Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006200.1 Hibiscus syriacus cultivar Beakdansim tig00014758_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: 90430
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:8494 original size:18 final size:18
Alignment explanation
Indices: 8471--8505 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
8461 AGTAAACTTC
8471 TTTGGCCACT-GCTGTGGT
1 TTTGGCCA-TGGCTGTGGT
8489 TTTGGCCATGGCTGTGG
1 TTTGGCCATGGCTGTGG
8506 GCTTTTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 15 0.94
ACGTcount: A:0.06, C:0.20, G:0.37, T:0.37
Consensus pattern (18 bp):
TTTGGCCATGGCTGTGGT
Found at i:9469 original size:31 final size:31
Alignment explanation
Indices: 9427--9508 Score: 137
Period size: 31 Copynumber: 2.6 Consensus size: 31
9417 CAAAAAATTT
* *
9427 CTTGTTTGTGTTCGTTCGTTAAAAAATGTAG
1 CTTGTTCGTGTTCGTTCATTAAAAAATGTAG
*
9458 TTTGTTCGTGTTCGTTCATTAAAAAATGTAG
1 CTTGTTCGTGTTCGTTCATTAAAAAATGTAG
9489 CTTGTTCGTGTTCGTTCATT
1 CTTGTTCGTGTTCGTTCATT
9509 TAAATGATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.20, C:0.12, G:0.21, T:0.48
Consensus pattern (31 bp):
CTTGTTCGTGTTCGTTCATTAAAAAATGTAG
Found at i:9590 original size:23 final size:23
Alignment explanation
Indices: 9561--9640 Score: 70
Period size: 23 Copynumber: 3.4 Consensus size: 23
9551 ACGTAAATTG
*
9561 ACATAAACGAATAGAATAAACGA
1 ACATAAACGAATAAAATAAACGA
* ** * *
9584 ACGTAAATAAACACAAACAAACGA
1 ACATAAACGAATA-AAATAAACGA
** *
9608 ACATAAAATAATACAATAAACGA
1 ACATAAACGAATAAAATAAACGA
9631 ACATAAACGA
1 ACATAAACGA
9641 GCGTAAGCGA
Statistics
Matches: 42, Mismatches: 14, Indels: 2
0.72 0.24 0.03
Matches are distributed among these distances:
23 25 0.60
24 17 0.40
ACGTcount: A:0.62, C:0.16, G:0.09, T:0.12
Consensus pattern (23 bp):
ACATAAACGAATAAAATAAACGA
Found at i:9866 original size:14 final size:14
Alignment explanation
Indices: 9829--9872 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
9819 GATTGAGCTA
9829 AACATAAATGAACG
1 AACATAAATGAACG
*
9843 CACAT--A--AACG
1 AACATAAATGAACG
9853 AACATAAATGAACG
1 AACATAAATGAACG
9867 AACATA
1 AACATA
9873 TTACCGAACG
Statistics
Matches: 24, Mismatches: 2, Indels: 8
0.71 0.06 0.24
Matches are distributed among these distances:
10 8 0.33
12 2 0.08
14 14 0.58
ACGTcount: A:0.57, C:0.18, G:0.11, T:0.14
Consensus pattern (14 bp):
AACATAAATGAACG
Found at i:22157 original size:21 final size:20
Alignment explanation
Indices: 22071--22228 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
22061 AAATGACCAA
**
22071 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
22090 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
22110 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
22130 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
22151 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
22172 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
22192 CAATAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
22213 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
22229 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 42 0.41
21 44 0.43
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:22221 original size:20 final size:20
Alignment explanation
Indices: 22196--22506 Score: 79
Period size: 20 Copynumber: 15.5 Consensus size: 20
22186 GATTTTCAAT
* *
22196 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
22216 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
22236 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
22256 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
22276 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
22296 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
22316 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
22336 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
22357 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
22377 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* *
22397 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
22417 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* *
22437 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
22457 AATCGCAACGATAATC-CGTA
1 AATCGCAACGCGAA-CACATA
* *
22477 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
22497 AATCGCAACG
1 AATCGCAACG
22507 ATAATCCGTA
Statistics
Matches: 244, Mismatches: 38, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
19 3 0.01
20 224 0.92
21 16 0.07
22 1 0.00
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:22241 original size:40 final size:40
Alignment explanation
Indices: 22196--22563 Score: 431
Period size: 40 Copynumber: 9.2 Consensus size: 40
22186 GATTTTCAAT
* ** * * *
22196 AATCGCAACGCGAATATGAAAATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAAC-CGTA
* *
22236 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAACCGTA
** * * *
22276 AATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAACCGTA
* * *
22316 TATCGCAACGCGTATCCGTAAATCGCAACGA-TAATACATAA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAA-CCGT-A
* *
22357 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAACCGTA
* * *
22397 AATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAACCGTA
22437 AATCGCAACGCGTATCCGTAAATCGCAACGA-TAATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAA-CCGTA
22477 AATCGCAACGCGTATCCGTAAATCGCAACGA-TAATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAA-CCGTA
* * *
22517 AATCGCAACGAGAATCTGTAAATCGCAACGA-TAATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAA-CCGTA
22557 AATCGCA
1 AATCGCA
22564 CGAGAATCTG
Statistics
Matches: 291, Mismatches: 32, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.01
40 251 0.86
41 34 0.12
42 2 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (40 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGAGTAACCGTA
Found at i:22513 original size:20 final size:19
Alignment explanation
Indices: 22234--22563 Score: 390
Period size: 20 Copynumber: 16.5 Consensus size: 19
22224 CGCGAACACA
22234 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
22254 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACG-GTATCCG
**
22274 TAAATCGCAACGCGTATGGG
1 TAAATCGCAACG-GTATCCG
*
22294 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
22314 TATATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
* * *
22334 TAAATCGCAACGATAATACA
1 TAAATCGCAACGGT-ATCCG
22354 TAAAATCGCAACGCGTATCCG
1 T-AAATCGCAACG-GTATCCG
22375 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACG-GTATCCG
22395 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
22415 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACG-GTATCCG
22435 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
22455 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
22475 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
22495 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
* *
22515 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACG-GTATCCG
*
22535 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
22555 TAAATCGCA
1 TAAATCGCA
22564 CGAGAATCTG
Statistics
Matches: 273, Mismatches: 29, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
19 3 0.01
20 253 0.93
21 16 0.06
22 1 0.00
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.22
Consensus pattern (19 bp):
TAAATCGCAACGGTATCCG
Found at i:23299 original size:24 final size:23
Alignment explanation
Indices: 23260--23305 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
23250 AAATTTGGTC
23260 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGA-TTTGATA
23284 TTGGTCAATA-CACGGATTTGAT
1 TTGGTCAATATC-CGGATTTGAT
23306 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (23 bp):
TTGGTCAATATCCGGATTTGATA
Found at i:25807 original size:19 final size:19
Alignment explanation
Indices: 25781--26085 Score: 365
Period size: 19 Copynumber: 17.4 Consensus size: 19
25771 CGGAAAATAC
*
25781 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
25800 ATCCCAA--C---ATGAAA
1 ATCGCAATGCGAAATGAAA
25814 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
*
25834 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
25848 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
25867 ATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
*
25885 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
25899 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
25918 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
25932 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
25951 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
25970 ATCGCAATGCGAAATGGAA
1 ATCGCAATGCGAAATGAAA
25989 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
26008 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
26027 ATCGCAA--CGAAA-G--A
1 ATCGCAATGCGAAATGAAA
26041 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
26060 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
26079 ATCGCAA
1 ATCGCAA
26086 CGAGATAATC
Statistics
Matches: 249, Mismatches: 10, Indels: 54
0.80 0.03 0.17
Matches are distributed among these distances:
13 1 0.00
14 49 0.20
15 2 0.01
16 15 0.06
17 10 0.04
18 13 0.05
19 146 0.59
20 13 0.05
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:25819 original size:33 final size:34
Alignment explanation
Indices: 25781--26107 Score: 225
Period size: 33 Copynumber: 9.4 Consensus size: 34
25771 CGGAAAATAC
* *
25781 ATCGCAACGCGAAATGAAAATCCCAAC-ATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACAATGAAA
* *
25814 ATCGCAATGCGGAAATGAAAATCGCAACGA-GAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACAATGAAA
25848 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAAATCGCAA--C--AATGAAA
* * * *
25885 ATCGCAACGAGAGAATCG-CAAT-GCGA-AATGAAA
1 ATCGCAATGCGA-AAT-GAAAATCGCAACAATGAAA
* * * *
25918 ATCGCAACGAGAGAATCG-CAAT-GCGA-AATGAAA
1 ATCGCAATGCGA-AAT-GAAAATCGCAACAATGAAA
*
25951 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGGAA
1 ATCGCAATGCGAAATGAAAATCGCAA--C--AATGAAA
25989 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA--C--AATGAAA
26027 ATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA--C--AATGAAA
* *
26060 ATCGCAATGCGAAATGAAAATCGCAACGA-GATA
1 ATCGCAATGCGAAATGAAAATCGCAACAATGAAA
26093 ATCGCAATGCGAAAT
1 ATCGCAATGCGAAAT
26108 TATAAACGCA
Statistics
Matches: 255, Mismatches: 17, Indels: 44
0.81 0.05 0.14
Matches are distributed among these distances:
31 1 0.00
32 10 0.04
33 118 0.46
34 30 0.12
35 8 0.03
36 7 0.03
37 15 0.06
38 65 0.25
39 1 0.00
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (34 bp):
ATCGCAATGCGAAATGAAAATCGCAACAATGAAA
Found at i:25933 original size:84 final size:85
Alignment explanation
Indices: 25781--26066 Score: 370
Period size: 84 Copynumber: 3.3 Consensus size: 85
25771 CGGAAAATAC
* * *
25781 ATCGCAACGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAG
1 ATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGC-GAAATGAAAATCGCAACGAG
25845 AGAATCGCAATGCGAAATGAAA
64 AGAATCGCAATGCGAAATGAAA
25867 ATCGCAATGCGAAATG-AAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGAG
25931 AATCGCAATGCGAAATGAAA
66 AATCGCAATGCGAAATGAAA
*
25951 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGGAAATCGCAATGCGAAATGAAAATCGCAAT
1 ATCGCAATGCGAAATGAAAATCGCAA--CGAGA--G-AATCGCAATGCGAAATGAAAATCGCAA-
*
26016 GCGAAATGAAAATCGCAA--CGAAA-G--A
60 -CG--A-GAGAATCGCAATGCGAAATGAAA
26041 ATCGCAATGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
26067 TGCGAAATGA
Statistics
Matches: 183, Mismatches: 5, Indels: 20
0.88 0.02 0.10
Matches are distributed among these distances:
84 58 0.32
85 31 0.17
86 16 0.09
87 4 0.02
89 1 0.01
90 54 0.30
92 3 0.02
93 5 0.03
94 1 0.01
95 10 0.05
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (85 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGAGAG
AATCGCAATGCGAAATGAAA
Found at i:25984 original size:13 final size:13
Alignment explanation
Indices: 25931--26026 Score: 51
Period size: 13 Copynumber: 7.6 Consensus size: 13
25921 GCAACGAGAG
*
25931 AATCGCAATGCGA
1 AATCGAAATGCGA
*
25944 AAT-GAAAAT-CGC
1 AATCG-AAATGCGA
*
25956 AATGCGAAATG-AA
1 AAT-CGAAATGCGA
*
25969 AATCGCAATGCGA
1 AATCGAAATGCGA
* *
25982 AATGGAAAT-CGC
1 AATCGAAATGCGA
*
25994 AATGCGAAATG-AA
1 AAT-CGAAATGCGA
*
26007 AATCGCAATGCGA
1 AATCGAAATGCGA
26020 AAT-GAAA
1 AATCGAAA
26027 ATCGCAACGA
Statistics
Matches: 60, Mismatches: 15, Indels: 17
0.65 0.16 0.18
Matches are distributed among these distances:
12 26 0.43
13 33 0.55
14 1 0.02
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.16
Consensus pattern (13 bp):
AATCGAAATGCGA
Found at i:26042 original size:109 final size:108
Alignment explanation
Indices: 25847--26107 Score: 423
Period size: 109 Copynumber: 2.5 Consensus size: 108
25837 GCAACGAGAG
*
25847 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAATCGCAA--CG--A-GAGAATCGCAAT
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAAT
*
25907 GCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
66 GCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAA
25950 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGGAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAAT-GAAATCGCAATGCGAAATGAAAATCGCAA
26015 TGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAA
65 TGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAA
*
26059 AATCGCAATGCGAAATGAAAATCGCAA--CGAGAT--AATCGCAATGCGAAAT
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAATCGCAATGCGAAAT
26108 TATAAACGCA
Statistics
Matches: 149, Mismatches: 3, Indels: 11
0.91 0.02 0.07
Matches are distributed among these distances:
103 35 0.23
104 26 0.17
106 2 0.01
107 5 0.03
108 1 0.01
109 80 0.54
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (108 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAAT
GCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAA
Found at i:26123 original size:52 final size:52
Alignment explanation
Indices: 25847--26107 Score: 370
Period size: 52 Copynumber: 4.9 Consensus size: 52
25837 GCAACGAGAG
*
25847 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G-AATCGCAATGCGAAATGAA
*
25898 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAA
25950 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGGAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CGAAA--G-AATCGCAATGCGAAATGAA
26007 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAA
* *
26059 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAAT
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAAT
26108 TATAAACGCA
Statistics
Matches: 195, Mismatches: 5, Indels: 19
0.89 0.02 0.09
Matches are distributed among these distances:
47 8 0.04
48 1 0.01
49 6 0.03
51 28 0.14
52 95 0.49
53 1 0.01
54 4 0.02
55 5 0.03
56 1 0.01
57 46 0.24
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (52 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAA
Found at i:26203 original size:19 final size:18
Alignment explanation
Indices: 26114--26195 Score: 100
Period size: 19 Copynumber: 4.6 Consensus size: 18
26104 AAATTATAAA
26114 CGCATTGCGATTTCATTT
1 CGCATTGCGATTTCATTT
26132 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGA-TTTCATTT
*
26152 CGCATTGCGA-TTC-TCT
1 CGCATTGCGATTTCATTT
26168 CG--TTGCGATTTTCATTT
1 CGCATTGCGA-TTTCATTT
26185 CGCATTGCGAT
1 CGCATTGCGAT
26196 AGTCATTTTG
Statistics
Matches: 55, Mismatches: 2, Indels: 13
0.79 0.03 0.19
Matches are distributed among these distances:
14 6 0.11
16 7 0.13
17 7 0.13
18 1 0.02
19 26 0.47
20 8 0.15
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.43
Consensus pattern (18 bp):
CGCATTGCGATTTCATTT
Found at i:26320 original size:14 final size:14
Alignment explanation
Indices: 26301--26337 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
26291 CATCAATTAC
26301 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
26315 ACAAATCATCTTTT
1 ACAAATCAACTTTT
26329 ACAAATCAA
1 ACAAATCAA
26338 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:28303 original size:14 final size:14
Alignment explanation
Indices: 28284--28340 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
28274 GCGAAATGAA
*
28284 AATCGCAACGACAG
1 AATCGCAACGAAAG
28298 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
28315 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
28331 AATCGCAACG
1 AATCGCAACG
28341 CGAAATTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:28311 original size:33 final size:33
Alignment explanation
Indices: 28265--28357 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
28255 GCGAAACCAA
*
28265 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
28298 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
28331 AATCGCAACGCGAAATTAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
28358 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:28322 original size:19 final size:19
Alignment explanation
Indices: 28228--28362 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
28218 TAGTTTACTT
* *
28228 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
28248 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
28267 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
28286 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
28300 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
28319 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
*
28333 TCGCAACGCGAAATTAAAA
1 TCGCAACGCGAAATGAAAA
*
28352 TCGCAATGCGA
1 TCGCAACGCGA
28363 TTTTGGTTTC
Statistics
Matches: 96, Mismatches: 9, Indels: 21
0.76 0.07 0.17
Matches are distributed among these distances:
14 16 0.17
16 11 0.11
17 10 0.10
19 47 0.49
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.12
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:28380 original size:19 final size:19
Alignment explanation
Indices: 28358--28485 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
28348 AAAATCGCAA
28358 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
28377 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
28391 TGCGA-TTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
28409 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
28423 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
28442 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
28461 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
28481 TGCGA
1 TGCGA
28486 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 9, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
13 2 0.02
14 20 0.23
16 3 0.03
17 1 0.01
18 10 0.11
19 39 0.44
20 13 0.15
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.45
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:28443 original size:33 final size:34
Alignment explanation
Indices: 28358--28448 Score: 143
Period size: 32 Copynumber: 2.8 Consensus size: 34
28348 AAAATCGCAA
28358 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTTGTCGT
28391 TGCGA-TTTGGTTTCGCGTTGCGATTC-TGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTTGTCGT
**
28423 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
28449 TTGGTTTCGC
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
32 29 0.54
33 25 0.46
ACGTcount: A:0.08, C:0.19, G:0.29, T:0.45
Consensus pattern (34 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTTGTCGT
Found at i:28768 original size:91 final size:93
Alignment explanation
Indices: 28529--28905 Score: 717
Period size: 92 Copynumber: 4.1 Consensus size: 93
28519 TTGAATGGAT
28529 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
28594 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
28622 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
28686 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
28714 -AATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
28777 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
28805 AAATTTACTTTCAACC-AAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
28869 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
28897 AAATTTACT
1 AAATTTACT
28906 AAGCAATCTA
Statistics
Matches: 281, Mismatches: 1, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
91 113 0.40
92 129 0.46
93 39 0.14
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:28850 original size:183 final size:185
Alignment explanation
Indices: 28527--28905 Score: 719
Period size: 183 Copynumber: 2.1 Consensus size: 185
28517 ACTTGAATGG
28527 ATAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATAC
1 ATAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATAC
28592 ACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACA
66 ACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACA
28657 AATATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGA
131 AATATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGA
*
28712 A-CAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATAC
1 ATAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATAC
28775 ACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACC-AAAGACAAAACAAAGACA
66 ACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACA
28839 AATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGA
131 AATA-TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGA
28895 ATAAATTTACT
1 ATAAATTTACT
28906 AAGCAATCTA
Statistics
Matches: 190, Mismatches: 2, Indels: 5
0.96 0.01 0.03
Matches are distributed among these distances:
182 22 0.12
183 121 0.64
184 46 0.24
185 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (185 bp):
ATAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATAC
ACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACA
AATATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGA
Found at i:30629 original size:14 final size:14
Alignment explanation
Indices: 30610--30699 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
30600 TTGAAATGAA
30610 AATCGCAACGAGAG
1 AATCGCAACGAGAG
30624 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
30641 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
30657 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
30676 AATCGCAACGAGAG
1 AATCGCAACGAGAG
30690 AATCGCAACG
1 AATCGCAACG
30700 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:30647 original size:33 final size:33
Alignment explanation
Indices: 30602--30716 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
30592 TCTTTTGGTT
30602 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
30635 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
30668 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
30701 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
30717 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:30648 original size:19 final size:18
Alignment explanation
Indices: 30609--30721 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
30599 GTTGAAATGA
30609 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
30624 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
30641 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
30657 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
30674 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
30690 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
30707 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
30722 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:30752 original size:14 final size:14
Alignment explanation
Indices: 30733--30787 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
30723 TTTGGTTTCG
30733 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
30747 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
30766 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
30780 CGTTGCGA
1 CGTTGCGA
30788 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:30765 original size:33 final size:33
Alignment explanation
Indices: 30717--30787 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
30707 AAAATCGCAA
**
30717 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
30750 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
30783 TGCGA
1 TGCGA
30788 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:30795 original size:33 final size:33
Alignment explanation
Indices: 30728--30809 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
30718 GCGATTTTGG
***
30728 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
30761 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
30794 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
30810 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:30814 original size:20 final size:20
Alignment explanation
Indices: 30740--30828 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
30730 TCGCGTTGCG
30740 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
30760 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
30773 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
30793 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
30813 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
30829 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:30950 original size:33 final size:33
Alignment explanation
Indices: 30908--30978 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
30898 AATACTAACT
30908 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
***
30941 TGAAAATCGCAACGAGAGAATCTTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
30974 TGAAA
1 TGAAA
30979 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:0.17, G:0.23, T:0.13
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:31210 original size:22 final size:22
Alignment explanation
Indices: 31158--31212 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
31148 TGGTTGTGAG
**
31158 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
31180 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
31202 GGATTTCTTCG
1 GGATTTCTTCG
31213 CCGTAGAGAG
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:31383 original size:20 final size:20
Alignment explanation
Indices: 31358--31550 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
31348 CTTTAAATAT
31358 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
31378 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
31400 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
31419 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
31439 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
31459 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
31479 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
31499 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
31519 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
31539 CGCGTTGCGATT
1 CGCGTTGCGATT
31551 ATTGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:31545 original size:60 final size:60
Alignment explanation
Indices: 31358--31550 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
31348 CTTTAAATAT
**
31358 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
31419 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
31479 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
31539 CGCGTTGCGATT
1 CGCGTTGCGATT
31551 ATTGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:39872 original size:27 final size:28
Alignment explanation
Indices: 39810--39880 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
39800 TATTAGATCC
* *
39810 AAACCTAAAATCCATACTCCCAAACCCT
1 AAACCTCAAATTCATACTCCCAAACCCT
*
39838 AAACCTCATATTCATA-TCCCTAAACCCT
1 AAACCTCAAATTCATACTCCC-AAACCCT
39866 AAA-CTCAAATTCATA
1 AAACCTCAAATTCATA
39881 ATATCTCCTC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 15 0.39
28 23 0.61
ACGTcount: A:0.42, C:0.34, G:0.00, T:0.24
Consensus pattern (28 bp):
AAACCTCAAATTCATACTCCCAAACCCT
Found at i:41230 original size:2 final size:2
Alignment explanation
Indices: 41223--41250 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
41213 AAATTATTTG
41223 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
41251 TCAAATCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49936 original size:20 final size:20
Alignment explanation
Indices: 49908--49946 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
49898 TAAATTAAAT
* *
49908 ATTAGATAGGATCAATTTTA
1 ATTAAATAGAATCAATTTTA
49928 ATTAAATAGAATCAATTTT
1 ATTAAATAGAATCAATTTT
49947 TATTCTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (20 bp):
ATTAAATAGAATCAATTTTA
Found at i:50036 original size:53 final size:52
Alignment explanation
Indices: 49907--50053 Score: 221
Period size: 53 Copynumber: 2.9 Consensus size: 52
49897 CTAAATTAAA
* * *
49907 TATTAGATAGGATCAATTTTAATTAAATAGAATCAATTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCATTTTTTATTCTATTAGT
*
49959 TA-T---TAGGATCATTTTTAATTAGATAAAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCA-TTTTTTATTCTATTAGT
50008 TATTAGATAGGATCATTTTTAATTAGATAGAATCATTTTTTATTCT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCATTTTTTATTCT
50054 GTTGCTAATT
Statistics
Matches: 85, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
48 25 0.29
49 18 0.21
50 1 0.01
51 1 0.01
52 13 0.15
53 27 0.32
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (52 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCATTTTTTATTCTATTAGT
Found at i:50049 original size:21 final size:20
Alignment explanation
Indices: 50009--50047 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
49999 TCTATTAGTT
*
50009 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCATTTTTA
50029 ATTAGATAGAATCATTTTT
1 ATTAGATAGAATCATTTTT
50048 TATTCTGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.05, G:0.13, T:0.46
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:54636 original size:20 final size:20
Alignment explanation
Indices: 54611--54701 Score: 63
Period size: 20 Copynumber: 5.0 Consensus size: 20
54601 TAAATTAAAT
*
54611 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
* *
54631 ATTAGATAGAATCAATTTTT
1 ATTAGATAGAATCAGTTTTA
* *
54651 ATT--CT---ATTAG--TT-
1 ATTAGATAGAATCAGTTTTA
* *
54663 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCAGTTTTA
54683 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
54702 TTATTCTATT
Statistics
Matches: 52, Mismatches: 11, Indels: 16
0.66 0.14 0.20
Matches are distributed among these distances:
12 3 0.06
13 2 0.04
14 1 0.02
15 3 0.06
17 3 0.06
18 1 0.02
19 2 0.04
20 37 0.71
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:54688 original size:52 final size:52
Alignment explanation
Indices: 54610--54759 Score: 266
Period size: 53 Copynumber: 2.9 Consensus size: 52
54600 CTAAATTAAA
*
54610 TATTAGATAGGATCAGTTTTAATTAGATAGAATCAATTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAATTTTTATTCTATTAGT
*
54662 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCA-ATTTTTATTCTATTAGT
54715 TATTAGATAGGATCATTTTTAATTAGATAGAATC-ATTTTTATTCT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAATTTTTATTCT
54760 GTTGCTAATT
Statistics
Matches: 94, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
51 10 0.11
52 34 0.36
53 50 0.53
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (52 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAATTTTTATTCTATTAGT
Found at i:54741 original size:20 final size:20
Alignment explanation
Indices: 54716--54755 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
54706 TCTATTAGTT
*
54716 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCATTTTTA
54736 ATTAGATAGAATCATTTTTA
1 ATTAGATAGAATCATTTTTA
54756 TTCTGTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:56037 original size:18 final size:18
Alignment explanation
Indices: 56014--56048 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
56004 TCCACTGTAT
*
56014 TTTGAAAATGGGTTGAAA
1 TTTGAAAATGAGTTGAAA
56032 TTTGAAAATGAGTTGAA
1 TTTGAAAATGAGTTGAA
56049 GAATTGACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.26, T:0.34
Consensus pattern (18 bp):
TTTGAAAATGAGTTGAAA
Found at i:58756 original size:47 final size:47
Alignment explanation
Indices: 58684--58779 Score: 138
Period size: 47 Copynumber: 2.0 Consensus size: 47
58674 GGTCCGAGTC
* * * *
58684 ATGTTGATTCACTTTTGTTCTTTATTGGCTTGGATCTGTCACTTCAT
1 ATGTTGATTCACTTTTGTTCCTTATTGGCCTGGAACTGTCACTTAAT
* *
58731 ATGTTGATTTACTTTTGTTCCTTATTGGCCTGGAACTGTCTCTTAAT
1 ATGTTGATTCACTTTTGTTCCTTATTGGCCTGGAACTGTCACTTAAT
58778 AT
1 AT
58780 TTTAGGTTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (47 bp):
ATGTTGATTCACTTTTGTTCCTTATTGGCCTGGAACTGTCACTTAAT
Found at i:59523 original size:25 final size:25
Alignment explanation
Indices: 59495--59543 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
59485 TTTTGGATTT
* *
59495 CAAACTATTTGCGGGTTGATGCTTC
1 CAAAATATTAGCGGGTTGATGCTTC
*
59520 CAAAATATTAGCTGGTTGATGCTT
1 CAAAATATTAGCGGGTTGATGCTT
59544 ATTGATCCTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.37
Consensus pattern (25 bp):
CAAAATATTAGCGGGTTGATGCTTC
Found at i:65820 original size:14 final size:14
Alignment explanation
Indices: 65803--65841 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
65793 TTTTAAATAG
65803 TAATAAATCAAACT
1 TAATAAATCAAACT
* *
65817 TAATAAATTAACCT
1 TAATAAATCAAACT
*
65831 AAATAAATCAA
1 TAATAAATCAA
65842 TATGAAACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (14 bp):
TAATAAATCAAACT
Found at i:78692 original size:16 final size:15
Alignment explanation
Indices: 78673--78702 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
78663 GTAATGTGGA
78673 TAAAAATGATTTTGAT
1 TAAAAATG-TTTTGAT
78689 TAAAAATGTTTTGA
1 TAAAAATGTTTTGA
78703 GAGTCGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (15 bp):
TAAAAATGTTTTGAT
Found at i:79370 original size:13 final size:13
Alignment explanation
Indices: 79352--79383 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
79342 AAATAAAAAT
79352 AATAATAAAGAGC
1 AATAATAAAGAGC
79365 AATAATAAAGAGC
1 AATAATAAAGAGC
79378 AATAAT
1 AATAAT
79384 TAAAATACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.19
Consensus pattern (13 bp):
AATAATAAAGAGC
Found at i:81480 original size:235 final size:235
Alignment explanation
Indices: 81050--81956 Score: 1270
Period size: 235 Copynumber: 3.8 Consensus size: 235
81040 GGATTCAAGT
* *
81050 AAAAGGTTGAACAAGTTCTTTTCATTATGAACTTCTTCTTCCTT-TTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-TCCTTCTTCAGATGAGTTCTTCTTAT
* * * * ** * *
81114 TATGAACACT-TCTGGAAATGTTGATGTTGATCTATCTCCTTCTGTGAT-AGAGTCATA-CAAAG
65 TATGAACTCTACCTGG-CA-----ATGTTGATCCA--T-C--AAGTGATGA-ATTCA-AGCAAAA
*
81176 GGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTTTCATTATG
117 GGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
81241 AACACTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGC
182 AACACTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGC
* *
81295 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCTTCTTCAGATGAGTTCTTCTTATT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTTATT
81360 ATGAACTCTACCTGGCAATGTTGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACAAGTTC
66 ATGAACTCTACCTGGCAATGTTGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACAAGTTC
*
81425 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTTTTCTCATTATGAACACTTCTGGAAA
131 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACACTTCTGGAAA
81490 TGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGC
196 TGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGC
* * *
81530 AAAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTTAGATGAGTTCTTCTCATT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTTATT
* * * ** * *
81595 ATGAACACT-TCTGGAAATGTTGATGCGATCTATCTCCTTCTGTGAT-AGAGTCATGCAAAAGGT
66 ATGAACTCTACCTGGCAATGTTGAT-C---C-A--T-C--AAGTGATGA-ATTCAAGCAAAAGGT
*
81658 TGAACAAGTTCTTCTCACTATGAACTTCTTC-TCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
120 TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
* *
81722 ACTTCTGGAAATGTTGATGCTGATCTATCTCCTTATCTGATAGAGTCATGC
185 ACTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGC
*
81773 AAAATGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTTATT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTTATT
*
81838 ATGAACTCTACCTGGCAATGTTGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACAAATTC
66 ATGAACTCTACCTGGCAATGTTGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACAAGTTC
*
81903 TTCTCATTAAGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
131 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
81957 TCTTTATGTG
Statistics
Matches: 600, Mismatches: 44, Indels: 46
0.87 0.06 0.07
Matches are distributed among these distances:
234 60 0.10
235 233 0.39
236 2 0.00
237 2 0.00
238 2 0.00
239 2 0.00
240 11 0.02
241 1 0.00
242 1 0.00
243 152 0.25
244 65 0.11
245 65 0.11
246 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (235 bp):
AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTTATT
ATGAACTCTACCTGGCAATGTTGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACAAGTTC
TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACACTTCTGGAAA
TGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGC
Found at i:81672 original size:121 final size:122
Alignment explanation
Indices: 81405--81956 Score: 824
Period size: 122 Copynumber: 4.6 Consensus size: 122
81395 ATGAATTCAA
*
81405 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTTTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-TCCTTCTTCAGATGAGTTCTTCTC
*
81470 ATTATGAACACTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCAT
65 ATTATGAACACTTCTGGAAATGTTGATGCTGATCTATCTCCTTATGTGATAGAGTCAT
* *
81528 GCAAAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTTAGATGAGTTCTTCTCA
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCA
*
81593 TTATGAACACTTCTGGAAATGTTGATGC-GATCTATCTCCTTCTGTGATAGAGTCAT
66 TTATGAACACTTCTGGAAATGTTGATGCTGATCTATCTCCTTATGTGATAGAGTCAT
*
81649 GCAAAAGGTTGAACAAGTTCTTCTCACTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCA
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCA
*
81714 TTATGAACACTTCTGGAAATGTTGATGCTGATCTATCTCCTTATCTGATAGAGTCAT
66 TTATGAACACTTCTGGAAATGTTGATGCTGATCTATCTCCTTATGTGATAGAGTCAT
* *
81771 GCAAAATGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTTA
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCA
* * * * * *
81836 TTATGAACTCTACCTGGCAATGTTGAT-C----C-A--T-C--AAGTGAT-GAATTCAA
66 TTATGAACACT-TCTGGAAATGTTGATGCTGATCTATCTCCTTATGTGATAG-AGTCAT
* *
81883 GCAAAAGGTTGAACAAATTCTTCTCATTAAGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-TCCTTCTTCAGATGAGTTCTTCTC
81948 ATTATGAAC
65 ATTATGAAC
81957 TCTTTATGTG
Statistics
Matches: 403, Mismatches: 22, Indels: 18
0.91 0.05 0.04
Matches are distributed among these distances:
111 1 0.00
112 46 0.11
113 32 0.08
114 1 0.00
115 1 0.00
117 1 0.00
118 1 0.00
121 118 0.29
122 150 0.37
123 52 0.13
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (122 bp):
GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACACTTCTGGAAATGTTGATGCTGATCTATCTCCTTATGTGATAGAGTCAT
Found at i:81949 original size:478 final size:480
Alignment explanation
Indices: 81050--81956 Score: 1640
Period size: 478 Copynumber: 1.9 Consensus size: 480
81040 GGATTCAAGT
*
81050 AAAAGGTTGAACAAGTTCTTTTCATTATGAACTTCTTCTTCCTTTTCAGATGAGTTCTTCTCATT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTTTCAGATGAGTTCTTCTCATT
* *
81115 ATGAACACTTCTGGAAATGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCATACAAAGGGTT
66 ATGAACACTTCTGGAAATGTTGATGTCGATCTATCTCCTTCTGTGATAGAGTCATACAAAAGGTT
* *
81180 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTTTCATTATGAACA
131 GAACAAGTTCTTCTCACTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACA
* *
81245 CTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATGCAAAAGGTTGAACAAG
196 CTTCTGGAAATGTTGATGCTGATCTATCTCCTTATCTGATAGAGTCATGCAAAAGGTTGAACAAG
* *
81310 TTCTTCTCATTATGAACTTTTTCTTCTTCTTCAGATGAGTTCTTCTTATTATGAACTCTACCTGG
261 TTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCTACCTGG
* *
81375 CAATGTTGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACT
326 CAATGTTGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTAAGAACT
*
81440 TCTTCTTCCTTCTTCAGATGAGTTTTTCTCATTATGAACACTTCTGGAAATGTTGATGCTGATCT
391 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACACTTCTGGAAATGTTGATGCTGATCT
81505 ATCTCCTTCTGTGATAGAGTCATGC
456 ATCTCCTTCTGTGATAGAGTCATGC
* *
81530 AAAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTC-TCCTTCTTTAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTT-TTCAGATGAGTTCTTCTCAT
*
81594 TATGAACACTTCTGGAAATGTTGATG-CGATCTATCTCCTTCTGTGATAGAGTCATGCAAAAGGT
65 TATGAACACTTCTGGAAATGTTGATGTCGATCTATCTCCTTCTGTGATAGAGTCATACAAAAGGT
81658 TGAACAAGTTCTTCTCACTATGAACTTCTTC-TCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
130 TGAACAAGTTCTTCTCACTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
*
81722 ACTTCTGGAAATGTTGATGCTGATCTATCTCCTTATCTGATAGAGTCATGCAAAATGTTGAACAA
195 ACTTCTGGAAATGTTGATGCTGATCTATCTCCTTATCTGATAGAGTCATGCAAAAGGTTGAACAA
81787 GTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCTACCTG
260 GTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCTACCTG
81852 GCAATGTTGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTAAGAAC
325 GCAATGTTGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTAAGAAC
81917 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
390 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
81957 TCTTTATGTG
Statistics
Matches: 410, Mismatches: 16, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
478 259 0.63
479 70 0.17
480 81 0.20
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (480 bp):
AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTTTCAGATGAGTTCTTCTCATT
ATGAACACTTCTGGAAATGTTGATGTCGATCTATCTCCTTCTGTGATAGAGTCATACAAAAGGTT
GAACAAGTTCTTCTCACTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACA
CTTCTGGAAATGTTGATGCTGATCTATCTCCTTATCTGATAGAGTCATGCAAAAGGTTGAACAAG
TTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCTACCTGG
CAATGTTGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTAAGAACT
TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACACTTCTGGAAATGTTGATGCTGATCT
ATCTCCTTCTGTGATAGAGTCATGC
Found at i:82126 original size:73 final size:73
Alignment explanation
Indices: 81968--82225 Score: 358
Period size: 73 Copynumber: 3.5 Consensus size: 73
81958 CTTTATGTGG
* *
81968 TTGTTTTAAGAAAAACAATCTCGAGTGAGATAAAATTTCTTGTTTCGAGTGAAACTGTCTCAAGC
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGAT-AAA-TTGTTGTTTCGAGTGAAACTGTCTCAAGC
*
82033 GAGACAAAGC
64 GAGACAAAGT
* * * * *
82043 TTGTTTTAAGAAAAATAATCTCAAGTGAGATAAATTGTTGTTTCGAGGGAAACTTTCTCCAGTGA
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTGTTTCGAGTGAAACTGTCTCAAGCGA
*
82108 GA-ACTAGT
66 GACA-AAGT
* *
82116 TTGTTTTAAGAAAAACAATCTCAAGTGAAATAAATTATTGTTTCGAGTGAAACTGTCTCAAGCGA
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTGTTTCGAGTGAAACTGTCTCAAGCGA
*
82181 GACGCAA-T
66 GAC-AAAGT
82189 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTG
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTG
82226 CTATTTGAAA
Statistics
Matches: 160, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
72 1 0.01
73 126 0.79
74 4 0.03
75 29 0.18
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.31
Consensus pattern (73 bp):
TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTGTTTCGAGTGAAACTGTCTCAAGCGA
GACAAAGT
Found at i:82143 original size:36 final size:36
Alignment explanation
Indices: 82043--82218 Score: 97
Period size: 36 Copynumber: 4.8 Consensus size: 36
82033 GAGACAAAGC
* * *
82043 TTGTTTTAAGAAAAATAATCTCAAGTGAGATAAATTG
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGA-ATATTA
** ** ** * *
82080 TTGTTTCGAGGGAAACTTTCTCCAGTGAGAACTAGT-
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGAA-TATTA
82116 TTGTTTTAAGAAAAACAATCTCAAGTGA-AATAAATTA
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGAAT--ATTA
** ** ** * ** *
82153 TTGTTTCGAGTGAAACTGTCTCAAGCGAGACGCAAT-
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGA-ATATTA
82189 TTGTTTTAAGAAAAACAATCTCAAGTGAGA
1 TTGTTTTAAGAAAAACAATCTCAAGTGAGA
82219 TAAATTGCTA
Statistics
Matches: 98, Mismatches: 35, Indels: 13
0.67 0.24 0.09
Matches are distributed among these distances:
34 1 0.01
35 2 0.02
36 47 0.48
37 47 0.48
38 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.32
Consensus pattern (36 bp):
TTGTTTTAAGAAAAACAATCTCAAGTGAGAATATTA
Done.