Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006634.1 Hibiscus syriacus cultivar Beakdansim tig00016314_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: 95621
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Found at i:2503 original size:16 final size:16
Alignment explanation
Indices: 2465--2507 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
2455 AGGATAACAA
2465 AATG-AAAAAAAGCAC
1 AATGCAAAAAAAGCAC
2480 AATAGCAAAAATAAGC-C
1 AAT-GCAAAAA-AAGCAC
2497 AATGCAAAAAA
1 AATGCAAAAAA
2508 GAATGCAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.16
16 8 0.32
17 9 0.36
18 4 0.16
ACGTcount: A:0.65, C:0.14, G:0.12, T:0.09
Consensus pattern (16 bp):
AATGCAAAAAAAGCAC
Found at i:2952 original size:55 final size:55
Alignment explanation
Indices: 2866--3024 Score: 178
Period size: 55 Copynumber: 2.9 Consensus size: 55
2856 TTTAAAGAAA
* * * * * *
2866 GTCTTCACTCAGCTTCAAATTTCTTCCTTCATTGGACT-TCTTTCTTCATGGATCG
1 GTCTTCAATCAGTTTCAAATTTCTTCATTCATCGGA-TGTCTTTCTTCATAGACCG
* *
2921 GTCTTCAATCAGTTTCAAATTTCTTCATTCATCGGATGTCTTTTTTCATAGACCT
1 GTCTTCAATCAGTTTCAAATTTCTTCATTCATCGGATGTCTTTCTTCATAGACCG
* * * *
2976 GTCTTCAATCTGTTT-AAGATTTCTTCAATCATCGAATGTCATTCTTCAT
1 GTCTTCAATCAGTTTCAA-ATTTCTTCATTCATCGGATGTCTTTCTTCAT
3025 GAATCATTTG
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
54 3 0.03
55 86 0.97
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.45
Consensus pattern (55 bp):
GTCTTCAATCAGTTTCAAATTTCTTCATTCATCGGATGTCTTTCTTCATAGACCG
Found at i:5039 original size:2 final size:2
Alignment explanation
Indices: 5032--5089 Score: 98
Period size: 2 Copynumber: 29.0 Consensus size: 2
5022 ATTACAATTA
5032 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
* *
5074 AT AC AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT
5090 TAAGTCACTT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7023 original size:9 final size:9
Alignment explanation
Indices: 6996--7025 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
6986 GTGAATTGTA
6996 GAGTGGGTG
1 GAGTGGGTG
7005 GAGTGTGGTG
1 GAGTG-GGTG
7015 GAGTGGGTG
1 GAGTGGGTG
7024 GA
1 GA
7026 TGGATGATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.13, C:0.00, G:0.63, T:0.23
Consensus pattern (9 bp):
GAGTGGGTG
Found at i:14961 original size:19 final size:20
Alignment explanation
Indices: 14921--14961 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
14911 ACTAACTCAT
*
14921 TTTTTCTCATTAGTTTGTCA
1 TTTTTCTCATTACTTTGTCA
14941 TTTTTCATCATT-CTTTG-CA
1 TTTTTC-TCATTACTTTGTCA
14960 TT
1 TT
14962 GCATCATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 4 0.21
20 10 0.53
21 5 0.26
ACGTcount: A:0.15, C:0.17, G:0.07, T:0.61
Consensus pattern (20 bp):
TTTTTCTCATTACTTTGTCA
Found at i:18552 original size:16 final size:16
Alignment explanation
Indices: 18531--18570 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
18521 GATCGAGAAA
**
18531 ACATACATCAATGCAT
1 ACATACATCAACACAT
18547 ACATACATCAACACAT
1 ACATACATCAACACAT
18563 ACATACAT
1 ACATACAT
18571 ATTACATGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.28, G:0.03, T:0.23
Consensus pattern (16 bp):
ACATACATCAACACAT
Found at i:19168 original size:106 final size:102
Alignment explanation
Indices: 18888--19214 Score: 336
Period size: 103 Copynumber: 3.1 Consensus size: 102
18878 TCAAATTCTT
* *
18888 TCTCGTTTGAGACATTTTTCCTTTGAGGATACAAATTTTTGAATTTGTTTCACATTAAACAAAGT
1 TCTCGTTTGAGACATTTTTCCTTTGAGAATACAAA-TTTCGAATTTGTTTCACATTAAACAAAGT
* *
18953 TGATCTCATTTGAGATCGCTTTCTTAAAAAAAACTCCG
65 TGATCTCAATTGAGATCGATTTCTTAAAAAAAACTCCG
* * *
18991 TCTTGTTTGAGACATTTTTTTCCTTTGA-CATACAAATTTCGAATTTG-TTCA-TTTGAAACAAA
1 TCTCGTTTGAGACA--TTTTTCCTTTGAGAATACAAATTTCGAATTTGTTTCACATT-AAAC-AA
* * * * * *
19053 AATTAATCTCAATTGAGATTGTTATTTCTTTCAAAATAAATTTCG
62 AGTTGATCTCAATTGAGATCG--ATTTC-TT-AAAAAAAACTCCG
* * *
19098 TCTCATTTGAGGCATTTTTCATTTGAGAATACAAATTTCGAATTTGTTTCACATTAAACAAAGTT
1 TCTCGTTTGAGACATTTTTCCTTTGAGAATACAAATTTCGAATTTGTTTCACATTAAACAAAGTT
* * * * **
19163 GATCTCACTTGAGATCGTTTTCTCAAAAACAAGCTTTG
66 GATCTCAATTGAGATCGATTTCTTAAAAA-AAACTCCG
*
19201 TCTCGCTTGAGACA
1 TCTCGTTTGAGACA
19215 ATTTCCCTAA
Statistics
Matches: 181, Mismatches: 31, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
101 2 0.01
102 12 0.07
103 59 0.33
104 11 0.06
105 27 0.15
106 39 0.22
107 29 0.16
108 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.41
Consensus pattern (102 bp):
TCTCGTTTGAGACATTTTTCCTTTGAGAATACAAATTTCGAATTTGTTTCACATTAAACAAAGTT
GATCTCAATTGAGATCGATTTCTTAAAAAAAACTCCG
Found at i:19210 original size:36 final size:35
Alignment explanation
Indices: 19153--19290 Score: 143
Period size: 36 Copynumber: 3.8 Consensus size: 35
19143 GTTTCACATT
* **
19153 AAACAAAGTTGATCTCACTTGAGATCGTTTTCTC-AA
1 AAACAAATTTG-TCTCACTTGAGA-CAATTTCTCTAA
* * *
19189 AAACAAGCTTTGTCTCGCTTGAGACAATTTCCCTAA
1 AAACAA-ATTTGTCTCACTTGAGACAATTTCTCTAA
* **
19225 AAACAATTTTTGTCTCGTTTGAGACAATTTCTCTAA
1 AAACAA-ATTTGTCTCACTTGAGACAATTTCTCTAA
19261 AAACAAATGTTGTCTCACTTGAGACAATTT
1 AAACAAAT-TTGTCTCACTTGAGACAATTT
19291 TCCAAATTAT
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
35 7 0.08
36 76 0.88
37 3 0.03
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.35
Consensus pattern (35 bp):
AAACAAATTTGTCTCACTTGAGACAATTTCTCTAA
Found at i:19511 original size:49 final size:49
Alignment explanation
Indices: 19452--19552 Score: 159
Period size: 49 Copynumber: 2.1 Consensus size: 49
19442 TAAAACAAAA
*
19452 TGAAAAAATCTTTGAGTATGTTTATTT-GATAGCAAAATTTTGTCTCTTT
1 TGAAAAAATCTTTGAGTATGTTTATTTGGA-AACAAAATTTTGTCTCTTT
* *
19501 TGAAAGAATCTTTGAGTATGTTTCTTTGGAAACAAAATTTTGTCTCTTT
1 TGAAAAAATCTTTGAGTATGTTTATTTGGAAACAAAATTTTGTCTCTTT
19550 TGA
1 TGA
19553 GATAGTTCCT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
49 46 0.96
50 2 0.04
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.46
Consensus pattern (49 bp):
TGAAAAAATCTTTGAGTATGTTTATTTGGAAACAAAATTTTGTCTCTTT
Found at i:19655 original size:66 final size:66
Alignment explanation
Indices: 19507--19669 Score: 154
Period size: 66 Copynumber: 2.5 Consensus size: 66
19497 CTTTTGAAAG
* * * * * * *
19507 AATCTTTGAGTATGTTTCTTTGGAAACAAAATTTTGTCTCTTTTGAGATAGTTCCTTTTGAAGAA
1 AATCTTTGAGTATGTTTCTTTGAAAACAAAAGTTTGTCTCTTTTAAGACAATTCCTCTTGAAAAA
19572 A
66 A
* * * *
19573 AATCTTTAAGTCTGTTT-TTATGAAAACAAAGGTTTGTCTCTTTTAAGACAATTTCTCTT-AAAA
1 AATCTTTGAGTATGTTTCTT-TGAAAACAAAAGTTTGTCTCTTTTAAGACAATTCCTCTTGAAAA
19636 AA
65 AA
*
19638 ACATCTTTGAG-ATTGTTTCCCTTG-AAACAAAA
1 A-ATCTTTGAGTA-TGTTT-CTTTGAAAACAAAA
19670 CCTATATTTG
Statistics
Matches: 77, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
65 8 0.10
66 66 0.86
67 2 0.03
68 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (66 bp):
AATCTTTGAGTATGTTTCTTTGAAAACAAAAGTTTGTCTCTTTTAAGACAATTCCTCTTGAAAAA
A
Found at i:19780 original size:27 final size:27
Alignment explanation
Indices: 19676--19808 Score: 144
Period size: 27 Copynumber: 4.8 Consensus size: 27
19666 AAAACCTATA
* ***
19676 TTTGAGTTTGTTTCTTTTGAAACAAAAG
1 TTTGAGTCTGTTTCTTTTGAAA-AATTC
*
19704 TTTGTAAGT-TGTTTCTTTTGAAATAAAAATC
1 TTTG--AGTCTGTTTCTTTTG--A-AAAATTC
*
19735 TTTGAGT-TGTTTCTTTTGAAAATTTC
1 TTTGAGTCTGTTTCTTTTGAAAAATTC
19761 TTTGAGTCTGTTTCTTTTGAAAAATTC
1 TTTGAGTCTGTTTCTTTTGAAAAATTC
19788 TTTGAGTCTGTTTCTTTTGAA
1 TTTGAGTCTGTTTCTTTTGAA
19809 CCAAAGTTTT
Statistics
Matches: 94, Mismatches: 5, Indels: 13
0.84 0.04 0.12
Matches are distributed among these distances:
26 12 0.13
27 40 0.43
28 4 0.04
29 25 0.27
30 3 0.03
31 8 0.09
32 2 0.02
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (27 bp):
TTTGAGTCTGTTTCTTTTGAAAAATTC
Found at i:19882 original size:29 final size:30
Alignment explanation
Indices: 19844--19901 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
19834 ATTTCGTGAA
19844 AAAATATTTGAG-TCATTTCTTTTGAAACC
1 AAAATATTTGAGTTCATTTCTTTTGAAACC
* **
19873 AAAATCTTTGAGTTTGTTTCTTTTGAAAC
1 AAAATATTTGAGTTCATTTCTTTTGAAAC
19902 AAAGTTTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (30 bp):
AAAATATTTGAGTTCATTTCTTTTGAAACC
Found at i:19904 original size:29 final size:29
Alignment explanation
Indices: 19640--19904 Score: 133
Period size: 29 Copynumber: 9.0 Consensus size: 29
19630 TTAAAAAAAC
* **
19640 ATCTTTGAGATTGTTTCCCTTGAAACAAAA
1 ATCTTTGAGTTTGTTTCTTTTGAAAC-AAA
*
19670 CCTATATTTGAGTTTGTTTCTTTTGAAACAAA
1 ---ATCTTTGAGTTTGTTTCTTTTGAAACAAA
* *
19702 AGT-TTGTAAG-TTGTTTCTTTTGAAATAAAA
1 A-TCTT-TGAGTTTGTTTCTTTTGAAA-CAAA
*
19732 ATCTTTGAG-TTGTTTCTTTTG-AA-AAT
1 ATCTTTGAGTTTGTTTCTTTTGAAACAAA
* *
19758 TTCTTTGAGTCTGTTTCTTTTG-AA-AAA
1 ATCTTTGAGTTTGTTTCTTTTGAAACAAA
* * *
19785 TTCTTTGAGTCTGTTTCTTTTGAACCAAA
1 ATCTTTGAGTTTGTTTCTTTTGAAACAAA
* *
19814 GT-TTT--GTTTCTCTTAAGACAATTTCGTG-AA-AAA
1 ATCTTTGAGTTTGT-TT----C--TTT--TGAAACAAA
* **
19847 ATATTTGAG-TCATTTCTTTTGAAACCAAA
1 ATCTTTGAGTTTGTTTCTTTTGAAA-CAAA
19876 ATCTTTGAGTTTGTTTCTTTTGAAACAAA
1 ATCTTTGAGTTTGTTTCTTTTGAAACAAA
19905 GTTTTGTCAC
Statistics
Matches: 187, Mismatches: 22, Indels: 50
0.72 0.08 0.19
Matches are distributed among these distances:
26 16 0.09
27 41 0.22
28 9 0.05
29 53 0.28
30 24 0.13
31 1 0.01
32 3 0.02
33 29 0.16
34 6 0.03
35 4 0.02
36 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (29 bp):
ATCTTTGAGTTTGTTTCTTTTGAAACAAA
Found at i:19918 original size:91 final size:89
Alignment explanation
Indices: 19761--19975 Score: 245
Period size: 91 Copynumber: 2.4 Consensus size: 89
19751 TGAAAATTTC
* * * **
19761 TTTGAGTCTGTTTCTTTTGAAAAATTCTTTGAGTCTGTTTCTTTTGAACCAAAGTTTTGTTTCTC
1 TTTGAGTCTATTTCTTTTGAAAAAATCTTTGAGTCTGTTTCTTTTGAAACAAAGTTTTGTCACTC
19826 TTAAGACAATTTCGTGAAAAAATA
66 TTAAGACAATTTCGTGAAAAAATA
*
19850 TTTGAGTC-ATTTCTTTTGAAACCAAAATCTTTGAGTTTGTTTCTTTTGAAACAAAGTTTTGTCA
1 TTTGAGTCTATTTCTTTTG-AA--AAAATCTTTGAGTCTGTTTCTTTTGAAACAAAGTTTTGTCA
* * * * *
19914 CTCTTGAGACAGTTTTTCCTGAGAAATATC
63 CTCTTAAGACA--ATTTCGTGA-AAAAATA
* *
19944 TTTGAGTCTGTTCCTTTTG-AAAAATCTTTGAG
1 TTTGAGTCTATTTCTTTTGAAAAAATCTTTGAG
19976 ATTGTGTCTC
Statistics
Matches: 106, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
88 9 0.08
89 10 0.09
91 58 0.55
93 8 0.08
94 13 0.12
95 8 0.08
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.45
Consensus pattern (89 bp):
TTTGAGTCTATTTCTTTTGAAAAAATCTTTGAGTCTGTTTCTTTTGAAACAAAGTTTTGTCACTC
TTAAGACAATTTCGTGAAAAAATA
Found at i:20088 original size:29 final size:29
Alignment explanation
Indices: 20052--20173 Score: 117
Period size: 29 Copynumber: 4.2 Consensus size: 29
20042 CAATTTTTAA
*
20052 TGAAAAATCAACCTTTGAGATTGTTTCTTT
1 TGAAAAATCAATCTTTGAG-TTGTTTCTTT
*
20082 T-AAAAAT-ATTTCTTTGAGTCTGTTTCTTT
1 TGAAAAATCA-ATCTTTGAGT-TGTTTCTTT
*
20111 TGAAACATC-ATCTTTGAGTTTGTTTCTTT
1 TGAAAAATCAATCTTTGAG-TTGTTTCTTT
* * *
20140 TGAAACAT-TATCTTTGAGTCAGTTTCTTT
1 TGAAAAATCAATCTTTGAGT-TGTTTCTTT
20169 TGAAA
1 TGAAA
20174 TCATTATCCC
Statistics
Matches: 80, Mismatches: 5, Indels: 15
0.80 0.05 0.15
Matches are distributed among these distances:
28 3 0.04
29 70 0.88
30 7 0.09
ACGTcount: A:0.26, C:0.12, G:0.13, T:0.48
Consensus pattern (29 bp):
TGAAAAATCAATCTTTGAGTTGTTTCTTT
Found at i:20134 original size:58 final size:58
Alignment explanation
Indices: 20064--20173 Score: 168
Period size: 58 Copynumber: 1.9 Consensus size: 58
20054 AAAAATCAAC
* *
20064 CTTTGAGATTGTTTCTTTT-AAAAATATTTCTTTGAGTCTGTTTCTTTTGAAACATCAT
1 CTTTGAGATTGTTTCTTTTGAAAAAT-TATCTTTGAGTCAGTTTCTTTTGAAACATCAT
* *
20122 CTTTGAGTTTGTTTCTTTTGAAACATTATCTTTGAGTCAGTTTCTTTTGAAA
1 CTTTGAGATTGTTTCTTTTGAAAAATTATCTTTGAGTCAGTTTCTTTTGAAA
20174 TCATTATCCC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
58 42 0.89
59 5 0.11
ACGTcount: A:0.23, C:0.12, G:0.14, T:0.52
Consensus pattern (58 bp):
CTTTGAGATTGTTTCTTTTGAAAAATTATCTTTGAGTCAGTTTCTTTTGAAACATCAT
Found at i:20425 original size:134 final size:128
Alignment explanation
Indices: 20182--20489 Score: 377
Period size: 134 Copynumber: 2.4 Consensus size: 128
20172 AATCATTATC
* * * * * *
20182 CCTATAGATGGTC-AGAACTCTTCATCACATATGAGTCGTGTCATTCCCCGACTCTTCATCATGT
1 CCTAAAGATGGACAAGAACTCTTCATCACGTATGAG-CATGTCATCCCCCGACTCTTCATCACGT
* * * *
20246 ATGAACCGTGTCACCCCTAGATAACCAGTCGTCCTCATCGCGTAGGAACCGAGTTATCACCCTT
65 ATGAACCGTGTCACCCATAGATAACCAGCCGTCCTCATCGAGTAGGAACCGAGATATCACCCTT
*
20310 CCTAAAGAT-GACTAGAACTCTTCATCACGTATGAGCCATGTCATCCCCCGACCAGATCTTTTCA
1 CCTAAAGATGGACAAGAACTCTTCATCACGTATGAG-CATGTCATCCCCCGA-C---TC--TTCA
* * *
20374 TCACGTATGAGCTGTGTCACCCATAGATAACTAGCCGTCCTCATCGAGTAGGAACCGAGATATCA
59 TCACGTATGAACCGTGTCACCCATAGATAACCAGCCGTCCTCATCGAGTAGGAACCGAGATATCA
20439 CCCTT
124 CCCTT
* *
20444 CCTAAAGATGGCCAAGAACTCTTAATCACGTATGAGCAGTGTCATC
1 CCTAAAGATGGACAAGAACTCTTCATCACGTATGAGCA-TGTCATC
20490 AAGTATGAGC
Statistics
Matches: 154, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
127 2 0.01
128 42 0.27
129 1 0.01
132 2 0.01
134 77 0.50
135 30 0.19
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (128 bp):
CCTAAAGATGGACAAGAACTCTTCATCACGTATGAGCATGTCATCCCCCGACTCTTCATCACGTA
TGAACCGTGTCACCCATAGATAACCAGCCGTCCTCATCGAGTAGGAACCGAGATATCACCCTT
Found at i:20651 original size:3 final size:3
Alignment explanation
Indices: 20643--20686 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
20633 TTATTTATAT
20643 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
20687 CAAATTTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:25996 original size:17 final size:17
Alignment explanation
Indices: 25963--26015 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
25953 TGAATAAAGT
* *
25963 TAGTTCATTAATTAAAC
1 TAGTTCATTCATCAAAC
*
25980 TAGTTTATTCATCAAAC
1 TAGTTCATTCATCAAAC
* *
25997 TAGTTCATTTATTAAAC
1 TAGTTCATTCATCAAAC
26014 TA
1 TA
26016 ACTCTTAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (17 bp):
TAGTTCATTCATCAAAC
Found at i:30683 original size:13 final size:13
Alignment explanation
Indices: 30662--30713 Score: 61
Period size: 13 Copynumber: 4.0 Consensus size: 13
30652 AATGACGCGC
*
30662 AATGCGCGTCATA
1 AATGAGCGTCATA
*
30675 AATGTGCGTCATA
1 AATGAGCGTCATA
*
30688 AATGAGTGTCATA
1 AATGAGCGTCATA
30701 AATGCA-CGTCATA
1 AATG-AGCGTCATA
30714 GATTTGTGAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
13 33 0.97
14 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (13 bp):
AATGAGCGTCATA
Found at i:30691 original size:26 final size:26
Alignment explanation
Indices: 30662--30713 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
30652 AATGACGCGC
* **
30662 AATGCGCGTCATAAATGTGCGTCATA
1 AATGAGCGTCATAAATGCACGTCATA
*
30688 AATGAGTGTCATAAATGCACGTCATA
1 AATGAGCGTCATAAATGCACGTCATA
30714 GATTTGTGAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (26 bp):
AATGAGCGTCATAAATGCACGTCATA
Found at i:32284 original size:77 final size:79
Alignment explanation
Indices: 32189--32341 Score: 206
Period size: 78 Copynumber: 2.0 Consensus size: 79
32179 AATACGATTG
* *
32189 CGCCTAAAAATTTCATGGTTCAATAA-AAAATAGGTTACAATATGGAATGTTAATA-TTTTTATT
1 CGCCCAAAAATTTCATGGTTCAATAAGAAAATAGGTTACAATATAGAATGTTAATACTTTTTATT
32252 A-ATAAAATTTGTTC
66 ATA-AAAATTTGTTC
* * * *
32266 CGCCCAAAAATGTT-ATGGTTCACTAAGAAAGTAGGTTGCAATATAGAATTTTAATACTTTTTAT
1 CGCCCAAAAAT-TTCATGGTTCAATAAGAAAATAGGTTACAATATAGAATGTTAATACTTTTTAT
32330 TATAAAAATTTG
65 TATAAAAATTTG
32342 AAAGTATGGA
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
77 21 0.32
78 27 0.41
79 17 0.26
80 1 0.02
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (79 bp):
CGCCCAAAAATTTCATGGTTCAATAAGAAAATAGGTTACAATATAGAATGTTAATACTTTTTATT
ATAAAAATTTGTTC
Found at i:32585 original size:68 final size:71
Alignment explanation
Indices: 32492--32671 Score: 195
Period size: 73 Copynumber: 2.5 Consensus size: 71
32482 TTTTAAATTC
* * * *
32492 GTATGGATACTTTTTAACAATTATTGATACTTTCGAATT-A-AAAAA-ATGGAAAATAAGAAGGG
1 GTATCGATACTTTTTCACAAATATTGATACTTTCGAATTAAGAAAAACATAGAAAATAAGAAGGG
32554 TACAAA
66 TACAAA
* * * *
32560 GTATTGATACTTTTTCACAAGTATTGATACTTTCAAATTTAAAGAAAAACATAGAAAATGAGAAG
1 GTATCGATACTTTTTCACAAATATTGATACTTTCGAA-TT-AAGAAAAACATAGAAAATAAGAAG
* **
32625 GTTGTAAA
64 GGTACAAA
* * *
32633 GTATCAATACTTTTCCACAAATATTGATACTTTTGAATT
1 GTATCGATACTTTTTCACAAATATTGATACTTTCGAATT
32672 TTTATAAAAT
Statistics
Matches: 92, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
68 33 0.36
69 2 0.02
71 1 0.01
72 7 0.08
73 49 0.53
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.34
Consensus pattern (71 bp):
GTATCGATACTTTTTCACAAATATTGATACTTTCGAATTAAGAAAAACATAGAAAATAAGAAGGG
TACAAA
Found at i:32902 original size:100 final size:99
Alignment explanation
Indices: 32723--33397 Score: 646
Period size: 99 Copynumber: 6.7 Consensus size: 99
32713 GTTATGCTCG
* *
32723 TGATAACGTAGTAGGTAACACCTTTTTTTAATGTCAACTGTATAAGTTATAAGTATGAAACGATT
1 TGATAACGTAGTAGGTAACGCCTTTTTTT-ATGTCAACTGTTTAAGTTATAAGTATGAAACG-TT
* * * * *
32788 TATATGATGAAAAAGAAAGACAAAACAAGTTTCTCA
64 TATATTATGCAAAAGTAAGACAAAACATGTTTTTCA
* * * *
32824 TGATAACGTAGCATGTACCGCCTTTTTTTATGTCAACTGTTTAAGTTATAAGTATAAAACCGTTT
1 TGATAACGTAGTAGGTAACGCCTTTTTTTATGTCAACTGTTTAAGTTATAAGTATGAAA-CGTTT
32889 ATATTATGCAAAAGTAAGACAAAACATGTTTTTCA
65 ATATTATGCAAAAGTAAGACAAAACATGTTTTTCA
* * * * * *
32924 TGATAACATAATAGGT-AC-CATATTTTTTATGTCAACAGCTTAAGTTATAAGTACGAAACTGTT
1 TGATAACGTAGTAGGTAACGCCT-TTTTTTATGTCAACTGTTTAAGTTATAAGTATGAAAC-GTT
*
32987 TATATTATGTAAAAGTAAGACAAAACATGTTTTTCA
64 TATATTATGCAAAAGTAAGACAAAACATGTTTTTCA
* ** * * *
33023 TGATAACGTAGTTGGTAGTGCATTTTTTTATGTCAA-TCGTTTAAGATATAAGTATGAAATTGTT
1 TGATAACGTAGTAGGTAACGCCTTTTTTTATGTCAACT-GTTTAAGTTATAAGTATGAAA-CGTT
* * * *
33087 TATATTACGCAAAAGTAAGACAATA-TTTTTTTTCA
64 TATATTATGCAAAAGTAAGACAAAACATGTTTTTCA
* ** * ** * * *
33122 TGATAATGTAGTAGGTATTGCTTTTTTTTATGTCAACAATTTAAGTTAGAAGTATAAAATCATTT
1 TGATAACGTAGTAGGTAACGCCTTTTTTTATGTCAACTGTTTAAGTTATAAGTATGAAA-CGTTT
* *
33187 ATATTATACAAAAGTAAGACAAAACATGTTTCTCA
65 ATATTATGCAAAAGTAAGACAAAACATGTTTTTCA
* * * * * *
33222 TAATAACGTAGTAGCTAATGTC-TTTTTTATGTCAACCGTTTAAGGTATAAGTATGCAAAC-TAT
1 TGATAACGTAGTAGGTAACGCCTTTTTTTATGTCAACTGTTTAAGTTATAAGTATG-AAACGT-T
* * **
33285 TATATTATGAAAAAGTAAGACAAAGGTTGCTTATGATTGCTCA
64 TATATTATGCAAAAGTAAGACAAA----AC--ATG-TTTTTCA
* * * * *
33328 TGATAATGTATTAGGTAACG-TTTTTTTTATGTCAACCG-TTAAGTTATAAGTATGAAACTATTT
1 TGATAACGTAGTAGGTAACGCCTTTTTTTATGTCAACTGTTTAAGTTATAAGTATGAAAC-GTTT
33391 ATATTAT
65 ATATTAT
33398 TAAATATTAA
Statistics
Matches: 477, Mismatches: 76, Indels: 38
0.81 0.13 0.06
Matches are distributed among these distances:
98 4 0.01
99 218 0.46
100 155 0.32
101 30 0.06
103 1 0.00
104 4 0.01
105 27 0.06
106 38 0.08
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (99 bp):
TGATAACGTAGTAGGTAACGCCTTTTTTTATGTCAACTGTTTAAGTTATAAGTATGAAACGTTTA
TATTATGCAAAAGTAAGACAAAACATGTTTTTCA
Found at i:32991 original size:199 final size:194
Alignment explanation
Indices: 32746--33397 Score: 589
Period size: 199 Copynumber: 3.2 Consensus size: 194
32736 GGTAACACCT
* * *
32746 TTTTTTAATGTCAACTGTATAAGTTATAAGTATGAAAC-GATTTATATGATGAAAAAGAAAGACA
1 TTTTTT-ATGTCAACAGT-TAAGTTATAAGTA-GAAACTG-TTTATATTATGAAAAAGTAAGACA
* ** *
32810 AAACAAGTTTCTCATGATAACGTAGCATGTACCGCCTTTTTTTATGTCAACTGTTTAAGTTATAA
62 AAACATGTTTCTCATGATAACGTAG-ATGTAATGCCTTTTTTTATGTCAACTGTTTAAGATATAA
32875 GTATAAAACCGTTTATATTATGCAAAAGTAAGACAAAACATGTTTTTCATGATAACATAATAGGT
126 GTATAAAA-CGTTTATATTATGCAAAAGTAAGACAAAA-ATGTTTTTCATGATAACATAATAGGT
32940 A-CCATA
189 ATCC-TA
*
32946 TTTTTTATGTCAACAGCTTAAGTTATAAGTACGAAACTGTTTATATTATGTAAAAGTAAGACAAA
1 TTTTTTATGTCAACAG-TTAAGTTATAAGTA-GAAACTGTTTATATTATGAAAAAGTAAGACAAA
* * * *
33011 ACATGTTTTTCATGATAACGTAGTTGGTAGTGCATTTTTTTATGTCAA-TCGTTTAAGATATAAG
64 ACATGTTTCTCATGATAACGTAGAT-GTAATGCCTTTTTTTATGTCAACT-GTTTAAGATATAAG
** * * * * ** *
33075 TATGAAATTGTTTATATTACGCAAAAGTAAGACAATATTTTTTTTCATGATAATGTAGTAGGTAT
127 TAT-AAAACGTTTATATTATGCAAAAGTAAGACAAAAATGTTTTTCATGATAACATAATAGGTA-
* *
33140 TGCTT
190 TCCTA
* * * * *
33145 TTTTTTATGTCAACAATTTAAGTTAGAAGTATAAAATCATTTATATTAT-ACAAAAGTAAGACAA
1 TTTTTTATGTCAAC-AGTTAAGTTATAAGTAGAAACT-GTTTATATTATGA-AAAAGTAAGACAA
* * * *
33209 AACATGTTTCTCATAATAACGTAG-TAGCTAATGTC-TTTTTTATGTCAACCGTTTAAGGTATAA
63 AACATGTTTCTCATGATAACGTAGAT-G-TAATGCCTTTTTTTATGTCAACTGTTTAAGATATAA
* * ** **
33272 GTATGCAAAC-TATTATATTATGAAAAAGTAAGACAAAGGTTGCTTATGATTGCTCATGATAATG
126 GTAT-AAAACGT-TTATATTATGCAAAAGTAAGACAAA-AATG--T-T--TT--TCATGATAACA
* * * *
33336 TATTAGGTAACGTT
181 TAATAGGTATCCTA
* *
33350 TTTTTTATGTCAACCGTTAAGTTATAAGTATGAAACTATTTATATTAT
1 TTTTTTATGTCAACAGTTAAGTTATAAGTA-GAAACTGTTTATATTAT
33398 TAAATATTAA
Statistics
Matches: 376, Mismatches: 54, Indels: 40
0.80 0.11 0.09
Matches are distributed among these distances:
197 1 0.00
198 84 0.22
199 211 0.56
200 13 0.03
201 1 0.00
202 1 0.00
204 26 0.07
205 20 0.05
206 19 0.05
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (194 bp):
TTTTTTATGTCAACAGTTAAGTTATAAGTAGAAACTGTTTATATTATGAAAAAGTAAGACAAAAC
ATGTTTCTCATGATAACGTAGATGTAATGCCTTTTTTTATGTCAACTGTTTAAGATATAAGTATA
AAACGTTTATATTATGCAAAAGTAAGACAAAAATGTTTTTCATGATAACATAATAGGTATCCTA
Found at i:33905 original size:74 final size:73
Alignment explanation
Indices: 33805--33963 Score: 187
Period size: 74 Copynumber: 2.2 Consensus size: 73
33795 AAATATCTAA
* * *
33805 AAAAGTATCGATCATCATCGCATAAGTA-CAAATATTTTAAATTTTGATCTTTTTTATCAACTAT
1 AAAAGTATCGATCATCACCGCATAAGTATC-AATATTTTAAATTTTGATCTTATCT-TCAACTAT
33869 TTCAACT-TTT
64 TTCAA-TATTT
* * * * *
33879 AAAAGTATCGATCATGACCGTATAAGTATCGATATTTTAACTTTTGATCTTATCTTCAACTTTTT
1 AAAAGTATCGATCATCACCGCATAAGTATCAATATTTTAAATTTTGATCTTATCTTCAACTATTT
33944 CAATATTT
66 CAATATTT
**
33952 ACTAGTATCGAT
1 AAAAGTATCGAT
33964 AATAATATAT
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
72 1 0.01
73 25 0.34
74 46 0.63
75 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (73 bp):
AAAAGTATCGATCATCACCGCATAAGTATCAATATTTTAAATTTTGATCTTATCTTCAACTATTT
CAATATTT
Found at i:38300 original size:21 final size:21
Alignment explanation
Indices: 38262--38312 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
38252 ACATAGTATT
38262 AAATAA-AAATAATAATAGAA
1 AAATAAGAAATAATAATAGAA
38282 AAATAAGAAAT-ATATATAGAA
1 AAATAAGAAATAATA-ATAGAA
*
38303 ATATATAGAA
1 AAATA-AGAA
38313 CAAAATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 9 0.33
21 14 0.52
22 4 0.15
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.24
Consensus pattern (21 bp):
AAATAAGAAATAATAATAGAA
Found at i:38497 original size:2 final size:2
Alignment explanation
Indices: 38490--38535 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
38480 GTATACTTAA
38490 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38531 A- AT AT
1 AT AT AT
38536 TAATAAAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 40 0.95
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44803 original size:25 final size:25
Alignment explanation
Indices: 44769--44824 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
44759 AAATTTAACC
44769 CTCCTCTTCCAACTAGCCATAGCAG
1 CTCCTCTTCCAACTAGCCATAGCAG
44794 CTCCTCTTCCAACTAGCCATAGCAG
1 CTCCTCTTCCAACTAGCCATAGCAG
44819 CTCCTC
1 CTCCTC
44825 CCACACGGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.21, C:0.43, G:0.11, T:0.25
Consensus pattern (25 bp):
CTCCTCTTCCAACTAGCCATAGCAG
Found at i:45345 original size:22 final size:22
Alignment explanation
Indices: 45317--45368 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
45307 TTCCATTTAT
*
45317 TACCAAATAGTTTGAAAGCATA
1 TACCAAAGAGTTTGAAAGCATA
**
45339 TACCAAAGCTTTTGAAAGCATA
1 TACCAAAGAGTTTGAAAGCATA
45361 TACCAAAG
1 TACCAAAG
45369 CTGGAAAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.25
Consensus pattern (22 bp):
TACCAAAGAGTTTGAAAGCATA
Found at i:45369 original size:22 final size:22
Alignment explanation
Indices: 45327--45370 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
45317 TACCAAATAG
45327 TTTGAAAGCATATACCAAAGCT
1 TTTGAAAGCATATACCAAAGCT
45349 TTTGAAAGCATATACCAAAGCT
1 TTTGAAAGCATATACCAAAGCT
45371 GGAAAAACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (22 bp):
TTTGAAAGCATATACCAAAGCT
Found at i:47770 original size:671 final size:671
Alignment explanation
Indices: 46483--47824 Score: 2522
Period size: 671 Copynumber: 2.0 Consensus size: 671
46473 GGACTGGTAA
*
46483 CTCCTTTACGCAATTGTTGGAGTTACTAGGAGAAGTGCTTCCTTTTGCAAAATTCCCTCAATCAT
1 CTCCTTTACGCAATTGTTGGAGTTACTAGGAGAAGTGCTTCCTTTTGCAAAAATCCCTCAATCAT
*
46548 GCAAAGATATGAAGAAAATGATAAAAGATTTGGGTCTTGGATATGACAAAATTCATAGTTGTCCG
66 GCAAAGATATGAAGAAAATGATAAAAGATTTGGGTCTTGAATATGACAAAATTCATAGTTGTCCG
46613 AATGATTGTATGTTGTATTGGGGTGATCGAAAAAATCAGGACTCTTGCCATGTATGCGGAAAATC
131 AATGATTGTATGTTGTATTGGGGTGATCGAAAAAATCAGGACTCTTGCCATGTATGCGGAAAATC
*
46678 TCGATGGATGATTAGGGAGGCAGAAAATGTTACTGAGGATGAAGCTCAAGCACGATAAAGAAAGA
196 TCGATGGATGATTAAGGAGGCAGAAAATGTTACTGAGGATGAAGCTCAAGCACGATAAAGAAAGA
*
46743 AACTGGTCAATATTCTACGATATTTTCCTCTTATACCTAGGCTACAAAGATTGTTTATGTCCTCC
261 AACTGGTCAAGATTCTACGATATTTTCCTCTTATACCTAGGCTACAAAGATTGTTTATGTCCTCC
46808 AAGACTGTTGAGTCTATGAGGTGGCATCATGATGGCAGAACCAATGTTGGATTATTACGGCATCC
326 AAGACTGTTGAGTCTATGAGGTGGCATCATGATGGCAGAACCAATGTTGGATTATTACGGCATCC
*
46873 TGCGGATTCTTTATCTTGGAAGTCATTTGACAACAAGTACCCAACTTTTGCAAGAGATCCTCGAA
391 TGCGGATTCTTTAGCTTGGAAGTCATTTGACAACAAGTACCCAACTTTTGCAAGAGATCCTCGAA
46938 ATTTCAGGCTCAGTCTTGCAACTGATGGGTTTAATCCATTCAAAACCATGAGTACTTCGTATAGT
456 ATTTCAGGCTCAGTCTTGCAACTGATGGGTTTAATCCATTCAAAACCATGAGTACTTCGTATAGT
* *
47003 ACTTGGCTTGTTATCCTTTTTCTATACAATTTGCCTCCCTGGATTTGCATGAAACAATCATCTTT
521 ACTTGGCTTGTTATCCTTGTTCCATACAATTTGCCTCCCTGGATTTGCATGAAACAATCATCTTT
47068 CATCTTATCCATGATAATCCCCGGCGAGAAAGGCCCCGGGAATGATATTAATATTTACATACAGC
586 CATCTTATCCATGATAATCCCCGGCGAGAAAGGCCCCGGGAATGATATTAATATTTACATACAGC
* *
47133 TGCTAATTGCAGAGTTGAAAC
651 CGCTAATTACAGAGTTGAAAC
* *
47154 CTCCTTTATGCAATTGTTGGAGTTACTAGGAGAAGTGCTTCTTTTTGCAAAAATCCCTCAATCAT
1 CTCCTTTACGCAATTGTTGGAGTTACTAGGAGAAGTGCTTCCTTTTGCAAAAATCCCTCAATCAT
*
47219 GCAAAGATATGAAGAAAATGATAAAAGATTTGGGTCTTGAATATGACAAAATTCATAGTTGTTCG
66 GCAAAGATATGAAGAAAATGATAAAAGATTTGGGTCTTGAATATGACAAAATTCATAGTTGTCCG
*
47284 AATGATTGTATGTTGTATTGGGGTGATCGAAAAAATCAGGACTCTTGCTATGTATGCGGAAAATC
131 AATGATTGTATGTTGTATTGGGGTGATCGAAAAAATCAGGACTCTTGCCATGTATGCGGAAAATC
*
47349 TCGATGGATGATTAAGGAGGCAGAAAATGTTACTGAGGATGAAGCTCAAGCACGATCAAGAAAGA
196 TCGATGGATGATTAAGGAGGCAGAAAATGTTACTGAGGATGAAGCTCAAGCACGATAAAGAAAGA
47414 AACTGGTCAAGATTCTACGATATTTTCCTCTTATACCTAGGCTACAAAGATTGTTTATGTCCTCC
261 AACTGGTCAAGATTCTACGATATTTTCCTCTTATACCTAGGCTACAAAGATTGTTTATGTCCTCC
47479 AAGACTGTTGAGTCTATGAGGTGGCATCATGATGGCAGAACCAATGTTGGATTATTACGGCATCC
326 AAGACTGTTGAGTCTATGAGGTGGCATCATGATGGCAGAACCAATGTTGGATTATTACGGCATCC
47544 TGCGGATTCTTTAGCTTGGAAGTCATTTGACAACAAGTACCCAACTTTTGCAAGAGATCCTCGAA
391 TGCGGATTCTTTAGCTTGGAAGTCATTTGACAACAAGTACCCAACTTTTGCAAGAGATCCTCGAA
*
47609 ATTTCAGGCTCGGTCTTGCAACTGATGGGTTTAATCCATTCAAAACCATGAGTACTTCGTATAGT
456 ATTTCAGGCTCAGTCTTGCAACTGATGGGTTTAATCCATTCAAAACCATGAGTACTTCGTATAGT
* *
47674 ACTTGGCTTGTTGTCCTTGTTCCATATAATTTGCCTCCCTGGATTTGCATGAAACAATCATCTTT
521 ACTTGGCTTGTTATCCTTGTTCCATACAATTTGCCTCCCTGGATTTGCATGAAACAATCATCTTT
*
47739 CATCTTATCCATGATAATCCCCGGTGAGAAAGGCCCCGGGAATGATATTAATATTTACATACAGC
586 CATCTTATCCATGATAATCCCCGGCGAGAAAGGCCCCGGGAATGATATTAATATTTACATACAGC
47804 CGCTAATTACAGAGTTGAAAC
651 CGCTAATTACAGAGTTGAAAC
47825 AATTATGGGA
Statistics
Matches: 653, Mismatches: 18, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
671 653 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (671 bp):
CTCCTTTACGCAATTGTTGGAGTTACTAGGAGAAGTGCTTCCTTTTGCAAAAATCCCTCAATCAT
GCAAAGATATGAAGAAAATGATAAAAGATTTGGGTCTTGAATATGACAAAATTCATAGTTGTCCG
AATGATTGTATGTTGTATTGGGGTGATCGAAAAAATCAGGACTCTTGCCATGTATGCGGAAAATC
TCGATGGATGATTAAGGAGGCAGAAAATGTTACTGAGGATGAAGCTCAAGCACGATAAAGAAAGA
AACTGGTCAAGATTCTACGATATTTTCCTCTTATACCTAGGCTACAAAGATTGTTTATGTCCTCC
AAGACTGTTGAGTCTATGAGGTGGCATCATGATGGCAGAACCAATGTTGGATTATTACGGCATCC
TGCGGATTCTTTAGCTTGGAAGTCATTTGACAACAAGTACCCAACTTTTGCAAGAGATCCTCGAA
ATTTCAGGCTCAGTCTTGCAACTGATGGGTTTAATCCATTCAAAACCATGAGTACTTCGTATAGT
ACTTGGCTTGTTATCCTTGTTCCATACAATTTGCCTCCCTGGATTTGCATGAAACAATCATCTTT
CATCTTATCCATGATAATCCCCGGCGAGAAAGGCCCCGGGAATGATATTAATATTTACATACAGC
CGCTAATTACAGAGTTGAAAC
Found at i:52031 original size:42 final size:41
Alignment explanation
Indices: 51951--52031 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 41
51941 AAATTTTGTG
* *
51951 TTATTTAGCGGCGTTTGTAACAAAAACGCCGCAATATGTCAT
1 TTATTTAGCGGCATTTGTAAAAAAAACGCCGC-ATATGTCAT
*
51993 TTATTTAGCGGCATTTGTATCAAAAAAATGCCGC-TATGT
1 TTATTTAGCGGCATTTGTA--AAAAAAACGCCGCATATGT
52032 ACCAAATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 23 0.68
44 11 0.32
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (41 bp):
TTATTTAGCGGCATTTGTAAAAAAAACGCCGCATATGTCAT
Found at i:52107 original size:87 final size:88
Alignment explanation
Indices: 51998--52210 Score: 213
Period size: 88 Copynumber: 2.4 Consensus size: 88
51988 GTCATTTATT
* * * * *
51998 TAGCGGCATTTGTATCA-AAAAAATGCCGCTATGTACCA-AATTTTAGCGGCGTTTGTAGGATA-
1 TAGCGGCGTTTGTA-CACTAAAAATGCCGCTATATACCACAACTATAGCGGCGTTTGT---ATAG
*
52060 C-A-AACGCCGCTATATACCAGAGCTA
62 CAAGAACGCCGCTATATACCAGACCTA
* * * * *
52085 TCGCGGTGTTTGTGTC-CTAAAAATGCCGCTATATACCACACCTATCGCGGCGTTTGTATAGCAA
1 TAGCGGCGTTTGT-ACACTAAAAATGCCGCTATATACCACAACTATAGCGGCGTTTGTATAGCAA
*
52149 GAACGCCGCTATATACCAGTCCTA
65 GAACGCCGCTATATACCAGACCTA
* *
52173 TAGCGGCGTTTGTACACTAAAAATGCCACTAAATACCA
1 TAGCGGCGTTTGTACACTAAAAATGCCGCTATATACCA
52211 GACCTATTGC
Statistics
Matches: 102, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
85 3 0.03
86 1 0.01
87 32 0.31
88 66 0.65
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (88 bp):
TAGCGGCGTTTGTACACTAAAAATGCCGCTATATACCACAACTATAGCGGCGTTTGTATAGCAAG
AACGCCGCTATATACCAGACCTA
Found at i:52114 original size:44 final size:43
Alignment explanation
Indices: 52065--52217 Score: 164
Period size: 44 Copynumber: 3.5 Consensus size: 43
52055 GGATACAAAC
* *
52065 GCCGCTATATACCAGAGCTATCGCGGTGTTTGTGTCCTAAAAAT
1 GCCGCTATATACCAGACCTATCGCGGCGTTTGT-TCCTAAAAAT
* * * *
52109 GCCGCTATATACCACACCTATCGCGGCGTTTGTATAGC-AAGAAC
1 GCCGCTATATACCAGACCTATCGCGGCGTTTGT-T-CCTAAAAAT
* * *
52153 GCCGCTATATACCAGTCCTATAGCGGCGTTTGTACACTAAAAAT
1 GCCGCTATATACCAGACCTATCGCGGCGTTTGTTC-CTAAAAAT
* *
52197 GCCACTAAATACCAGACCTAT
1 GCCGCTATATACCAGACCTAT
52218 TGCGATGTTT
Statistics
Matches: 89, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
43 1 0.01
44 87 0.98
45 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (43 bp):
GCCGCTATATACCAGACCTATCGCGGCGTTTGTTCCTAAAAAT
Found at i:52293 original size:42 final size:43
Alignment explanation
Indices: 52247--52358 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 43
52237 AAATGCCGTG
* *
52247 AAATATCAACACTTATTGCGGCGTTTGTGAA-A-AAACGCTACT
1 AAATATCAACACCTATTGCGGCGTTT-TGAAGACAAACGCCACT
* * *
52289 AAATATCAACACCTATTACGGCGTTTTTAAGACAAACGCCGCT
1 AAATATCAACACCTATTGCGGCGTTTTGAAGACAAACGCCACT
* *
52332 AAATATCAATACCTATTGTGGCGTTTT
1 AAATATCAACACCTATTGCGGCGTTTT
52359 TGGTTAACAA
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 3 0.05
42 25 0.42
43 32 0.53
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (43 bp):
AAATATCAACACCTATTGCGGCGTTTTGAAGACAAACGCCACT
Found at i:54107 original size:13 final size:13
Alignment explanation
Indices: 54097--54121 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54087 ATTTAATATA
54097 AAAATAAAATAAT
1 AAAATAAAATAAT
54110 AAAATAAAATAA
1 AAAATAAAATAA
54122 AAGATAATCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATAAAATAAT
Found at i:55937 original size:18 final size:17
Alignment explanation
Indices: 55916--55962 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
55906 TTATAATCAT
55916 TAATGTAATTTTATTAAA
1 TAAT-TAATTTTATTAAA
*
55934 TAATTTA-TTTATTAAA
1 TAATTAATTTTATTAAA
55950 T-A-TAATTTTATTA
1 TAATTAATTTTATTA
55963 GATTATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 2 0.08
15 8 0.31
16 10 0.38
17 2 0.08
18 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TAATTAATTTTATTAAA
Found at i:56881 original size:10 final size:10
Alignment explanation
Indices: 56857--56914 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
56847 TTTACATTAT
*
56857 TTTTTATTGA
1 TTTTTATTCA
*
56867 ATTTTATTCA
1 TTTTTATTCA
* *
56877 CTTTTAATTCT
1 -TTTTTATTCA
56888 TTTTTATTGCA
1 TTTTTATT-CA
*
56899 TTTTTATTGA
1 TTTTTATTCA
56909 TTTTTA
1 TTTTTA
56915 AATATACGAG
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
10 22 0.58
11 16 0.42
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67
Consensus pattern (10 bp):
TTTTTATTCA
Found at i:56912 original size:21 final size:21
Alignment explanation
Indices: 56857--56914 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
56847 TTTACATTAT
*
56857 TTTTTATTGAATTTTATTCAC
1 TTTTTATTGATTTTTATTCAC
* **
56878 TTTTAATTCTTTTTTATTGCA-
1 TTTTTATTGATTTTTATT-CAC
56899 TTTTTATTGATTTTTA
1 TTTTTATTGATTTTTA
56915 AATATACGAG
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
21 27 0.93
22 2 0.07
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTTTATTGATTTTTATTCAC
Found at i:57566 original size:16 final size:16
Alignment explanation
Indices: 57542--57572 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57532 AAAAATATTT
57542 AAAGATTTTTATGCAG
1 AAAGATTTTTATGCAG
*
57558 AAAGTTTTTTATGCA
1 AAAGATTTTTATGCA
57573 CACAAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.42
Consensus pattern (16 bp):
AAAGATTTTTATGCAG
Found at i:58562 original size:28 final size:28
Alignment explanation
Indices: 58500--58563 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
58490 TTCTAATTTC
*
58500 ATATTTATTCAATTTAATCCTTAAAATT
1 ATATTTGTTCAATTTAATCCTTAAAATT
58528 ATATTTGTTCAATTTAATCCTTAAAATT
1 ATATTTGTTCAATTTAATCCTTAAAATT
58556 ATATTTGT
1 ATATTTGT
58564 GTCTGAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (28 bp):
ATATTTGTTCAATTTAATCCTTAAAATT
Found at i:60892 original size:18 final size:16
Alignment explanation
Indices: 60853--60905 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 16
60843 ATATTTTATT
*
60853 ATATTT-AATATTTT-
1 ATATTTAAATTTTTTA
60867 AT-TTTAAATTTATTTA
1 ATATTTAAATTT-TTTA
60883 AGTATTTAAATTTTTTA
1 A-TATTTAAATTTTTTA
60900 ATATTT
1 ATATTT
60906 TATTTAATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
13 3 0.09
14 6 0.18
15 3 0.09
16 6 0.18
17 6 0.18
18 9 0.27
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
ATATTTAAATTTTTTA
Found at i:60907 original size:17 final size:19
Alignment explanation
Indices: 60866--60907 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 19
60856 TTTAATATTT
60866 TATTTTAAATTTATTTAAG
1 TATTTTAAATTTATTTAAG
60885 TA-TTTAAATTT-TTTAA-
1 TATTTTAAATTTATTTAAG
60901 TATTTTA
1 TATTTTA
60908 TTTAATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 2 0.09
17 9 0.41
18 9 0.41
19 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TATTTTAAATTTATTTAAG
Found at i:61124 original size:55 final size:55
Alignment explanation
Indices: 61041--61168 Score: 204
Period size: 55 Copynumber: 2.3 Consensus size: 55
61031 GTAATAATTT
*
61041 ATTTATTTATTTATTTAATGCATGATTATTAATTTAAAAATTAATTTTTGTAATA
1 ATTTATTTATTTATTTAATGCAAGATTATTAATTTAAAAATTAATTTTTGTAATA
* *
61096 ATTTATTTATTTATTTAATGCAAGATTATTAGTTTAAAAATTAATTTTTGTAATT
1 ATTTATTTATTTATTTAATGCAAGATTATTAATTTAAAAATTAATTTTTGTAATA
61151 ATTTAATTT-TTGTATTTA
1 ATTT-ATTTATT-TATTTA
61169 GTTGTTTAGC
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
55 58 0.85
56 10 0.15
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.56
Consensus pattern (55 bp):
ATTTATTTATTTATTTAATGCAAGATTATTAATTTAAAAATTAATTTTTGTAATA
Found at i:69873 original size:22 final size:23
Alignment explanation
Indices: 69831--69885 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
69821 TAATTATCTC
69831 TTTAATATTTTTTGCCTTTG-AT
1 TTTAATATTTTTTGCCTTTGAAT
69853 TTTAA-ATTATTTATGCC-TTGAAT
1 TTTAATATT-TTT-TGCCTTTGAAT
69876 TTTAAT-TTTT
1 TTTAATATTTT
69886 AAATTTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
21 3 0.10
22 13 0.45
23 13 0.45
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.62
Consensus pattern (23 bp):
TTTAATATTTTTTGCCTTTGAAT
Found at i:71509 original size:646 final size:648
Alignment explanation
Indices: 69942--72537 Score: 5153
Period size: 647 Copynumber: 4.0 Consensus size: 648
69932 TTGTCCATGA
69942 AAATTTTAATTAATTATGCATGATAGCCACATAAAACACGGCTCAATTGATTTCATACTTGGACT
1 AAATTTTAATTAATTATGCATGATAGCCACATAAAACACGGCTCAATTGATTTCATACTTGGACT
70007 AATGTAAATGTTTGATTATTTTAGATCTTCAAGTAAAGGTTGTCCTAATCCAACTTATAGTCTTA
66 AATGTAAATGTTTGATTATTTTAGATCTTCAAGTAAAGGTTGTCCTAATCCAACTTATAGTCTTA
70072 TCCTGATAATTTAAAATAAGAAAATACTCTCATGTGTAATTAAATAAAAATGATGACACATTAAC
131 TCCTGATAATTTAAAATAAGAAAATACTCTCATGTGTAATTAAATAAAAATGATGACACATTAAC
70137 ATTGATCAGGAGAATGGAAAAACTCTTATCGAGAATAGACTGTTTGATCCTATTTGAAGGTCAGT
196 ATTGATCAGGAGAATGGAAAAACTCTTATCGAGAATAGACTGTTTGATCCTATTTGAAGGTCAGT
70202 TTTAGTATTTTTAAATAATTGAATGTCCTTTGTCCATCTTAATTGGATAGGTAGTTTTAATTAAT
261 TTTAGTATTTTTAAATAATTGAATGTCCTTTGTCCATCTTAATTGGATAGGTAGTTTTAATTAAT
70267 TTGAGTTTTTGTTGCATGATTTCAATTTGAATTAAGAATAGTGCTAGGTCCTAAGGAAAACATCG
326 TTGAGTTTTTGTTGCATGATTTCAATTTGAATTAAGAATAGTGCTAGGTCCTAAGGAAAACATCG
70332 ATATTTATTCTTTAAGAATCAGAAATTGCCACTCTACTTCTTATAAGAGGGCATTTATCCTCGAT
391 ATATTTATTCTTTAAGAATCAGAAATTGCCACTCTACTTCTTATAAGAGGGCATTTATCCTCGAT
70397 CAAAAGTGTCGAGATGACATCTTTTTACCTTGGAAGCCTGAAATTCTAGGAGAAAAATATCGATA
456 CAAAAGTGTCGAGATGACATCTTTTTACCTTGGAAGCCTGAAATTCTAGGAGAAAAATATCGATA
70462 TTTCTCCACTTTGGTTGGAAAGAGATATCATAGTTCTATCTTGTATTAGAAGGTTATCTCTCTTC
521 TTTCTCCACTTTGGTTGGAAAGAGATATCATAGTTCTATCTTGTATTAGAAGGTTATCTCTCTTC
70527 GATCGAAAGCCCCAAATCTTGACTATTTTTTAATACCCAAAA-TTTGGCTAGTAACCAAAATG
586 GATCGAAAGCCCCAAATCTTGACTATTTTTTAATACCCAAAATTTTGGCTAGTAACCAAAATG
70589 AAATTTTAATTAATTATGCATGATAGCCACATAAAACACGGCTCAATTGATTTCATACTTGGACT
1 AAATTTTAATTAATTATGCATGATAGCCACATAAAACACGGCTCAATTGATTTCATACTTGGACT
70654 AATGTAAATGTTTGATTATTTTAGATCTTCAAGTAAAGGTTGTCCTAATCCAACTTATAGTCTTA
66 AATGTAAATGTTTGATTATTTTAGATCTTCAAGTAAAGGTTGTCCTAATCCAACTTATAGTCTTA
70719 TCCTGATAATTTAAAATAAGAAAATACTCTCATGTGTAATTAAATAAAAATGATGACACATTAAC
131 TCCTGATAATTTAAAATAAGAAAATACTCTCATGTGTAATTAAATAAAAATGATGACACATTAAC
70784 ATTGATCAGGAGAATGGAAAAACTCTTATCGAGAATAGACTGTTTGATCCTATTTGAAGGTCAGT
196 ATTGATCAGGAGAATGGAAAAACTCTTATCGAGAATAGACTGTTTGATCCTATTTGAAGGTCAGT
70849 TTTAGTATTTTTAAATAATTGAATGTCCTTTGTCCATCTTAATTGGATAGGTAG-TTTAATTAAT
261 TTTAGTATTTTTAAATAATTGAATGTCCTTTGTCCATCTTAATTGGATAGGTAGTTTTAATTAAT
70913 TTGAGTTTTTGTTGCATGATTTCAATTTGAATTAAGAATAGTGCTAGGTCCTAAGGAAAACATCG
326 TTGAGTTTTTGTTGCATGATTTCAATTTGAATTAAGAATAGTGCTAGGTCCTAAGGAAAACATCG
70978 ATATTTATTCTTTAAGAATCAGAAATTGCCACTCTACTTCTTATAAGAGGGCATTTATCCTCGAT
391 ATATTTATTCTTTAAGAATCAGAAATTGCCACTCTACTTCTTATAAGAGGGCATTTATCCTCGAT
71043 CAAAAGTGTCGAGATGACATCTTTTTACCTTGGAAGCCTGAAATTCTAGGAGAAAAATATCGATA
456 CAAAAGTGTCGAGATGACATCTTTTTACCTTGGAAGCCTGAAATTCTAGGAGAAAAATATCGATA
71108 TTTCTCCACTTTGGTTGGAAAGAGATATCATAGTTCTATCTTGTATTAGAAGGTTATCTCTCTTC
521 TTTCTCCACTTTGGTTGGAAAGAGATATCATAGTTCTATCTTGTATTAGAAGGTTATCTCTCTTC
71173 GATCGAAAGCCCCAAATCTTGACTATTTTTTAATACCCAAAATTTTGGCTAGTAACCAAAATG
586 GATCGAAAGCCCCAAATCTTGACTATTTTTTAATACCCAAAATTTTGGCTAGTAACCAAAATG
71236 AAATTTTAATTAATTATGCATGATAGCCACATAAAACACGGCTCAATTGATTTCATACTTGGACT
1 AAATTTTAATTAATTATGCATGATAGCCACATAAAACACGGCTCAATTGATTTCATACTTGGACT
71301 AATGTAAATGTTTGATTATTTTAGATCTTCAAGTAAAGGTTGTCCTAATCCAACTTATAGTCTTA
66 AATGTAAATGTTTGATTATTTTAGATCTTCAAGTAAAGGTTGTCCTAATCCAACTTATAGTCTTA
*
71366 TCTTGATAATTTAAAATAAGAAAATACTCTCATGTGTAATTAAATAAAAATGATGACACATTAAC
131 TCCTGATAATTTAAAATAAGAAAATACTCTCATGTGTAATTAAATAAAAATGATGACACATTAAC
71431 ATTGATCAGGAGAATGGAAAAACTCTTATCGAGAATAGACTGTTTGATCCTATTTGAAGGTCAGT
196 ATTGATCAGGAGAATGGAAAAACTCTTATCGAGAATAGACTGTTTGATCCTATTTGAAGGTCAGT
71496 TTTAGTA-TTTTAAATAATTGAATGTCCTTTGTCCATCTTAATTGGATAGGTAGTTTTAATTAAT
261 TTTAGTATTTTTAAATAATTGAATGTCCTTTGTCCATCTTAATTGGATAGGTAGTTTTAATTAAT
71560 TTGAGTTTTTGTTGCATGATTTCAATTTGAATTAAGAATAGTGCTAGGTCCTAAGGAAAACATCG
326 TTGAGTTTTTGTTGCATGATTTCAATTTGAATTAAGAATAGTGCTAGGTCCTAAGGAAAACATCG
71625 ATATTTATTCTTTAAGAATCAGAAATTGCCACTCTACTTCTTATAAGAGGGCATTTATCCTCGAT
391 ATATTTATTCTTTAAGAATCAGAAATTGCCACTCTACTTCTTATAAGAGGGCATTTATCCTCGAT
71690 CAAAAGTGTCGAGATGACATCTTTTTACCTTGGAAGCCTGAAATTCTAGGAGAAAAATATCGATA
456 CAAAAGTGTCGAGATGACATCTTTTTACCTTGGAAGCCTGAAATTCTAGGAGAAAAATATCGATA
71755 TTTCTCCACTTTGGTTGGAAAGAGATATCATAGTTCTATCTTGTATTAGAAGGTTATCTCTCTTC
521 TTTCTCCACTTTGGTTGGAAAGAGATATCATAGTTCTATCTTGTATTAGAAGGTTATCTCTCTTC
71820 GATCGAAAGCCCCAAATCTTGACTATTTTTTAATACCCAAAATTTTGGCTAGTAACCAAAATG
586 GATCGAAAGCCCCAAATCTTGACTATTTTTTAATACCCAAAATTTTGGCTAGTAACCAAAATG
71883 AAATTTTAATTAATTATGCATGATAGCCACATAAAACACGGCTCAATTGATTTCATACTTGGACT
1 AAATTTTAATTAATTATGCATGATAGCCACATAAAACACGGCTCAATTGATTTCATACTTGGACT
*
71948 AATGTAAATGTTTGATTATTTTAGATCTTCAAGTAAAGGTTGTCCTAATCCAACTGATAGTCTTA
66 AATGTAAATGTTTGATTATTTTAGATCTTCAAGTAAAGGTTGTCCTAATCCAACTTATAGTCTTA
72013 TCCTGATAATTTAAAATAAGAAAATACTCTCATGTGTAATTAAATAAAAATGATGACACATTAAC
131 TCCTGATAATTTAAAATAAGAAAATACTCTCATGTGTAATTAAATAAAAATGATGACACATTAAC
72078 ATTGATCAGGAGAATGGAAAAACTCTTATCGAGAATAGACTGTTTGATCCTATTTGAAGGTCAGT
196 ATTGATCAGGAGAATGGAAAAACTCTTATCGAGAATAGACTGTTTGATCCTATTTGAAGGTCAGT
72143 TTTAGTATTTTTAAATAATTGAATGTCCTTTGTCCATCTTAATTGGATAGGTAGTTTTAATTAAT
261 TTTAGTATTTTTAAATAATTGAATGTCCTTTGTCCATCTTAATTGGATAGGTAGTTTTAATTAAT
72208 TTGAGTTTTTGTTGCATGATTTCAATTTGAATTAAGAATAGTGCTAGGTCCTAAGGAAAACATCG
326 TTGAGTTTTTGTTGCATGATTTCAATTTGAATTAAGAATAGTGCTAGGTCCTAAGGAAAACATCG
72273 ATATTTATTCTTTAAGAATCAGAAATTGCCACTCTACTTCTTATAAGAGGGCATTTATCCTCGAT
391 ATATTTATTCTTTAAGAATCAGAAATTGCCACTCTACTTCTTATAAGAGGGCATTTATCCTCGAT
72338 CAAAAGTGTCGAGATGACATCTTTTTACCTTGGAAGCCTGAAATTCTAGGAGAAAAATATCGATA
456 CAAAAGTGTCGAGATGACATCTTTTTACCTTGGAAGCCTGAAATTCTAGGAGAAAAATATCGATA
72403 TTTCTCCACTTTGGTTGGAAAGAGATATCATAGTTCTATCTTGTATTAGAAGGTTATCTCTCTTC
521 TTTCTCCACTTTGGTTGGAAAGAGATATCATAGTTCTATCTTGTATTAGAAGGTTATCTCTCTTC
72468 GATCGAAAGCCCCAAATCTTGACTATTTTTTAATACCCAAAATTTTGGCTAGTAACCAAAATG
586 GATCGAAAGCCCCAAATCTTGACTATTTTTTAATACCCAAAATTTTGGCTAGTAACCAAAATG
72531 AAATTTT
1 AAATTTT
72538 TGAAAGTTTA
Statistics
Matches: 1943, Mismatches: 3, Indels: 5
1.00 0.00 0.00
Matches are distributed among these distances:
646 358 0.18
647 1198 0.62
648 387 0.20
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (648 bp):
AAATTTTAATTAATTATGCATGATAGCCACATAAAACACGGCTCAATTGATTTCATACTTGGACT
AATGTAAATGTTTGATTATTTTAGATCTTCAAGTAAAGGTTGTCCTAATCCAACTTATAGTCTTA
TCCTGATAATTTAAAATAAGAAAATACTCTCATGTGTAATTAAATAAAAATGATGACACATTAAC
ATTGATCAGGAGAATGGAAAAACTCTTATCGAGAATAGACTGTTTGATCCTATTTGAAGGTCAGT
TTTAGTATTTTTAAATAATTGAATGTCCTTTGTCCATCTTAATTGGATAGGTAGTTTTAATTAAT
TTGAGTTTTTGTTGCATGATTTCAATTTGAATTAAGAATAGTGCTAGGTCCTAAGGAAAACATCG
ATATTTATTCTTTAAGAATCAGAAATTGCCACTCTACTTCTTATAAGAGGGCATTTATCCTCGAT
CAAAAGTGTCGAGATGACATCTTTTTACCTTGGAAGCCTGAAATTCTAGGAGAAAAATATCGATA
TTTCTCCACTTTGGTTGGAAAGAGATATCATAGTTCTATCTTGTATTAGAAGGTTATCTCTCTTC
GATCGAAAGCCCCAAATCTTGACTATTTTTTAATACCCAAAATTTTGGCTAGTAACCAAAATG
Found at i:73573 original size:47 final size:43
Alignment explanation
Indices: 73473--73598 Score: 128
Period size: 47 Copynumber: 2.8 Consensus size: 43
73463 TATAAAATCT
*
73473 CTTACCATTTATCCAATAAGCTCGTAAGCTTATTTTAGCTAAATA
1 CTTACCA-TTATTC-ATAAGCTCGTAAGCTTATTTTAGCTAAATA
* *
73518 TTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATC-AATATA
1 CTTACCA-TT--ATT-CATAAGCTCGTAAGCTTATTTTAGCTAA-ATA
* * *
73565 CTTGCCATTATTCATAAGTTTGTAAGCTTATTTT
1 CTTACCATTATTCATAAGCTCGTAAGCTTATTTT
73599 CATACTTACC
Statistics
Matches: 70, Mismatches: 7, Indels: 10
0.80 0.08 0.11
Matches are distributed among these distances:
43 20 0.29
44 3 0.04
45 9 0.13
46 4 0.06
47 33 0.47
48 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (43 bp):
CTTACCATTATTCATAAGCTCGTAAGCTTATTTTAGCTAAATA
Found at i:84356 original size:43 final size:47
Alignment explanation
Indices: 84247--84373 Score: 131
Period size: 48 Copynumber: 2.8 Consensus size: 47
84237 TATAAAATCT
84247 CTTACCATTT-A-TCCAATAAGCTCGTAAGCTTATTTTAGTAAAAATA
1 CTTACCATTTAATTCC-ATAAGCTCGTAAGCTTATTTTAGTAAAAATA
* * * *
84293 TTTACCATTTAAATTCCATAAGCTCGTAAGTTTATTTTA-TCAATATA
1 CTTACCATTT-AATTCCATAAGCTCGTAAGCTTATTTTAGTAAAAATA
* * *
84340 CTTGCCA-TT-ATT-CATAAGTTTGTAAGCTTATTTT
1 CTTACCATTTAATTCCATAAGCTCGTAAGCTTATTTT
84374 CATACTTACC
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
43 19 0.28
44 3 0.04
46 11 0.16
47 11 0.16
48 22 0.32
49 3 0.04
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (47 bp):
CTTACCATTTAATTCCATAAGCTCGTAAGCTTATTTTAGTAAAAATA
Found at i:89270 original size:24 final size:24
Alignment explanation
Indices: 89242--89288 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
89232 ACATACATAT
*
89242 ATTTAAATAA-AAATTAATAAAAAA
1 ATTT-AATAACAAATAAATAAAAAA
*
89266 ATTTAATAACAAATAAATGAAAA
1 ATTTAATAACAAATAAATAAAAA
89289 TAAAACAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (24 bp):
ATTTAATAACAAATAAATAAAAAA
Found at i:91254 original size:72 final size:72
Alignment explanation
Indices: 91137--91280 Score: 227
Period size: 72 Copynumber: 2.0 Consensus size: 72
91127 TCTTAGGTTC
* *
91137 ATAAGGAATTATCAGTTGATCGATGTTGAACCTATATAAGGAATTACCATCTTGATCAGAACTAA
1 ATAAGGAATTATCAGTTGATCGATGCTGAACCTATATAAGGAATTACCAGCTTGATCAGAACTAA
91202 ACATGCA
66 ACATGCA
* *
91209 ATAAGGAATTA-CGAGTTGATCGGTGCTGAACCTATATAAGGAATTACCAGCTTGATCAGAACTG
1 ATAAGGAATTATC-AGTTGATCGATGCTGAACCTATATAAGGAATTACCAGCTTGATCAGAACTA
*
91273 AACCTGCA
65 AACATGCA
91281 GAGACTTCAT
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
71 1 0.02
72 65 0.98
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (72 bp):
ATAAGGAATTATCAGTTGATCGATGCTGAACCTATATAAGGAATTACCAGCTTGATCAGAACTAA
ACATGCA
Found at i:91274 original size:36 final size:35
Alignment explanation
Indices: 91137--91277 Score: 133
Period size: 36 Copynumber: 3.9 Consensus size: 35
91127 TCTTAGGTTC
* **
91137 ATAAGGAATTATCAGTTGATC-GATGTTGAACCTAT
1 ATAAGGAATTACCAGTTGATCAGA-ACTGAACCTAT
* * *
91172 ATAAGGAATTACCATCTTGATCAGAACTAAACATGCA-
1 ATAAGGAATTACCA-GTTGATCAGAACTGAACCT--AT
* * **
91209 ATAAGGAATTACGAGTTGATCGGTGCTGAACCTAT
1 ATAAGGAATTACCAGTTGATCAGAACTGAACCTAT
91244 ATAAGGAATTACCAGCTTGATCAGAACTGAACCT
1 ATAAGGAATTACCAG-TTGATCAGAACTGAACCT
91278 GCAGAGACTT
Statistics
Matches: 83, Mismatches: 17, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
34 1 0.01
35 27 0.33
36 39 0.47
37 15 0.18
38 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (35 bp):
ATAAGGAATTACCAGTTGATCAGAACTGAACCTAT
Done.