Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007985.1 Hibiscus syriacus cultivar Beakdansim tig00110430_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: 2235968
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 9
Found at i:1094622 original size:21 final size:21
Alignment explanation
Indices: 1094592--1094674 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
1094582 ATTTTCATAT
*
1094592 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
1094613 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
1094634 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
1094655 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
1094675 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:1094665 original size:42 final size:43
Alignment explanation
Indices: 1094572--1094670 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
1094562 ATTTATGTGT
* *
1094572 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
1094613 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
1094655 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
1094671 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:1095011 original size:107 final size:108
Alignment explanation
Indices: 1094811--1095272 Score: 507
Period size: 107 Copynumber: 4.3 Consensus size: 108
1094801 CGATTTTCTC
* * * * *
1094811 ATAATATTAATAAC--AA-AA-TAACTAACACATTTTGTTATTGTGAGATTTCTAA-GCCCCATC
1 ATAATATTAATAACAAAATAAGTAATTAACATATTTTGTTATCGTAAGATTTCTAAGGCTCCATC
* * *
1094871 AGCTTAAATTTTGGTAACATTTTAAGTGATATCTAATATATTG
66 AGCTTAAATTTTGGTAACATTTTAGGCGATATCTAATATGTTG
*
1094914 ATAATATTAATTACAAAATAAGTAATTAACATATTTTGTTATCGTAAGATTT-TCAAGGCTCCAT
1 ATAATATTAATAACAAAATAAGTAATTAACATATTTTGTTATCGTAAGATTTCT-AAGGCTCCAT
* * *
1094978 CAGCTCAAACTTTGGTAACA-TTTAGGCGGTATCTAATATGTTG
65 CAGCTTAAATTTTGGTAACATTTTAGGCGATATCTAATATGTTG
* *
1095021 ATAATATTAATAACAAAATAAGTAATTAACCTATTTTGTTATC-TCAGATTTCTAAGG-TCTCAT
1 ATAATATTAATAACAAAATAAGTAATTAACATATTTTGTTATCGTAAGATTTCTAAGGCTC-CAT
* * * *
1095084 TAGCTTAAATTTTGGTAACATTTTAGGCGCTACCTAATATGTTA
65 CAGCTTAAATTTTGGTAACATTTTAGGCGATATCTAATATGTTG
* *
1095128 ATAATATTAATAACAAAATAAGTAATTAACATATTTTGTTATCGT-TGAATTTCTAA-GATCCAA
1 ATAATATTAATAACAAAATAAGTAATTAACATATTTTGTTATCGTAAG-ATTTCTAAGGCTCC-A
* * * ** * * * * *
1095191 TCAACTTAAACTCTCATAATATATTAGAC-ACTACCTAAAATGTTG
64 TCAGCTTAAATTTTGGTAACATTTTAGGCGA-TATCTAATATGTTG
* *
1095236 ATAATATTAATAACAAAATAAGTAATTTACTTATTTT
1 ATAATATTAATAACAAAATAAGTAATTAACATATTTT
1095273 CTTACCGTTT
Statistics
Matches: 308, Mismatches: 37, Indels: 23
0.84 0.10 0.06
Matches are distributed among these distances:
103 13 0.04
105 4 0.01
106 34 0.11
107 154 0.50
108 103 0.33
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (108 bp):
ATAATATTAATAACAAAATAAGTAATTAACATATTTTGTTATCGTAAGATTTCTAAGGCTCCATC
AGCTTAAATTTTGGTAACATTTTAGGCGATATCTAATATGTTG
Found at i:1098045 original size:34 final size:34
Alignment explanation
Indices: 1098007--1098077 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
1097997 AACTAATATC
*
1098007 TAACATGAATTACGATTAAAATTGAAGATACAAT
1 TAACATGAATTACGATTAAAATTGAAGATAAAAT
* *
1098041 TAACATGAGTTATGATTAAAATTGAAGATAAAAT
1 TAACATGAATTACGATTAAAATTGAAGATAAAAT
1098075 TAA
1 TAA
1098078 AATTATTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.51, C:0.06, G:0.13, T:0.31
Consensus pattern (34 bp):
TAACATGAATTACGATTAAAATTGAAGATAAAAT
Found at i:1098078 original size:18 final size:18
Alignment explanation
Indices: 1098021--1098081 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 18
1098011 ATGAATTACG
*
1098021 ATTAAAATTGAAGATACA
1 ATTAAAATTGAAGATAAA
* * **
1098039 ATTAACA-TG-AGTTATG
1 ATTAAAATTGAAGATAAA
1098055 ATTAAAATTGAAGATAAA
1 ATTAAAATTGAAGATAAA
1098073 ATTAAAATT
1 ATTAAAATT
1098082 ATTTTCTCAC
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
16 10 0.30
17 4 0.12
18 19 0.58
ACGTcount: A:0.52, C:0.03, G:0.11, T:0.33
Consensus pattern (18 bp):
ATTAAAATTGAAGATAAA
Found at i:1098157 original size:78 final size:78
Alignment explanation
Indices: 1098023--1098178 Score: 267
Period size: 78 Copynumber: 2.0 Consensus size: 78
1098013 GAATTACGAT
* *
1098023 TAAAATTGAAGATACAATTAACATGAGTTATGATTAAAATTGAAGATAAAATTAAAATTATTTTC
1 TAAAATTGAAGATAAAATTAACATGAGTTATGATTAAAATTGAAGATAAAACTAAAATTATTTTC
1098088 TCACTTCGTTTGA
66 TCACTTCGTTTGA
* *
1098101 TAAAATTGAAGATAAAATTAACATGCGTTGTGATTAAAATTGAAGATAAAACTAAAATTATTTTC
1 TAAAATTGAAGATAAAATTAACATGAGTTATGATTAAAATTGAAGATAAAACTAAAATTATTTTC
*
1098166 TTACTTCGTTTGA
66 TCACTTCGTTTGA
1098179 ATATAAAAAT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 73 1.00
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (78 bp):
TAAAATTGAAGATAAAATTAACATGAGTTATGATTAAAATTGAAGATAAAACTAAAATTATTTTC
TCACTTCGTTTGA
Found at i:1102045 original size:21 final size:20
Alignment explanation
Indices: 1101959--1102116 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
1101949 AAATGACCAA
**
1101959 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
1101978 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
1101998 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
1102018 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
1102039 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
1102060 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
1102080 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
1102101 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1102117 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:1102145 original size:20 final size:20
Alignment explanation
Indices: 1102083--1102332 Score: 247
Period size: 20 Copynumber: 12.5 Consensus size: 20
1102073 CGATTTTCCA
* ** *
1102083 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
1102103 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
1102123 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1102143 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
1102163 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
1102183 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1102203 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1102223 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
1102243 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
1102263 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
*
1102283 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
1102303 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
1102323 AAATCACAAC
1 AAATCGCAAC
1102333 ACTGAAATTT
Statistics
Matches: 196, Mismatches: 28, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
19 2 0.01
20 192 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:1103054 original size:24 final size:24
Alignment explanation
Indices: 1103015--1103061 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1103005 AAATTTGGTC
1103015 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
1103039 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
1103062 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:1103253 original size:12 final size:12
Alignment explanation
Indices: 1103236--1103260 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1103226 ATATAATCCT
1103236 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1103248 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1103260 G
1 G
1103261 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1105424 original size:19 final size:19
Alignment explanation
Indices: 1105402--1105530 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
1105392 AAAATCGCAA
1105402 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1105421 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
1105435 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1105454 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
1105468 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
1105487 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
1105506 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
1105526 TGCGA
1 TGCGA
1105531 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:1105440 original size:33 final size:33
Alignment explanation
Indices: 1105402--1105493 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
1105392 AAAATCGCAA
1105402 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
1105435 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
1105468 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
1105494 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:1105694 original size:93 final size:93
Alignment explanation
Indices: 1105578--1106046 Score: 913
Period size: 93 Copynumber: 5.1 Consensus size: 93
1105568 ATGGATTGCA
1105578 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1105642 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1105670 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1105735 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1105763 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
1105828 TAGCAGAATTGGCGGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1105856 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1105921 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1105949 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
1106014 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1106042 TTACT
1 TTACT
1106047 AAGCAATCTA
Statistics
Matches: 373, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 4 0.01
93 369 0.99
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:1107772 original size:14 final size:14
Alignment explanation
Indices: 1107750--1107847 Score: 61
Period size: 14 Copynumber: 6.3 Consensus size: 14
1107740 TGGTTGAAAT
1107750 GAAAATCGCAACGA
1 GAAAATCGCAACGA
*
1107764 GAGAATCGCAACGCGAAA
1 GAAAATCGCAA--CG--A
*
1107782 TGACAATCGCAACGA
1 -GAAAATCGCAACGA
1107797 GAAAATCGCAACGCGAAA
1 GAAAATCGCAA--CG--A
1107815 TGAAAATCGCAACGA
1 -GAAAATCGCAACGA
** *
1107830 GAGTATCGCAACGC
1 GAAAATCGCAACGA
1107844 GAAA
1 GAAA
1107848 TGAAAATCGC
Statistics
Matches: 66, Mismatches: 8, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
14 33 0.50
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 21 0.32
ACGTcount: A:0.45, C:0.22, G:0.23, T:0.09
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:1107790 original size:33 final size:33
Alignment explanation
Indices: 1107745--1107859 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
1107735 TCTTTTGGTT
1107745 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
1107778 GAAATGACAATCGCAACGAGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
1107811 GAAATGAAAATCGCAACGAGAGTATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1107844 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
1107860 TGCGATTTTG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 77 1.00
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1107791 original size:19 final size:19
Alignment explanation
Indices: 1107767--1107864 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
1107757 GCAACGAGAG
*
1107767 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
1107786 AATCGCAA--CG--A-GAA
1 AATCGCAACGCGAAATGAA
1107800 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
1107819 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
*
1107833 TATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
1107852 AATCGCAATGCGA
1 AATCGCAACGCGA
1107865 TTTTGGTTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 19 0.30
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 32 0.51
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:1107895 original size:14 final size:14
Alignment explanation
Indices: 1107876--1107932 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
1107866 TTTGGTTTCG
1107876 CGTTGCGATTCTAT
1 CGTTGCGATTCTAT
*
1107890 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TAT
*
1107907 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTAT
1107923 CGTTGCGATT
1 CGTTGCGATT
1107933 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
16 5 0.14
17 5 0.14
19 8 0.22
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTAT
Found at i:1107908 original size:33 final size:33
Alignment explanation
Indices: 1107860--1107940 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
1107850 AAAATCGCAA
**
1107860 TGCGATTTTGGTTTCGCGTTGCGATTCTATCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTATCGT
*
1107893 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTATCGT
1107926 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
1107941 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.10, C:0.21, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTATCGT
Found at i:1107973 original size:41 final size:41
Alignment explanation
Indices: 1107916--1107993 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
1107906 TCGCGTTGCG
*
1107916 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
1107957 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1107994 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:1107978 original size:20 final size:21
Alignment explanation
Indices: 1107917--1107992 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
1107907 CGCGTTGCGA
1107917 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
1107938 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
1107958 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
1107979 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
1107993 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:1108114 original size:33 final size:33
Alignment explanation
Indices: 1108072--1108142 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1108062 AATACTAACT
*
1108072 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
1108105 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
1108138 TGAAA
1 TGAAA
1108143 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:1108376 original size:22 final size:22
Alignment explanation
Indices: 1108324--1108378 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
1108314 TGGTTGTGAG
**
1108324 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
1108346 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
1108368 GGATTTCTTCG
1 GGATTTCTTCG
1108379 TCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:1108550 original size:20 final size:20
Alignment explanation
Indices: 1108525--1108718 Score: 203
Period size: 20 Copynumber: 9.7 Consensus size: 20
1108515 CTTTAAATAT
*
1108525 CGCGTTGTGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1108545 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
1108567 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1108586 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
1108606 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
*
1108626 CGCGCTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1108646 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1108666 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
1108686 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
1108706 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1108719 TGGAAACTGA
Statistics
Matches: 144, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 125 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1108695 original size:60 final size:60
Alignment explanation
Indices: 1108527--1108698 Score: 227
Period size: 60 Copynumber: 2.9 Consensus size: 60
1108517 TTAAATATCG
* ** *
1108527 CGTTGTGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATACA
* * *** * *
1108588 CGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGCTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACA
*
1108648 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTT
1108699 TCATATTCGC
Statistics
Matches: 92, Mismatches: 19, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
60 67 0.73
61 25 0.27
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (60 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATACA
Found at i:1111248 original size:21 final size:21
Alignment explanation
Indices: 1111210--1111250 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1111200 ATTTTTCTCA
*
1111210 ATGATGACACGGTGTTACCAT
1 ATGATGACACGGTATTACCAT
1111231 ATGATGACAC-GTCATTACCA
1 ATGATGACACGGT-ATTACCA
1111251 CCGTTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (21 bp):
ATGATGACACGGTATTACCAT
Found at i:1111621 original size:21 final size:22
Alignment explanation
Indices: 1111587--1111635 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
1111577 TAAACCCTGA
*
1111587 CCTTTAAA-TCTAAACCA-TAAT
1 CCTTAAAACTCTAAA-CATTAAT
1111608 -CTTAAAACTCTAAACATTAAT
1 CCTTAAAACTCTAAACATTAAT
1111629 CCTTAAA
1 CCTTAAA
1111636 TAATATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 8 0.33
21 10 0.42
22 6 0.25
ACGTcount: A:0.45, C:0.22, G:0.00, T:0.33
Consensus pattern (22 bp):
CCTTAAAACTCTAAACATTAAT
Found at i:1124966 original size:60 final size:59
Alignment explanation
Indices: 1124846--1125044 Score: 211
Period size: 60 Copynumber: 3.3 Consensus size: 59
1124836 AGTTTGGGAA
* * * * ** **
1124846 GAAATTGAAATGTTCAAAAAGTTTGGGGACTAATTTAGAATGAATTTCGTTGTTTGAGGAT
1 GAAATTGAAATG-TCCAAAAGTTTGAGGACTAATTTAGAATGAA-ATCATAATTCAAGGAT
* *
1124907 GGAATTGAAATGTCCAAAAGTTTGAGGACAAATTTAGAATGACAATCATAATTCAAGGAT
1 GAAATTGAAATGTCCAAAAGTTTGAGGACTAATTTAGAATGA-AATCATAATTCAAGGAT
** * *
1124967 GAAATTGAAATGTTTAAAAG-TTGAAGGACTAATTTATAATGAGGATCATAATTCAAGGAT
1 GAAATTGAAATGTCCAAAAGTTTG-AGGACTAATTTAGAATGA-AATCATAATTCAAGGAT
*
1125027 GAAATTGAAATGTTCAAA
1 GAAATTGAAATGTCCAAA
1125045 GATTAATGTA
Statistics
Matches: 118, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
59 3 0.03
60 103 0.87
61 12 0.10
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (59 bp):
GAAATTGAAATGTCCAAAAGTTTGAGGACTAATTTAGAATGAAATCATAATTCAAGGAT
Found at i:1133212 original size:11 final size:11
Alignment explanation
Indices: 1133196--1133224 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
1133186 ATAGTTGGAT
1133196 TCAAAAGCTAA
1 TCAAAAGCTAA
1133207 TCAAAAGCTAA
1 TCAAAAGCTAA
1133218 TCAAAAG
1 TCAAAAG
1133225 GTCGGAGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.55, C:0.17, G:0.10, T:0.17
Consensus pattern (11 bp):
TCAAAAGCTAA
Found at i:1136095 original size:5 final size:5
Alignment explanation
Indices: 1136085--1136118 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
1136075 ATCTTCAACC
1136085 TTGTT TTGTT TTGTT TTGTT TTGTT TTGTCT TTG
1 TTGTT TTGTT TTGTT TTGTT TTGTT TTGT-T TTG
1136119 CTGTATCCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 24 0.86
6 4 0.14
ACGTcount: A:0.00, C:0.03, G:0.21, T:0.76
Consensus pattern (5 bp):
TTGTT
Found at i:1162131 original size:32 final size:31
Alignment explanation
Indices: 1162095--1162202 Score: 96
Period size: 32 Copynumber: 3.5 Consensus size: 31
1162085 GTCATACCAT
1162095 TTAAAATAATGATGTAACATGTATCACATCA
1 TTAAAATAATGATGTAACATGTATCACATCA
* * * * *
1162126 CTTAAAATGATGATGTGATATGTATCACGTTA
1 -TTAAAATAATGATGTAACATGTATCACATCA
* *
1162158 TTCAAAATAATGA--T-ATATGTATTACATCA
1 TT-AAAATAATGATGTAACATGTATCACATCA
*
1162187 TTCAAAGTAATGATGT
1 TT-AAAATAATGATGT
1162203 GATATGTGTC
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
29 24 0.38
30 1 0.02
31 3 0.05
32 35 0.56
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (31 bp):
TTAAAATAATGATGTAACATGTATCACATCA
Found at i:1162189 original size:29 final size:29
Alignment explanation
Indices: 1162113--1162200 Score: 88
Period size: 29 Copynumber: 2.9 Consensus size: 29
1162103 ATGATGTAAC
*
1162113 ATGTATCACATCACTT-AAAATGATGATGTGAT
1 ATGTATCACATCA-TTCAAAATAATGA--T-AT
* *
1162145 ATGTATCACGTTATTCAAAATAATGATAT
1 ATGTATCACATCATTCAAAATAATGATAT
* *
1162174 ATGTATTACATCATTCAAAGTAATGAT
1 ATGTATCACATCATTCAAAATAATGAT
1162201 GTGATATGTG
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
29 25 0.52
30 1 0.02
31 2 0.04
32 20 0.42
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.36
Consensus pattern (29 bp):
ATGTATCACATCATTCAAAATAATGATAT
Found at i:1163404 original size:35 final size:35
Alignment explanation
Indices: 1163331--1163405 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
1163321 CGTCACTAAC
**
1163331 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
*
1163366 AGTAAGGCCCTGAGCACACAGCCGAGGAACCTCCA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
1163401 AGTAA
1 AGTAA
1163406 TCTTCCTCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.29, G:0.28, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
Found at i:1163510 original size:24 final size:24
Alignment explanation
Indices: 1163483--1163557 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
1163473 CATAATTCAA
*
1163483 GTCAAGTATCATATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
* *
1163507 GTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAG
1163531 GTCAA-TATCAGATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
1163554 GTCA
1 GTCA
1163558 GGATCATAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAG
Found at i:1163563 original size:23 final size:23
Alignment explanation
Indices: 1163487--1163563 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
1163477 ATTCAAGTCA
*
1163487 AGTATCATATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
*
1163510 ATGTATCAGATCAGAATCCATGTC
1 A-GTATCAGATCAGAATCCAGGTC
*
1163534 AATATCAGATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
*
1163557 AGGATCA
1 AGTATCA
1163564 TAATAGAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 26 0.55
24 21 0.45
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (23 bp):
AGTATCAGATCAGAATCCAGGTC
Found at i:1163590 original size:47 final size:47
Alignment explanation
Indices: 1163466--1163579 Score: 124
Period size: 47 Copynumber: 2.4 Consensus size: 47
1163456 TATATCAAAA
* * * * *
1163466 ATCAAAACATAATTCAAGTCAAGTATCATATCAGAATCCAGGTCATGT
1 ATCAAATCAGAATCCAAGTCAA-TATCAGATCAGAATCCAGGTCATGG
* *
1163514 ATCAGATCAGAATCCATGTCAATATCAGATCAGAATCCAGGTCA-GG
1 ATCAAATCAGAATCCAAGTCAATATCAGATCAGAATCCAGGTCATGG
*
1163560 ATCATAAT-AGAATTCAAGTC
1 ATCA-AATCAGAATCCAAGTC
1163580 GGAAATCAGA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
46 15 0.27
47 23 0.42
48 17 0.31
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.25
Consensus pattern (47 bp):
ATCAAATCAGAATCCAAGTCAATATCAGATCAGAATCCAGGTCATGG
Found at i:1164733 original size:18 final size:18
Alignment explanation
Indices: 1164712--1164747 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1164702 CTTCCATCCG
*
1164712 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
1164730 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
1164748 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:1168981 original size:35 final size:35
Alignment explanation
Indices: 1168908--1168982 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
1168898 CGTCACTAAC
**
1168908 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
*
1168943 AGTAAGGCCCTGAGCACACAGCCGAGGAACCTCCA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
1168978 AGTAA
1 AGTAA
1168983 TCTTCCTCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.29, G:0.28, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
Found at i:1169087 original size:24 final size:24
Alignment explanation
Indices: 1169060--1169134 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
1169050 CATAATTCAA
*
1169060 GTCAAGTATCATATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
* *
1169084 GTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAG
1169108 GTCAA-TATCAGATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
1169131 GTCA
1 GTCA
1169135 GGATCATAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAG
Found at i:1169140 original size:23 final size:23
Alignment explanation
Indices: 1169064--1169140 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
1169054 ATTCAAGTCA
*
1169064 AGTATCATATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
*
1169087 ATGTATCAGATCAGAATCCATGTC
1 A-GTATCAGATCAGAATCCAGGTC
*
1169111 AATATCAGATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
*
1169134 AGGATCA
1 AGTATCA
1169141 TAATAGAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 26 0.55
24 21 0.45
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (23 bp):
AGTATCAGATCAGAATCCAGGTC
Found at i:1169167 original size:47 final size:47
Alignment explanation
Indices: 1169043--1169156 Score: 124
Period size: 47 Copynumber: 2.4 Consensus size: 47
1169033 TATATCAAAA
* * * * *
1169043 ATCAAAACATAATTCAAGTCAAGTATCATATCAGAATCCAGGTCATGT
1 ATCAAATCAGAATCCAAGTCAA-TATCAGATCAGAATCCAGGTCATGG
* *
1169091 ATCAGATCAGAATCCATGTCAATATCAGATCAGAATCCAGGTCA-GG
1 ATCAAATCAGAATCCAAGTCAATATCAGATCAGAATCCAGGTCATGG
*
1169137 ATCATAAT-AGAATTCAAGTC
1 ATCA-AATCAGAATCCAAGTC
1169157 GGAAATCAGA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
46 15 0.27
47 23 0.42
48 17 0.31
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.25
Consensus pattern (47 bp):
ATCAAATCAGAATCCAAGTCAATATCAGATCAGAATCCAGGTCATGG
Found at i:1170310 original size:18 final size:18
Alignment explanation
Indices: 1170289--1170324 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1170279 CTTCCATCCG
*
1170289 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
1170307 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
1170325 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:1174601 original size:18 final size:18
Alignment explanation
Indices: 1174578--1174614 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1174568 TGATATGACG
*
1174578 TATGTCATATTATCACTT
1 TATGTCACATTATCACTT
1174596 TATGTCACATTATCACTT
1 TATGTCACATTATCACTT
1174614 T
1 T
1174615 GGATAACGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.19, G:0.05, T:0.49
Consensus pattern (18 bp):
TATGTCACATTATCACTT
Found at i:1185708 original size:2 final size:2
Alignment explanation
Indices: 1185701--1185751 Score: 66
Period size: 2 Copynumber: 24.5 Consensus size: 2
1185691 TAAGCTTAGG
* *
1185701 AT AT AT AT AT AT AGG AT AT AT AGG AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
1185745 AT AT AT A
1 AT AT AT A
1185752 GGTATAATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 41 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (2 bp):
AT
Found at i:1185721 original size:9 final size:9
Alignment explanation
Indices: 1185707--1185731 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1185697 TAGGATATAT
1185707 ATATATAGG
1 ATATATAGG
1185716 ATATATAGG
1 ATATATAGG
1185725 ATATATA
1 ATATATA
1185732 TATATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (9 bp):
ATATATAGG
Found at i:1185729 original size:24 final size:23
Alignment explanation
Indices: 1185697--1185745 Score: 80
Period size: 24 Copynumber: 2.1 Consensus size: 23
1185687 CAACTAAGCT
1185697 TAGGATATATATATATAGGATATA
1 TAGGATATATATATATA-GATATA
*
1185721 TAGGATATATATATATATATATA
1 TAGGATATATATATATAGATATA
1185744 TA
1 TA
1185746 TATATAGGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (23 bp):
TAGGATATATATATATAGATATA
Found at i:1186647 original size:2 final size:2
Alignment explanation
Indices: 1186635--1186677 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
1186625 AGCCATTATG
1186635 AT AT A- 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
1186676 AT
1 AT
1186678 GTTGGAATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1187114 original size:27 final size:27
Alignment explanation
Indices: 1187084--1187148 Score: 130
Period size: 27 Copynumber: 2.4 Consensus size: 27
1187074 AATTTAGATA
1187084 TCGATAAATTATTTTATAAAGAAATAT
1 TCGATAAATTATTTTATAAAGAAATAT
1187111 TCGATAAATTATTTTATAAAGAAATAT
1 TCGATAAATTATTTTATAAAGAAATAT
1187138 TCGATAAATTA
1 TCGATAAATTA
1187149 CACTTATGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.40
Consensus pattern (27 bp):
TCGATAAATTATTTTATAAAGAAATAT
Found at i:1187669 original size:2 final size:2
Alignment explanation
Indices: 1187662--1187703 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1187652 GATTGATTTC
1187662 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
1187704 TAAACTGTAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1196373 original size:21 final size:21
Alignment explanation
Indices: 1196326--1196391 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
1196316 CATCATAGAG
* * * *
1196326 GAGAAGGAGGAGGCGGAGGCA
1 GAGAAGAAGAAGGTGGAGGCC
*
1196347 GTGAAGAAGAAGGTGGAGGCC
1 GAGAAGAAGAAGGTGGAGGCC
1196368 GAGAAGAAGAAGGCT-GAGGCC
1 GAGAAGAAGAAGG-TGGAGGCC
1196389 GAG
1 GAG
1196392 GCCAAATAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 37 0.97
22 1 0.03
ACGTcount: A:0.35, C:0.11, G:0.50, T:0.05
Consensus pattern (21 bp):
GAGAAGAAGAAGGTGGAGGCC
Found at i:1199363 original size:21 final size:21
Alignment explanation
Indices: 1199337--1199381 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1199327 GATTTCTGGG
* *
1199337 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1199358 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1199379 CAA
1 CAA
1199382 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1200464 original size:15 final size:17
Alignment explanation
Indices: 1200440--1200483 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
1200430 ATAAGCAATG
1200440 TGAC-TATAAGTATATA
1 TGACTTATAAGTATATA
*
1200456 TG-CTT-TAAGT-GATA
1 TGACTTATAAGTATATA
1200470 TGACTTATAAGTAT
1 TGACTTATAAGTAT
1200484 TTCTATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 7
0.71 0.06 0.23
Matches are distributed among these distances:
14 5 0.23
15 9 0.41
16 8 0.36
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (17 bp):
TGACTTATAAGTATATA
Found at i:1201131 original size:23 final size:22
Alignment explanation
Indices: 1201072--1201138 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
1201062 TATGGACATC
*
1201072 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
1201094 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
1201116 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTTCGGTGCA
1201139 TTTATACGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 28 0.65
23 15 0.35
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.25
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:1204242 original size:21 final size:21
Alignment explanation
Indices: 1204216--1204260 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1204206 GATTTCTGGG
* *
1204216 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1204237 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1204258 CAA
1 CAA
1204261 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1205345 original size:15 final size:17
Alignment explanation
Indices: 1205321--1205364 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
1205311 ATAAGCAATG
1205321 TGAC-TATAAGTATATA
1 TGACTTATAAGTATATA
*
1205337 TG-CTT-TAAGT-GATA
1 TGACTTATAAGTATATA
1205351 TGACTTATAAGTAT
1 TGACTTATAAGTAT
1205365 TTCTATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 7
0.71 0.06 0.23
Matches are distributed among these distances:
14 5 0.23
15 9 0.41
16 8 0.36
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (17 bp):
TGACTTATAAGTATATA
Found at i:1206014 original size:23 final size:23
Alignment explanation
Indices: 1205962--1206029 Score: 95
Period size: 22 Copynumber: 3.0 Consensus size: 23
1205952 ATCATTCTAC
* *
1205962 GGGCACTACGGTGCAATTCTAC-
1 GGGCACTTCGGTGCAATTTTACG
1205984 GGGCACTTCGGTGCAATTTTACG
1 GGGCACTTCGGTGCAATTTTACG
1206007 GGGCACTTCGGTGC-ATTTATACG
1 GGGCACTTCGGTGCAATTT-TACG
1206030 AGCTGTGGTG
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
22 24 0.57
23 18 0.43
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.28
Consensus pattern (23 bp):
GGGCACTTCGGTGCAATTTTACG
Found at i:1206024 original size:22 final size:22
Alignment explanation
Indices: 1205955--1206021 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
1205945 TATGGACATC
*
1205955 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
1205977 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
*
1205999 ATTTTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTTCGGTGCA
1206022 TTTATACGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
22 27 0.64
23 15 0.36
ACGTcount: A:0.19, C:0.25, G:0.28, T:0.27
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:1209896 original size:16 final size:17
Alignment explanation
Indices: 1209869--1209902 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
1209859 TATCGCCGAC
1209869 CGAAATTTCACTATTCA
1 CGAAATTTCACTATTCA
1209886 CGAAA-TTCACTATTCA
1 CGAAATTTCACTATTCA
1209902 C
1 C
1209903 CTGAATAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.32
Consensus pattern (17 bp):
CGAAATTTCACTATTCA
Found at i:1232006 original size:18 final size:18
Alignment explanation
Indices: 1231983--1232030 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
1231973 CGCGCCCACA
1231983 ACCCGTTGACCTGACCCG
1 ACCCGTTGACCTGACCCG
1232001 ACCCGTTGACCTGACCCG
1 ACCCGTTGACCTGACCCG
1232019 ACCCGTTGACCT
1 ACCCGTTGACCT
1232031 TTGACCGGCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.17, C:0.44, G:0.21, T:0.19
Consensus pattern (18 bp):
ACCCGTTGACCTGACCCG
Found at i:1232480 original size:22 final size:22
Alignment explanation
Indices: 1232454--1232499 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
1232444 CCAGTATTGC
1232454 ACGGAAATCGAAGTAATACTTT
1 ACGGAAATCGAAGTAATACTTT
1232476 ACGGAAATCGAAGTAATACTTT
1 ACGGAAATCGAAGTAATACTTT
1232498 AC
1 AC
1232500 TACCTCTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.26
Consensus pattern (22 bp):
ACGGAAATCGAAGTAATACTTT
Found at i:1234238 original size:22 final size:22
Alignment explanation
Indices: 1234203--1234259 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
1234193 CTCAGAGGGA
1234203 ACCGATT-CCCCCTAAGGGGGT
1 ACCGATTCCCCCCTAAGGGGGT
1234224 ACCGATTCCCCCCTAAGGGGGT
1 ACCGATTCCCCCCTAAGGGGGT
1234246 ACCGATTCCCCCCT
1 ACCGATTCCCCCCT
1234260 GAATGGTTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 7 0.20
22 28 0.80
ACGTcount: A:0.18, C:0.40, G:0.23, T:0.19
Consensus pattern (22 bp):
ACCGATTCCCCCCTAAGGGGGT
Found at i:1239761 original size:23 final size:21
Alignment explanation
Indices: 1239712--1239774 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 21
1239702 TTTTGGTGCA
* *
1239712 GAGGGAATCGATCCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
1239733 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
1239754 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
1239775 ACAGGGGAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
21 19 0.53
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.37, G:0.25, T:0.17
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:1239782 original size:21 final size:21
Alignment explanation
Indices: 1239756--1239795 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1239746 CCCCCTTTGA
*
1239756 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
1239777 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
1239796 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:1243210 original size:12 final size:12
Alignment explanation
Indices: 1243195--1243278 Score: 91
Period size: 12 Copynumber: 7.0 Consensus size: 12
1243185 GATACATTAC
1243195 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
1243207 CTGATTTCTGAT
1 CTGAATTCTGTT
*
1243219 CTGGATTCTGTT
1 CTGAATTCTGTT
*
1243231 CCG-ATATCTGTT
1 CTGAAT-TCTGTT
1243243 CTGAATTCTGTT
1 CTGAATTCTGTT
*
1243255 CCG-ATATCTGTT
1 CTGAAT-TCTGTT
1243267 CTGAATTCTGTT
1 CTGAATTCTGTT
1243279 TTGATTTTTG
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
11 4 0.07
12 51 0.86
13 4 0.07
ACGTcount: A:0.15, C:0.19, G:0.18, T:0.48
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:1243226 original size:24 final size:24
Alignment explanation
Indices: 1243195--1243278 Score: 123
Period size: 24 Copynumber: 3.5 Consensus size: 24
1243185 GATACATTAC
* *
1243195 CTGAATTCTGTTCTGATTTCTGAT
1 CTGAATTCTGTTCCGATATCTGAT
* *
1243219 CTGGATTCTGTTCCGATATCTGTT
1 CTGAATTCTGTTCCGATATCTGAT
*
1243243 CTGAATTCTGTTCCGATATCTGTT
1 CTGAATTCTGTTCCGATATCTGAT
1243267 CTGAATTCTGTT
1 CTGAATTCTGTT
1243279 TTGATTTTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 55 1.00
ACGTcount: A:0.15, C:0.19, G:0.18, T:0.48
Consensus pattern (24 bp):
CTGAATTCTGTTCCGATATCTGAT
Found at i:1243231 original size:48 final size:48
Alignment explanation
Indices: 1243172--1243283 Score: 120
Period size: 48 Copynumber: 2.3 Consensus size: 48
1243162 ATTTCCGACT
* * *
1243172 TGAATTATGTTCTGATA-CAT-TACCTGAATTCTGTTCTGATTTCTGATC
1 TGAATTCTGTTCTGATATC-TGT-CCTGAATTCTGTTCCGATATCTGATC
* * * *
1243220 TGGATTCTGTTCCGATATCTGTTCTGAATTCTGTTCCGATATCTGTTC
1 TGAATTCTGTTCTGATATCTGTCCTGAATTCTGTTCCGATATCTGATC
*
1243268 TGAATTCTGTTTTGAT
1 TGAATTCTGTTCTGAT
1243284 TTTTGATTTC
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
48 50 0.96
49 2 0.04
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (48 bp):
TGAATTCTGTTCTGATATCTGTCCTGAATTCTGTTCCGATATCTGATC
Found at i:1247121 original size:31 final size:31
Alignment explanation
Indices: 1246985--1247150 Score: 156
Period size: 31 Copynumber: 5.4 Consensus size: 31
1246975 TGATATATGT
* * *
1246985 CACATCATTACTTTAGACATATCACA-GTGT
1 CACATCATCACTTTAGACATATGACATGTGA
**
1247015 CATGTCATCACTTTAGACATATGACA-GTGA
1 CACATCATCACTTTAGACATATGACATGTGA
** * * * *
1247045 CATGTTATCACTTTGGGCATATGCCATGTGA
1 CACATCATCACTTTAGACATATGACATGTGA
* * * *
1247076 TACACCATCGCTTTAGACACATGACATGTGA
1 CACATCATCACTTTAGACATATGACATGTGA
* * *
1247107 CACATCATTACTTTAGACATGTGACATGTGC
1 CACATCATCACTTTAGACATATGACATGTGA
1247138 CACATCATCACTT
1 CACATCATCACTT
1247151 ATGTACATGT
Statistics
Matches: 108, Mismatches: 27, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
30 47 0.44
31 61 0.56
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (31 bp):
CACATCATCACTTTAGACATATGACATGTGA
Found at i:1249036 original size:44 final size:43
Alignment explanation
Indices: 1248988--1249102 Score: 131
Period size: 43 Copynumber: 2.6 Consensus size: 43
1248978 TATATGAGAC
*
1248988 GTTTGAGATACATATTGTTTATCTGATTCACACATACATAAGAA
1 GTTTGAGATAAATATTGTTTA-CTGATTCACACATACATAAGAA
* * * ** *
1249032 GTTTGAGATAAATATAGTTTACTTATTCACCCATATGTGAGAA
1 GTTTGAGATAAATATTGTTTACTGATTCACACATACATAAGAA
**
1249075 ACTTGAGATAAATATTGTTTACTTGATT
1 GTTTGAGATAAATATTGTTTAC-TGATT
1249103 TACCCACAAG
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 36 0.61
44 23 0.39
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (43 bp):
GTTTGAGATAAATATTGTTTACTGATTCACACATACATAAGAA
Found at i:1252230 original size:2 final size:2
Alignment explanation
Indices: 1252223--1252256 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1252213 GAGAAGAAGC
1252223 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1252257 GGGGGGGGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1253164 original size:22 final size:23
Alignment explanation
Indices: 1253136--1253182 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
1253126 TTGATTATTT
1253136 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
1253158 TATTATATTATTAGAAATATTAA
1 TATTATAATATTAAAAATATTAA
1253181 TA
1 TA
1253183 AATATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:1253187 original size:22 final size:22
Alignment explanation
Indices: 1253144--1253187 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1253134 TTTATTATAA
*
1253144 TATTAAAAATATAATATTATAT
1 TATTAAAAATATAATATAATAT
*
1253166 TATTAGAAATATTAATA-AATAT
1 TATTAAAAATA-TAATATAATAT
1253188 ATTTTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TATTAAAAATATAATATAATAT
Found at i:1253512 original size:42 final size:42
Alignment explanation
Indices: 1253421--1253500 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
1253411 ACCAAACACT
* * * * *
1253421 GGAAAATATTTTTCGAAAAACGAATTACGTGAAACAAACAAG
1 GGAAAACATTTTCCGAAAAACGAATTACATAAAAAAAACAAG
*
1253463 GGAAAACATTTTCCGAAAAATGAATTACATAAAAAAAA
1 GGAAAACATTTTCCGAAAAACGAATTACATAAAAAAAA
1253501 GACGGGCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.54, C:0.11, G:0.14, T:0.21
Consensus pattern (42 bp):
GGAAAACATTTTCCGAAAAACGAATTACATAAAAAAAACAAG
Found at i:1260917 original size:20 final size:20
Alignment explanation
Indices: 1260894--1260936 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1260884 TAATATTTTA
1260894 TATATCTTAATTTTTAAAAT
1 TATATCTTAATTTTTAAAAT
* * *
1260914 TATATTTTATTTTTTTAAAT
1 TATATCTTAATTTTTAAAAT
1260934 TAT
1 TAT
1260937 TTAATATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TATATCTTAATTTTTAAAAT
Found at i:1260948 original size:20 final size:21
Alignment explanation
Indices: 1260903--1260948 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
1260893 ATATATCTTA
*
1260903 ATTTTTAAAATTATATTTTAT
1 ATTTTTAAAATTATATTATAT
*
1260924 -TTTTTTAAATTAT-TTAATAT
1 ATTTTTAAAATTATATT-ATAT
1260944 ATTTT
1 ATTTT
1260949 ATTTTAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
19 2 0.10
20 15 0.71
21 4 0.19
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTTTTAAAATTATATTATAT
Found at i:1261252 original size:29 final size:29
Alignment explanation
Indices: 1261161--1261357 Score: 123
Period size: 29 Copynumber: 6.4 Consensus size: 29
1261151 AAGATATTTT
*
1261161 AATATATTTTTAAAAGTTAAGATAATAATAA
1 AATATATTTTT--AAGTGAAGATAATAATAA
* *
1261192 AATATATTTTTAATTTGAA-ATAAGAATAA
1 AATATATTTTTAA-GTGAAGATAATAATAA
*
1261221 AATATATTTTTAAGTGAAGATAATAGTCAA
1 AATATATTTTTAAGTGAAGATAATAAT-AA
* *
1261251 ATATATATATTTATA-TTAA-ATTAATAATAA
1 A-ATATATTTTTA-AGTGAAGA-TAATAATAA
* * **
1261281 AATATTTAAATATATTTAAGTTAAGATATTTTTAAA
1 AATA--T--AT-T-TTTAAGTGAAGATAATAAT-AA
*
1261317 AATATATTTTTAAGTGATGATAA-AGATAA
1 AATATATTTTTAAGTGAAGATAATA-ATAA
1261346 AATATATATTTT
1 AATATAT-TTTT
1261358 TGCATTAAAA
Statistics
Matches: 131, Mismatches: 18, Indels: 35
0.71 0.10 0.19
Matches are distributed among these distances:
28 4 0.03
29 42 0.32
30 27 0.21
31 32 0.24
32 3 0.02
33 2 0.02
34 2 0.02
35 12 0.09
36 7 0.05
ACGTcount: A:0.50, C:0.01, G:0.07, T:0.43
Consensus pattern (29 bp):
AATATATTTTTAAGTGAAGATAATAATAA
Found at i:1261257 original size:60 final size:59
Alignment explanation
Indices: 1261161--1261285 Score: 148
Period size: 60 Copynumber: 2.1 Consensus size: 59
1261151 AAGATATTTT
* *
1261161 AATATATTTTTAAAAGTTAAGATAATAATAAAATATATTTTTA-ATTTGAAA-TAAGAATAA
1 AATATATTTTT-AAAGTGAAGATAATAATAAAATATATATTTATA-TT-AAATTAAGAATAA
* *
1261221 AATATATTTTT-AAGTGAAGATAATAGTCAAATATATATATTTATATTAAATTAATAATAA
1 AATATATTTTTAAAGTGAAGATAATAAT-AAA-ATATATATTTATATTAAATTAAGAATAA
1261281 AATAT
1 AATAT
1261286 TTAAATATAT
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
58 14 0.25
59 6 0.11
60 36 0.63
61 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.06, T:0.41
Consensus pattern (59 bp):
AATATATTTTTAAAGTGAAGATAATAATAAAATATATATTTATATTAAATTAAGAATAA
Found at i:1269304 original size:6 final size:7
Alignment explanation
Indices: 1269282--1269316 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
1269272 GTCAAAGAAA
1269282 GTCAACG
1 GTCAACG
1269289 GTCAACG
1 GTCAACG
1269296 GTC-ACG
1 GTCAACG
1269302 GTC-ACG
1 GTCAACG
1269308 GTCAACG
1 GTCAACG
1269315 GT
1 GT
1269317 AGGGTCGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.44
7 15 0.56
ACGTcount: A:0.23, C:0.29, G:0.31, T:0.17
Consensus pattern (7 bp):
GTCAACG
Found at i:1269329 original size:17 final size:17
Alignment explanation
Indices: 1269288--1269347 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
1269278 GAAAGTCAAC
* *
1269288 GGTCAACGGTCACGGTCAC
1 GGTCAACGGT-AGGGTC-G
1269307 GGTCAACGGTAGGGTCG
1 GGTCAACGGTAGGGTCG
* *
1269324 GGTCAACAGTCGGGTCG
1 GGTCAACGGTAGGGTCG
1269341 GGTCAAC
1 GGTCAAC
1269348 CCGGTTCAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
17 22 0.59
18 5 0.14
19 10 0.27
ACGTcount: A:0.20, C:0.25, G:0.38, T:0.17
Consensus pattern (17 bp):
GGTCAACGGTAGGGTCG
Found at i:1269365 original size:19 final size:19
Alignment explanation
Indices: 1269341--1269430 Score: 119
Period size: 19 Copynumber: 4.7 Consensus size: 19
1269331 AGTCGGGTCG
*
1269341 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
1269360 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
1269379 GGTCAAACCGGTTC-GAACC
1 GGTCAAACCGGTTCAG-ACC
* * *
1269398 GGTCAAACTGGTTCAAAACT
1 GGTCAAACCGGTTC-AGACC
1269418 GGTCAAACCGGTT
1 GGTCAAACCGGTT
1269431 TTCCAGCAGC
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
18 1 0.02
19 48 0.76
20 14 0.22
ACGTcount: A:0.27, C:0.29, G:0.26, T:0.19
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:1269379 original size:10 final size:10
Alignment explanation
Indices: 1269343--1269430 Score: 85
Period size: 9 Copynumber: 9.1 Consensus size: 10
1269333 TCGGGTCGGG
*
1269343 TCAACCCGGT
1 TCAAACCGGT
*
1269353 TCAGACCGG-
1 TCAAACCGGT
1269362 TCAAACCGGT
1 TCAAACCGGT
*
1269372 TCAGACCGG-
1 TCAAACCGGT
1269381 TCAAACCGGT
1 TCAAACCGGT
*
1269391 TCGAACCGG-
1 TCAAACCGGT
*
1269400 TCAAACTGGT
1 TCAAACCGGT
*
1269410 TCAAAACTGG-
1 TC-AAACCGGT
1269420 TCAAACCGGT
1 TCAAACCGGT
1269430 T
1 T
1269431 TTCCAGCAGC
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
9 29 0.45
10 28 0.44
11 7 0.11
ACGTcount: A:0.27, C:0.30, G:0.24, T:0.19
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:1269397 original size:29 final size:30
Alignment explanation
Indices: 1269349--1269430 Score: 57
Period size: 29 Copynumber: 2.8 Consensus size: 30
1269339 CGGGTCAACC
*
1269349 CGGTTCAGACCGGTC-AAACCGGTTCAGAC
1 CGGTTCAGACCGGTCAAAACCGGTTCAAAC
* *
1269378 CGG-TCAAACCGGTTC-GAACCGG-TCAAAC
1 CGGTTCAGACCGG-TCAAAACCGGTTCAAAC
* * *
1269406 TGGTTCAAAACTGGTC-AAACCGGTT
1 CGGTTC-AGACCGGTCAAAACCGGTT
1269431 TTCCAGCAGC
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
28 15 0.35
29 21 0.49
30 7 0.16
ACGTcount: A:0.27, C:0.28, G:0.26, T:0.20
Consensus pattern (30 bp):
CGGTTCAGACCGGTCAAAACCGGTTCAAAC
Found at i:1275160 original size:2 final size:2
Alignment explanation
Indices: 1275153--1275189 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1275143 ATATCAAAAT
1275153 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1275190 TATATATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1285215 original size:59 final size:60
Alignment explanation
Indices: 1285119--1285242 Score: 153
Period size: 59 Copynumber: 2.1 Consensus size: 60
1285109 GGTAAAGTAA
* * * * *
1285119 AAAATGATCCCCCAACTATAGGATGATATTTTATTGAGTCCCCTA-ACTATTAAAATTTAT
1 AAAATGATCCCCCAACTATAAGACGATATTTTATTGAGT-ACCTATACTATTAAAAATTAC
* * *
1285179 AAAATGAT-CCCCAATTATAAGACGATATTTTGTTGAGTATCTATACTATTAAAAATTAC
1 AAAATGATCCCCCAACTATAAGACGATATTTTATTGAGTACCTATACTATTAAAAATTAC
1285238 AAAAT
1 AAAAT
1285243 AGTTACGTGA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
58 3 0.05
59 44 0.80
60 8 0.15
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (60 bp):
AAAATGATCCCCCAACTATAAGACGATATTTTATTGAGTACCTATACTATTAAAAATTAC
Found at i:1285650 original size:59 final size:59
Alignment explanation
Indices: 1285583--1285696 Score: 176
Period size: 59 Copynumber: 1.9 Consensus size: 59
1285573 GTCGGTGACT
*
1285583 ATTTTGTAACTTTTAATAGTAAGAAG-ACTAAACAAAATAACATCATATAATCGGAGATC
1 ATTTTGTAACTTTTAATAGTAA-AAGAACTAAACAAAACAACATCATATAATCGGAGATC
* * *
1285642 ATTTTGTAACTTTTAATAGTCAAAGAACTCAACAAAACAACATCCTATAATCGGA
1 ATTTTGTAACTTTTAATAGTAAAAGAACTAAACAAAACAACATCATATAATCGGA
1285697 AGAGAATTTG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
58 3 0.06
59 47 0.94
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.30
Consensus pattern (59 bp):
ATTTTGTAACTTTTAATAGTAAAAGAACTAAACAAAACAACATCATATAATCGGAGATC
Found at i:1288613 original size:2 final size:2
Alignment explanation
Indices: 1288608--1288647 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1288598 TAAAAAACAA
1288608 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
1288648 GTATGTAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1290604 original size:22 final size:23
Alignment explanation
Indices: 1290567--1290613 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
1290557 AACCCTAAAT
1290567 AAGCCCAAAAATCGTATCTGCTA
1 AAGCCCAAAAATCGTATCTGCTA
* *
1290590 AAGCCC-AGAATCGTATCTTCTA
1 AAGCCCAAAAATCGTATCTGCTA
1290612 AA
1 AA
1290614 CTCGCGATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (23 bp):
AAGCCCAAAAATCGTATCTGCTA
Found at i:1293798 original size:2 final size:2
Alignment explanation
Indices: 1293791--1293836 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
1293781 GTTTCACCAA
1293791 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
1293833 AT AT
1 AT AT
1293837 TGAGCTCCAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1301166 original size:3 final size:3
Alignment explanation
Indices: 1301151--1301188 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
1301141 TGTTTTTGTT
*
1301151 TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1301189 GTTGTTGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1302224 original size:66 final size:67
Alignment explanation
Indices: 1302117--1302289 Score: 224
Period size: 67 Copynumber: 2.6 Consensus size: 67
1302107 TTTCTGGGTT
* * * *
1302117 AGGGGAATCGGTACCCATTCA-AGGGGAACCGATACCTCCTCAACG-AAATGAATTTCCAGAATG
1 AGGGGAATCGGTACCC--CCAGGGGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATG
1302180 CTAG
64 CTAG
* *
1302184 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGAATGCT
1 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCT
*
1302249 TG
66 AG
* *
1302251 AGGGGAATCGATACCCCCAGGGGGGGAACCGATTCCCCC
1 AGGGGAATCGGTACCCCCA-GGGGGGAACCGATACCCCC
1302290 ATGAGAAAAA
Statistics
Matches: 94, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
65 2 0.02
66 21 0.22
67 53 0.56
68 18 0.19
ACGTcount: A:0.28, C:0.27, G:0.27, T:0.17
Consensus pattern (67 bp):
AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCT
AG
Found at i:1302625 original size:29 final size:29
Alignment explanation
Indices: 1302591--1302662 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
1302581 CATATTATGA
*
1302591 TACATGACATGAATTTATATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
*
1302620 TACATGACATGAATTCATATTATATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
* *
1302649 TGCATGATATGAAT
1 TACATGACATGAAT
1302663 ATGCAGAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.40
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:1302718 original size:30 final size:30
Alignment explanation
Indices: 1302684--1302742 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
1302674 GTTATATGAG
* *
1302684 CTATGTGATAAAGGTATGTAAATGATATGC
1 CTATGTGATAAAGGTATGGAAATAATATGC
1302714 CTATGTGATAAAGGTATGGAAATAATATG
1 CTATGTGATAAAGGTATGGAAATAATATG
1302743 ACTACGCGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (30 bp):
CTATGTGATAAAGGTATGGAAATAATATGC
Found at i:1309158 original size:65 final size:64
Alignment explanation
Indices: 1309042--1309211 Score: 214
Period size: 65 Copynumber: 2.6 Consensus size: 64
1309032 TTTCTGGGTT
* * *
1309042 AGGGGAATCGGTACCCATTCAAGGGGAACCGATACCTCCTCAACGAAATGAATTTCCAGAATGCT
1 AGGGGAATCGGTACCC--CCAGGGGGAACCGATACC-CCTCAACGAAATGAAATTCCAGAATGCT
1309107 AG
63 AG
* * *
1309109 AGGGGAATCGGTACCCCCAGGGGGAACCGATACCCCTCATCGTATATGAAATTCCAGAATGCTTG
1 AGGGGAATCGGTACCCCCAGGGGGAACCGATACCCCTCAACG-AAATGAAATTCCAGAATGCTAG
* *
1309174 AGGGGAATCGATACCCCCAGGGGGGGAACCGATTCCCC
1 AGGGGAATCGGTACCCCCA--GGGGGAACCGATACCCC
1309212 CATGAGAAAA
Statistics
Matches: 92, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
64 7 0.08
65 53 0.58
67 32 0.35
ACGTcount: A:0.29, C:0.26, G:0.27, T:0.18
Consensus pattern (64 bp):
AGGGGAATCGGTACCCCCAGGGGGAACCGATACCCCTCAACGAAATGAAATTCCAGAATGCTAG
Found at i:1309548 original size:29 final size:26
Alignment explanation
Indices: 1309504--1309582 Score: 106
Period size: 29 Copynumber: 3.0 Consensus size: 26
1309494 GATCACATTC
1309504 CATATTATG-ATACATGACATGAATT
1 CATATTATGTATACATGACATGAATT
*
1309529 TATATTAAATGTATTACATGACATGAATT
1 CATATT--ATGTA-TACATGACATGAATT
*
1309558 CATATTATGTATGCATGACATGAAT
1 CATATTATGTATACATGACATGAAT
1309583 ATGCAGAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
25 5 0.11
26 13 0.28
27 8 0.17
28 1 0.02
29 20 0.43
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (26 bp):
CATATTATGTATACATGACATGAATT
Found at i:1309638 original size:30 final size:30
Alignment explanation
Indices: 1309604--1309662 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
1309594 GTTATATGAG
* *
1309604 CTATGTGATAAAGGTATGTAAATGATATGC
1 CTATGTGATAAAGGTATGGAAATAATATGC
1309634 CTATGTGATAAAGGTATGGAAATAATATG
1 CTATGTGATAAAGGTATGGAAATAATATG
1309663 ACTACGCGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (30 bp):
CTATGTGATAAAGGTATGGAAATAATATGC
Found at i:1309928 original size:23 final size:23
Alignment explanation
Indices: 1309884--1309928 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1309874 ATTATTATAT
*
1309884 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
1309907 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
1309929 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:1314435 original size:26 final size:25
Alignment explanation
Indices: 1314406--1314455 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 25
1314396 ATAATAAGAG
1314406 ATAT-AATTTTAATTTTATATAATTAT
1 ATATAAATTTTAA-TTTA-ATAATTAT
1314432 ATATAAAATTTTAATTTAATAATT
1 ATAT-AAATTTTAATTTAATAATT
1314456 TTTTTTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 10 0.45
27 4 0.18
28 8 0.36
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
ATATAAATTTTAATTTAATAATTAT
Found at i:1316801 original size:14 final size:14
Alignment explanation
Indices: 1316782--1316808 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1316772 TTCTCTCTAT
1316782 CACACACACATACA
1 CACACACACATACA
1316796 CACACACACATAC
1 CACACACACATAC
1316809 GTATGTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.44, G:0.00, T:0.07
Consensus pattern (14 bp):
CACACACACATACA
Found at i:1352276 original size:21 final size:21
Alignment explanation
Indices: 1352250--1352289 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1352240 CAGAACCCCA
*
1352250 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
1352271 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
1352290 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:1352324 original size:20 final size:21
Alignment explanation
Indices: 1352270--1352332 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
1352260 GATTCCCCTG
1352270 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
1352294 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
1352314 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
1352333 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:1360511 original size:22 final size:23
Alignment explanation
Indices: 1360486--1360539 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 23
1360476 CAATGATCAC
*
1360486 TTAATTATTTTTCTTTT-TTATT
1 TTAATTATTTGTCTTTTATTATT
*
1360508 TTAATTATTTGTCTTTTAATTTTT
1 TTAATTATTTGTCTTTT-ATTATT
1360532 TTAATTAT
1 TTAATTAT
1360540 ATAATTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 16 0.57
24 12 0.43
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (23 bp):
TTAATTATTTGTCTTTTATTATT
Found at i:1360890 original size:15 final size:15
Alignment explanation
Indices: 1360870--1360906 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1360860 ATCTAAGTAG
1360870 ATAAAAAATAATTAA
1 ATAAAAAATAATTAA
*
1360885 ATAAAAAA-AATTAT
1 ATAAAAAATAATTAA
1360899 A-AAAAAAT
1 ATAAAAAAT
1360907 CTTCAATCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 6 0.30
14 6 0.30
15 8 0.40
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
ATAAAAAATAATTAA
Found at i:1372740 original size:2 final size:2
Alignment explanation
Indices: 1372733--1372761 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1372723 GAAAACACCA
1372733 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1372762 TCTGATACGG
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1379558 original size:30 final size:30
Alignment explanation
Indices: 1379524--1379584 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
1379514 TTGAACAAAG
*
1379524 CCGAAGACACATTATCTTCCCGGCGAATTT
1 CCGAAGACACATTATCTTCCCGACGAATTT
* *
1379554 CCGAAGACACATTGTGTTCCCGACGAATTT
1 CCGAAGACACATTATCTTCCCGACGAATTT
1379584 C
1 C
1379585 GACGGGTACT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (30 bp):
CCGAAGACACATTATCTTCCCGACGAATTT
Found at i:1379889 original size:60 final size:58
Alignment explanation
Indices: 1379766--1379892 Score: 139
Period size: 60 Copynumber: 2.1 Consensus size: 58
1379756 ATAGTTGGAT
* * * * *
1379766 GATCATTTTATAACTTTTAATAGTTAAGGACTCAACAAAACAACTCCTTATACTCGGAT
1 GATCATTTTATAACTTTTAATAATCAAGGACTCAACAAAACAACT-CTTATAATCAGAG
* **
1379825 GATCATTTTATAACTTTTAATAATCAATGGACTTAACAAATTAGTACT-TTATAATCAGAG
1 GATCATTTTATAACTTTTAATAATCAA-GGACTCAACAAA--ACAACTCTTATAATCAGAG
1379885 GATCATTT
1 GATCATTT
1379893 GTGCATTTTA
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
59 25 0.44
60 28 0.49
62 4 0.07
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (58 bp):
GATCATTTTATAACTTTTAATAATCAAGGACTCAACAAAACAACTCTTATAATCAGAG
Found at i:1384998 original size:13 final size:13
Alignment explanation
Indices: 1384980--1385010 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
1384970 ATGCATAATA
1384980 CAGAATCAGAATT
1 CAGAATCAGAATT
1384993 CAGAATCAGAATT
1 CAGAATCAGAATT
1385006 CAGAA
1 CAGAA
1385011 ACCATTAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.19
Consensus pattern (13 bp):
CAGAATCAGAATT
Found at i:1386999 original size:120 final size:119
Alignment explanation
Indices: 1386852--1387091 Score: 408
Period size: 120 Copynumber: 2.0 Consensus size: 119
1386842 AAAAGAAAAT
* * *
1386852 TGATACTAATTCATTAAATTATTACAAAAATGATTATTTTATCATTTATCACGTTATTAAAAATA
1 TGATACTAAATCATTAAACTATTACAAAAATGATTATTTTATCATTTATCACATTATTAAAAATA
*
1386917 AATCATTTATTCATTTCGACTCTATTATCAAATTTATATCAAAATTCAAATCAGA
66 AATCATTTATTCATTTCGACTCTATTATCAAATTTATACCAAAATTCAAAT-AGA
1386972 TGATACTAAATCATTAAACTATTACAAAAATGATTATTTTATCATTTATCACATTATTAAAAATA
1 TGATACTAAATCATTAAACTATTACAAAAATGATTATTTTATCATTTATCACATTATTAAAAATA
* * *
1387037 AATCATTTATTCATTTTGACTCTATTATCAAATTTATACCGAATTTCAAATAGA
66 AATCATTTATTCATTTCGACTCTATTATCAAATTTATACCAAAATTCAAATAGA
1387091 T
1 T
1387092 ATATTAATTC
Statistics
Matches: 113, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
119 4 0.04
120 109 0.96
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (119 bp):
TGATACTAAATCATTAAACTATTACAAAAATGATTATTTTATCATTTATCACATTATTAAAAATA
AATCATTTATTCATTTCGACTCTATTATCAAATTTATACCAAAATTCAAATAGA
Found at i:1398527 original size:15 final size:15
Alignment explanation
Indices: 1398507--1398536 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1398497 GCAATATTCC
1398507 TGAATTAATCAGTAA
1 TGAATTAATCAGTAA
1398522 TGAATTAATCAGTAA
1 TGAATTAATCAGTAA
1398537 ATAAATTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.33
Consensus pattern (15 bp):
TGAATTAATCAGTAA
Found at i:1402597 original size:27 final size:27
Alignment explanation
Indices: 1402538--1402603 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
1402528 TTTCCTGGCA
*
1402538 CCGGCACTGGTAAGTTACCATCCTTGC
1 CCGGCACTGGTAACTTACCATCCTTGC
* *
1402565 CTGGCATTGGTAACTTACCATCCATT-C
1 CCGGCACTGGTAACTTACCATCC-TTGC
*
1402592 CCGGCACCGGTA
1 CCGGCACTGGTA
1402604 TCGGTAAGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 30 0.94
28 2 0.06
ACGTcount: A:0.20, C:0.33, G:0.21, T:0.26
Consensus pattern (27 bp):
CCGGCACTGGTAACTTACCATCCTTGC
Found at i:1402633 original size:60 final size:60
Alignment explanation
Indices: 1402521--1402648 Score: 152
Period size: 60 Copynumber: 2.1 Consensus size: 60
1402511 CCGGCATATG
* * *
1402521 ACCATCCTTTCCTGGCACCGGCACTGGTAAGTTACCATCCTTGCCTGGCATTGGTAACTT
1 ACCATCCATTCCCGGCACCGGCACTGGTAAGTTACCATCCTTGCCTGGCATTGGCAACTT
* * * **
1402581 ACCATCCATTCCCGGCACCGGTA-TCGGTAAGTTACCATCCTTTCC-GTTCATTGGCATGTT
1 ACCATCCATTCCCGGCACCGGCACT-GGTAAGTTACCATCCTTGCCTG-GCATTGGCAACTT
1402641 ACCATCCA
1 ACCATCCA
1402649 CAGGCACAGG
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
59 2 0.03
60 56 0.97
ACGTcount: A:0.20, C:0.33, G:0.18, T:0.30
Consensus pattern (60 bp):
ACCATCCATTCCCGGCACCGGCACTGGTAAGTTACCATCCTTGCCTGGCATTGGCAACTT
Found at i:1406097 original size:11 final size:11
Alignment explanation
Indices: 1406081--1406108 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
1406071 TAACACCCCT
1406081 AACCCGTATCC
1 AACCCGTATCC
1406092 AACCCGTATCC
1 AACCCGTATCC
1406103 AACCCG
1 AACCCG
1406109 AATATGAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.46, G:0.11, T:0.14
Consensus pattern (11 bp):
AACCCGTATCC
Found at i:1406725 original size:18 final size:18
Alignment explanation
Indices: 1406702--1406766 Score: 76
Period size: 18 Copynumber: 3.5 Consensus size: 18
1406692 ACTGAATATT
1406702 TGTCCCGAATGACCACTA
1 TGTCCCGAATGACCACTA
*
1406720 TGTCCCGAAAGACCACTGA
1 TGTCCCGAATGACCACT-A
* *
1406739 TTGTTCCGAATAACCACTA
1 -TGTCCCGAATGACCACTA
*
1406758 TATCCCGAA
1 TGTCCCGAA
1406767 GAACCACTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
18 23 0.59
19 2 0.05
20 14 0.36
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (18 bp):
TGTCCCGAATGACCACTA
Found at i:1406749 original size:38 final size:38
Alignment explanation
Indices: 1406701--1406777 Score: 111
Period size: 38 Copynumber: 2.0 Consensus size: 38
1406691 CACTGAATAT
* *
1406701 TTGTCCCGAATGACCACTATGTCCCGAA-AGACCACTGA
1 TTGTCCCGAATAACCACTATATCCCGAAGA-ACCACTGA
*
1406739 TTGTTCCGAATAACCACTATATCCCGAAGAACCACTGA
1 TTGTCCCGAATAACCACTATATCCCGAAGAACCACTGA
1406777 T
1 T
1406778 AATCCCTCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
38 34 0.97
39 1 0.03
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (38 bp):
TTGTCCCGAATAACCACTATATCCCGAAGAACCACTGA
Found at i:1406771 original size:18 final size:18
Alignment explanation
Indices: 1406702--1406774 Score: 69
Period size: 18 Copynumber: 3.9 Consensus size: 18
1406692 ACTGAATATT
1406702 TGTCCCGAATG-ACCACTA
1 TGTCCCGAA-GAACCACTA
1406720 TGTCCCGAA-AGACCACTGA
1 TGTCCCGAAGA-ACCACT-A
* *
1406739 TTGTTCCGAATAACCACTA
1 -TGTCCCGAAGAACCACTA
*
1406758 TATCCCGAAGAACCACT
1 TGTCCCGAAGAACCACT
1406775 GATAATCCCT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
18 29 0.63
19 2 0.04
20 14 0.30
21 1 0.02
ACGTcount: A:0.32, C:0.32, G:0.15, T:0.22
Consensus pattern (18 bp):
TGTCCCGAAGAACCACTA
Found at i:1407438 original size:64 final size:64
Alignment explanation
Indices: 1407354--1407475 Score: 163
Period size: 64 Copynumber: 1.9 Consensus size: 64
1407344 ACATAAATCT
* * * * *
1407354 CATTCGATGTTTGTATTTTAAGGGGGTGCATCGATGCACTACTTGTACATCGATACACTGATGA
1 CATTAGATGTTTGTATTTTAAAGGAGTGCATCGATACACTACATGTACATCGATACACTGATGA
* * * *
1407418 CATTAGATGTTTTTATTTTAAAGGAGTGCATTGATACACTTCATGTGCATCGATACAC
1 CATTAGATGTTTGTATTTTAAAGGAGTGCATCGATACACTACATGTACATCGATACAC
1407476 ATTGAACAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 49 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.36
Consensus pattern (64 bp):
CATTAGATGTTTGTATTTTAAAGGAGTGCATCGATACACTACATGTACATCGATACACTGATGA
Found at i:1408700 original size:96 final size:96
Alignment explanation
Indices: 1408591--1408784 Score: 361
Period size: 96 Copynumber: 2.0 Consensus size: 96
1408581 CAATAATTAA
*
1408591 AATAAATATTTTAATTCTTCAAAAGATTTTGATTCAAGAAATCGAGAATATTATATTCTTAATCC
1 AATAAATATTTTAATTCTTCAAAAGATTTTGATTCAAGAAATCGAGAATATTATATTCTTAATCA
1408656 TTTTATAATATCAAATCCAAACTATTTTTAT
66 TTTTATAATATCAAATCCAAACTATTTTTAT
*
1408687 AATAAATATTTTAATTCTTCAAAAGATTTTGATTCAAGAAATCGAGAATATTATATTCTTCATCA
1 AATAAATATTTTAATTCTTCAAAAGATTTTGATTCAAGAAATCGAGAATATTATATTCTTAATCA
*
1408752 TTTTATAATATCAAATCCAAACTGTTTTTAT
66 TTTTATAATATCAAATCCAAACTATTTTTAT
1408783 AA
1 AA
1408785 GAATAACAGT
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 95 1.00
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.42
Consensus pattern (96 bp):
AATAAATATTTTAATTCTTCAAAAGATTTTGATTCAAGAAATCGAGAATATTATATTCTTAATCA
TTTTATAATATCAAATCCAAACTATTTTTAT
Found at i:1410303 original size:17 final size:17
Alignment explanation
Indices: 1410277--1410309 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1410267 CTATTTAAAA
1410277 ATAAACTTAAAATAAATG
1 ATAAACTTAAAA-AAATG
1410295 ATAAA-TTAAAAAAAT
1 ATAAACTTAAAAAAAT
1410310 AAAAAATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (17 bp):
ATAAACTTAAAAAAATG
Found at i:1410540 original size:28 final size:28
Alignment explanation
Indices: 1410500--1410557 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
1410490 TTTTTCAAGA
* * *
1410500 GAAATGGAACTTTATTCATCAACTAATG
1 GAAATGCAACTTTACTCACCAACTAATG
1410528 GAAATGCAACTTTACTCACCAACTAATG
1 GAAATGCAACTTTACTCACCAACTAATG
1410556 GA
1 GA
1410558 TTTTTTACTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.28
Consensus pattern (28 bp):
GAAATGCAACTTTACTCACCAACTAATG
Found at i:1414163 original size:22 final size:22
Alignment explanation
Indices: 1414138--1414412 Score: 290
Period size: 22 Copynumber: 12.5 Consensus size: 22
1414128 TATTTTAAAT
1414138 TTTATTTTAAAATATAAATTGA
1 TTTATTTTAAAATATAAATTGA
**
1414160 TTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATAAATTGA
**
1414182 TTTATTTTAAAATATGAAA-AAA
1 TTTATTTTAAAATAT-AAATTGA
* *
1414204 TTTATTTCAAAATATGAATTGA
1 TTTATTTTAAAATATAAATTGA
**
1414226 TTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATAAATTGA
1414248 TTTATTTTAAAATATAAATTGA
1 TTTATTTTAAAATATAAATTGA
* **
1414270 TTTATGTTAAAATATAAA-AAA
1 TTTATTTTAAAATATAAATTGA
* **
1414291 ATTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATAAATTGA
* **
1414313 TTTATTTTGAAATATGAAA-AAA
1 TTTATTTTAAAATAT-AAATTGA
*
1414335 TTTATTTTAAAATATGAATTGA
1 TTTATTTTAAAATATAAATTGA
*
1414357 TTTATTTTAAAATATGAAA--AA
1 TTTATTTTAAAATAT-AAATTGA
**
1414378 TTTTATTTTAAAATATGGATTGA
1 -TTTATTTTAAAATATAAATTGA
1414401 TTTATTTTAAAA
1 TTTATTTTAAAA
1414413 AATTTATTAT
Statistics
Matches: 206, Mismatches: 38, Indels: 18
0.79 0.15 0.07
Matches are distributed among these distances:
21 21 0.10
22 180 0.87
23 5 0.02
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.47
Consensus pattern (22 bp):
TTTATTTTAAAATATAAATTGA
Found at i:1414186 original size:44 final size:44
Alignment explanation
Indices: 1414138--1414412 Score: 392
Period size: 44 Copynumber: 6.3 Consensus size: 44
1414128 TATTTTAAAT
** *
1414138 TTTATTTTAAAATAT-AAATTGATTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGAAA-AAATTTATTTTAAAATATGAATTGA
*
1414182 TTTATTTTAAAATATGAAAAAATTTATTTCAAAATATGAATTGA
1 TTTATTTTAAAATATGAAAAAATTTATTTTAAAATATGAATTGA
* *** *
1414226 TTTATTTTAAAATATGGATTGATTTATTTTAAAATATAAATTGA
1 TTTATTTTAAAATATGAAAAAATTTATTTTAAAATATGAATTGA
* * *
1414270 TTTATGTTAAAATAT-AAAAAAATTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGAAAAAATTTATTTTAAAATATGAATTGA
*
1414313 TTTATTTTGAAATATGAAAAAATTTATTTTAAAATATGAATTGA
1 TTTATTTTAAAATATGAAAAAATTTATTTTAAAATATGAATTGA
* *
1414357 TTTATTTTAAAATATGAAAAATTTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGAAAAAATTTATTTTAAAATATGAATTGA
1414401 TTTATTTTAAAA
1 TTTATTTTAAAA
1414413 AATTTATTAT
Statistics
Matches: 204, Mismatches: 25, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
43 34 0.17
44 167 0.82
45 3 0.01
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.47
Consensus pattern (44 bp):
TTTATTTTAAAATATGAAAAAATTTATTTTAAAATATGAATTGA
Found at i:1414224 original size:66 final size:66
Alignment explanation
Indices: 1414138--1414412 Score: 358
Period size: 66 Copynumber: 4.2 Consensus size: 66
1414128 TATTTTAAAT
*
1414138 TTTATTTTAAAATATAAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGAAAAA
1 TTTATTTTAAAATATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGAAAAA
1414203 A
66 A
* *
1414204 TTTATTTCAAAATATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATAT-AAATT
1 TTTATTTTAAAATATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGAAA-A
*
1414268 GA
65 AA
* *** * *
1414270 TTTATGTTAAAATAT-AAAAAAATTATTTTAAAATATGGATTGATTTATTTTGAAATATGAAAAA
1 TTTATTTTAAAATATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGAAAAA
1414334 A
66 A
*** * **
1414335 TTTATTTTAAAATATGAATTGATTTATTTTAAAATAT-GAAAAATTTTATTTTAAAATATGGATT
1 TTTATTTTAAAATATGAATTGATTTATTTTAAAATATGGATTGA-TTTATTTTAAAATATGAAAA
*
1414399 GA
65 AA
1414401 TTTATTTTAAAA
1 TTTATTTTAAAA
1414413 AATTTATTAT
Statistics
Matches: 179, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
65 59 0.33
66 120 0.67
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.47
Consensus pattern (66 bp):
TTTATTTTAAAATATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGAAAAA
A
Found at i:1414383 original size:109 final size:108
Alignment explanation
Indices: 1414138--1414393 Score: 289
Period size: 109 Copynumber: 2.3 Consensus size: 108
1414128 TATTTTAAAT
* * * *** *
1414138 TTTATTTTAAAATATAAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGAAAAA
1 TTTATTTTAAAATATAAAAT-ATTTATGTTAAAATAT-AAAAAAATTATTTTAAAATATGAAAAA
*** *
1414203 ATTTATTTCAAAATATGAATTGATTTATTTTAAAATATGGATTGA
64 ATTTATTTCAAAATATGAAAAAATTTATTTTAAAATATGAATTGA
* * ***
1414248 TTTATTTTAAAATATAAATTGATTTATGTTAAAATATAAAAAAATTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATAAAAT-ATTTATGTTAAAATATAAAAAAATTATTTTAAAATATGAAAAAA
**
1414313 TTTATTTTGAAATATGAAAAAATTTATTTTAAAATATGAATTGA
65 TTTATTTCAAAATATGAAAAAATTTATTTTAAAATATGAATTGA
*
1414357 TTTATTTTAAAATATGAAAA-ATTTTATTTTAAAATAT
1 TTTATTTTAAAATAT-AAAATA-TTTATGTTAAAATAT
1414394 GGATTGATTT
Statistics
Matches: 126, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
108 1 0.01
109 86 0.68
110 39 0.31
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (108 bp):
TTTATTTTAAAATATAAAATATTTATGTTAAAATATAAAAAAATTATTTTAAAATATGAAAAAAT
TTATTTCAAAATATGAAAAAATTTATTTTAAAATATGAATTGA
Done.