Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008229.1 Hibiscus syriacus cultivar Beakdansim tig00110865_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3634043
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 17
Found at i:890071 original size:19 final size:19
Alignment explanation
Indices: 890047--890092 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
890037 TATTTTTTTC
890047 AAAAAAAACAAAAAAAACA
1 AAAAAAAACAAAAAAAACA
* *
890066 AAAAAAAGCCAAAAAAACA
1 AAAAAAAACAAAAAAAACA
890085 AAAAAAAA
1 AAAAAAAA
890093 AGCCAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.87, C:0.11, G:0.02, T:0.00
Consensus pattern (19 bp):
AAAAAAAACAAAAAAAACA
Found at i:890090 original size:30 final size:29
Alignment explanation
Indices: 890046--890109 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 29
890036 CTATTTTTTT
*
890046 CAAAAAAAACAAAAAAAA-CAAAAAAAAGC
1 CAAAAAAAAAAAAAAAAAGC-AAAAAAAGC
*
890075 CAAAAAAACAAAAAAAAAAGCCAAAAAAGC
1 CAAAAAAA-AAAAAAAAAAGCAAAAAAAGC
890105 CAAAA
1 CAAAA
890110 TTTCAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 8 0.26
30 22 0.71
31 1 0.03
ACGTcount: A:0.80, C:0.16, G:0.05, T:0.00
Consensus pattern (29 bp):
CAAAAAAAAAAAAAAAAAGCAAAAAAAGC
Found at i:890109 original size:21 final size:21
Alignment explanation
Indices: 890047--890102 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
890037 TATTTTTTTC
*
890047 AAAAAAAA--CAAAAAAA-AC
1 AAAAAAAAGCCAAAAAAACAA
890065 AAAAAAAAGCCAAAAAAACAA
1 AAAAAAAAGCCAAAAAAACAA
890086 AAAAAAAAGCCAAAAAA
1 AAAAAAAAGCCAAAAAA
890103 GCCAAAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 8 0.24
20 8 0.24
21 18 0.53
ACGTcount: A:0.84, C:0.12, G:0.04, T:0.00
Consensus pattern (21 bp):
AAAAAAAAGCCAAAAAAACAA
Found at i:894274 original size:50 final size:50
Alignment explanation
Indices: 894169--894275 Score: 112
Period size: 50 Copynumber: 2.1 Consensus size: 50
894159 TCACACTCCA
* * * * *
894169 ATTTGCCTTTTCATCGCGACTAGGAGGGTTGGTTAGAGTCATATTATCATG
1 ATTTTCCTTTTCATCGCGACTAGGAGGGCTCGATAGAG-CACATTATCATG
*
894220 -TTTTCCTTTTCATTGCGACTAGGAGGGCTCGATAG-G-ACATTATCCATCG
1 ATTTTCCTTTTCATCGCGACTAGGAGGGCTCGATAGAGCACATTAT-CAT-G
894269 ATTTTCC
1 ATTTTCC
894276 ACATCCATCC
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
47 6 0.13
48 3 0.06
49 2 0.04
50 36 0.77
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (50 bp):
ATTTTCCTTTTCATCGCGACTAGGAGGGCTCGATAGAGCACATTATCATG
Found at i:896515 original size:22 final size:21
Alignment explanation
Indices: 896484--896530 Score: 76
Period size: 22 Copynumber: 2.2 Consensus size: 21
896474 TTTTTTGAAA
*
896484 TTTTGGCTTTTTTTTGTGTTTT
1 TTTTGCCTTTTTTTT-TGTTTT
896506 TTTTGCCTTTTTTTTTGTTTT
1 TTTTGCCTTTTTTTTTGTTTT
896527 TTTT
1 TTTT
896531 TTGTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.00, C:0.06, G:0.13, T:0.81
Consensus pattern (21 bp):
TTTTGCCTTTTTTTTTGTTTT
Found at i:896521 original size:23 final size:21
Alignment explanation
Indices: 896491--896542 Score: 77
Period size: 23 Copynumber: 2.4 Consensus size: 21
896481 AAATTTTGGC
896491 TTTTTTTTGTGTTTTTTTTGCCT
1 TTTTTTTTGTGTTTTTTTTG--T
*
896514 TTTTTTTTGTTTTTTTTTTGT
1 TTTTTTTTGTGTTTTTTTTGT
896535 TTTTTTTT
1 TTTTTTTT
896543 AAATAGCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 9 0.32
23 19 0.68
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.87
Consensus pattern (21 bp):
TTTTTTTTGTGTTTTTTTTGT
Found at i:896542 original size:11 final size:11
Alignment explanation
Indices: 896491--896542 Score: 77
Period size: 11 Copynumber: 4.6 Consensus size: 11
896481 AAATTTTGGC
*
896491 TTTTTTTTGTG
1 TTTTTTTTGTT
*
896502 TTTTTTTTGCCT
1 TTTTTTTTG-TT
896514 TTTTTTTTGTT
1 TTTTTTTTGTT
896525 TTTTTTTTGTT
1 TTTTTTTTGTT
896536 TTTTTTT
1 TTTTTTT
896543 AAATAGCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
11 28 0.76
12 9 0.24
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.87
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:898947 original size:20 final size:21
Alignment explanation
Indices: 898909--898947 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
898899 CATCAAGGTC
898909 TTTGTTGAGGCCATGAAATCT
1 TTTGTTGAGGCCATGAAATCT
898930 TTTGTTGAGGCCAT-AAAT
1 TTTGTTGAGGCCATGAAAT
898948 TCCTACAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (21 bp):
TTTGTTGAGGCCATGAAATCT
Found at i:910066 original size:19 final size:19
Alignment explanation
Indices: 910043--910087 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
910033 TACAAGCCAA
*
910043 ATTTTTGGGTT-GCAAACCT
1 ATTTTTAGGTTAG-AAACCT
*
910062 GTTTTTAGGTTAGAAACCT
1 ATTTTTAGGTTAGAAACCT
910081 ATTTTTA
1 ATTTTTA
910088 AAGGTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 21 0.95
20 1 0.05
ACGTcount: A:0.24, C:0.11, G:0.18, T:0.47
Consensus pattern (19 bp):
ATTTTTAGGTTAGAAACCT
Found at i:910673 original size:36 final size:35
Alignment explanation
Indices: 910629--910879 Score: 159
Period size: 36 Copynumber: 7.0 Consensus size: 35
910619 ATGTTTCTAT
910629 GCATGATATACATGTGTTGGTTACTGATGATTATAA
1 GCATGATATACATGTGTT-GTTACTGATGATTATAA
* * * * *
910665 GCAGGATATACATGTGCTTGCTACTGATTATTGTGA
1 GCATGATATACATGTG-TTGTTACTGATGATTATAA
* * * * *
910701 GAATGATATACATGTACTTGTTATTG-TTATTTATAT
1 GCATGATATACATGT-GTTGTTACTGATGA-TTATAA
* * *
910737 GCATGATATACATGT-TCTTTCTAATGATGATAATATA
1 GCATGATATACATGTGT-TGT-TACTGATGATTATA-A
* * * *
910774 -CATGATGTACATGCGTT-TACTACTGATGATAATAT
1 GCATGATATACATGTGTTGT--TACTGATGATTATAA
* * * *
910809 GCATGATACACATGTGCTCGTTATTGATTATTATAA
1 GCATGATATACATGTG-TTGTTACTGATGATTATAA
* * *
910845 GCATAATATACATATATTGATTACTGATGATTATA
1 GCATGATATACATGTGTTG-TTACTGATGATTATA
910880 TGCACGATCT
Statistics
Matches: 164, Mismatches: 38, Indels: 26
0.72 0.17 0.11
Matches are distributed among these distances:
34 1 0.01
35 8 0.05
36 148 0.90
37 6 0.04
38 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (35 bp):
GCATGATATACATGTGTTGTTACTGATGATTATAA
Found at i:913938 original size:28 final size:28
Alignment explanation
Indices: 913906--913968 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
913896 ATCACATAAT
*
913906 AATCCAAGACATATGCTCATAGCGGGTC
1 AATCCAAGACATATGCTCATAGCGGATC
*
913934 AATCCAAGACATATGCTCATAGCTGATC
1 AATCCAAGACATATGCTCATAGCGGATC
913962 AATCCAA
1 AATCCAA
913969 TACACTGTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (28 bp):
AATCCAAGACATATGCTCATAGCGGATC
Found at i:917864 original size:20 final size:20
Alignment explanation
Indices: 917839--917878 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
917829 TTTTTCAAAT
917839 AAGACTAAAAGTATGATATG
1 AAGACTAAAAGTATGATATG
917859 AAGACTAAAAGTATGATATG
1 AAGACTAAAAGTATGATATG
917879 TAAACCAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.05, G:0.20, T:0.25
Consensus pattern (20 bp):
AAGACTAAAAGTATGATATG
Found at i:920478 original size:22 final size:21
Alignment explanation
Indices: 920438--920478 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
920428 CTGAAAATGT
*
920438 ATCGATACTTTTGAGATTAGC
1 ATCGATACTTTTGAAATTAGC
*
920459 ATCGATACATTTTTAAATTA
1 ATCGATAC-TTTTGAAATTA
920479 ATACCAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (21 bp):
ATCGATACTTTTGAAATTAGC
Found at i:921474 original size:101 final size:100
Alignment explanation
Indices: 921311--921665 Score: 299
Period size: 101 Copynumber: 3.5 Consensus size: 100
921301 TTTAAAACTG
* * * ** *
921311 TTTTTATTATGAAAAAATAA-ACAAATATAGGTTTGTAAGTATAACATTATAAATAATGCCTTTT
1 TTTTTATTATGAAAAAGTAAGACAAA-ACAGGTTTATAAGTATAACATTATAGGTAGTGCCTTTT
*
921375 TAAATTATCAATCATTTACGTTACATGTTTGAAACC
65 TAAATTATCAATCATTTAAGTTACATGTTTGAAACC
* * * *
921411 TTTTATATTATGAAAAAGTAATGA-AAAATAGGTTTATAAGTATAACATTGTAGGTTGTACCTTT
1 TTTT-TATTATGAAAAAGTAA-GACAAAACAGGTTTATAAGTATAACATTATAGGTAGTGCC-TT
* * *
921475 TTTAAATTCTCAATTA-TTAAGATTACATGTTTCAAACC
63 TTTAAATTATCAATCATTTAAG-TTACATGTTTGAAACC
* * * * * *
921513 GTTTTTATTACGCAACAA-TAAGACAAAACAAGTTTATTTTATA-TGTAGCATTATAGGTAGCGC
1 -TTTTTATTATG-AAAAAGTAAGACAAAACAGGTTTA---TA-AGTATAACATTATAGGTAGTGC
* * * * *
921576 CTTTTTAAATTGTCGATCGTTTATGTTATATGTTTGAAACC
60 CTTTTTAAATTATCAATCATTTAAGTTACATGTTTGAAACC
* * *
921617 TTTTATATTAT-ACGAAAGTAAGACAAAACATGTTTATAAGTCTAACATT
1 TTTT-TATTATGA-AAAAGTAAGACAAAACAGGTTTATAAGTATAACATT
921666 GCAGGTTGCG
Statistics
Matches: 203, Mismatches: 35, Indels: 33
0.75 0.13 0.12
Matches are distributed among these distances:
100 5 0.02
101 57 0.28
102 54 0.27
103 15 0.07
104 50 0.25
105 21 0.10
106 1 0.00
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (100 bp):
TTTTTATTATGAAAAAGTAAGACAAAACAGGTTTATAAGTATAACATTATAGGTAGTGCCTTTTT
AAATTATCAATCATTTAAGTTACATGTTTGAAACC
Found at i:923750 original size:75 final size:76
Alignment explanation
Indices: 923595--923738 Score: 175
Period size: 76 Copynumber: 1.9 Consensus size: 76
923585 CCCATTTTAT
* * ** * *
923595 TATTAAAAACTATTAAGATTTCAGATTGCAACCTACTTTCTTAGTGAACCATGACATTCTTGGAC
1 TATTAAAAAATATTAAGATTACAGATCACAAACTACTTTCTTAGTGAACCATGACATTATTGGAC
* *
923660 GCAACATATTT
66 ACAACATATTG
* *
923671 TATTAAAAAATATTAATATTACATATCACAAACTA-TTTCTTAGTGAACCATGACATTATTAGG-
1 TATTAAAAAATATTAAGATTACAGATCACAAACTACTTTCTTAGTGAACCATGACATTATT-GGA
923734 CACAA
65 CACAA
923739 TCGTATGTAT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
75 28 0.48
76 30 0.52
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.35
Consensus pattern (76 bp):
TATTAAAAAATATTAAGATTACAGATCACAAACTACTTTCTTAGTGAACCATGACATTATTGGAC
ACAACATATTG
Found at i:924010 original size:78 final size:78
Alignment explanation
Indices: 923851--924011 Score: 175
Period size: 78 Copynumber: 2.1 Consensus size: 78
923841 GGTGCAATCC
* * * *
923851 ATTTTATTATTAAGAATATTAAGATTTCAGATCGCAACATGTTTTTTTAATGAACCATGACATTC
1 ATTTTATTAATAAAAATATTAACATTTCAGATCGCAACATGTTTTCTTAATGAACCATGACATTC
*
923916 TTCGGCGTAACCT
66 TTCGGCGCAACCT
* * *
923929 ATTTTATTAATAAAAATATTAACATTAT-AGATCGTAAC-T-TATTTCTTAGTGAACCATGAGAT
1 ATTTTATTAATAAAAATATTAACATT-TCAGATCGCAACATGT-TTTCTTAATGAACCATGACAT
* * *
923991 TTTTGGGCGCAGCCTT
64 TCTTCGGCGCAACC-T
924007 ATTTT
1 ATTTT
924012 TTATATATAT
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
76 1 0.01
77 29 0.42
78 38 0.55
79 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (78 bp):
ATTTTATTAATAAAAATATTAACATTTCAGATCGCAACATGTTTTCTTAATGAACCATGACATTC
TTCGGCGCAACCT
Found at i:924055 original size:264 final size:260
Alignment explanation
Indices: 923371--924140 Score: 864
Period size: 264 Copynumber: 2.9 Consensus size: 260
923361 TTCTATTCAA
* *
923371 AACCTTGATATTCTTGGGCGCAACCTATTTTA-TAAAATAAATATTAACATTCCATTACATATCG
1 AACCATGACATTCTT-GGCGCAACCTATTTTATTAAAA-AAATATTAACATT--A-T--ATATCG
* * * * *
923435 CAACCTACTTTCTTAGTGAACCATAACATTCTTGGGCGCAACCGTATTTCTTATATATATACATA
59 -AAACTA-TTTCTTAGTGAACCATGACATTATTGGGCGCAACCGTATTTATTATATATATTCATA
** * * * * * * *
923500 ACATTTTAAGCTTCTAACTTATTTTCTTATTGTGGGAAATTTCAAGGCTCCATTAGCTTAAATTC
122 ACATTTTTCGCTTTTAATTTATTTTCTTATAGTGGGAAAATTCAAGGCTCCGTCAGCTTAAACTC
* *
923565 TGATAATATTTTAGGCTCAACCCATTTTATTATTAAAAACTATTAAGATTTCAGATTGCAACCTA
187 TGATAATATTTTAGG-TCAACCCATTTTATTATTAAAAA-TATTAAGATTTCAGATCGCAACATA
*
923630 CTTTCTTAGTG
250 CTTTCTTAATG
* * * *
923641 AACCATGACATTCTTGGACGCAACATATTTTATT-AAAAAATATTAATATTACATATCACAAACT
1 AACCATGACATTCTTGG-CGCAACCTATTTTATTAAAAAAATATTAACATTATATATC-GAAACT
* * * * * *
923705 ATTTCTTAGTGAACCATGACATTATTAGGCACAATCGTATGTATTATACATATTCATAATA-TTT
64 ATTTCTTAGTGAACCATGACATTATTGGGCGCAACCGTATTTATTATATATATTCATAACATTTT
* *
923769 TCAGCTTTTAATTTATTTTCTTATCGTGGGAAAATTCAAGGCTCCGTCAGTTTAAACTCTGATAA
129 TC-GCTTTTAATTTATTTTCTTATAGTGGGAAAATTCAAGGCTCCGTCAGCTTAAACTCTGATAA
* * ** *
923834 TATTTTAGGTGCAATCCATTTTATTATTAAGAATATTAAGATTTCAGATCGCAACATGTTTTTTT
193 TATTTTAGGT-CAACCCATTTTATTATTAAAAATATTAAGATTTCAGATCGCAACATACTTTCTT
923899 AATG
257 AATG
* * *
923903 AACCATGACATTCTTCGGCGTAACCTATTTTATTAATAAAAATATTAACATTATAGATCGTAACT
1 AACCATGACATTCTT-GGCGCAACCTATTTTATTAA-AAAAATATTAACATTATATATCGAAAC-
* * * * *
923968 TATTTCTTAGTGAACCATGAGATTTTTGGGCGCAGCCTTATTTTTTATATATATTCATAACATTT
63 TATTTCTTAGTGAACCATGACATTATTGGGCGCAACCGTATTTATTATATATATTCATAACATTT
* * * * * *
924033 TTCGCTTTTAATTTATTTTCTTATAGTGAGTAAATCCAAGTCT-CGATCAACTTAATCTCTGATA
128 TTCGCTTTTAATTTATTTTCTTATAGTGGGAAAATTCAAGGCTCCG-TCAGCTTAAACTCTGATA
**
924097 ATATTTTATGCACAACCCATTTTATTATTAAAAATATTAAGATT
192 ATATTTTA-GGTCAACCCATTTTATTATTAAAAATATTAAGATT
924141 CCATATGATA
Statistics
Matches: 423, Mismatches: 65, Indels: 30
0.82 0.13 0.06
Matches are distributed among these distances:
262 63 0.15
263 141 0.33
264 168 0.40
265 6 0.01
267 1 0.00
269 14 0.03
270 29 0.07
271 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (260 bp):
AACCATGACATTCTTGGCGCAACCTATTTTATTAAAAAAATATTAACATTATATATCGAAACTAT
TTCTTAGTGAACCATGACATTATTGGGCGCAACCGTATTTATTATATATATTCATAACATTTTTC
GCTTTTAATTTATTTTCTTATAGTGGGAAAATTCAAGGCTCCGTCAGCTTAAACTCTGATAATAT
TTTAGGTCAACCCATTTTATTATTAAAAATATTAAGATTTCAGATCGCAACATACTTTCTTAATG
Found at i:925104 original size:12 final size:13
Alignment explanation
Indices: 925076--925120 Score: 65
Period size: 13 Copynumber: 3.4 Consensus size: 13
925066 GACGTTGTAG
925076 AAAATAATTTTTA
1 AAAATAATTTTTA
925089 AAAAT-ATTGTTTA
1 AAAATAATT-TTTA
925102 AAAATACATTTTTA
1 AAAATA-ATTTTTA
925116 AAAAT
1 AAAAT
925121 TAACAGTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.10
13 14 0.48
14 9 0.31
15 3 0.10
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (13 bp):
AAAATAATTTTTA
Found at i:925724 original size:13 final size:13
Alignment explanation
Indices: 925706--925796 Score: 101
Period size: 13 Copynumber: 7.0 Consensus size: 13
925696 ATCATAAATC
**
925706 TATGACGCATATT
1 TATGACGCGCATT
*
925719 TATGACACGCATT
1 TATGACGCGCATT
*
925732 TATGACGCTCATT
1 TATGACGCGCATT
*
925745 TATGACACGCATT
1 TATGACGCGCATT
* *
925758 TATGATGCTCATT
1 TATGACGCGCATT
*
925771 TATGACGTGCATT
1 TATGACGCGCATT
*
925784 TATGACGCACATT
1 TATGACGCGCATT
925797 GCGCGTCATT
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 63 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.36
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:925737 original size:26 final size:26
Alignment explanation
Indices: 925706--925796 Score: 130
Period size: 26 Copynumber: 3.5 Consensus size: 26
925696 ATCATAAATC
925706 TATGACGCAT-ATTTATGACACGCATT
1 TATGACGC-TCATTTATGACACGCATT
925732 TATGACGCTCATTTATGACACGCATT
1 TATGACGCTCATTTATGACACGCATT
* **
925758 TATGATGCTCATTTATGACGTGCATT
1 TATGACGCTCATTTATGACACGCATT
*
925784 TATGACGCACATT
1 TATGACGCTCATT
925797 GCGCGTCATT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
25 1 0.02
26 58 0.98
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.36
Consensus pattern (26 bp):
TATGACGCTCATTTATGACACGCATT
Found at i:925749 original size:39 final size:39
Alignment explanation
Indices: 925706--925796 Score: 112
Period size: 39 Copynumber: 2.3 Consensus size: 39
925696 ATCATAAATC
*
925706 TATGACGCATATTTATGACACGCATTTATGACGCT-CATT
1 TATGACGCACATTTATGACACGCATTTATGACG-TGCATT
* * ** *
925745 TATGACACGCATTTATGATGCTCATTTATGACGTGCATT
1 TATGACGCACATTTATGACACGCATTTATGACGTGCATT
925784 TATGACGCACATT
1 TATGACGCACATT
925797 GCGCGTCATT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
38 1 0.02
39 42 0.98
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.36
Consensus pattern (39 bp):
TATGACGCACATTTATGACACGCATTTATGACGTGCATT
Found at i:925943 original size:85 final size:85
Alignment explanation
Indices: 925768--925933 Score: 208
Period size: 85 Copynumber: 2.0 Consensus size: 85
925758 TATGATGCTC
** * *
925768 ATTTATGACGTGCATTTATGACGCACATTGCGCGTCATTGAAGCCCCCGTCATAAATGAAGATAA
1 ATTTATGACACGCATTTATGACGCACATTGCACGTCATTGAAGCCCCCGTCATAAACGAAGATAA
*
925833 CACACATTTGTGTGTCATAA
66 CACACATTCGTGTGTCATAA
* ** * * *
925853 ATTTATGACACGCATTTATTACTTACATTGCATGTCGTTGAAGCTCCCC-TCATAAACGAAGATG
1 ATTTATGACACGCATTTATGACGCACATTGCACGTCATTGAAGC-CCCCGTCATAAACGAAGATA
*
925917 ACATACATTCGTGTGTC
65 ACACACATTCGTGTGTC
925934 GTGATTTTAT
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
85 64 0.94
86 4 0.06
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (85 bp):
ATTTATGACACGCATTTATGACGCACATTGCACGTCATTGAAGCCCCCGTCATAAACGAAGATAA
CACACATTCGTGTGTCATAA
Found at i:925960 original size:2 final size:2
Alignment explanation
Indices: 925953--925979 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
925943 TTTCATAAAT
925953 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 T
925980 TGTAGATTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:928913 original size:29 final size:29
Alignment explanation
Indices: 928881--929054 Score: 78
Period size: 29 Copynumber: 6.2 Consensus size: 29
928871 TTTACAGATT
928881 TATCACC-CTTTCAAAA-ACATTTACAAAAA
1 TATCACCACTTTCAAAATA-A-TTACAAAAA
* *
928910 TATCACCATTTTCAAAATAATTACTAAAA
1 TATCACCACTTTCAAAATAATTACAAAAA
** ** *
928939 TATCA--TTTTTTTAAAT--TTAC-GAAA
1 TATCACCACTTTCAAAATAATTACAAAAA
* * * * **
928963 T-T-ATCATTTTTAAAAAAATTATGAAAA
1 TATCACCACTTTCAAAATAATTACAAAAA
* * * * *
928990 TAGCACTATTTTCAATATAATTACCAAAA
1 TATCACCACTTTCAAAATAATTACAAAAA
* * *
929019 TATCACCATTTTCAAAATAATTACTAAGA
1 TATCACCACTTTCAAAATAATTACAAAAA
929048 TATCACC
1 TATCACC
929055 CGGTCAATGA
Statistics
Matches: 112, Mismatches: 24, Indels: 18
0.73 0.16 0.12
Matches are distributed among these distances:
22 1 0.01
23 1 0.01
24 12 0.11
25 4 0.04
26 3 0.03
27 12 0.11
29 69 0.62
30 9 0.08
31 1 0.01
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.36
Consensus pattern (29 bp):
TATCACCACTTTCAAAATAATTACAAAAA
Found at i:929093 original size:18 final size:18
Alignment explanation
Indices: 929070--929108 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
929060 AATGATCAAC
929070 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
*
929088 GGTCAACGGGTTGGGTCG
1 GGTCAACGGGTCGGGTCG
929106 GGT
1 GGT
929109 TGGAACCGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.18, G:0.51, T:0.21
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:932720 original size:99 final size:99
Alignment explanation
Indices: 932377--932736 Score: 454
Period size: 99 Copynumber: 3.6 Consensus size: 99
932367 TGCGCTTTGG
* * * * * *
932377 TGTTATGTTAACTAGTTAAGCTATAGGCTGAAACCGTGTATTTTATGAAAAAATAATACATACCT
1 TGTTATGTTAACTAGTTAAGTTATAGGCTGAAACCGTGTATATTATGAAAAATTAAAACAAACAT
* * *
932442 GGTTTCCTAGATAACATTATAGGTTGCGCCTTGG
66 GGTTTCCTGGATAACATTATAGGTTGCACCTTGA
* *
932476 TGTTATTTTAACTAGTTATA-TTATAGGCTGAAACCGTGTATATTAAGAAAAAATTAAAACAAAC
1 TGTTATGTTAACTAGTTA-AGTTATAGGCTGAAACCGTGTATATTATG-AAAAATTAAAACAAAC
* *
932540 ATGGTTTCCTGAATAACATTATAGGTTGCACCTTGT
64 ATGGTTTCCTGGATAACATTATAGGTTGCACCTTGA
* *
932576 TGTTATGTTAAC-AGGTTAAGTTATAGGCTGAAGCCGTGTATATTATGAAAAATTAAAACAAACT
1 TGTTATGTTAACTA-GTTAAGTTATAGGCTGAAACCGTGTATATTATGAAAAATTAAAACAAACA
*
932640 TGGTTTCCTGGATAACATTATAGGTTTCACCTTGA
65 TGGTTTCCTGGATAACATTATAGGTTGCACCTTGA
* * * *** * * *
932675 AGTTATGTTAACTAGATAAGTTATAGGTTGAAATATTATACATTATGAAAAATTAATACAAA
1 TGTTATGTTAACTAGTTAAGTTATAGGCTGAAACCGTGTATATTATGAAAAATTAAAACAAA
932737 TCGTTAAGTT
Statistics
Matches: 227, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
99 141 0.62
100 86 0.38
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (99 bp):
TGTTATGTTAACTAGTTAAGTTATAGGCTGAAACCGTGTATATTATGAAAAATTAAAACAAACAT
GGTTTCCTGGATAACATTATAGGTTGCACCTTGA
Found at i:933590 original size:2 final size:2
Alignment explanation
Indices: 933585--933696 Score: 224
Period size: 2 Copynumber: 56.0 Consensus size: 2
933575 GCGCGCGCGT
933585 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
933627 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
933669 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
933697 CTGAACACTT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 110 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:935130 original size:70 final size:71
Alignment explanation
Indices: 934998--935134 Score: 231
Period size: 70 Copynumber: 1.9 Consensus size: 71
934988 GAGGTCTCCC
* *
934998 ACGAAAGTTGCTCTCAACCTGGTGTTGGGGTTAGTCTACTATCTTACCCCATTACATATGAGAAT
1 ACGAAAGCTGCTCTCAACCTGGTGTTGGGGTTAGCCTACTATCTTACCCCATTACATATGAGAAT
935063 AATGGG
66 AATGGG
* *
935069 ACGAAAGCTGTTCTCAACCTGGTGTTGGGG-TAGCCTACTATCTTATCCCATTACATATGAGAAT
1 ACGAAAGCTGCTCTCAACCTGGTGTTGGGGTTAGCCTACTATCTTACCCCATTACATATGAGAAT
935133 AA
66 AA
935135 GGGGGATCGA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
70 34 0.55
71 28 0.45
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (71 bp):
ACGAAAGCTGCTCTCAACCTGGTGTTGGGGTTAGCCTACTATCTTACCCCATTACATATGAGAAT
AATGGG
Found at i:936490 original size:2 final size:2
Alignment explanation
Indices: 936483--936544 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
936473 TCTGAAATGA
936483 AT AT AT AT AT AT 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 AT AT AT
936525 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
936545 TAAAAGTGTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:943132 original size:20 final size:20
Alignment explanation
Indices: 943107--943176 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
943097 AGTGAACTCG
943107 GTATCGATACCACCTTATGA
1 GTATCGATACCACCTTATGA
*
943127 GTATCGATACCTTACC-TA-CA
1 GTATCGATACC--ACCTTATGA
*
943147 GTATCGATACC-CATTGCATGA
1 GTATCGATACCACCTT--ATGA
943168 GTATCGATA
1 GTATCGATA
943177 TTTCTAGCCC
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
17 1 0.02
18 1 0.02
20 24 0.59
21 12 0.29
22 3 0.07
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (20 bp):
GTATCGATACCACCTTATGA
Found at i:944499 original size:12 final size:12
Alignment explanation
Indices: 944482--944510 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
944472 TCTGGTGATA
944482 AAGCTAACCGAT
1 AAGCTAACCGAT
944494 AAGCTAACCGAT
1 AAGCTAACCGAT
944506 AAGCT
1 AAGCT
944511 TTCTCTTACG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.17
Consensus pattern (12 bp):
AAGCTAACCGAT
Found at i:946847 original size:20 final size:20
Alignment explanation
Indices: 946805--946854 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
946795 TATATAGTAT
* *
946805 AAATAATATATAGTTTTTAA
1 AAATAATATATAGTTCTCAA
* *
946825 AAATATTATATAGTTCTCGA
1 AAATAATATATAGTTCTCAA
946845 AAATACATAT
1 AAATA-ATAT
946855 GTTTTTTGGA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (20 bp):
AAATAATATATAGTTCTCAA
Found at i:946918 original size:26 final size:26
Alignment explanation
Indices: 946872--947004 Score: 84
Period size: 26 Copynumber: 5.3 Consensus size: 26
946862 GGAAATATAT
* *
946872 ATATATATATATA-TATGTTTTTAAAAT
1 ATATATA-ATATAGT-TTTTTTTAAAAC
*
946899 ATATATAATATAGTTTTTTTCTGAAA-
1 ATATATAATATAGTTTTTTT-TAAAAC
* **
946925 ATATATAATAT-G--GTTTCGAAAAC
1 ATATATAATATAGTTTTTTTTAAAAC
* **
946948 ATATTATATTATAG-TTTTTGAAAAAC
1 ATA-TATAATATAGTTTTTTTTAAAAC
*
946974 ATATATAATATAG--TTTTTGAAAAC
1 ATATATAATATAGTTTTTTTTAAAAC
946998 ATATATA
1 ATATATA
947005 TAGTTTTTTA
Statistics
Matches: 87, Mismatches: 13, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
22 3 0.03
23 6 0.07
24 23 0.26
25 11 0.13
26 32 0.37
27 12 0.14
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.45
Consensus pattern (26 bp):
ATATATAATATAGTTTTTTTTAAAAC
Found at i:946966 original size:49 final size:50
Alignment explanation
Indices: 946876--947006 Score: 126
Period size: 49 Copynumber: 2.6 Consensus size: 50
946866 ATATATATAT
* * **
946876 ATATATATATAT-GTTTTTAAAATATA-TATAATATAGTTTTTTTCTGAAA-
1 ATATATA-ATATGGTTTTGAAAACATATTATAATATAG-TTTTTTCAAAAAC
* * *
946925 ATATATAATATGGTTTCGAAAACATATTATATTATAG-TTTTTGAAAAAC
1 ATATATAATATGGTTTTGAAAACATATTATAATATAGTTTTTTCAAAAAC
*
946974 ATATATAATATAGTTTTTGAAAACATATATATA
1 ATATATAATAT-GGTTTTGAAAACATAT-TATA
947007 GTTTTTTAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
48 12 0.18
49 29 0.43
50 23 0.34
51 4 0.06
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.45
Consensus pattern (50 bp):
ATATATAATATGGTTTTGAAAACATATTATAATATAGTTTTTTCAAAAAC
Found at i:947005 original size:26 final size:25
Alignment explanation
Indices: 946872--947006 Score: 118
Period size: 25 Copynumber: 5.4 Consensus size: 25
946862 GGAAATATAT
946872 ATATATATATATATATGTTTTT--AAA
1 ATATATATA-ATATA-GTTTTTGAAAA
***
946897 ATATATATAATATAGTTTTTTTCTGAA
1 ATATATATAATATAG--TTTTTGAAAA
* *
946924 A-ATATATAATAT-GGTTTCGAAAA
1 ATATATATAATATAGTTTTTGAAAA
*
946947 CATAT-TATATTATAGTTTTTGAAAA
1 -ATATATATAATATAGTTTTTGAAAA
*
946972 ACATATATAATATAGTTTTTGAAAA
1 ATATATATAATATAGTTTTTGAAAA
946997 CATATATATA
1 -ATATATATA
947007 GTTTTTTAAA
Statistics
Matches: 89, Mismatches: 12, Indels: 17
0.75 0.10 0.14
Matches are distributed among these distances:
23 6 0.07
24 16 0.18
25 45 0.51
26 19 0.21
27 3 0.03
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (25 bp):
ATATATATAATATAGTTTTTGAAAA
Found at i:947025 original size:34 final size:34
Alignment explanation
Indices: 946987--947051 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
946977 TATAATATAG
*
946987 TTTTTGAAAACATATATATA-GTTTTTTAAAATAT
1 TTTTTGAAAACATAT-TATACGTTTTTAAAAATAT
947021 TTTTTGAAAACATATTATACGTTTTTAAAAA
1 TTTTTGAAAACATATTATACGTTTTTAAAAA
947052 GAAAAATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 4 0.14
34 25 0.86
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.48
Consensus pattern (34 bp):
TTTTTGAAAACATATTATACGTTTTTAAAAATAT
Found at i:947138 original size:9 final size:9
Alignment explanation
Indices: 947126--947173 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
947116 TTACTATTGT
*
947126 TATTATTAG
1 TATTATTAC
*
947135 TATTATTAT
1 TATTATTAC
*
947144 TATTATT-G
1 TATTATTAC
*
947152 TATCATTAC
1 TATTATTAC
947161 TATTATTAC
1 TATTATTAC
947170 TATT
1 TATT
947174 TATTTTTACT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
8 6 0.18
9 27 0.82
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.58
Consensus pattern (9 bp):
TATTATTAC
Found at i:947862 original size:18 final size:19
Alignment explanation
Indices: 947828--947864 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
947818 GATAGTAAAC
947828 CAAATAAAACTAAAATAGAG
1 CAAATAAAAC-AAAATAGAG
947848 CAAATAAAA-AAAATAGA
1 CAAATAAAACAAAATAGA
947865 ATCCATAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.70, C:0.08, G:0.08, T:0.14
Consensus pattern (19 bp):
CAAATAAAACAAAATAGAG
Found at i:961060 original size:20 final size:20
Alignment explanation
Indices: 961035--961100 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
961025 GTATAACTAA
961035 TATATAGTTTTTGAAAATAT
1 TATATAGTTTTTGAAAATAT
*
961055 TATATAATTTTTGAAAATA-
1 TATATAGTTTTTGAAAATAT
* *
961074 CATAT-GTTTTTCGAATATAT
1 TATATAGTTTTT-GAAAATAT
961094 ATATATA
1 -TATATA
961101 TATTTATTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
18 5 0.14
19 10 0.27
20 18 0.49
21 4 0.11
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.48
Consensus pattern (20 bp):
TATATAGTTTTTGAAAATAT
Found at i:961097 original size:19 final size:18
Alignment explanation
Indices: 961033--961097 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 18
961023 TAGTATAACT
961033 AATATATA-GTTTTTGAA
1 AATATATATGTTTTTGAA
*
961050 AATATTATATAATTTTTGAA
1 AATA-TATAT-GTTTTTGAA
*
961070 AATACATATGTTTTTCGAA
1 AATATATATGTTTTT-GAA
*
961089 TATATATAT
1 AATATATAT
961098 ATATATTTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 4 0.10
18 9 0.23
19 14 0.36
20 12 0.31
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.48
Consensus pattern (18 bp):
AATATATATGTTTTTGAA
Found at i:961114 original size:2 final size:2
Alignment explanation
Indices: 961109--961133 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
961099 TATATTTATT
961109 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
961134 TTTAAAAATA
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:961171 original size:25 final size:25
Alignment explanation
Indices: 961133--961240 Score: 119
Period size: 25 Copynumber: 4.3 Consensus size: 25
961123 TGTGTGTGTG
*
961133 TTTTAAAAATATATATAATATAGTT
1 TTTTAAAAACATATATAATATAGTT
*** *
961158 TTTTCTGAACATATATAATAT-GGT
1 TTTTAAAAACATATATAATATAGTT
* *
961182 TTTTGAAAACATATTATATTATAGTT
1 TTTTAAAAACATA-TATAATATAGTT
*
961208 TTTGAAAAACATATATAATATAGTT
1 TTTTAAAAACATATATAATATAGTT
*
961233 TTTGAAAA
1 TTTTAAAA
961241 TATTTTTTGA
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
24 12 0.18
25 43 0.63
26 13 0.19
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (25 bp):
TTTTAAAAACATATATAATATAGTT
Found at i:961208 original size:50 final size:50
Alignment explanation
Indices: 961133--961240 Score: 139
Period size: 50 Copynumber: 2.2 Consensus size: 50
961123 TGTGTGTGTG
**** *
961133 TTTT-AAAAATATATATAATATAGTTTTTTCTGAACATATATAATATGGT
1 TTTTGAAAAATATATATAATATAGTTTTTGAAAAACATATATAATATAGT
*
961182 TTTTGAAAACATAT-TATATTATAGTTTTTGAAAAACATATATAATATAGT
1 TTTTGAAAA-ATATATATAATATAGTTTTTGAAAAACATATATAATATAGT
961232 TTTTGAAAA
1 TTTTGAAAA
961241 TATTTTTTGA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
49 4 0.08
50 43 0.84
51 4 0.08
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (50 bp):
TTTTGAAAAATATATATAATATAGTTTTTGAAAAACATATATAATATAGT
Found at i:961345 original size:41 final size:41
Alignment explanation
Indices: 961279--961365 Score: 140
Period size: 41 Copynumber: 2.1 Consensus size: 41
961269 GAAATATTAC
* *
961279 ATATAGTATTTTTTGAAAACGTATATAATATAATTTTTGAAA
1 ATATAGTATTTTTTGAAAACATATATAATATAAATTTT-AAA
961321 ATATAGT-TTTTTTGAAAACATATATAATATAAATTTTAAA
1 ATATAGTATTTTTTGAAAACATATATAATATAAATTTTAAA
961361 ATATA
1 ATATA
961366 ATAATAATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
40 8 0.19
41 28 0.65
42 7 0.16
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.45
Consensus pattern (41 bp):
ATATAGTATTTTTTGAAAACATATATAATATAAATTTTAAA
Found at i:961382 original size:3 final size:3
Alignment explanation
Indices: 961376--961429 Score: 65
Period size: 3 Copynumber: 18.3 Consensus size: 3
961366 ATAATAATAA
* * *
961376 TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT CAT TAT TAT TAA TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
961423 TAA TAT T
1 TAT TAT T
961430 TATTTTTACT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:965384 original size:21 final size:20
Alignment explanation
Indices: 965337--965385 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
965327 GGAACAAAAA
965337 TAAAAA-TAAATTAAAAGTT
1 TAAAAATTAAATTAAAAGTT
* * *
965356 TAATAATTATATTATAAGTTT
1 TAAAAATTAAATTAAAAG-TT
965377 TAAAAATTA
1 TAAAAATTA
965386 GGTAATCAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 5 0.21
20 9 0.38
21 10 0.42
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (20 bp):
TAAAAATTAAATTAAAAGTT
Found at i:969112 original size:2 final size:2
Alignment explanation
Indices: 969105--969178 Score: 148
Period size: 2 Copynumber: 37.0 Consensus size: 2
969095 TCATTAGTTA
969105 AT AT AT AT AT AT 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 AT AT AT
969147 AT 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
969179 TGGGTAAGAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:970962 original size:18 final size:18
Alignment explanation
Indices: 970917--970963 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
970907 TTGGAGAGTC
970917 ATATTTTATAATTTTAAAT
1 ATATTTTAT-ATTTTAAAT
**
970936 -TATCATATATTTTAAAT
1 ATATTTTATATTTTAAAT
970953 ATATTTTATAT
1 ATATTTTATAT
970964 ATTGTTTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
ATATTTTATATTTTAAAT
Found at i:980772 original size:9 final size:10
Alignment explanation
Indices: 980752--980789 Score: 53
Period size: 9 Copynumber: 4.0 Consensus size: 10
980742 ATGATAGTTG
*
980752 TGTTCATATT
1 TGTTCTTATT
980762 TGTT-TTATT
1 TGTTCTTATT
980771 TGTTCTT-TT
1 TGTTCTTATT
980780 TGTTCTTATT
1 TGTTCTTATT
980790 AGTTGAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.11, C:0.08, G:0.11, T:0.71
Consensus pattern (10 bp):
TGTTCTTATT
Found at i:982816 original size:11 final size:11
Alignment explanation
Indices: 982800--982824 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
982790 AGAATGGTTA
982800 AAACAGTAAAT
1 AAACAGTAAAT
982811 AAACAGTAAAT
1 AAACAGTAAAT
982822 AAA
1 AAA
982825 ATGAAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.08, G:0.08, T:0.16
Consensus pattern (11 bp):
AAACAGTAAAT
Found at i:983342 original size:23 final size:23
Alignment explanation
Indices: 983316--983364 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
983306 ATAAAGAACC
*
983316 AAAATAAACT-TAAATATACCATT
1 AAAATAAACTCTAAACAT-CCATT
*
983339 AAAATAAAGTCTAAACATCCATT
1 AAAATAAACTCTAAACATCCATT
983362 AAA
1 AAA
983365 CCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAATAAACTCTAAACATCCATT
Found at i:986667 original size:20 final size:20
Alignment explanation
Indices: 986631--986675 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
986621 GATAAAAAGT
*
986631 AAAAGTTAAAAATGAAATAG
1 AAAAGTTAAAAATGAAAGAG
*
986651 AAAAGTTAAGGAA-GAAAGAG
1 AAAAGTTAA-AAATGAAAGAG
986671 AAAAG
1 AAAAG
986676 AAAAAGTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.64, C:0.00, G:0.22, T:0.13
Consensus pattern (20 bp):
AAAAGTTAAAAATGAAAGAG
Found at i:991217 original size:21 final size:21
Alignment explanation
Indices: 991191--991256 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
991181 AGACGAGTTA
991191 TGACTTTGAAGTAAGGCACCT
1 TGACTTTGAAGTAAGGCACCT
* * *
991212 TGACTTTAAAGTAAGGCGCAT
1 TGACTTTGAAGTAAGGCACCT
* *
991233 TGACTTTGAAGTAAAGCTCCT
1 TGACTTTGAAGTAAGGCACCT
991254 TGA
1 TGA
991257 TTCTTAATTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (21 bp):
TGACTTTGAAGTAAGGCACCT
Found at i:993570 original size:23 final size:23
Alignment explanation
Indices: 993544--993592 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
993534 ATAAAGAACC
*
993544 AAAATAAACT-TAAATATACCATT
1 AAAATAAACTCTAAACAT-CCATT
*
993567 AAAATAAAGTCTAAACATCCATT
1 AAAATAAACTCTAAACATCCATT
993590 AAA
1 AAA
993593 CCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAATAAACTCTAAACATCCATT
Found at i:996043 original size:13 final size:13
Alignment explanation
Indices: 996015--996053 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
996005 GAGAGAAAAG
996015 AAAAACAAAGAGAA
1 AAAAACAAAGA-AA
*
996029 AAGAAGCAAAGAAA
1 AA-AAACAAAGAAA
996043 AAAAACAAAGA
1 AAAAACAAAGA
996054 GCAAAGAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 8 0.36
14 6 0.27
15 8 0.36
ACGTcount: A:0.77, C:0.08, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAACAAAGAAA
Found at i:996071 original size:69 final size:70
Alignment explanation
Indices: 995963--996106 Score: 154
Period size: 69 Copynumber: 2.1 Consensus size: 70
995953 GATCAAATCA
* * * *
995963 AAGCAAAGAGAAAAAAGAAAAAATAGAGAACAAAGAAAAATAGAGAGAAAAG-AAAAACAAAG-A
1 AAGCAAAGAAAAAAAACAAAAAATAGAGAACAAAGAAAAACAAAGAGAAAAGTAAAAA-AAAGAA
996026 GAAAAG
65 GAAAAG
* *
996032 AAGCAAAGAAAAAAAACAAAGAGCAA-AGAGAA-AAA-AAAAACAAAGAGCAAAGTGAAAAAAAG
1 AAGCAAAGAAAAAAAACAAA-A--AATAGAGAACAAAGAAAAACAAAGAGAAAAGTAAAAAAAAG
*
996094 AAGACAAG
63 AAGAAAAG
996102 AAGCA
1 AAGCA
996107 CATGTAAAGA
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
69 36 0.57
70 19 0.30
71 6 0.10
72 2 0.03
ACGTcount: A:0.72, C:0.07, G:0.19, T:0.02
Consensus pattern (70 bp):
AAGCAAAGAAAAAAAACAAAAAATAGAGAACAAAGAAAAACAAAGAGAAAAGTAAAAAAAAGAAG
AAAAG
Found at i:996077 original size:17 final size:17
Alignment explanation
Indices: 995966--996078 Score: 88
Period size: 17 Copynumber: 6.4 Consensus size: 17
995956 CAAATCAAAG
995966 CAAAGAGAAAAAAGAAAA
1 CAAAGAGAAAAAA-AAAA
995984 -AATAGAGAACAAAGAAAAA
1 CAA-AGAGAA-AAA-AAAAA
* * *
996003 TAGAGAGAAAAGAAAAA
1 CAAAGAGAAAAAAAAAA
* *
996020 CAAAGAG--AAAAGAAG
1 CAAAGAGAAAAAAAAAA
*
996035 CAAAGAAAAAAAACAAAGA
1 CAAAGAGAAAAAA-AAA-A
996054 GCAAAGAGAAAAAAAAAA
1 -CAAAGAGAAAAAAAAAA
996072 CAAAGAG
1 CAAAGAG
996079 CAAAGTGAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 19
0.71 0.10 0.18
Matches are distributed among these distances:
15 11 0.15
17 23 0.31
18 11 0.15
19 16 0.21
20 14 0.19
ACGTcount: A:0.73, C:0.06, G:0.19, T:0.02
Consensus pattern (17 bp):
CAAAGAGAAAAAAAAAA
Found at i:996106 original size:26 final size:24
Alignment explanation
Indices: 996006--996092 Score: 111
Period size: 24 Copynumber: 3.5 Consensus size: 24
995996 AGAAAAATAG
* *
996006 AGAGAAAAGAAAAACAAAGAGAAA
1 AGAGAAAAAAAAAACAAAGAGCAA
996030 AGAAGCAAAGAAAAAAAACAAAGAGCAA
1 AG-AG--AA-AAAAAAAACAAAGAGCAA
996058 AGAGAAAAAAAAAACAAAGAGCAA
1 AGAGAAAAAAAAAACAAAGAGCAA
*
996082 AGTGAAAAAAA
1 AGAGAAAAAAA
996093 GAAGACAAGA
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
24 30 0.54
25 4 0.07
27 4 0.07
28 18 0.32
ACGTcount: A:0.74, C:0.07, G:0.18, T:0.01
Consensus pattern (24 bp):
AGAGAAAAAAAAAACAAAGAGCAA
Found at i:997273 original size:37 final size:35
Alignment explanation
Indices: 997230--997299 Score: 95
Period size: 37 Copynumber: 1.9 Consensus size: 35
997220 ACAAAGTGAC
* *
997230 GTCTCGCTAGAGATAATTTTTCTCAAAAACAAATTTT
1 GTCTCGCTAGAGACAATTTCTCT-AAAAA-AAATTTT
*
997267 GTCTCGCTTGAGACAATTTCTCTAAAAAAAATT
1 GTCTCGCTAGAGACAATTTCTCTAAAAAAAATT
997300 GTCTCACTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 5 0.17
36 5 0.17
37 20 0.67
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (35 bp):
GTCTCGCTAGAGACAATTTCTCTAAAAAAAATTTT
Found at i:997310 original size:33 final size:34
Alignment explanation
Indices: 997248--997314 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
997238 AGAGATAATT
*
997248 TTTCTCAAAAACAAATTTTGTCTCGCTTGAGACAA
1 TTTCTCAAAAACAAA-TTTGTCTCACTTGAGACAA
997283 TTTCTCTAAAAA-AAA-TTGTCTCACTTGAGACA
1 TTTCTC-AAAAACAAATTTGTCTCACTTGAGACA
997315 TTTTTCCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 16 0.53
35 9 0.30
36 5 0.17
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.34
Consensus pattern (34 bp):
TTTCTCAAAAACAAATTTGTCTCACTTGAGACAA
Found at i:997591 original size:36 final size:34
Alignment explanation
Indices: 997543--997729 Score: 96
Period size: 36 Copynumber: 5.6 Consensus size: 34
997533 ACAAACATCT
997543 TTGAGATCGTTTCCCTTGAAATAAATTTTGTCTCTC
1 TTGAGA-CGTTTCCCTTGAAA-AAATTTTGTCTCTC
* *
997579 TTGAGACAGTTTCTCTTG-AAACA-----TCATCT-
1 TTGAGAC-GTTTCCCTTGAAAAAATTTTGTC-TCTC
*
997608 TTGAGATCGTTTCCCTTGAAACGAATTTTGTCTCTC
1 TTGAGA-CGTTTCCCTTGAAA-AAATTTTGTCTCTC
* *
997644 TTGAGACGGTTTCTCTTG-AAACA-----TCATCT-
1 TTGAGAC-GTTTCCCTTGAAAAAATTTTGTC-TCTC
* * *
997673 TTGAGATTGTTTCCCTTGGAACATATTTTGTCTCTC
1 TTGAGA-CGTTTCCCTT-GAAAAAATTTTGTCTCTC
*
997709 TTGAGACAGTTTCTCTTGAAA
1 TTGAGAC-GTTTCCCTTGAAA
997730 CACCAATCTT
Statistics
Matches: 113, Mismatches: 15, Indels: 47
0.65 0.09 0.27
Matches are distributed among these distances:
29 33 0.29
30 10 0.09
31 4 0.04
34 3 0.03
35 15 0.13
36 48 0.42
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (34 bp):
TTGAGACGTTTCCCTTGAAAAAATTTTGTCTCTC
Found at i:997608 original size:65 final size:65
Alignment explanation
Indices: 997538--997866 Score: 425
Period size: 65 Copynumber: 5.0 Consensus size: 65
997528 ACAAAACAAA
* *
997538 CATCTTTGAGATCGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAT
1 CATCTTTGAGATCGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAC
* * *
997603 CATCTTTGAGATCGTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACGGTTTCTCTTGAAACAT
1 CATCTTTGAGATCGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAC
* * *
997668 CATCTTTGAGATTGTTTCCCTTGGAACATATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAC
1 CATCTTTGAGATCGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAC
* * *
997733 CAATCTTTGAG-TCTGTTTCCCTTGAAATGAAA-TTTGCCTCTCTTGAGATAGTTTCTCTTGAAA
1 C-ATCTTTGAGATC-GTTTCCCTTGAAA-CAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAA
997796 CAC
63 CAC
* * * **
997799 CAATCTTTGAG-TCTTTTTCCCTTGAAACAAAGTTTTGTATCTATTGAGATGGTTTCTCTT-AAA
1 C-ATCTTTGAGATC-GTTTCCCTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAA
997862 -AC
63 CAC
997864 CAT
1 CAT
997867 TATCCCTAAA
Statistics
Matches: 238, Mismatches: 21, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
64 2 0.01
65 129 0.54
66 82 0.34
67 25 0.11
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (65 bp):
CATCTTTGAGATCGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAC
Found at i:997619 original size:29 final size:29
Alignment explanation
Indices: 997579--997759 Score: 89
Period size: 29 Copynumber: 5.7 Consensus size: 29
997569 TTTGTCTCTC
*
997579 TTGAGACAGTTTCTCTTGAAACATCATCT
1 TTGAGACAGTTTCCCTTGAAACATCATCT
997608 TTGAGATC-GTTTCCCTTGAAACGAATTTTGTC-TCT
1 TTGAGA-CAGTTTCCCTTGAAAC--A-----TCATCT
* *
997643 CTTGAGACGGTTTCTCTTGAAACATCATCT
1 -TTGAGACAGTTTCCCTTGAAACATCATCT
** *
997673 TTGAGATTGTTTCCCTTGGAACAT-ATTTTGTCTCT
1 TTGAGACAGTTTCCCTTGAAACATCA-------TCT
* *
997708 CTTGAGACAGTTTCTCTTGAAACACCAATCT
1 -TTGAGACAGTTTCCCTTGAAACATC-ATCT
* *
997739 TTGAGTCTGTTTCCCTTGAAA
1 TTGAGACAGTTTCCCTTGAAA
997760 TGAAATTTGC
Statistics
Matches: 117, Mismatches: 14, Indels: 41
0.68 0.08 0.24
Matches are distributed among these distances:
28 1 0.01
29 41 0.35
30 22 0.19
31 4 0.03
34 1 0.01
35 7 0.06
36 40 0.34
38 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (29 bp):
TTGAGACAGTTTCCCTTGAAACATCATCT
Found at i:998118 original size:131 final size:133
Alignment explanation
Indices: 997868--998228 Score: 408
Period size: 131 Copynumber: 2.7 Consensus size: 133
997858 TAAAACCATT
* * * *
997868 ATCCCTAAAGATGGCCAGCCATCCTCATCGCGTAGGAACCTTATCATCCACCGACCAAACCTCCT
1 ATCCCTAAAGATGGCCA-CCTTCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGACCTCCT
* * * * *
997933 TATCACGTAGGAGCCGTGTAACCCTTAGATAACCAGCCGTCCTTATCACTTAGGAACCTTG-T-T
65 TATCACGTAGGAGCTGTGTCACCCTTAGATAACCAGACGTCCTTATCACATAGGAACCATGTTAT
997996 -ATC
130 CATC
* * * *
997999 ATCCCTAAAGATGGCCTACCTTCATCATCACATAGG-ACTCGTGTCATCTACCGACCAGACCTCC
1 ATCCCTAAAGATGGCC-ACCTTCCTCATCGCGTAGGAAC-CGTGTCATCCACCGACCAGACCTCC
* * * * * *
998063 TCATCACATAGGAGCTGTGTCACCCCTAGATAACCGGACGT-CTTCATCGCATAGGAATCATGTT
64 TTATCACGTAGGAGCTGTGTCACCCTTAGATAACCAGACGTCCTT-ATCACATAGGAACCATGTT
998127 ATCATC
128 ATCATC
*** ** *
998133 ATCCCTAAAGATAAACAGTTATCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGATCTCCT
1 ATCCCTAAAGATGGCCACCT-TCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGACCTCCT
*
998198 TATCACGTAGGAGTTGTGTCACCCTTAGATA
65 TATCACGTAGGAGCTGTGTCACCCTTAGATA
998229 GCTAGATTTC
Statistics
Matches: 189, Mismatches: 33, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
130 5 0.03
131 98 0.52
132 2 0.01
133 3 0.02
134 79 0.42
135 2 0.01
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (133 bp):
ATCCCTAAAGATGGCCACCTTCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGACCTCCTT
ATCACGTAGGAGCTGTGTCACCCTTAGATAACCAGACGTCCTTATCACATAGGAACCATGTTATC
ATC
Found at i:998244 original size:134 final size:132
Alignment explanation
Indices: 997888--998255 Score: 391
Period size: 134 Copynumber: 2.8 Consensus size: 132
997878 ATGGCCAGCC
* * * * *
997888 ATCCTCATCGCGTAGGAACCTTATCATCCACCGACCAAACCTCCTTATCACGTAGGAGCCGTGTA
1 ATCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGACCTCCTTATCACGTAGGAGCTGTGTC
* * * * * ***
997953 ACCCTTAGATAACCAGCCGTCCTTATCACTTAGGAACCTTGTTATCATCCCTAAAGATGGCCTAC
66 ACCCTTAGATAACCAGACGTCCTCATCACATAGGAATCATGTTATCATCCCTAAAGATAAACTAC
998018 CT
131 CT
* * * * * *
998020 -TCATCATCACATAGG-ACTCGTGTCATCTACCGACCAGACCTCCTCATCACATAGGAGCTGTGT
1 ATCCTCATCGCGTAGGAAC-CGTGTCATCCACCGACCAGACCTCCTTATCACGTAGGAGCTGTGT
* * * *
998083 CACCCCTAGATAACCGGACGTCTTCATCGCATAGGAATCATGTTATCATCATCCCTAAAGATAAA
65 CACCCTTAGATAACCAGACGTCCTCATCACATAGGAATCATG-T-T-ATCATCCCTAAAGATAAA
**
998148 C-AGTT
127 CTACCT
* *
998153 ATCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGATCTCCTTATCACGTAGGAGTTGTGTC
1 ATCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGACCTCCTTATCACGTAGGAGCTGTGTC
* * ** *
998218 ACCCTTAGATAGCTAGATTTCCTCATCACGTAGGAATC
66 ACCCTTAGATAACCAGACGTCCTCATCACATAGGAATC
998256 GTGCTATCTT
Statistics
Matches: 188, Mismatches: 42, Indels: 10
0.78 0.17 0.04
Matches are distributed among these distances:
130 2 0.01
131 82 0.44
132 1 0.01
133 3 0.02
134 98 0.52
135 2 0.01
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (132 bp):
ATCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGACCTCCTTATCACGTAGGAGCTGTGTC
ACCCTTAGATAACCAGACGTCCTCATCACATAGGAATCATGTTATCATCCCTAAAGATAAACTAC
CT
Found at i:998476 original size:3 final size:3
Alignment explanation
Indices: 998458--998496 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
998448 GGGCCTTAAA
* *
998458 AAT ATT AAT TAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
998497 TATTATTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:998501 original size:3 final size:3
Alignment explanation
Indices: 998495--998519 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
998485 AATAATAATA
998495 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
998520 CATATTACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1001095 original size:23 final size:24
Alignment explanation
Indices: 1001052--1001103 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
1001042 AAAAATGAAG
1001052 TTTTCAAAATAAAGTTATAATTAT
1 TTTTCAAAATAAAGTTATAATTAT
* *
1001076 TTTTTAAAATAATA-TT-TAATTGT
1 TTTTCAAAATAA-AGTTATAATTAT
1001099 TTTTC
1 TTTTC
1001104 TGTTACGACA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 10 0.42
24 13 0.54
25 1 0.04
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (24 bp):
TTTTCAAAATAAAGTTATAATTAT
Found at i:1005478 original size:40 final size:40
Alignment explanation
Indices: 1005423--1005506 Score: 141
Period size: 40 Copynumber: 2.1 Consensus size: 40
1005413 TTACATAGAA
1005423 TAGCCTTAATCTTCATGAGTTTACATTCATATATCACTCG
1 TAGCCTTAATCTTCATGAGTTTACATTCATATATCACTCG
** *
1005463 TAGCCTTAATCTTCATGTTTTTACATTCATATATTACTCG
1 TAGCCTTAATCTTCATGAGTTTACATTCATATATCACTCG
1005503 TAGC
1 TAGC
1005507 TGGAGGATCT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.43
Consensus pattern (40 bp):
TAGCCTTAATCTTCATGAGTTTACATTCATATATCACTCG
Found at i:1008045 original size:2 final size:2
Alignment explanation
Indices: 1008038--1008073 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1008028 CATATTTTGA
1008038 AT AT AT 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
1008074 TTAAAACGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1008054 original size:37 final size:37
Alignment explanation
Indices: 1007958--1008054 Score: 101
Period size: 37 Copynumber: 2.6 Consensus size: 37
1007948 ATAATATATA
* *
1007958 ATTTTGAAAACACATA-ATATATAGTTTTAAAAAATGG
1 ATTTTGAAAATATATATATATATAGTTTTAAAAAAT-G
* * *
1007995 TTTTTGAAAATGTATATA-ATATAGTTTTGAAAACAT-
1 ATTTTGAAAATATATATATATATAGTTTT-AAAAAATG
*
1008031 ATTTTGAATATATATATATATATA
1 ATTTTGAAAATATATATATATATA
1008055 TATATATATA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
36 15 0.31
37 27 0.55
38 7 0.14
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.42
Consensus pattern (37 bp):
ATTTTGAAAATATATATATATATAGTTTTAAAAAATG
Found at i:1008176 original size:7 final size:7
Alignment explanation
Indices: 1008142--1008214 Score: 57
Period size: 7 Copynumber: 11.0 Consensus size: 7
1008132 ATTTGTGAAA
*
1008142 ATATAAT
1 ATATATT
*
1008149 ATATGTT
1 ATATATT
1008156 ATATAGTT
1 ATATA-TT
*
1008164 -TTTATT
1 ATATATT
1008170 ATATATT
1 ATATATT
1008177 ATATA-T
1 ATATATT
1008183 AT-TATT
1 ATATATT
*
1008189 ATTTATT
1 ATATATT
*
1008196 ATTTATT
1 ATATATT
1008203 -TATATT
1 ATATATT
1008209 AT-TATT
1 ATATATT
1008215 TATTTATTCA
Statistics
Matches: 55, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
5 2 0.04
6 17 0.31
7 34 0.62
8 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (7 bp):
ATATATT
Found at i:1008185 original size:16 final size:15
Alignment explanation
Indices: 1008165--1008222 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 15
1008155 TATATAGTTT
1008165 TTATTATATATTATA
1 TTATTATATATTATA
1008180 TATATTAT-TATT-TA
1 T-TATTATATATTATA
1008194 TTATT-TAT-TTATA
1 TTATTATATATTATA
*
1008207 TTATTATTTATT-TA
1 TTATTATATATTATA
1008221 TT
1 TT
1008223 CATTTAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
12 3 0.08
13 12 0.32
14 9 0.24
15 7 0.19
16 6 0.16
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATTATATATTATA
Found at i:1008194 original size:4 final size:4
Alignment explanation
Indices: 1008164--1008228 Score: 55
Period size: 4 Copynumber: 16.0 Consensus size: 4
1008154 TTATATAGTT
*
1008164 TTTA TTATA TATTA TATA TATTA -TTA TTTA -TTA TTTA TTTA TATTA
1 TTTA TT-TA T-TTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA T-TTA
*
1008210 -TTA TTTA TTTA TTCA TTTA
1 TTTA TTTA TTTA TTTA TTTA
1008229 ATTTTAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
3 9 0.18
4 29 0.58
5 11 0.22
6 1 0.02
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:1008194 original size:23 final size:23
Alignment explanation
Indices: 1008147--1008222 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
1008137 TGAAAATATA
*
1008147 ATATATGT-TATATAGTTTTTA-TT
1 ATATAT-TATATATA-TTATTATTT
1008170 ATATATTATATATATTATTATTT
1 ATATATTATATATATTATTATTT
*
1008193 AT-TATTTATTTATATTATTATTT
1 ATATA-TTATATATATTATTATTT
*
1008216 ATTTATT
1 ATATATT
1008223 CATTTAATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
22 8 0.17
23 37 0.79
24 2 0.04
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (23 bp):
ATATATTATATATATTATTATTT
Found at i:1008217 original size:7 final size:7
Alignment explanation
Indices: 1008164--1008218 Score: 60
Period size: 7 Copynumber: 7.9 Consensus size: 7
1008154 TTATATAGTT
1008164 TTTATTA
1 TTTATTA
*
1008171 TATATTA
1 TTTATTA
*
1008178 TATA-TA
1 TTTATTA
1008184 -TTATTA
1 TTTATTA
1008190 TTTATTA
1 TTTATTA
1008197 TTTATTTA
1 TTTA-TTA
1008205 TATTATTA
1 T-TTATTA
1008213 TTTATT
1 TTTATT
1008219 TATTCATTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
5 2 0.05
6 4 0.10
7 25 0.60
8 8 0.19
9 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTATTA
Found at i:1010535 original size:11 final size:11
Alignment explanation
Indices: 1010519--1010548 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
1010509 ACTTATTTCC
1010519 TTTCATTTTTA
1 TTTCATTTTTA
1010530 TTTCATTTTTA
1 TTTCATTTTTA
1010541 TTTCATTT
1 TTTCATTT
1010549 CCATTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTCATTTTTA
Found at i:1012737 original size:38 final size:38
Alignment explanation
Indices: 1012668--1012937 Score: 200
Period size: 37 Copynumber: 7.1 Consensus size: 38
1012658 AATAATATAG
*
1012668 TATAGTTTTT-AAAA-ATATTTTTGAAAACATATAATA
1 TATAGTTTTTAAAAACAGATTTTTGAAAACATATAATA
* *
1012704 TATAGTTTTTAGAAAAC-GGTTTTTGAAAGCATATAATA
1 TATAGTTTTTA-AAAACAGATTTTTGAAAACATATAATA
* * *
1012742 TATAGTTTTTTTTTAAAAAAACTGGTTTTTGAAAATATAT-ATA
1 TATAG----TTTTT--AAAAACAGATTTTTGAAAACATATAATA
* * * *
1012785 -ATATGGTTTTGAAAACACATTTTTGAAAACGTATAATA
1 TATA-GTTTTTAAAAACAGATTTTTGAAAACATATAATA
* * * *
1012823 TCTA-TTTTTAAAAACACAATTTTGAAAACGTATAATA
1 TATAGTTTTTAAAAACAGATTTTTGAAAACATATAATA
* * *
1012860 TATAGTTTTAAAAAAC-GATTTTTGAAAACGTAT-TTAA
1 TATAGTTTTTAAAAACAGATTTTTGAAAACATATAAT-A
* * *
1012897 TATAG-TTTTGAAAACATA-TTTTGAAAAAATATATATA
1 TATAGTTTTTAAAAACAGATTTTTGAAAACATATA-ATA
1012934 TATA
1 TATA
1012938 TATATATATA
Statistics
Matches: 189, Mismatches: 27, Indels: 35
0.75 0.11 0.14
Matches are distributed among these distances:
36 31 0.16
37 78 0.41
38 41 0.22
39 6 0.03
42 8 0.04
43 9 0.05
44 16 0.08
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (38 bp):
TATAGTTTTTAAAAACAGATTTTTGAAAACATATAATA
Found at i:1012930 original size:2 final size:2
Alignment explanation
Indices: 1012925--1012951 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1012915 TTTTGAAAAA
1012925 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 A
1012952 GTTTTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1013028 original size:20 final size:24
Alignment explanation
Indices: 1012966--1013033 Score: 90
Period size: 26 Copynumber: 2.9 Consensus size: 24
1012956 TTAAAAACGA
1012966 TTTTTGAAAACATATATAATATATAG
1 TTTTTGAAAAC--ATATAATATATAG
1012992 TTTTTGAAAACATATAATATA-A-
1 TTTTTGAAAACATATAATATATAG
1013014 TTTTTG-AAA-ATATAATATAT
1 TTTTTGAAAACATATAATATAT
1013034 GTTATATAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
20 10 0.24
21 3 0.07
22 6 0.15
23 1 0.02
24 10 0.24
26 11 0.27
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (24 bp):
TTTTTGAAAACATATAATATATAG
Found at i:1013052 original size:14 final size:15
Alignment explanation
Indices: 1013035--1013099 Score: 64
Period size: 16 Copynumber: 4.3 Consensus size: 15
1013025 ATAATATATG
1013035 TTATATAATTTTTAT
1 TTATATAATTTTTAT
1013050 TATATATAATTTTTA-
1 T-TATATAATTTTTAT
1013065 TTAT-T-ATTTATTATT
1 TTATATAATTT-TTA-T
*
1013080 TTATATTATTATTTAT
1 TTATATAATT-TTTAT
1013096 TTAT
1 TTAT
1013100 TCATTTAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
12 4 0.09
13 4 0.09
14 3 0.07
15 6 0.14
16 19 0.44
17 6 0.14
18 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATATAATTTTTAT
Found at i:1013057 original size:16 final size:16
Alignment explanation
Indices: 1013036--1013068 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1013026 TAATATATGT
1013036 TATATAATTTTTATTA
1 TATATAATTTTTATTA
1013052 TATATAATTTTTATTA
1 TATATAATTTTTATTA
1013068 T
1 T
1013069 TATTTATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATAATTTTTATTA
Found at i:1013076 original size:10 final size:10
Alignment explanation
Indices: 1013042--1013115 Score: 66
Period size: 10 Copynumber: 7.4 Consensus size: 10
1013032 ATGTTATATA
1013042 ATTT-TTATT
1 ATTTATTATT
* *
1013051 ATATATAATT
1 ATTTATTATT
1013061 -TTTATTATT
1 ATTTATTATT
1013070 ATTTATTATT
1 ATTTATTATT
1013080 -TTATATTATT
1 ATT-TATTATT
1013090 ATTTATTTATT
1 ATTTA-TTATT
1013101 CATTTAATT-TT
1 -ATTT-ATTATT
1013112 ATTT
1 ATTT
1013116 TTTTCAGGTC
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
9 12 0.22
10 26 0.48
11 9 0.17
12 6 0.11
13 1 0.02
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (10 bp):
ATTTATTATT
Found at i:1013110 original size:13 final size:11
Alignment explanation
Indices: 1013061--1013115 Score: 60
Period size: 12 Copynumber: 4.9 Consensus size: 11
1013051 ATATATAATT
1013061 TTTATTA-TTA
1 TTTATTATTTA
1013071 TTTATTATTTTA
1 TTTATTA-TTTA
1013083 TATTATTATTTA
1 T-TTATTATTTA
1013095 TTTATTCATTTA
1 TTTATT-ATTTA
*
1013107 ATT-TTATTT
1 TTTATTATTT
1013116 TTTTCAGGTC
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
10 11 0.28
11 7 0.17
12 16 0.40
13 6 0.15
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTATTATTTA
Found at i:1016756 original size:25 final size:26
Alignment explanation
Indices: 1016728--1016776 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
1016718 ATTTATTTAA
*
1016728 ACTTAAAATTTAT-ATAAAAATAATT
1 ACTTAAAATTTATGAAAAAAATAATT
1016753 ACTTAAAATTTATGAAAAAAATAA
1 ACTTAAAATTTATGAAAAAAATAA
1016777 CAATTACTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (26 bp):
ACTTAAAATTTATGAAAAAAATAATT
Found at i:1017856 original size:280 final size:280
Alignment explanation
Indices: 1017352--1017897 Score: 939
Period size: 280 Copynumber: 1.9 Consensus size: 280
1017342 TGATAATTTT
1017352 AAAAAATAATTTATATTTGTATTTTTAACAGAATTAAGAAATAAATAAAACAGTAATTTATATTT
1 AAAAAATAATTTATATTTGTATTTTTAACAGAATTAAGAAATAAATAAAACAGTAATTTATATTT
1017417 TAATAAATAAAATATCTCAAAAAATGCTTGAAAGGATAACTCAATATGAATAAGCATTGTTTTGA
66 TAATAAATAAAATATCTCAAAAAATGCTTGAAAGGATAACTCAATATGAATAAGCATTGTTTTGA
* ** * * *
1017482 AAACCGGATCGGATCGATTGGTTCAACCGGAAATTGTTGTTTAATCCGATTCAATCTACACCGGT
131 AAACCGGATCGGACCGATCAGTTCAACCGGAAACTGTTGTCTAATCCGATTCAATCTACACCGAT
* * * *
1017547 TGAACCGTTATTAGTGAACCGATCGGAACCGTTGAACCGTTCAAACCAGAACAGTTGAAAACTGA
196 TGAACCGCTATTAGTGAACCGACCGGAACCGTTGAACCGTTCAAACCAGAACAGCTGAAAACCGA
1017612 AAAAAACCGGAAGAAACCAA
261 AAAAAACCGGAAGAAACCAA
*
1017632 AAAAAATAATTTATATTTGTATTTTTAACATAATTAAGAAATAAATAAAACAGTAATTTATATTT
1 AAAAAATAATTTATATTTGTATTTTTAACAGAATTAAGAAATAAATAAAACAGTAATTTATATTT
1017697 TAATAAATAAAATATCTCAAAAAATGCTTGAAAGGATAACTCAATATGAATAAGCATTGTTTTGA
66 TAATAAATAAAATATCTCAAAAAATGCTTGAAAGGATAACTCAATATGAATAAGCATTGTTTTGA
* *
1017762 AAATCGGATCGGACCGATCAGTTCAACCGGAAACTGTTGTCTAATCCGATTCAATCTATACCGAT
131 AAACCGGATCGGACCGATCAGTTCAACCGGAAACTGTTGTCTAATCCGATTCAATCTACACCGAT
* * * *
1017827 TGAACCGCTATTAGTGAACCGGCCGGAACCGTTGAACCGTTCAAACCGGAACGGCTGAAAACCGG
196 TGAACCGCTATTAGTGAACCGACCGGAACCGTTGAACCGTTCAAACCAGAACAGCTGAAAACCGA
1017892 AAAAAA
261 AAAAAA
1017898 TCAGGAAAAA
Statistics
Matches: 249, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
280 249 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (280 bp):
AAAAAATAATTTATATTTGTATTTTTAACAGAATTAAGAAATAAATAAAACAGTAATTTATATTT
TAATAAATAAAATATCTCAAAAAATGCTTGAAAGGATAACTCAATATGAATAAGCATTGTTTTGA
AAACCGGATCGGACCGATCAGTTCAACCGGAAACTGTTGTCTAATCCGATTCAATCTACACCGAT
TGAACCGCTATTAGTGAACCGACCGGAACCGTTGAACCGTTCAAACCAGAACAGCTGAAAACCGA
AAAAAACCGGAAGAAACCAA
Found at i:1021213 original size:11 final size:11
Alignment explanation
Indices: 1021146--1021226 Score: 51
Period size: 11 Copynumber: 7.1 Consensus size: 11
1021136 TTTTCTTTTC
*
1021146 TATTATTATTA
1 TATTTTTATTA
*
1021157 T-TATTTTATTT
1 TAT-TTTTATTA
**
1021168 TATTTTTACAA
1 TATTTTTATTA
1021179 TA-TTTTATTA
1 TATTTTTATTA
1021189 TATATATATATATTA
1 TAT-T-T-T-TATTA
1021204 TATTTTTATTA
1 TATTTTTATTA
1021215 T-TTTTCTATTA
1 TATTTT-TATTA
1021226 T
1 T
1021227 TTTCTTTTTG
Statistics
Matches: 55, Mismatches: 7, Indels: 16
0.71 0.09 0.21
Matches are distributed among these distances:
10 13 0.24
11 27 0.49
12 3 0.05
13 2 0.04
14 2 0.04
15 8 0.15
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (11 bp):
TATTTTTATTA
Found at i:1021245 original size:16 final size:16
Alignment explanation
Indices: 1021232--1021266 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1021222 ATTATTTTCT
1021232 TTTTGTTTCTTTTTTA
1 TTTTGTTTCTTTTTTA
**
1021248 TTTTGTTTCAGTTTTA
1 TTTTGTTTCTTTTTTA
1021264 TTT
1 TTT
1021267 AATTGTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.06, G:0.09, T:0.77
Consensus pattern (16 bp):
TTTTGTTTCTTTTTTA
Found at i:1021308 original size:15 final size:16
Alignment explanation
Indices: 1021272--1021307 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1021262 TATTTAATTG
* *
1021272 TTTTTTCCTTATTTTA
1 TTTTTACCTTATTCTA
1021288 TTTTTACCTTATTCTA
1 TTTTTACCTTATTCTA
1021304 TTTT
1 TTTT
1021308 ATTTTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTACCTTATTCTA
Found at i:1021395 original size:22 final size:22
Alignment explanation
Indices: 1021351--1021397 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
1021341 GATATTAGTC
* *
1021351 TTTTATTTTTTTTCCTTTTTTA
1 TTTTATTTTTTTTCATTTATTA
1021373 TTTTATTTTATTTT-ATTTATTA
1 TTTTATTTT-TTTTCATTTATTA
1021395 TTT
1 TTT
1021398 AGCTTTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTATTTTTTTTCATTTATTA
Found at i:1026920 original size:85 final size:85
Alignment explanation
Indices: 1026757--1027255 Score: 635
Period size: 85 Copynumber: 5.8 Consensus size: 85
1026747 TAAAGGAACT
* * * * * *
1026757 ATTTGCAGCATAGCTCAAAGCGAGAAGGGCTATCTGCCAGCAAAAGACCTTCAAGTTTGATTACA
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACA
*
1026822 TTTAGCTCAAGGGCATATCAA
65 TTCAGCTCAAGGGCATATCAA
* * *
1026843 ATTTACAGCATAGCTCAAGGCAAGAAGGGCTATATGTCAACAAAGACCTTCGAGTTCGACTACAT
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACAT
* * *
1026908 TCAGGTCAAGGGCATCTTAA
66 TCAGCTCAAGGGCATATCAA
*
1026928 ATTTACAGCATAGCACAAGGCGAGAAGGGCTATTCTGTCAACCAAA-ACCTTCGAGTTCGATTAC
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTA-TCTGTCAA-CAAAGACCTTCGAGTTCGATTAC
*
1026992 ATTCAGCTCAAAGGCATATCAA
64 ATTCAGCTCAAGGGCATATCAA
* *
1027014 ATTTACAGCATAGCTCAAGGCGAGAATGACTATCTGTCAACAAAGACCTTCGAGTTCGATTACAT
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACAT
*
1027079 TCAGCTCAAGGACATATCAA
66 TCAGCTCAAGGGCATATCAA
* * *
1027099 ATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAATACCTTCGAGTTCGATT-CTA
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTAC-A
*
1027163 TTCAGCTCAAGGGCATGTCAA
65 TTCAGCTCAAGGGCATATCAA
* * * *** * * * * *
1027184 ATTTACAACATAGCTTAAGTCGAGAAAAACTATATGTCAACAAAAAACTGTC-AGTTTGATTCCA
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCT-TCGAGTTCGATTACA
1027248 TTCAGCTC
65 TTCAGCTC
1027256 GATGACACAT
Statistics
Matches: 362, Mismatches: 45, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
84 5 0.01
85 244 0.67
86 109 0.30
87 4 0.01
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (85 bp):
ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACAT
TCAGCTCAAGGGCATATCAA
Found at i:1027054 original size:171 final size:171
Alignment explanation
Indices: 1026757--1027227 Score: 651
Period size: 171 Copynumber: 2.8 Consensus size: 171
1026747 TAAAGGAACT
* * * * * * *
1026757 ATTTGCAGCATAGCTCAAAGCGAGAAGGGCTATCTGCCAGCAAAAGACCTTCAAGTTTGATTACA
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACCAAAGACCTTCGAGTTCGATTACA
* * * *
1026822 TTTAGCTCAAGGGCATATCAAATTTACAGCATAGCTCAAGGCAAGAAGGGCTATATGTCAACAAA
66 TTCAGCTCAAGGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAAGACTATATGTCAACAAA
* * * *
1026887 GACCTTCGAGTTCGACTACATTCAGGTCAAGGGCATCTTAA
131 GACCTTCGAGTTCGACTACATTCAGCTCAAGGACATATCAA
*
1026928 ATTTACAGCATAGCACAAGGCGAGAAGGGCTATTCTGTCAACCAAA-ACCTTCGAGTTCGATTAC
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTA-TCTGTCAACCAAAGACCTTCGAGTTCGATTAC
* * *
1026992 ATTCAGCTCAAAGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAATGACTATCTGTCAACAA
65 ATTCAGCTCAAGGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAAGACTATATGTCAACAA
*
1027057 AGACCTTCGAGTTCGATTACATTCAGCTCAAGGACATATCAA
130 AGACCTTCGAGTTCGACTACATTCAGCTCAAGGACATATCAA
* * *
1027099 ATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAA-CAAATACCTTCGAGTTCGATT-CT
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACCAAAGACCTTCGAGTTCGATTAC-
* * * * *
1027162 ATTCAGCTCAAGGGCATGTCAAATTTACAACATAGCTTAAGTCGAGAAAAACTATATGTCAACAA
65 ATTCAGCTCAAGGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAAGACTATATGTCAACAA
1027227 A
130 A
1027228 AAACTGTCAG
Statistics
Matches: 267, Mismatches: 30, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
169 5 0.02
170 82 0.31
171 170 0.64
172 10 0.04
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (171 bp):
ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACCAAAGACCTTCGAGTTCGATTACA
TTCAGCTCAAGGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAAGACTATATGTCAACAAA
GACCTTCGAGTTCGACTACATTCAGCTCAAGGACATATCAA
Found at i:1029428 original size:15 final size:16
Alignment explanation
Indices: 1029408--1029437 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1029398 TTTATTATTT
1029408 TTTTCTATT-TTTTTC
1 TTTTCTATTCTTTTTC
1029423 TTTTCTATTCTTTTT
1 TTTTCTATTCTTTTT
1029438 TTATTTTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTCTATTCTTTTTC
Found at i:1029458 original size:27 final size:24
Alignment explanation
Indices: 1029402--1029459 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 24
1029392 TATATTTTTA
*
1029402 TTATTTTTTTCTATTTTTTTCTTT
1 TTATTTTTTTCTATTTTTTTCTCT
*
1029426 TCTATTCTTTTTTTATTTTGTTTCTGCT
1 T-TATT-TTTTTCTATTTT-TTTCT-CT
1029454 TTATTT
1 TTATTT
1029460 AATTCTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
24 1 0.04
25 4 0.14
26 12 0.43
27 9 0.32
28 2 0.07
ACGTcount: A:0.09, C:0.10, G:0.03, T:0.78
Consensus pattern (24 bp):
TTATTTTTTTCTATTTTTTTCTCT
Found at i:1029497 original size:40 final size:39
Alignment explanation
Indices: 1029453--1029529 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 39
1029443 TTGTTTCTGC
*
1029453 TTTATTTAATTCTTTT-TTCCTTATTTTATTTTTATCTTAT
1 TTTATTTAATTATTTTATT-CTTATTTT-TTTTTATCTTAT
* * *
1029493 TTTATTTGATTATTTTATTTTTATTTTTTTTTCTCTT
1 TTTATTTAATTATTTTATTCTTATTTTTTTTTATCTT
1029530 TTCTTGAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 9 0.28
40 21 0.66
41 2 0.06
ACGTcount: A:0.16, C:0.08, G:0.01, T:0.75
Consensus pattern (39 bp):
TTTATTTAATTATTTTATTCTTATTTTTTTTTATCTTAT
Found at i:1030476 original size:24 final size:23
Alignment explanation
Indices: 1030448--1030519 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 23
1030438 ATTTTAATTC
1030448 ATTTTGAAATTTTTTAAAATTTTA
1 ATTTT-AAATTTTTTAAAATTTTA
*
1030472 GTTTTAAAATTCTTATT-AAATTTTA
1 ATTTT-AAATT-TT-TTAAAATTTTA
*
1030497 ATTTTAATTGATTTTTAAAATTT
1 ATTTTAAAT--TTTTTAAAATTT
1030520 ATTATAGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
24 14 0.36
25 22 0.56
26 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.58
Consensus pattern (23 bp):
ATTTTAAATTTTTTAAAATTTTA
Found at i:1030501 original size:25 final size:24
Alignment explanation
Indices: 1030448--1030503 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
1030438 ATTTTAATTC
*
1030448 ATTTTGAAATTTTTTAAAATTTTA
1 ATTTTAAAATTTTTTAAAATTTTA
*
1030472 GTTTTAAAATTCTTATT-AAATTTTA
1 ATTTTAAAATT-TT-TTAAAATTTTA
1030497 ATTTTAA
1 ATTTTAA
1030504 TTGATTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 9 0.33
25 16 0.59
26 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (24 bp):
ATTTTAAAATTTTTTAAAATTTTA
Found at i:1031302 original size:18 final size:18
Alignment explanation
Indices: 1031281--1031326 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
1031271 TATAAATCCT
1031281 TAAATCCTAATAAAGTAA
1 TAAATCCTAATAAAGTAA
* *
1031299 TAAA-CTCTAATATATTAA
1 TAAATC-CTAATAAAGTAA
1031317 TAAATCCTAA
1 TAAATCCTAA
1031327 ATATCCTTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 1 0.04
18 22 0.92
19 1 0.04
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (18 bp):
TAAATCCTAATAAAGTAA
Found at i:1034263 original size:30 final size:30
Alignment explanation
Indices: 1034229--1034287 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
1034219 ATATTTTTGA
* *
1034229 GGACTAAATTGAAATATTAATTAAATTTAG
1 GGACTAAAATAAAATATTAATTAAATTTAG
* *
1034259 GGACTAAAATAAAATTTTAATTAACTTTA
1 GGACTAAAATAAAATATTAATTAAATTTA
1034288 TACCCAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.37
Consensus pattern (30 bp):
GGACTAAAATAAAATATTAATTAAATTTAG
Found at i:1035612 original size:39 final size:40
Alignment explanation
Indices: 1035551--1035757 Score: 235
Period size: 39 Copynumber: 5.3 Consensus size: 40
1035541 TATCTGACTT
* *
1035551 GTAAGTCCTTACCA-CAGACTCCTCGGCTTTATGCTCAGG
1 GTAAGTCCTTACCAGCAGGCTCCTCGGCTTTGTGCTCAGG
*
1035590 GTAAGTCCTTA-CAGCAGGCTCCTCGACTTTGTGCTCAGG
1 GTAAGTCCTTACCAGCAGGCTCCTCGGCTTTGTGCTCAGG
* * *
1035629 GTAAGTCCTTATC-GCAGGCTCATCAGCTTTGTGCTCAGG
1 GTAAGTCCTTACCAGCAGGCTCCTCGGCTTTGTGCTCAGG
* * * * * * *
1035668 GCAAGTCCTTA-CTGCATGCTCTTCTGCTCTATGCTCAGG
1 GTAAGTCCTTACCAGCAGGCTCCTCGGCTTTGTGCTCAGG
* * *
1035707 GTAAGTCCTTACCA-CAAGCTACTCTGCTTTGTGCTCAGG
1 GTAAGTCCTTACCAGCAGGCTCCTCGGCTTTGTGCTCAGG
1035746 GTAAGTCCTTAC
1 GTAAGTCCTTAC
1035758 TGCAAGTCCT
Statistics
Matches: 145, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
38 3 0.02
39 140 0.97
40 2 0.01
ACGTcount: A:0.19, C:0.29, G:0.22, T:0.30
Consensus pattern (40 bp):
GTAAGTCCTTACCAGCAGGCTCCTCGGCTTTGTGCTCAGG
Found at i:1035703 original size:78 final size:78
Alignment explanation
Indices: 1035551--1035761 Score: 264
Period size: 78 Copynumber: 2.7 Consensus size: 78
1035541 TATCTGACTT
* * * * *
1035551 GTAAGTCCTTACCACAGACTCCTCGGCTTTATGCTCAGGGTAAGTCCTTACAGCAGGCTCCTCGA
1 GTAAGTCCTTACCACAGGCTCATCAGCTTTGTGCTCAGGGTAAGTCCTTACTGCAGGCTCCTCGA
* *
1035616 CTTTGTGCTCAGG
66 CTCTATGCTCAGG
* * * * *
1035629 GTAAGTCCTTATCGCAGGCTCATCAGCTTTGTGCTCAGGGCAAGTCCTTACTGCATGCTCTTCTG
1 GTAAGTCCTTACCACAGGCTCATCAGCTTTGTGCTCAGGGTAAGTCCTTACTGCAGGCTCCTC-G
1035694 -CTCTATGCTCAGG
65 ACTCTATGCTCAGG
* *
1035707 GTAAGTCCTTACCACAAGCT-ACTCTGCTTTGTGCTCAGGGTAAGTCCTTACTGCA
1 GTAAGTCCTTACCACAGGCTCA-TCAGCTTTGTGCTCAGGGTAAGTCCTTACTGCA
1035762 AGTCCTTATG
Statistics
Matches: 114, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
77 1 0.01
78 112 0.98
79 1 0.01
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.30
Consensus pattern (78 bp):
GTAAGTCCTTACCACAGGCTCATCAGCTTTGTGCTCAGGGTAAGTCCTTACTGCAGGCTCCTCGA
CTCTATGCTCAGG
Found at i:1042502 original size:39 final size:39
Alignment explanation
Indices: 1042438--1042605 Score: 246
Period size: 39 Copynumber: 4.3 Consensus size: 39
1042428 TCTCTGACTT
* *
1042438 GTAAGTCCTTACCGCATGCTTCTCGGCTTTGTGCTCAGG
1 GTAAGTCCTTACCGCAGGCTCCTCGGCTTTGTGCTCAGG
* *
1042477 GTAAATCCTTACTGCAGGCTCCTCGGCTTTGTGCTCAGG
1 GTAAGTCCTTACCGCAGGCTCCTCGGCTTTGTGCTCAGG
* * **
1042516 GTAAGTTCTTACCACAGGCTCCTCTACTTTGTGCTCAGG
1 GTAAGTCCTTACCGCAGGCTCCTCGGCTTTGTGCTCAGG
* *
1042555 GTAAGTCCTTACCGCAGGCTCCTCTGCTTTTTGCTCAGG
1 GTAAGTCCTTACCGCAGGCTCCTCGGCTTTGTGCTCAGG
1042594 GTAAGTCCTTAC
1 GTAAGTCCTTAC
1042606 TGTAAGTCAT
Statistics
Matches: 115, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 115 1.00
ACGTcount: A:0.15, C:0.29, G:0.23, T:0.33
Consensus pattern (39 bp):
GTAAGTCCTTACCGCAGGCTCCTCGGCTTTGTGCTCAGG
Found at i:1044740 original size:13 final size:13
Alignment explanation
Indices: 1044722--1044747 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1044712 TTGAGAACCG
1044722 AAAAAAATGAGTT
1 AAAAAAATGAGTT
1044735 AAAAAAATGAGTT
1 AAAAAAATGAGTT
1044748 GGCTTGGCAA
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:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (13 bp):
AAAAAAATGAGTT
Found at i:1045575 original size:64 final size:62
Alignment explanation
Indices: 1045505--1045684 Score: 191
Period size: 64 Copynumber: 2.8 Consensus size: 62
1045495 TGGAACACTT
* * **
1045505 AGTGCATCGGTGCACTAAGTGTGCATCGATGCATCAAATGCATTCGATGTTTTGA-AAAAGCCTG
1 AGTGCATCGATGCA-T-AGTGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAA-CCCA
* *
1045569 AGTGCATCGATGCATGGTATGTGCATCGATGCATCAAATGCATTCGTTGTTTTCATTAAAACCCA
1 AGTGCATCGATGCATAG--TGTGCATCGATGCATCAAATGCATTCGATGTTTTCA-TAAAACCCA
* * * *
1045634 AGTGCATCGATGCATGGAGAGTGCATCGATGCATGAACTGCATTCTATGTT
1 AGTGCATCGATGCAT--AGTGTGCATCGATGCATCAAATGCATTCGATGTT
1045685 CAATGAATTC
Statistics
Matches: 98, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 47 0.48
65 44 0.45
66 4 0.04
67 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (62 bp):
AGTGCATCGATGCATAGTGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAACCCA
Found at i:1045676 original size:65 final size:64
Alignment explanation
Indices: 1045525--1045684 Score: 207
Period size: 65 Copynumber: 2.5 Consensus size: 64
1045515 TGCACTAAGT
* ** *
1045525 GTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAAAGCCTGAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAAAGCCCAAGTGCATCGATGCATGGTAA
*
1045589 GTGCATCGATGCATCAAATGCATTCGTTGTTTTCATTAAAA-CCCAAGTGCATCGATGCATGG-A
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA--AAAAGCCCAAGTGCATCGATGCATGGTA
1045652 GA
64 -A
* * *
1045654 GTGCATCGATGCATGAACTGCATTCTATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
1045685 CAATGAATTC
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
64 34 0.40
65 46 0.55
66 4 0.05
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAAAGCCCAAGTGCATCGATGCATGGTAA
Found at i:1045720 original size:20 final size:20
Alignment explanation
Indices: 1045695--1045732 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1045685 CAATGAATTC
1045695 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
1045715 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
1045733 CCCTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:1048430 original size:22 final size:22
Alignment explanation
Indices: 1048363--1048437 Score: 80
Period size: 21 Copynumber: 3.4 Consensus size: 22
1048353 CCCTTGTGCC
* *
1048363 TCGATGCATATTCAAGGAGTGCA
1 TCGATGCACATTCAAGGA-TGTA
* * * *
1048386 TCGGTACACCTTCATGG-TGTA
1 TCGATGCACATTCAAGGATGTA
1048407 TCGATGCACATTCAAGGATGTA
1 TCGATGCACATTCAAGGATGTA
1048429 TCGATGCAC
1 TCGATGCAC
1048438 TGTTAAGTGT
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
21 16 0.39
22 13 0.32
23 12 0.29
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (22 bp):
TCGATGCACATTCAAGGATGTA
Found at i:1048450 original size:20 final size:21
Alignment explanation
Indices: 1048363--1048456 Score: 75
Period size: 21 Copynumber: 4.4 Consensus size: 21
1048353 CCCTTGTGCC
* *
1048363 TCGATGCATATTCAAGGAGTGCA
1 TCGATGCACATTCAA-G-GTGTA
* * * *
1048386 TCGGTACACCTTCATGGTGTA
1 TCGATGCACATTCAAGGTGTA
1048407 TCGATGCACATTCAAGGATGTA
1 TCGATGCACATTCAAGG-TGTA
*
1048429 TCGATGCAC-TGTTAA-GTGTA
1 TCGATGCACAT-TCAAGGTGTA
1048449 TCGATGCA
1 TCGATGCA
1048457 TTAAGCACAA
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
20 12 0.21
21 19 0.33
22 17 0.29
23 10 0.17
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (21 bp):
TCGATGCACATTCAAGGTGTA
Found at i:1054276 original size:64 final size:62
Alignment explanation
Indices: 1054206--1054385 Score: 200
Period size: 64 Copynumber: 2.8 Consensus size: 62
1054196 TGGAACACTT
* * *
1054206 AGTGCATCGGTGCACTAAGTGTGCATCGATGCATCAAATGCATTCGATGTTTTGA-AAAAGCCTG
1 AGTGCATCGATGCA-T-AGTGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAA-CCCG
* *
1054270 AGTGCATCGATGCATGGTATGTGCATCGATGCATCAAATACATTCGATGTTTTCATTAAAACCCG
1 AGTGCATCGATGCATAG--TGTGCATCGATGCATCAAATGCATTCGATGTTTTCA-TAAAACCCG
* * * *
1054335 AGTGCATCGATGCGTGGAGAGTGCATCGATGCATGAACTGCATTCGATGTT
1 AGTGCATCGATGCAT--AGTGTGCATCGATGCATCAAATGCATTCGATGTT
1054386 CAATTAATTC
Statistics
Matches: 99, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 47 0.47
65 45 0.45
66 4 0.04
67 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (62 bp):
AGTGCATCGATGCATAGTGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAACCCG
Found at i:1054379 original size:65 final size:64
Alignment explanation
Indices: 1054226--1054385 Score: 216
Period size: 65 Copynumber: 2.5 Consensus size: 64
1054216 TGCACTAAGT
* * *
1054226 GTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAAAGCCTGAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAAAGCCCGAGTGCATCGATGCATGGTAA
* *
1054290 GTGCATCGATGCATCAAATACATTCGATGTTTTCATTAAAA-CCCGAGTGCATCGATGCGTGG-A
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA--AAAAGCCCGAGTGCATCGATGCATGGTA
1054353 GA
64 -A
* *
1054355 GTGCATCGATGCATGAACTGCATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
1054386 CAATTAATTC
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
64 34 0.40
65 47 0.55
66 4 0.05
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAAAGCCCGAGTGCATCGATGCATGGTAA
Found at i:1054421 original size:20 final size:20
Alignment explanation
Indices: 1054396--1054433 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1054386 CAATTAATTC
1054396 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
1054416 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
1054434 CCCTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:1054424 original size:65 final size:65
Alignment explanation
Indices: 1054226--1054434 Score: 191
Period size: 65 Copynumber: 3.2 Consensus size: 65
1054216 TGCACTAAGT
* * *
1054226 GTGCATCGATGCATCAAATGCATTCGATGTTT--TGAAAAAGCCTGAGTGCATCGATGCATGG-T
1 GTGCATCGATGCATCAAATACATTCGATGTTTCAT-TAAAA-CCCGAGTGCATCGATGCATGGAT
1054288 AT-
64 -TG
*
1054290 GTGCATCGATGCATCAAATACATTCGATGTTTTCATTAAAACCCGAGTGCATCGATGCGTGGA--
1 GTGCATCGATGCATCAAATACATTCGATG-TTTCATTAAAACCCGAGTGCATCGATGCATGGATT
1054353 G
65 G
* * * ** **
1054354 AGTGCATCGATGCATGAACTGCATTCGATG-TTCAATTAATTCATTG-GTGCATCGATGCATGGA
1 -GTGCATCGATGCATCAAATACATTCGATGTTTC-ATTAAAAC-CCGAGTGCATCGATGCATGGA
1054417 TTG
63 TTG
*
1054420 GTGCATCGGTGCATC
1 GTGCATCGATGCATC
1054435 CCTTTGAAAA
Statistics
Matches: 121, Mismatches: 14, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
63 3 0.02
64 50 0.41
65 62 0.51
66 5 0.04
67 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATACATTCGATGTTTCATTAAAACCCGAGTGCATCGATGCATGGATTG
Found at i:1063590 original size:22 final size:22
Alignment explanation
Indices: 1063560--1063614 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
1063550 TCAGGAGTTA
* *
1063560 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
1063582 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
1063604 CAGGAGTTATA
1 CAGGAGTTATA
1063615 ACAGCTGAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:1084787 original size:13 final size:13
Alignment explanation
Indices: 1084752--1084803 Score: 59
Period size: 13 Copynumber: 3.7 Consensus size: 13
1084742 TGAAGTTTTA
1084752 ATTTTCTTTCATAT
1 ATTTTCTTTCAT-T
*
1084766 ACATGTTTCTTTCTTT
1 --AT-TTTCTTTCATT
1084782 ATTTTCTTTCATT
1 ATTTTCTTTCATT
1084795 ATTTTCTTT
1 ATTTTCTTT
1084804 TCACAATGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
13 19 0.58
14 2 0.06
16 3 0.09
17 9 0.27
ACGTcount: A:0.15, C:0.15, G:0.02, T:0.67
Consensus pattern (13 bp):
ATTTTCTTTCATT
Found at i:1089892 original size:4 final size:4
Alignment explanation
Indices: 1089883--1089947 Score: 55
Period size: 4 Copynumber: 15.8 Consensus size: 4
1089873 CTTTATCTAT
*
1089883 TTTA TTTA TTTTA TCATTA -TTA TATT- TTTA TTTA -GTA TTTA TTTA
1 TTTA TTTA -TTTA T--TTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA
1089928 TTTA TTTTA TTTA TTTA TTT
1 TTTA -TTTA TTTA TTTA TTT
1089948 TCATTAATTA
Statistics
Matches: 51, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
3 7 0.14
4 31 0.61
5 10 0.20
6 3 0.06
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:1092472 original size:13 final size:13
Alignment explanation
Indices: 1092456--1092488 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
1092446 CATCTCCATC
*
1092456 TTTCTTTCTTTAT
1 TTTCTTTCATTAT
1092469 TTTCTTTCATTAT
1 TTTCTTTCATTAT
1092482 TTTCTTT
1 TTTCTTT
1092489 TAACAATGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCTTTCATTAT
Found at i:1094511 original size:3 final size:3
Alignment explanation
Indices: 1094503--1094531 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1094493 TCAATATATA
1094503 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1094532 AACAGACCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:1106984 original size:3 final size:3
Alignment explanation
Indices: 1106972--1107023 Score: 70
Period size: 3 Copynumber: 17.0 Consensus size: 3
1106962 AAATTATTAT
*
1106972 TAA TAA -AA TAA TAA TAA TAA TAA TAAA TGA TAA TAA TAAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA T-AA TAA TAA
1107018 TAA TAA
1 TAA TAA
1107024 CAAGTCGGAC
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 36 0.82
4 6 0.14
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:1107006 original size:13 final size:13
Alignment explanation
Indices: 1106973--1107023 Score: 79
Period size: 13 Copynumber: 4.1 Consensus size: 13
1106963 AATTATTATT
1106973 AATAA-AATAAT-
1 AATAATAATAATA
1106984 AATAATAATAATA
1 AATAATAATAATA
*
1106997 AATGATAATAATA
1 AATAATAATAATA
1107010 AATAATAATAATA
1 AATAATAATAATA
1107023 A
1 A
1107024 CAAGTCGGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
11 5 0.14
12 6 0.17
13 25 0.69
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (13 bp):
AATAATAATAATA
Found at i:1107453 original size:13 final size:14
Alignment explanation
Indices: 1107437--1107480 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
1107427 TAAAATTGAT
1107437 TAGA-CAAATCTTG
1 TAGAGCAAATCTTG
*
1107450 TAGATCTAAATCTTG
1 TAGAGC-AAATCTTG
1107465 TA-AGCAAATCTTG
1 TAGAGCAAATCTTG
1107478 TAG
1 TAG
1107481 TTCTAAGTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 14 0.52
14 3 0.11
15 10 0.37
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (14 bp):
TAGAGCAAATCTTG
Done.