25
1039846 TATTTATATA
1039856 TTTATATTATATTTATATT-A-TTT
1 TTTATATTATATTTATATTAATTTT
*
1039879 TTTATATTATATTATATTTTAATTTT
1 TTTATATTATATT-TATATTAATTTT
* *
1039905 TTTATATTTTATATATA
1 TTTATATTATATTTATA
1039922 ATCGTATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 13 0.36
24 5 0.14
25 4 0.11
26 14 0.39
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (25 bp):
TTTATATTATATTTATATTAATTTT
Found at i:1048066 original size:2 final size:2
Alignment explanation
Indices: 1048061--1048085 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1048051 TCTCTCTCTC
1048061 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1048086 TGAATTTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1051612 original size:11 final size:11
Alignment explanation
Indices: 1051596--1051627 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
1051586 TAGGGATATA
*
1051596 ACTCTCTAAGG
1 ACTCTCTAAAG
1051607 ACTCTCTAAAG
1 ACTCTCTAAAG
1051618 ACTCTCTAAA
1 ACTCTCTAAA
1051628 TACATGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.34, C:0.28, G:0.09, T:0.28
Consensus pattern (11 bp):
ACTCTCTAAAG
Found at i:1053102 original size:2 final size:2
Alignment explanation
Indices: 1053095--1053119 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1053085 GTTCGGTTAG
1053095 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1053120 AAACAGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1056490 original size:2 final size:2
Alignment explanation
Indices: 1056478--1056507 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1056468 TTTCTTTCTT
1056478 TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1056508 GTATGACTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:1056986 original size:38 final size:40
Alignment explanation
Indices: 1056915--1056991 Score: 104
Period size: 38 Copynumber: 1.9 Consensus size: 40
1056905 ACTAAATCAA
* * *
1056915 ATTATAGATATAATTATTTTATTTTATTTTAATTCTATTTT
1 ATTATAGATAAAATTA-TTTATTTTATTATAATTATATTTT
1056956 ATTATA-ATAAAATTA-TTATTTTATTATAATTATATT
1 ATTATAGATAAAATTATTTATTTTATTATAATTATATT
1056992 GAATTAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
38 19 0.58
40 8 0.24
41 6 0.18
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (40 bp):
ATTATAGATAAAATTATTTATTTTATTATAATTATATTTT
Found at i:1057014 original size:38 final size:38
Alignment explanation
Indices: 1056934--1057016 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 38
1056924 ATAATTATTT
* * ** *
1056934 TATTTTATTTTAATTCTATTTTATTATAATAAAATTAT
1 TATTTTATTATAATTATATTGAATTATAATAAAATTAA
*
1056972 TATTTTATTATAATTATATTGAATTA-AATATAATATAA
1 TATTTTATTATAATTATATTGAATTATAATAAAAT-TAA
1057010 TATTTTA
1 TATTTTA
1057017 ATATTAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
37 7 0.18
38 31 0.82
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (38 bp):
TATTTTATTATAATTATATTGAATTATAATAAAATTAA
Found at i:1058877 original size:30 final size:30
Alignment explanation
Indices: 1058842--1058902 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
1058832 AATTAACGTA
* *
1058842 AATAATTTAATTTATTAATAA-TAAAAATTT
1 AATAATATAATTTAATAA-AATTAAAAATTT
1058872 AATAATATAATTTAATAAAATTAAAAATTT
1 AATAATATAATTTAATAAAATTAAAAATTT
1058902 A
1 A
1058903 TAACTTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (30 bp):
AATAATATAATTTAATAAAATTAAAAATTT
Found at i:1058885 original size:13 final size:14
Alignment explanation
Indices: 1058856--1058889 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
1058846 ATTTAATTTA
1058856 TTAATAATAAAAAT
1 TTAATAATAAAAAT
*
1058870 TTAATAAT-ATAAT
1 TTAATAATAAAAAT
1058883 TTAATAA
1 TTAATAA
1058890 AATTAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TTAATAATAAAAAT
Found at i:1063889 original size:271 final size:271
Alignment explanation
Indices: 1063568--1064111 Score: 1027
Period size: 271 Copynumber: 2.0 Consensus size: 271
1063558 CATCATTGTT
*
1063568 CTTTAAGGCTCCTTATGGAGTTTAACAACAAAACTGGCTGTGCATAGAAAACGAACTTGAAAAAA
1 CTTTAAGGCCCCTTATGGAGTTTAACAACAAAACTGGCTGTGCATAGAAAACGAACTTGAAAAAA
1063633 ACTATTGACAAAAGATAATGAGAATACAAGAATAGTAGCATCCTATGTTACTCAGACTCAAATGT
66 ACTATTGACAAAAGATAATGAGAATACAAGAATAGTAGCATCCTATGTTACTCAGACTCAAATGT
1063698 GAGTGTCGGACATTGATATGTGTCCAACATGGGCAAGTTCAATTTTTTCCAAGACTTCCATGCAT
131 GAGTGTCGGACATTGATATGTGTCCAACATGGGCAAGTTCAATTTTTTCCAAGACTTCCATGCAT
*
1063763 TGGGAAGGTCCTTGGA-AGATCATATCCATATACCCATTTTCGGATATGTTTCAAACACAGGTAT
196 TGGGAAGGTCCTTGGAGA-ATCATATCCATATACCCATTTTCGGATATGTTTCAAACACAGGCAT
1063827 CTAACACAAGTA
260 CTAACACAAGTA
1063839 CTTTAAGGCCCCTTATGGAGTTTAACAACAAAACTGGCTGTGCATAGAAAACGAACTTGAAAAAA
1 CTTTAAGGCCCCTTATGGAGTTTAACAACAAAACTGGCTGTGCATAGAAAACGAACTTGAAAAAA
*
1063904 ACTATTGACAAAAGATAATGAGAATACAAGAATAGTAGCATCCTATGTTACTCGGACTCAAATGT
66 ACTATTGACAAAAGATAATGAGAATACAAGAATAGTAGCATCCTATGTTACTCAGACTCAAATGT
*
1063969 GAGTGTCGGACATTGATATGTGTCCAACATGGGCAAGTTCAATTTTTTCCAAGATTTCCATGCAT
131 GAGTGTCGGACATTGATATGTGTCCAACATGGGCAAGTTCAATTTTTTCCAAGACTTCCATGCAT
*
1064034 TGGGAAGGTCCTTGGAGAATCATATCCTTATACCCATTTTCGGATATGTTTCAAACACAGGCATC
196 TGGGAAGGTCCTTGGAGAATCATATCCATATACCCATTTTCGGATATGTTTCAAACACAGGCATC
1064099 TAACACAAGTA
261 TAACACAAGTA
1064110 CT
1 CT
1064112 CCAAAAAAAA
Statistics
Matches: 267, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
271 266 1.00
272 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (271 bp):
CTTTAAGGCCCCTTATGGAGTTTAACAACAAAACTGGCTGTGCATAGAAAACGAACTTGAAAAAA
ACTATTGACAAAAGATAATGAGAATACAAGAATAGTAGCATCCTATGTTACTCAGACTCAAATGT
GAGTGTCGGACATTGATATGTGTCCAACATGGGCAAGTTCAATTTTTTCCAAGACTTCCATGCAT
TGGGAAGGTCCTTGGAGAATCATATCCATATACCCATTTTCGGATATGTTTCAAACACAGGCATC
TAACACAAGTA
Found at i:1070360 original size:18 final size:18
Alignment explanation
Indices: 1070319--1070359 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1070309 GTTATTTTTA
*
1070319 ATTTTTAAATTTTGAGTT
1 ATTTTTAAATTTAGAGTT
*
1070337 ATTTTTAAGTTTAGAGTT
1 ATTTTTAAATTTAGAGTT
1070355 -TTTTT
1 ATTTTT
1070360 TTTTAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.63
Consensus pattern (18 bp):
ATTTTTAAATTTAGAGTT
Found at i:1070913 original size:12 final size:12
Alignment explanation
Indices: 1070896--1070929 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1070886 TATTTAAAAT
1070896 AATAATTATATA
1 AATAATTATATA
* *
1070908 AATAATTCTTTA
1 AATAATTATATA
1070920 AATAATTATA
1 AATAATTATA
1070930 AATTTATTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (12 bp):
AATAATTATATA
Found at i:1071150 original size:17 final size:17
Alignment explanation
Indices: 1071128--1071179 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
1071118 ATTTAAATTG
*
1071128 AATTATTTTAAATTTTA
1 AATTATTTTTAATTTTA
1071145 AATTATTTTTAATTTTA
1 AATTATTTTTAATTTTA
*
1071162 AGTT-TTTTTAATTTTA
1 AATTATTTTTAATTTTA
1071178 AA
1 AA
1071180 GTTTTATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
16 13 0.41
17 19 0.59
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
AATTATTTTTAATTTTA
Found at i:1071730 original size:12 final size:12
Alignment explanation
Indices: 1071713--1071746 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1071703 CATTTAAAAT
1071713 AATAATTATATA
1 AATAATTATATA
* *
1071725 AATAATTCTTTA
1 AATAATTATATA
1071737 AATAATTATA
1 AATAATTATA
1071747 AATTTATTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (12 bp):
AATAATTATATA
Found at i:1071805 original size:15 final size:17
Alignment explanation
Indices: 1071768--1071804 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
1071758 AATATTTTAG
1071768 ATAAATAAAACATAAATA
1 ATAAATAAAACAT-AATA
1071786 ATAAATAAAACTATAATA
1 ATAAATAAAAC-ATAATA
1071804 A
1 A
1071805 AGGTGAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.24
Consensus pattern (17 bp):
ATAAATAAAACATAATA
Found at i:1073428 original size:21 final size:21
Alignment explanation
Indices: 1073402--1073457 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
1073392 TTTAGTATCA
1073402 TAATAATTATATTTAAAATAT
1 TAATAATTATATTTAAAATAT
* * *
1073423 TTATAA-TAAATTTTAATATAT
1 TAATAATTATA-TTTAAAATAT
1073444 TAATAATTTATATT
1 TAATAA-TTATATT
1073458 ATATAAATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
20 3 0.11
21 19 0.70
22 2 0.07
23 3 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TAATAATTATATTTAAAATAT
Found at i:1088014 original size:34 final size:34
Alignment explanation
Indices: 1087976--1088078 Score: 97
Period size: 34 Copynumber: 3.1 Consensus size: 34
1087966 ATCGACAATA
1087976 AAGGCCGAAAGAAATTGAAGAAAGGAAGGCGATG
1 AAGGCCGAAAGAAATTGAAGAAAGGAAGGCGATG
* * * * * *
1088010 AAGG-CTAAGGGAAA---AATTGAAAGTATGGCAATT
1 AAGGCCGAA-AGAAATTGAA--GAAAGGAAGGCGATG
1088043 AAGGCCGAAAGAAATTGAAGAAAGGAAGGCGATG
1 AAGGCCGAAAGAAATTGAAGAAAGGAAGGCGATG
1088077 AA
1 AA
1088079 AGCTAAGGGA
Statistics
Matches: 50, Mismatches: 12, Indels: 14
0.66 0.16 0.18
Matches are distributed among these distances:
31 2 0.04
33 22 0.44
34 24 0.48
36 2 0.04
ACGTcount: A:0.48, C:0.08, G:0.32, T:0.13
Consensus pattern (34 bp):
AAGGCCGAAAGAAATTGAAGAAAGGAAGGCGATG
Found at i:1088047 original size:33 final size:33
Alignment explanation
Indices: 1088010--1088114 Score: 90
Period size: 33 Copynumber: 3.2 Consensus size: 33
1088000 GAAGGCGATG
1088010 AAGGCTAAGGGAAAAATTGAAAGTATGGCAATT
1 AAGGCTAAGGGAAAAATTGAAAGTATGGCAATT
* * * * * *
1088043 AAGGCCGAA---AGAAATTGAAGAAAGGAAGGCGATG
1 AAGG-CTAAGGGAAAAATT---GAAAGTATGGCAATT
*
1088077 AAAGCTAAGGGAAAAATTGAAAGTATGGCAATT
1 AAGGCTAAGGGAAAAATTGAAAGTATGGCAATT
1088110 AAGGC
1 AAGGC
1088115 CGAAAAAAAA
Statistics
Matches: 51, Mismatches: 14, Indels: 14
0.65 0.18 0.18
Matches are distributed among these distances:
31 6 0.12
33 22 0.43
34 17 0.33
36 6 0.12
ACGTcount: A:0.47, C:0.08, G:0.30, T:0.16
Consensus pattern (33 bp):
AAGGCTAAGGGAAAAATTGAAAGTATGGCAATT
Found at i:1088084 original size:67 final size:67
Alignment explanation
Indices: 1087971--1088119 Score: 280
Period size: 67 Copynumber: 2.2 Consensus size: 67
1087961 AAAAAATCGA
* *
1087971 CAATAAAGGCCGAAAGAAATTGAAGAAAGGAAGGCGATGAAGGCTAAGGGAAAAATTGAAAGTAT
1 CAATTAAGGCCGAAAGAAATTGAAGAAAGGAAGGCGATGAAAGCTAAGGGAAAAATTGAAAGTAT
1088036 GG
66 GG
1088038 CAATTAAGGCCGAAAGAAATTGAAGAAAGGAAGGCGATGAAAGCTAAGGGAAAAATTGAAAGTAT
1 CAATTAAGGCCGAAAGAAATTGAAGAAAGGAAGGCGATGAAAGCTAAGGGAAAAATTGAAAGTAT
1088103 GG
66 GG
1088105 CAATTAAGGCCGAAA
1 CAATTAAGGCCGAAA
1088120 AAAAAAGAAC
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 80 1.00
ACGTcount: A:0.48, C:0.09, G:0.30, T:0.14
Consensus pattern (67 bp):
CAATTAAGGCCGAAAGAAATTGAAGAAAGGAAGGCGATGAAAGCTAAGGGAAAAATTGAAAGTAT
GG
Found at i:1088886 original size:2 final size:2
Alignment explanation
Indices: 1088875--1088909 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
1088865 ATATTTTATG
1088875 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1088910 GTAGACACAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Done.