Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008312.1 Hibiscus syriacus cultivar Beakdansim tig00111005_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: 1258310
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:10653 original size:96 final size:96
Alignment explanation
Indices: 10534--10800 Score: 435
Period size: 105 Copynumber: 2.7 Consensus size: 96
10524 CCGCGGCTTT
10534 TTCGCGTAGGCAGCGGCAGTACAGGTGGTGGAGGACATGAGGCAGCGAAGGCGGTGGTAGCGGTG
1 TTCGCGTAGGCAGCGGCAGTACAGGTGGTGGAGGACATGAGGCAGCGAAGGCGGTGGTAGCGGTG
10599 GACTTTGTATCCATGACGGGGTACACTTTAC
66 GACTTTGTATCCATGACGGGGTACACTTTAC
*
10630 TTCGCGTAGGCAGCGGCAGTACAGGTGGTGGAGGACATGAGGCAGCAAAGGCGGTGGTAGCGGTG
1 TTCGCGTAGGCAGCGGCAGTACAGGTGGTGGAGGACATGAGGCAGCGAA-------G--GCGGTG
*
10695 GTAGCGGTGGACTTTGTATGCATGACGGGGTACACTTTAC
57 GTAGCGGTGGACTTTGTATCCATGACGGGGTACACTTTAC
10735 TTCGCGTAGGCAGCGGCAGTACAGGTGGTGGAGGACATGAGGCAGCGAAGGCGGTGGTAGCGGTG
1 TTCGCGTAGGCAGCGGCAGTACAGGTGGTGGAGGACATGAGGCAGCGAAGGCGGTGGTAGCGGTG
10800 G
66 G
10801 TAGCGGTGGA
Statistics
Matches: 159, Mismatches: 3, Indels: 18
0.88 0.02 0.10
Matches are distributed among these distances:
96 64 0.40
98 1 0.01
103 1 0.01
105 93 0.58
ACGTcount: A:0.21, C:0.18, G:0.42, T:0.19
Consensus pattern (96 bp):
TTCGCGTAGGCAGCGGCAGTACAGGTGGTGGAGGACATGAGGCAGCGAAGGCGGTGGTAGCGGTG
GACTTTGTATCCATGACGGGGTACACTTTAC
Found at i:10692 original size:9 final size:9
Alignment explanation
Indices: 10680--10704 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
10670 GGCAGCAAAG
10680 GCGGTGGTA
1 GCGGTGGTA
10689 GCGGTGGTA
1 GCGGTGGTA
10698 GCGGTGG
1 GCGGTGG
10705 ACTTTGTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.12, G:0.60, T:0.20
Consensus pattern (9 bp):
GCGGTGGTA
Found at i:10766 original size:105 final size:105
Alignment explanation
Indices: 10584--10839 Score: 494
Period size: 105 Copynumber: 2.4 Consensus size: 105
10574 GGCAGCGAAG
*
10584 GCGGTGGTAGCGGTGGACTTTGTATCCATGACGGGGTACACTTTACTTCGCGTAGGCAGCGGCAG
1 GCGGTGGTAGCGGTGGACTTTGTATGCATGACGGGGTACACTTTACTTCGCGTAGGCAGCGGCAG
10649 TACAGGTGGTGGAGGACATGAGGCAGCAAAGGCGGTGGTA
66 TACAGGTGGTGGAGGACATGAGGCAGCAAAGGCGGTGGTA
10689 GCGGTGGTAGCGGTGGACTTTGTATGCATGACGGGGTACACTTTACTTCGCGTAGGCAGCGGCAG
1 GCGGTGGTAGCGGTGGACTTTGTATGCATGACGGGGTACACTTTACTTCGCGTAGGCAGCGGCAG
*
10754 TACAGGTGGTGGAGGACATGAGGCAGCGAAGGCGGTGGTA
66 TACAGGTGGTGGAGGACATGAGGCAGCAAAGGCGGTGGTA
10794 GCGGTGGTAGCGGTGGACTTTGTATGCATGACGGGGTACACTTTAC
1 GCGGTGGTAGCGGTGGACTTTGTATGCATGACGGGGTACACTTTAC
10840 GCCTTGATCG
Statistics
Matches: 149, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 149 1.00
ACGTcount: A:0.20, C:0.18, G:0.40, T:0.22
Consensus pattern (105 bp):
GCGGTGGTAGCGGTGGACTTTGTATGCATGACGGGGTACACTTTACTTCGCGTAGGCAGCGGCAG
TACAGGTGGTGGAGGACATGAGGCAGCAAAGGCGGTGGTA
Found at i:10797 original size:9 final size:9
Alignment explanation
Indices: 10785--10809 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
10775 GGCAGCGAAG
10785 GCGGTGGTA
1 GCGGTGGTA
10794 GCGGTGGTA
1 GCGGTGGTA
10803 GCGGTGG
1 GCGGTGG
10810 ACTTTGTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.12, G:0.60, T:0.20
Consensus pattern (9 bp):
GCGGTGGTA
Found at i:12943 original size:2 final size:2
Alignment explanation
Indices: 12936--13003 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
12926 GATGTGTAAG
12936 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
12978 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
13004 TGGCCATCTT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17982 original size:31 final size:31
Alignment explanation
Indices: 17944--18068 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
17934 AGGGTCGAGG
17944 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
17975 GTTTACCTATATTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
18006 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
18037 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
18068 G
1 G
18069 GTCCTTCGGG
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
31 87 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:22222 original size:31 final size:31
Alignment explanation
Indices: 22184--22308 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
22174 AGGGTCGAGG
22184 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
22215 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
22246 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * * *
22277 GATTACCTAGGTTTTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
22308 G
1 G
22309 GTCCTTCGGG
Statistics
Matches: 89, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
31 88 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:26247 original size:27 final size:27
Alignment explanation
Indices: 26217--26271 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
26207 TGGTATAGTT
26217 TCAGACATCATAAAAGCTCACATTCAA
1 TCAGACATCATAAAAGCTCACATTCAA
26244 TCAGACATCATAAAAGCTCACATTCAA
1 TCAGACATCATAAAAGCTCACATTCAA
26271 T
1 T
26272 GTGATATATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.25, G:0.07, T:0.24
Consensus pattern (27 bp):
TCAGACATCATAAAAGCTCACATTCAA
Found at i:27469 original size:25 final size:25
Alignment explanation
Indices: 27428--27476 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
27418 TTAAAATTAT
27428 ATGATTTTAACACGTGTCACTTAAC
1 ATGATTTTAACACGTGTCACTTAAC
*
27453 ATGATTTTATA-ATGTGTCACTTAA
1 ATGATTTTA-ACACGTGTCACTTAA
27477 AATATATGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (25 bp):
ATGATTTTAACACGTGTCACTTAAC
Found at i:35107 original size:30 final size:30
Alignment explanation
Indices: 35071--35153 Score: 157
Period size: 30 Copynumber: 2.8 Consensus size: 30
35061 CTTAGCTTAA
35071 TAAAAAACTGACACTATTCTAAGCTAAACG
1 TAAAAAACTGACACTATTCTAAGCTAAACG
*
35101 TAAAAAACTGACATTATTCTAAGCTAAACG
1 TAAAAAACTGACACTATTCTAAGCTAAACG
35131 TAAAAAACTGACACTATTCTAAG
1 TAAAAAACTGACACTATTCTAAG
35154 TTTAGCATTA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.47, C:0.18, G:0.10, T:0.25
Consensus pattern (30 bp):
TAAAAAACTGACACTATTCTAAGCTAAACG
Found at i:35262 original size:16 final size:15
Alignment explanation
Indices: 35242--35272 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
35232 TAATGGAAAA
35242 GAAAAAGTTTGGAAC
1 GAAAAAGTTTGGAAC
35257 GAAAAAGTTTGGAAC
1 GAAAAAGTTTGGAAC
35272 G
1 G
35273 CAATAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.29, T:0.19
Consensus pattern (15 bp):
GAAAAAGTTTGGAAC
Found at i:49110 original size:21 final size:20
Alignment explanation
Indices: 49086--49125 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
49076 TGGTTTTGAA
*
49086 AAAATTGAAAGTTTAGGTACC
1 AAAACTGAAAG-TTAGGTACC
*
49107 AAAACTGATAGTTAGGTAC
1 AAAACTGAAAGTTAGGTAC
49126 TAAATGCGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.28
Consensus pattern (20 bp):
AAAACTGAAAGTTAGGTACC
Found at i:53711 original size:2 final size:2
Alignment explanation
Indices: 53704--53741 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
53694 AATAGAGTTG
53704 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
53742 GAGAGAGAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53746 original size:2 final size:2
Alignment explanation
Indices: 53741--53775 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
53731 ATATATATAT
53741 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
53776 AAAGGAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:54962 original size:19 final size:19
Alignment explanation
Indices: 54938--54974 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
54928 ATCGACTGTT
54938 TCTGTGTAGCATGAAAAAA
1 TCTGTGTAGCATGAAAAAA
54957 TCTGTGTAGCATGAAAAA
1 TCTGTGTAGCATGAAAAA
54975 TTTTGGTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.27
Consensus pattern (19 bp):
TCTGTGTAGCATGAAAAAA
Found at i:57065 original size:3 final size:3
Alignment explanation
Indices: 57059--57100 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
57049 AATAATAAAA
*
57059 ATT ATT ATT ATT TTT ATT GATT -TT ATT ATT ATT ATT AATT AT
1 ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT -ATT AT
57101 CGATAATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 26 0.76
4 6 0.18
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:63511 original size:2 final size:2
Alignment explanation
Indices: 63504--63528 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
63494 CAGAAACAAA
63504 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
63529 GAAAACAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:75923 original size:60 final size:60
Alignment explanation
Indices: 75859--75977 Score: 175
Period size: 60 Copynumber: 2.0 Consensus size: 60
75849 GTCGGGTGAC
* * **
75859 CATTTTATAACTTTTAATAGTTGAGGGACTCAACAAAGTAATACTCTATAGTTGAAGGAT
1 CATTTTATAACTTTTAATAATTGAGGGACTCAACAAAATAATACTCTATAAATGAAGGAT
* * *
75919 CATTTTGTAACTTTTAATAATTGAGGGACTTAATAAAATAATACTCTATAAATGAAGGA
1 CATTTTATAACTTTTAATAATTGAGGGACTCAACAAAATAATACTCTATAAATGAAGGA
75978 CTATTTGTAT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.35
Consensus pattern (60 bp):
CATTTTATAACTTTTAATAATTGAGGGACTCAACAAAATAATACTCTATAAATGAAGGAT
Found at i:84478 original size:27 final size:27
Alignment explanation
Indices: 84448--84514 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
84438 AACTACCGAC
84448 AAAATAGAAGAATTTTCACTAATGTTG
1 AAAATAGAAGAATTTTCACTAATGTTG
* *
84475 AAAATAGAAAAAATTTCACTAATGTTG
1 AAAATAGAAGAATTTTCACTAATGTTG
*
84502 AAAATAGATGAAT
1 AAAATAGAAGAAT
84515 ATAGGAGGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.51, C:0.06, G:0.13, T:0.30
Consensus pattern (27 bp):
AAAATAGAAGAATTTTCACTAATGTTG
Found at i:87755 original size:166 final size:169
Alignment explanation
Indices: 87486--87804 Score: 495
Period size: 166 Copynumber: 1.9 Consensus size: 169
87476 TAAAAATTAA
* *
87486 ATATTTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATAATATATAATTATAAAATAAAAAAG
1 ATATTTTTTAATT-AAAAAAAGTTTACAAATAATTT-AATAATATATAATTATAAAATAAAAAAG
* *
87551 TTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGGATCTTAAATTATT
64 TTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAATTATTAGATCTTAAATTATT
*
87616 AATTG-GATTTTAAATGGTTTGGGCTATGTTATATATAATAT
129 AATTGAG-TTTTAAATGATTTGGGCTATGTTATATATAATAT
*
87657 ATATATTTTTAATT-AAAAAAGTTTACAAATAATTT-A-AATATATAATTATAAAATAAAAAATT
1 ATAT-TTTTTAATTAAAAAAAGTTTACAAATAATTTAATAATATATAATTATAAAATAAAAAAGT
* *
87719 TATAT-AATTTTTTAATTAATTAATATTGGTTTAAGTTTAAAAATTATTAGATCTTAAATTATTA
65 TAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAATTATTAGATCTTAAATTATTA
87783 ATTGAGTTTTAAATGATTTGGG
130 ATTGAGTTTTAAATGATTTGGG
87805 TTGAGCCCAT
Statistics
Matches: 138, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
166 75 0.54
167 30 0.22
168 1 0.01
170 19 0.14
171 4 0.03
172 9 0.07
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (169 bp):
ATATTTTTTAATTAAAAAAAGTTTACAAATAATTTAATAATATATAATTATAAAATAAAAAAGTT
AGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAATTATTAGATCTTAAATTATTAA
TTGAGTTTTAAATGATTTGGGCTATGTTATATATAATAT
Found at i:90414 original size:13 final size:13
Alignment explanation
Indices: 90396--90423 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
90386 TGATTATAAG
90396 ATAATATTTTTTA
1 ATAATATTTTTTA
90409 ATAATATTTTTTA
1 ATAATATTTTTTA
90422 AT
1 AT
90424 TATTAGAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
ATAATATTTTTTA
Found at i:90570 original size:20 final size:22
Alignment explanation
Indices: 90528--90571 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
90518 TATAACAAAC
90528 ATATTTTAAAAATAAATATTTT
1 ATATTTTAAAAATAAATATTTT
90550 ATATTTT-AAAATAAA-ATTTT
1 ATATTTTAAAAATAAATATTTT
90570 AT
1 AT
90572 TTTCCACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 7 0.32
21 8 0.36
22 7 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATTTTAAAAATAAATATTTT
Found at i:93866 original size:31 final size:30
Alignment explanation
Indices: 93820--93911 Score: 100
Period size: 31 Copynumber: 3.0 Consensus size: 30
93810 TTCGATAATA
*
93820 TAATAATTATTTTATAGTA-TTTAGATAAATT
1 TAATAA-TATTTTATAATATTTTA-ATAAATT
*
93851 TATTAATAATTTTATAATATTTTAATAAATT
1 TAATAAT-ATTTTATAATATTTTAATAAATT
*
93882 TAATAAGTATTTTATAAT-TTTT-TTAAATT
1 TAATAA-TATTTTATAATATTTTAATAAATT
93911 T
1 T
93912 TATTGACGAA
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
29 7 0.13
30 5 0.09
31 37 0.69
32 5 0.09
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (30 bp):
TAATAATATTTTATAATATTTTAATAAATT
Found at i:94699 original size:31 final size:31
Alignment explanation
Indices: 94633--94707 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
94623 TTTAAACAAT
* ** *
94633 TATAAAATACTTGTTAAATTTATTAAAAGAT
1 TATAAAATAATTAATAAATTTATTAAAAGAC
* *
94664 TATAAAATTATTAATAAATTTATCT-AAATAC
1 TATAAAATAATTAATAAATTTAT-TAAAAGAC
94695 TATAAAATAATTA
1 TATAAAATAATTA
94708 TTATATTATC
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 35 0.97
32 1 0.03
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (31 bp):
TATAAAATAATTAATAAATTTATTAAAAGAC
Found at i:96177 original size:46 final size:46
Alignment explanation
Indices: 96110--96201 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
96100 ACCTAAGATA
96110 ACCTACTATTAATATTGGACCACACAATATAAGATATTTTTCTTAT
1 ACCTACTATTAATATTGGACCACACAATATAAGATATTTTTCTTAT
96156 ACCTACTATTAATATTGGACCACACAATATAAGATATTTTTCTTAT
1 ACCTACTATTAATATTGGACCACACAATATAAGATATTTTTCTTAT
96202 TATTTTAGGG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (46 bp):
ACCTACTATTAATATTGGACCACACAATATAAGATATTTTTCTTAT
Found at i:99520 original size:21 final size:21
Alignment explanation
Indices: 99447--99737 Score: 199
Period size: 21 Copynumber: 14.3 Consensus size: 21
99437 GATTCTGACT
*
99447 ATCGCATTGCGATTT-CCCAA
1 ATCGCATTGCGATTTACCTAA
* *
99467 ATTCGCGTTGCGATTTTCC-AA
1 A-TCGCATTGCGATTTACCTAA
* *
99488 ATTCGCGTTGCGATTTTCCTAA
1 A-TCGCATTGCGATTTACCTAA
* * *
99510 ATCGCAATGCGA-ATACGTAA
1 ATCGCATTGCGATTTACCTAA
* * * ***
99530 ATCGCAATGCTAATTAGGAAA
1 ATCGCATTGCGATTTACCTAA
* *
99551 ATCGCAATGCGA-TTACGTAA
1 ATCGCATTGCGATTTACCTAA
* *
99571 ATCGCAATGCGA-TTACGT-A
1 ATCGCATTGCGATTTACCTAA
* * *
99590 TTCGCAATGCGA-TTACGT-A
1 ATCGCATTGCGATTTACCTAA
* *
99609 TTCGCATTGCGATTTACGT-A
1 ATCGCATTGCGATTTACCTAA
*
99629 ATCGCATTGCGATTTTCCTAA
1 ATCGCATTGCGATTTACCTAA
* *
99650 TTCGCATTGCGATTTTCCTAA
1 ATCGCATTGCGATTTACCTAA
* *
99671 TTCGCATTGCGATTTTCCTAA
1 ATCGCATTGCGATTTACCTAA
* *
99692 TTCGCATTGCGATTTACGT-A
1 ATCGCATTGCGATTTACCTAA
* *
99712 TTCGCATTGCGATTTA-ATAA
1 ATCGCATTGCGATTTACCTAA
99732 ATCGCA
1 ATCGCA
99738 ACGAGATTCT
Statistics
Matches: 241, Mismatches: 23, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
19 31 0.13
20 87 0.36
21 118 0.49
22 5 0.02
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (21 bp):
ATCGCATTGCGATTTACCTAA
Found at i:99532 original size:20 final size:20
Alignment explanation
Indices: 99507--99642 Score: 161
Period size: 20 Copynumber: 6.8 Consensus size: 20
99497 GCGATTTTCC
*
99507 TAAATCGCAATGCGAATACG
1 TAAATCGCAATGCGATTACG
* *
99527 TAAATCGCAATGCTAATTAGG
1 TAAATCGCAATGC-GATTACG
*
99548 AAAATCGCAATGCGATTACG
1 TAAATCGCAATGCGATTACG
99568 TAAATCGCAATGCGATTACG
1 TAAATCGCAATGCGATTACG
*
99588 T-ATTCGCAATGCGATTACG
1 TAAATCGCAATGCGATTACG
* *
99607 T-ATTCGCATTGCGATTTACG
1 TAAATCGCAATGCGA-TTACG
*
99627 T-AATCGCATTGCGATT
1 TAAATCGCAATGCGATT
99643 TTCCTAATTC
Statistics
Matches: 104, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
19 32 0.31
20 56 0.54
21 16 0.15
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (20 bp):
TAAATCGCAATGCGATTACG
Found at i:100624 original size:24 final size:24
Alignment explanation
Indices: 100597--100650 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
100587 GTATTCGAAA
100597 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
100621 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
100645 TTTGAT
1 TTTGAT
100651 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:100870 original size:14 final size:13
Alignment explanation
Indices: 100840--100877 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
100830 AGAAAAAGAA
100840 GAAG-AAATCCCC
1 GAAGAAAATCCCC
*
100852 AAAGAAAAGTCCCC
1 GAAGAAAA-TCCCC
100866 GAAGAAAATCCC
1 GAAGAAAATCCC
100878 ACGGGAGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 3 0.14
13 7 0.32
14 12 0.55
ACGTcount: A:0.47, C:0.29, G:0.16, T:0.08
Consensus pattern (13 bp):
GAAGAAAATCCCC
Found at i:102331 original size:20 final size:20
Alignment explanation
Indices: 102308--102401 Score: 125
Period size: 20 Copynumber: 4.7 Consensus size: 20
102298 CGATAGTCAG
102308 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
102328 ATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGT
*
102348 AATTCGCATTGTGATTTACGT
1 -ATTCGCATTGCGATTTACGT
* * *
102369 AATCGCGTTGCGATTTAAGT
1 ATTCGCATTGCGATTTACGT
102389 ATTCGCATTGCGA
1 ATTCGCATTGCGA
102402 ATTAGGAAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
20 45 0.73
21 17 0.27
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.39
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:102416 original size:61 final size:61
Alignment explanation
Indices: 102310--102443 Score: 153
Period size: 61 Copynumber: 2.2 Consensus size: 61
102300 ATAGTCAGAT
* * * * * * *
102310 TCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTAATTCGCATTGTGATTTACGT-AA
1 TCGCATTGCGATTTAAGTATTCGCATTGCGAATTACCAAAATCGCAATGTGA-ATACGTAAA
* **
102371 TCGCGTTGCGATTTAAGTATTCGCATTGCGAATTAGGAAAATCGCAATGTGAATACGTAAA
1 TCGCATTGCGATTTAAGTATTCGCATTGCGAATTACCAAAATCGCAATGTGAATACGTAAA
*
102432 TCGCAATGCGAT
1 TCGCATTGCGAT
102444 AGTCAGAATC
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
60 5 0.08
61 55 0.92
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (61 bp):
TCGCATTGCGATTTAAGTATTCGCATTGCGAATTACCAAAATCGCAATGTGAATACGTAAA
Found at i:102424 original size:21 final size:20
Alignment explanation
Indices: 102391--102442 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
102381 ATTTAAGTAT
* *
102391 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGAAAA
* *
102412 TCGCAATGTGAATACGTAAA
1 TCGCAATGCGAATACGAAAA
102432 TCGCAATGCGA
1 TCGCAATGCGA
102443 TAGTCAGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAATACGAAAA
Found at i:106681 original size:79 final size:79
Alignment explanation
Indices: 106596--106788 Score: 210
Period size: 79 Copynumber: 2.4 Consensus size: 79
106586 GTTTTATATC
* * *
106596 TCTAAAGTCTCTCAATTAAAA-CCTACCGAACACAACAAGATAAATTGAGTCATCTCATAAAATT
1 TCTAAAGTCTCTCAATTAAAATCC-ACCAAACACAACAAGATAAACTGAGTCATCTCATAAAACT
106660 TTATTGCCTTGTAAT
65 TTATTGCCTTGTAAT
* * * * *
106675 TCTAAAGTCTTTCAATTAAAATCCACCAAACACAACAAGATCAACTGTGTTATCTCCTAAAACTT
1 TCTAAAGTCTCTCAATTAAAATCCACCAAACACAACAAGATAAACTGAGTCATCTCATAAAACTT
* * * **
106740 TATTGTCATATACC
66 TATTGCCTTGTAAT
* * *
106754 TCTAACGTCTCTC-ATTCAAAATCTACCAAATACAA
1 TCTAAAGTCTCTCAATT-AAAATCCACCAAACACAA
106789 GGTAAATGGA
Statistics
Matches: 95, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
78 3 0.03
79 90 0.95
80 2 0.02
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.31
Consensus pattern (79 bp):
TCTAAAGTCTCTCAATTAAAATCCACCAAACACAACAAGATAAACTGAGTCATCTCATAAAACTT
TATTGCCTTGTAAT
Found at i:111153 original size:20 final size:21
Alignment explanation
Indices: 111128--111220 Score: 91
Period size: 21 Copynumber: 4.5 Consensus size: 21
111118 TTTTCCCAAT
*
111128 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
111148 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
111169 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* * **
111189 TCACAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
111210 TCGCAATGCGA
1 TCGCAATGCGA
111221 TACTGACTAT
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 26 0.46
21 30 0.54
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:111173 original size:41 final size:41
Alignment explanation
Indices: 111128--111220 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
111118 TTTTCCCAAT
*
111128 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCACAACGCGAATTGGGAAAA
111169 TCGCAATGCGAATAAGTAAATCACAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCACAACGCGAATTGGGAAAA
111210 TCGCAATGCGA
1 TCGCAATGCGA
111221 TACTGACTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCACAACGCGAATTGGGAAAA
Found at i:111234 original size:20 final size:20
Alignment explanation
Indices: 111209--111323 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 20
111199 AATTGGGAAA
*
111209 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
111229 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
111250 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
111270 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
111290 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
111310 TTCGCAACGCGATA
1 ATCGCAACGCGATA
111324 ATACATAATC
Statistics
Matches: 81, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
20 67 0.83
21 14 0.17
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:111311 original size:40 final size:41
Alignment explanation
Indices: 111206--111343 Score: 152
Period size: 41 Copynumber: 3.4 Consensus size: 41
111196 GCGAATTGGG
* * *
111206 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
* * * *
111247 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATACT-G
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
*** *
111287 ACTTTCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
* *
111328 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
111344 TTTCAAAACG
Statistics
Matches: 78, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
40 33 0.42
41 45 0.58
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
Found at i:111539 original size:22 final size:22
Alignment explanation
Indices: 111511--111554 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
111501 CACTCTCTCA
111511 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
111533 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
111555 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:111857 original size:20 final size:20
Alignment explanation
Indices: 111834--111876 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
111824 GATAGTCGAA
111834 TTCGCGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
*
111854 TTCGTGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
111874 TTC
1 TTC
111877 AGAAACTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.09, C:0.19, G:0.19, T:0.53
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTCATT
Found at i:113214 original size:18 final size:18
Alignment explanation
Indices: 113193--113237 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
113183 TCCACTTCGG
*
113193 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
113211 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
113229 GAGCCATCA
1 GAGCCATCA
113238 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:113773 original size:19 final size:20
Alignment explanation
Indices: 113719--113785 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
113709 TAGTTTACTT
* *
113719 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
113739 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
113759 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
113778 TCGCAACG
1 TCGCAACG
113786 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:113793 original size:14 final size:14
Alignment explanation
Indices: 113774--113831 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
113764 ATGCGAAATG
*
113774 AAAATCGCAACGAC
1 AAAATCGCAACGAA
113788 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAA
*
113804 ATGAAATCGCAACGAT
1 A--AAATCGCAACGAA
113820 AAAATCGCAACG
1 AAAATCGCAACG
113832 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAA
Found at i:113816 original size:32 final size:33
Alignment explanation
Indices: 113758--113848 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
113748 GGAAATGGCT
113758 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
113791 ATCGCAATGCGAAATG-AAATCGCAACGATAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
113823 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
113849 TGCGATTTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 30 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:113897 original size:19 final size:19
Alignment explanation
Indices: 113860--113968 Score: 121
Period size: 19 Copynumber: 5.7 Consensus size: 19
113850 GCGATTTGTG
113860 TTTCGCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTCA
113878 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
* ***
113897 TTTCGCATTGCGATAGCCA
1 TTTCGCGTTGCGATTTTCA
**
113916 TTTCCGCGTTGCGATAGTCA
1 TTT-CGCGTTGCGATTTTCA
*
113936 TTTCGCGTTGCGATTTTAA
1 TTTCGCGTTGCGATTTTCA
*
113955 GTTTCGTGTTGCGA
1 -TTTCGCGTTGCGA
113969 AAGTAAACTA
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
18 13 0.17
19 36 0.46
20 29 0.37
ACGTcount: A:0.14, C:0.21, G:0.24, T:0.41
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:113966 original size:39 final size:38
Alignment explanation
Indices: 113860--113968 Score: 121
Period size: 39 Copynumber: 2.8 Consensus size: 38
113850 GCGATTTGTG
**
113860 TTTCGCGTTGCGA-TTTCATTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCATTTCGCGTTGCGATAGTCA
* ***
113897 TTTCGCATTGCGATAGCCATTTCCGCGTTGCGATAGTCA
1 TTTCGCGTTGCGATTTTCATTT-CGCGTTGCGATAGTCA
* *
113936 TTTCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TTTCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
113969 AAGTAAACTA
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
37 12 0.21
38 5 0.09
39 37 0.65
40 3 0.05
ACGTcount: A:0.14, C:0.21, G:0.24, T:0.41
Consensus pattern (38 bp):
TTTCGCGTTGCGATTTTCATTTCGCGTTGCGATAGTCA
Found at i:115841 original size:14 final size:14
Alignment explanation
Indices: 115822--115857 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
115812 ATTGTTTAAT
115822 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
115836 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
115850 TGATTTGT
1 TGATTTGT
115858 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:115990 original size:33 final size:33
Alignment explanation
Indices: 115945--116010 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
115935 AAAACAGACT
***
115945 ATCGCAACGCGAAATGGCTATCGCAACGAGAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAAA
*
115978 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAAA
116011 TAGTCAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAAA
Found at i:116010 original size:19 final size:19
Alignment explanation
Indices: 115974--116011 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
115964 ATCGCAACGA
* *
115974 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAACGAGAAAT
115993 GAAAATCGCAACGAGAAAT
1 GAAAATCGCAACGAGAAAT
116012 AGTCAAATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.50, C:0.16, G:0.21, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAACGAGAAAT
Found at i:117288 original size:12 final size:12
Alignment explanation
Indices: 117271--117295 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
117261 ATATAATCCT
117271 GAAGAAGAAAAA
1 GAAGAAGAAAAA
117283 GAAGAAGAAAAA
1 GAAGAAGAAAAA
117295 G
1 G
117296 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:119628 original size:33 final size:33
Alignment explanation
Indices: 119586--119712 Score: 175
Period size: 33 Copynumber: 3.8 Consensus size: 33
119576 GGAAATTACT
119586 ATCGCAATGCGAAATGAAAATCGCAACGAGAGG
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGG
** **
119619 ATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGG
* * *
119652 TTCGCAATGTGAAATGAAAATCACAACGAG-GG
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGG
119684 AATCGCAATGCGAAATGAAAATCGCAACG
1 -ATCGCAATGCGAAATGAAAATCGCAACG
119713 CGAATTTAAT
Statistics
Matches: 79, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGG
Found at i:119693 original size:66 final size:66
Alignment explanation
Indices: 119587--119719 Score: 223
Period size: 66 Copynumber: 2.0 Consensus size: 66
119577 GAAATTACTA
* *
119587 TCGCAATGCGAAATGAAAATCGCAACGAGAGGATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCACAACGAGAGGATCGCAATGCGAAATGAAAATCGCAACGCGAAT
119652 T
66 T
*
119653 TCGCAATGTGAAATGAAAATCACAACGAG-GGAATCGCAATGCGAAATGAAAATCGCAACGCGAA
1 TCGCAATGCGAAATGAAAATCACAACGAGAGG-ATCGCAATGCGAAATGAAAATCGCAACGCGAA
119717 TT
65 TT
119719 T
1 T
119720 AATTTCGCGT
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
65 2 0.03
66 61 0.97
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCACAACGAGAGGATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:119734 original size:19 final size:20
Alignment explanation
Indices: 119712--119754 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
119702 AAATCGCAAC
119712 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
119731 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
119751 GCGA
1 GCGA
119755 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:119739 original size:14 final size:14
Alignment explanation
Indices: 119740--119773 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
119730 TGCGATTTTC
119740 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
119754 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
119768 ATTTTC
1 ATTTTC
119774 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:119914 original size:14 final size:14
Alignment explanation
Indices: 119895--119931 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
119885 CATCAATTAA
119895 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
119909 ACAAATCACCTTTT
1 ACAAATCAACTTTT
119923 ACAAATCAA
1 ACAAATCAA
119932 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:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:121374 original size:42 final size:42
Alignment explanation
Indices: 121328--121411 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
121318 CGATGACAGT
* * *
121328 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
121370 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
121412 CGAGTCGGGC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:123497 original size:33 final size:33
Alignment explanation
Indices: 123440--123538 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
123430 ACGAGATAAT
*
123440 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
123474 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
123507 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
123539 GCGAAATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:123532 original size:19 final size:19
Alignment explanation
Indices: 123415--123619 Score: 178
Period size: 20 Copynumber: 11.1 Consensus size: 19
123405 TCTTTTGGTT
*
123415 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
123434 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
123454 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
123472 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
123488 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
123506 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
123521 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
123541 GAAATAAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
123561 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
123580 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
* * *
123599 GAAATAAAAATTGCAATGC
1 GAAATGAAAATCGCAACGC
123618 GA
1 GA
123620 TTGTTTCGCG
Statistics
Matches: 156, Mismatches: 17, Indels: 26
0.78 0.09 0.13
Matches are distributed among these distances:
14 19 0.12
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.03
19 60 0.38
20 65 0.42
21 2 0.01
ACGTcount: A:0.45, C:0.22, G:0.21, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:124224 original size:20 final size:20
Alignment explanation
Indices: 124199--124247 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
124189 TATGTAAATT
124199 GCGTTGCGAAAGTCAGAATC
1 GCGTTGCGAAAGTCAGAATC
*
124219 GCGTTGCGAAAGTCAGTATC
1 GCGTTGCGAAAGTCAGAATC
*
124239 TCGTTGCGA
1 GCGTTGCGA
124248 TTTTGTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (20 bp):
GCGTTGCGAAAGTCAGAATC
Found at i:124284 original size:20 final size:20
Alignment explanation
Indices: 124256--124309 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
124246 GATTTTGTAT
124256 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
* *
124276 TATCACATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
124296 TATCGCATTGCGAT
1 TATCGCATTGCGAT
124310 TTTCCCAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:124328 original size:61 final size:60
Alignment explanation
Indices: 124195--124330 Score: 139
Period size: 61 Copynumber: 2.2 Consensus size: 60
124185 GCGCTATGTA
* * * * * * **
124195 AATT-GCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGT
1 AATTCGCGTTGCGATAGTAAGAATCACATTGCGAAAGTCAGTATCGCATTGCGATTTTCC
* * * *
124254 ATTATCGCATTGCGATAGTAAGTATCACATTGCGATAGTCAGTATCGCATTGCGATTTTCCC
1 AAT-TCGCGTTGCGATAGTAAGAATCACATTGCGAAAGTCAGTATCGCATTGCGATTTT-CC
124316 AATTCGCGTTGCGAT
1 AATTCGCGTTGCGAT
124331 TTACTTATTC
Statistics
Matches: 60, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
59 2 0.03
60 1 0.02
61 55 0.92
62 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (60 bp):
AATTCGCGTTGCGATAGTAAGAATCACATTGCGAAAGTCAGTATCGCATTGCGATTTTCC
Found at i:124420 original size:21 final size:21
Alignment explanation
Indices: 124380--124420 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
124370 ATTGTATACC
**
124380 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
124401 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
124421 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:127909 original size:57 final size:57
Alignment explanation
Indices: 127838--128044 Score: 177
Period size: 57 Copynumber: 3.6 Consensus size: 57
127828 AAAAAATTAA
** * *
127838 TTTCATCCTTAAACTATGACTATT-ATTCTAAATCAATCCTCAAACTGCACACTTCAT
1 TTTCATCCCCAAACTATGA-TATTCATTCAAAATCAATCCTCAAACTACACACTTCAT
*** * ** * *
127895 TTTCATCCCCAAACTATGATATTCATTCAAAATTGGTCC-CTAAACTTTTAAACTTTTTAA
1 TTTCATCCCCAAACTATGATATTCATTCAAAATCAATCCTC-AAAC---TACACACTTCAT
** * *
127955 TTTCATCCTTAAACTATGACTATT-ATTCTAAATCAATCCTCAAACTACACATTTCAT
1 TTTCATCCCCAAACTATGA-TATTCATTCAAAATCAATCCTCAAACTACACACTTCAT
* *
128012 TTTCATCACCAAATTATGATATTCATTCAAAAT
1 TTTCATCCCCAAACTATGATATTCATTCAAAAT
128045 TGGTCCCAAA
Statistics
Matches: 115, Mismatches: 27, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
56 9 0.08
57 63 0.55
60 38 0.33
61 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.39
Consensus pattern (57 bp):
TTTCATCCCCAAACTATGATATTCATTCAAAATCAATCCTCAAACTACACACTTCAT
Found at i:127970 original size:60 final size:60
Alignment explanation
Indices: 127810--128080 Score: 163
Period size: 57 Copynumber: 4.6 Consensus size: 60
127800 TCATTCCATG
* * * *
127810 TTGGTCCCTAAACTTTTAAAAAAATT-AATTTCATCCTTAAACTATGACTATTATTCTAAA
1 TTGGTCCCTAAACTTTT-AAACATTTCAATTTCATCCTCAAACTATGACTATTATTCAAAA
*** ** * * *
127870 TCAAT-CCTCAAAC---TGCACACTTCATTTTCATCCCCAAACTATGA-TATTCATTCAAAA
1 TTGGTCCCT-AAACTTTTAAACATTTCAATTTCATCCTCAAACTATGACTATT-ATTCAAAA
* * * *
127927 TTGGTCCCTAAACTTTTAAACTTTTTAATTTCATCCTTAAACTATGACTATTATTCTAAA
1 TTGGTCCCTAAACTTTTAAACATTTCAATTTCATCCTCAAACTATGACTATTATTCAAAA
*** * * *
127987 TCAAT-CCTCAAAC---TACACATTTCATTTTCATCAC-CAAATTATGA-TATTCATTCAAAA
1 TTGGTCCCT-AAACTTTTAAACATTTCAATTTCATC-CTCAAACTATGACTATT-ATTCAAAA
* * *
128044 TTGGTCCC-AAACTTTTTAAATATATCAATTTTATCCT
1 TTGGTCCCTAAAC-TTTTAAACATTTCAATTTCATCCT
128081 AAATTATATG
Statistics
Matches: 153, Mismatches: 41, Indels: 34
0.67 0.18 0.15
Matches are distributed among these distances:
56 16 0.10
57 64 0.42
58 6 0.04
59 7 0.05
60 56 0.37
61 4 0.03
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (60 bp):
TTGGTCCCTAAACTTTTAAACATTTCAATTTCATCCTCAAACTATGACTATTATTCAAAA
Found at i:128074 original size:117 final size:117
Alignment explanation
Indices: 127810--128080 Score: 429
Period size: 117 Copynumber: 2.3 Consensus size: 117
127800 TCATTCCATG
* *
127810 TTGGTCCCTAAACTTTTAAAAAAATTAATTTCATCCTTAAACTATGACTATTATTCTAAATCAAT
1 TTGGTCCCTAAACTTTTAAATATATTAATTTCATCCTTAAACTATGACTATTATTCTAAATCAAT
* *
127875 CCTCAAACTGCACACTTCATTTTCATCCCCAAACTATGATATTCATTCAAAA
66 CCTCAAACTACACACTTCATTTTCATCACCAAACTATGATATTCATTCAAAA
*
127927 TTGGTCCCTAAACTTTTAAACT-TTTTAATTTCATCCTTAAACTATGACTATTATTCTAAATCAA
1 TTGGTCCCTAAACTTTTAAA-TATATTAATTTCATCCTTAAACTATGACTATTATTCTAAATCAA
* *
127991 TCCTCAAACTACACATTTCATTTTCATCACCAAATTATGATATTCATTCAAAA
65 TCCTCAAACTACACACTTCATTTTCATCACCAAACTATGATATTCATTCAAAA
* *
128044 TTGGTCCC-AAACTTTTTAAATATATCAATTTTATCCT
1 TTGGTCCCTAAAC-TTTTAAATATATTAATTTCATCCT
128081 AAATTATATG
Statistics
Matches: 141, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
116 5 0.04
117 136 0.96
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (117 bp):
TTGGTCCCTAAACTTTTAAATATATTAATTTCATCCTTAAACTATGACTATTATTCTAAATCAAT
CCTCAAACTACACACTTCATTTTCATCACCAAACTATGATATTCATTCAAAA
Found at i:128291 original size:60 final size:58
Alignment explanation
Indices: 128193--128373 Score: 200
Period size: 60 Copynumber: 3.0 Consensus size: 58
128183 GATGAATTTA
* * *
128193 GGGATGAAATTGAAAGATCTAAAAGTTTAAGGACCAATTTAGAATGAGATTCATAGTTTG
1 GGGATGAAATTGAATGTTC-AAAAGTTT-AGGACCAATTTAGAATGAGAGTCATAGTTTG
* * *
128253 GGGATGAAAATTGAATGTTCAAAAGTTTGAGGATCAATTTAGAATGATAGTCATAGTTTA
1 GGGATG-AAATTGAATGTTCAAAAGTTT-AGGACCAATTTAGAATGAGAGTCATAGTTTG
* * * * * *
128313 AGAATGAAATTGAAATATTTAAAAGTTTAGGGACCAATTTAAAATGAGGGTCATAGTTTG
1 GGGATGAAATTG-AATGTTCAAAAGTTTA-GGACCAATTTAGAATGAGAGTCATAGTTTG
128373 G
1 G
128374 AGACATATGA
Statistics
Matches: 101, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
59 7 0.07
60 83 0.82
61 11 0.11
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (58 bp):
GGGATGAAATTGAATGTTCAAAAGTTTAGGACCAATTTAGAATGAGAGTCATAGTTTG
Found at i:128297 original size:29 final size:30
Alignment explanation
Indices: 128213--128300 Score: 74
Period size: 29 Copynumber: 2.9 Consensus size: 30
128203 TGAAAGATCT
* *
128213 AAAAGTTTAAGGACCAATTTAGAATGAGATTC
1 AAAAGTTTGAGGATCAATTTAGAAT--GATTC
* * * *
128245 -ATAGTTTGGGGATGAAAATT-GAATG-TTC
1 AAAAGTTTGAGGAT-CAATTTAGAATGATTC
128273 AAAAGTTTGAGGATCAATTTAGAATGAT
1 AAAAGTTTGAGGATCAATTTAGAATGAT
128301 AGTCATAGTT
Statistics
Matches: 42, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
28 7 0.17
29 17 0.40
30 1 0.02
31 13 0.31
32 4 0.10
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.32
Consensus pattern (30 bp):
AAAAGTTTGAGGATCAATTTAGAATGATTC
Found at i:131582 original size:21 final size:22
Alignment explanation
Indices: 131532--131582 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 22
131522 TGATAAATTT
*
131532 TGATAATTTAAGAATTATTATA
1 TGATAATTTAAGAAGTATTATA
* * *
131554 TAAT-ATTTGATAAGTATTA-A
1 TGATAATTTAAGAAGTATTATA
131574 TGATAATTT
1 TGATAATTT
131583 TATTATAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
20 4 0.17
21 16 0.70
22 3 0.13
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (22 bp):
TGATAATTTAAGAAGTATTATA
Found at i:138354 original size:20 final size:20
Alignment explanation
Indices: 138311--138351 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
138301 ATTTACTATC
*
138311 GTTTAGGGTTTTAAGATAGG
1 GTTTAGGGTTTGAAGATAGG
*
138331 GTTTAGGGTTTAGAATATAGG
1 GTTTAGGGTTT-GAAGATAGG
138352 TTTTTAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (20 bp):
GTTTAGGGTTTGAAGATAGG
Found at i:139161 original size:3 final size:3
Alignment explanation
Indices: 139148--140382 Score: 1318
Period size: 3 Copynumber: 412.7 Consensus size: 3
139138 ATGCCTTCGT
139148 TTC TCTC TTC TTC TT- TTC TTC TTC TTC TTC TTC TTC TTC TTC TTTC
1 TTC T-TC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC
139194 TTC TTC TTC TTC TTC TTC TTC TT- TT- TTC TTC TTCC TTC -TC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TTC
* *
139237 TTC -TC TTC TTC TTC TCC TTC -TC TTC TCC TTC TTC TCTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T-TC TTC TTC
* * * *
139281 -TC TTC TTC TCC TTC TCC TCC TTC -TC CTC TTC TTC -TC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* * * *
139326 TTC TTC TTC TTC TTC TTC TTC TTC TCC TCC TTC TCC TCC TTC TTCC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT-C
* * * * * *
139372 TCC TTC TTC TCC TCTC TTC TCC TTC TTC TCC TTC TCTC TCC TTTC TCC
1 TTC TTC TTC TTC T-TC TTC TTC TTC TTC TTC TTC T-TC TTC -TTC TTC
* * * * * *
139420 TTC TTC TCC TTC TTC TCC TTC TCC TTC TTC TCC TTC TCC TTC TCC TT-
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* * ** * * * * * * * * *
139467 TCC TTC TCTC CTC CCC TCC TCC CTC CTC CTC CTC -TC CTC CTC CTC
1 TTC TTC T-TC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
139512 TTC TTC TTC TTC TTC TTTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* *
139558 TTC TTC TTC TTC TTC TTC TTC TTC TCC TTC TCC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* *
139606 TTC TTC TT- TCTC TTC TTC TTC TTC TTTC TCC TTC TCC TTTC TTC TTC
1 TTC TTC TTC T-TC TTC TTC TTC TTC -TTC TTC TTC TTC -TTC TTC TTC
* *
139653 TTC TTC -TC TTC TCC TTC TTC TCTC TTC TTC TTCC TTC TTC TTC TCC
1 TTC TTC TTC TTC TTC TTC TTC T-TC TTC TTC TT-C TTC TTC TTC TTC
*
139699 TTC TCC TTC TTC TT- TCTC TTC TTC TTCC TTC TTTC TT- TTC TTC TTC
1 TTC TTC TTC TTC TTC T-TC TTC TTC TT-C TTC -TTC TTC TTC TTC TTC
* * *
139745 TTC TTC TCC TTC TTC TCC TTC TCC TTCC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TTC TTC TTC TTC
* * * * *
139791 TTC TTC TCC TTC TCC TTC TTC TTC TCC TTTC TTC TTC TCC TTC TCC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC TTC TTC TTC TTC TTC
* * * *
139837 TTC TT- TCTC TCC TTC TTT TTC TCC TTC TTC TTC -TC TTC TCC TTC
1 TTC TTC T-TC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
139881 TTC TTC -TC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT- TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
139927 TCTC TTC TTC TTTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TC TTC
1 T-TC TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
139973 -TC TTC TTC TTC TTC -TC TT- TTC TTC TTC -TC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* * *
140017 TTC TCC TTC TTC TTTC TTC TCC TTT TTC TTC TTC TTC TTC TTC TT-
1 TTC TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
140062 TTC TTC TTC TT- TTC TTC TTC TT- TTC TT- TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
140107 TTTC TTCC TTC TTTC TTC TTC TTC TTC TTTC TTC TCC TTC TTC TTTC
1 -TTC TT-C TTC -TTC TTC TTC TTC TTC -TTC TTC TTC TTC TTC -TTC
* * *
140154 TTC TTTC TTC TTC TTC TTC TTC TCC TTC TTC TTC -TC CTC TTC TCC
1 TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* * * *
140199 TTC TT- TTC -TC CTC TTC TCC TTC TTC TCC TTC TTC TCC TCTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T-TC TTC
*
140243 -TC TTC TT- TCC TTC TTC TTC TTC TT- TCTC TTC -TC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T-TC TTC TTC TTC TTC TTC
*
140285 TTC TTC TTC TTC TTC TTTA TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
140331 TTC TTC TTC TTC TT- TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
140378 TTC TT
1 TTC TT
140383 TCCCAACACA
Statistics
Matches: 1057, Mismatches: 107, Indels: 136
0.81 0.08 0.10
Matches are distributed among these distances:
2 66 0.06
3 908 0.86
4 83 0.08
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (3 bp):
TTC
Found at i:141180 original size:2 final size:2
Alignment explanation
Indices: 141175--141221 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
141165 AAAAATTAAA
* *
141175 AT AT AT AT AT -T AT AT AA AT TT 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
141216 AT AT AT
1 AT AT AT
141222 CAGTTGCTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:143601 original size:2 final size:2
Alignment explanation
Indices: 143594--143618 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
143584 ATATTAAACC
143594 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
143619 TTGATTAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:144604 original size:50 final size:50
Alignment explanation
Indices: 144541--144642 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 50
144531 TTTATCCTAT
144541 TTTAGTATGTATTTATTTTAAAACTGATTATTGGGATATCTTGTTTTGTA
1 TTTAGTATGTATTTATTTTAAAACTGATTATTGGGATATCTTGTTTTGTA
*
144591 TTTAGTATGTATTTATTTTAAAATTGATTATTGGGATATCTTGTTTTGTA
1 TTTAGTATGTATTTATTTTAAAACTGATTATTGGGATATCTTGTTTTGTA
144641 TT
1 TT
144643 CAATAATTTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.25, C:0.03, G:0.16, T:0.56
Consensus pattern (50 bp):
TTTAGTATGTATTTATTTTAAAACTGATTATTGGGATATCTTGTTTTGTA
Found at i:145212 original size:30 final size:30
Alignment explanation
Indices: 145189--145284 Score: 174
Period size: 30 Copynumber: 3.2 Consensus size: 30
145179 CCAGCATACA
145189 TGGCGACCTTCATTGGTCGCCCAGACCACC
1 TGGCGACCTTCATTGGTCGCCCAGACCACC
*
145219 TGGCGACCTTCATTGGTCGCCCAAACCACC
1 TGGCGACCTTCATTGGTCGCCCAGACCACC
*
145249 TGGCGACCTTCATTGGTCGCCCAGATCACC
1 TGGCGACCTTCATTGGTCGCCCAGACCACC
145279 TGGCGA
1 TGGCGA
145285 TCTATATTCG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.18, C:0.38, G:0.24, T:0.21
Consensus pattern (30 bp):
TGGCGACCTTCATTGGTCGCCCAGACCACC
Found at i:145827 original size:34 final size:33
Alignment explanation
Indices: 145764--145827 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
145754 TAAATTTAGA
* *
145764 ATTTAGGGTTTAAAGTTTAAGATTTGAATTGAG
1 ATTTAGGATTTAAAGTTTAAGATTGGAATTGAG
* *
145797 ATTTAGGATTTGAAGTTTTGAGATTGGAATT
1 ATTTAGGATTTAAAG-TTTAAGATTGGAATT
145828 TAGGGTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 13 0.50
34 13 0.50
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (33 bp):
ATTTAGGATTTAAAGTTTAAGATTGGAATTGAG
Found at i:146510 original size:7 final size:7
Alignment explanation
Indices: 146466--146558 Score: 55
Period size: 7 Copynumber: 13.4 Consensus size: 7
146456 AGAATGAGAG
*
146466 TTTATGA
1 TTTAGGA
*
146473 TTTAGAA
1 TTTAGGA
* *
146480 TGTAAGA
1 TTTAGGA
146487 TTTAGGA
1 TTTAGGA
*
146494 TGTAGG-
1 TTTAGGA
146500 TTTAGGA
1 TTTAGGA
*
146507 TTTAGGG
1 TTTAGGA
* *
146514 TTTTGCA
1 TTTAGGA
*
146521 ATT-GGAA
1 TTTAGG-A
146528 TTTAGGA
1 TTTAGGA
* *
146535 TTTTGGG
1 TTTAGGA
146542 TTTAGGA
1 TTTAGGA
*
146549 ATTAGGA
1 TTTAGGA
146556 TTT
1 TTT
146559 TAAGATTTGG
Statistics
Matches: 61, Mismatches: 22, Indels: 6
0.69 0.25 0.07
Matches are distributed among these distances:
6 6 0.10
7 53 0.87
8 2 0.03
ACGTcount: A:0.27, C:0.01, G:0.28, T:0.44
Consensus pattern (7 bp):
TTTAGGA
Found at i:146551 original size:28 final size:29
Alignment explanation
Indices: 146500--146566 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
146490 AGGATGTAGG
*
146500 TTTAGGATTTAGGGTTTTGCAATT-GGAA
1 TTTAGGATTTAGGGTTTAGCAATTAGGAA
* * *
146528 TTTAGGATTTTGGGTTTAGGAATTAGGAT
1 TTTAGGATTTAGGGTTTAGCAATTAGGAA
*
146557 TTTAAGATTT
1 TTTAGGATTT
146567 GGAGTAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
28 21 0.64
29 12 0.36
ACGTcount: A:0.25, C:0.01, G:0.27, T:0.46
Consensus pattern (29 bp):
TTTAGGATTTAGGGTTTAGCAATTAGGAA
Found at i:146553 original size:21 final size:21
Alignment explanation
Indices: 146498--146559 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
146488 TTAGGATGTA
* *
146498 GGTTTAGGATTTAGGGTTTTG
1 GGTTTAGGAATTAGGATTTTG
***
146519 CAATT-GGAATTTAGGATTTTG
1 GGTTTAGGAA-TTAGGATTTTG
146540 GGTTTAGGAATTAGGATTTT
1 GGTTTAGGAATTAGGATTTT
146560 AAGATTTGGA
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
20 3 0.10
21 24 0.77
22 4 0.13
ACGTcount: A:0.23, C:0.02, G:0.31, T:0.45
Consensus pattern (21 bp):
GGTTTAGGAATTAGGATTTTG
Found at i:146619 original size:21 final size:22
Alignment explanation
Indices: 146577--146620 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
146567 GGAGTAAAAA
146577 AAAAGATATTATTTACTTTGAGTT
1 AAAAGATATTATTTA--TTGAGTT
*
146601 AAAATATATTATTTA-TGAGT
1 AAAAGATATTATTTATTGAGT
146621 AATAGATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
24 14 0.74
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.45
Consensus pattern (22 bp):
AAAAGATATTATTTATTGAGTT
Found at i:146989 original size:16 final size:16
Alignment explanation
Indices: 146968--146998 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
146958 TCAATTACAA
*
146968 GTCAGGTTTATAACAG
1 GTCAGGTTGATAACAG
146984 GTCAGGTTGATAACA
1 GTCAGGTTGATAACA
146999 AGTCGGGTAA
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:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (16 bp):
GTCAGGTTGATAACAG
Found at i:148887 original size:2 final size:2
Alignment explanation
Indices: 148880--148916 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
148870 ACTCGAGCAG
148880 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
148917 CATGAAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:157682 original size:21 final size:21
Alignment explanation
Indices: 157631--157683 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
157621 ATTATGACTA
* *
157631 TCGCAATACGATTTTCTAATT
1 TCGCAATGCGATTTTCCAATT
**
157652 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
157673 TCGCAATGCGA
1 TCGCAATGCGA
157684 ATAAATAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 22 0.88
22 3 0.12
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:158395 original size:19 final size:19
Alignment explanation
Indices: 158371--158415 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
158361 GCAACGAGAG
*
158371 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAACAAA
*
158390 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACAAA
158409 AATCGCA
1 AATCGCA
158416 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.27, G:0.16, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAACAAA
Found at i:158519 original size:20 final size:19
Alignment explanation
Indices: 158411--158542 Score: 139
Period size: 19 Copynumber: 7.1 Consensus size: 19
158401 GAAACCAAAA
*
158411 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
158430 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
158449 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
158468 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
158482 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
158501 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
158521 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
158541 TC
1 TC
158543 AACCAAAAGA
Statistics
Matches: 95, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
14 10 0.11
16 2 0.02
17 2 0.02
19 49 0.52
20 31 0.33
21 1 0.01
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:160681 original size:21 final size:21
Alignment explanation
Indices: 160657--160723 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
160647 TCATTCCTCG
160657 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
160678 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
160699 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
160720 AGAG
1 AGAG
160724 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:160681 original size:42 final size:42
Alignment explanation
Indices: 160630--160723 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
160620 CCATTCCTAT
* *
160630 CATTGAAGAGGCCCCTATCATTCCTCG-AGA-GTCCCCTCCCAC
1 CATTCAAGAGGCCACTATCA-TCCTCGAAGAGGT-CCCTCCCAC
* * * *
160672 CGTTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCAC
1 CATTCAAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCAC
160714 CATTCAAGAG
1 CATTCAAGAG
160724 CCCGATTCAC
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.09
42 37 0.86
43 2 0.05
ACGTcount: A:0.23, C:0.35, G:0.20, T:0.21
Consensus pattern (42 bp):
CATTCAAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCAC
Found at i:162101 original size:14 final size:14
Alignment explanation
Indices: 162082--162117 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
162072 ATTGTTTAAT
162082 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
162096 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
162110 TGATTTGT
1 TGATTTGT
162118 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:162298 original size:19 final size:19
Alignment explanation
Indices: 162276--162393 Score: 76
Period size: 19 Copynumber: 6.7 Consensus size: 19
162266 TGAAATTAAA
162276 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
162295 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
162309 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
162328 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
162343 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
162361 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
162380 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
162394 AGACATTAAG
Statistics
Matches: 73, Mismatches: 15, Indels: 21
0.67 0.14 0.19
Matches are distributed among these distances:
14 20 0.27
16 3 0.04
17 3 0.04
19 37 0.51
20 10 0.14
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:162316 original size:33 final size:33
Alignment explanation
Indices: 162273--162372 Score: 157
Period size: 33 Copynumber: 3.0 Consensus size: 33
162263 ACGTGAAATT
162273 AAATTCGCGTTGCGATTTTCATTTCGCATTGCG
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCG
*
162306 AAATTAGCGTTGCGATTTTCATTTCGCATTGCG
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCG
* *
162339 -ATTCTCTCGTTGCGATTTTCATTTCGCATTGCG
1 AAAT-TCGCGTTGCGATTTTCATTTCGCATTGCG
162372 A
1 A
162373 TAGTAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
32 2 0.03
33 59 0.97
ACGTcount: A:0.18, C:0.21, G:0.20, T:0.41
Consensus pattern (33 bp):
AAATTCGCGTTGCGATTTTCATTTCGCATTGCG
Found at i:165740 original size:20 final size:20
Alignment explanation
Indices: 165693--165742 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
165683 GATATAATAC
165693 AAAATCGCAACGAGATTCTG
1 AAAATCGCAACGAGATTCTG
***
165713 ACTTTCGCAACGAGATTCTG
1 AAAATCGCAACGAGATTCTG
165733 AAAATCGCAA
1 AAAATCGCAA
165743 TCATCTTCAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (20 bp):
AAAATCGCAACGAGATTCTG
Found at i:165981 original size:20 final size:20
Alignment explanation
Indices: 165956--166023 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
165946 CAACGGGGAA
165956 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
** ***
165976 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACGCGAAAATG-GCT
* *
165996 ATTGCAACGCAAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
166016 ATCGCAAC
1 ATCGCAAC
166024 TAGAAAATCG
Statistics
Matches: 33, Mismatches: 13, Indels: 4
0.66 0.26 0.08
Matches are distributed among these distances:
19 5 0.15
20 23 0.70
21 5 0.15
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:166074 original size:14 final size:16
Alignment explanation
Indices: 166054--166127 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 16
166044 TGAAAATCGC
166054 ATTGCGATTTTC-TCG
1 ATTGCGATTTTCTTCG
166069 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC--TTCG
166086 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC--TTCG
166105 CATTGCGATTTTC-TCG
1 -ATTGCGATTTTCTTCG
166121 -TTGCGAT
1 ATTGCGAT
166128 AGTCAGTTTC
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.33
16 3 0.06
17 3 0.06
19 30 0.56
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCGATTTTCTTCG
Found at i:166091 original size:19 final size:19
Alignment explanation
Indices: 166050--166117 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
166040 GAAATGAAAA
166050 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
166066 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
166083 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
166102 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
166118 TCGTTGCGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.23
16 3 0.06
17 3 0.06
19 30 0.64
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:168178 original size:20 final size:20
Alignment explanation
Indices: 168136--168201 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
168126 TAGTTTACTT
* * **
168136 TCGCAACACGAAACTTAAAA
1 TCGCAACACGAAAATGACTA
168156 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
168176 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
168196 TCGCAA
1 TCGCAA
168202 TGCGAAATGC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.41, C:0.26, G:0.18, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:168210 original size:19 final size:20
Alignment explanation
Indices: 168155--168210 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
168145 GAAACTTAAA
* *
168155 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGGAAATGACT
*
168175 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGCGGAAATGACT
*
168195 ATCGCAATGC-GAAATG
1 ATCGCAACGCGGAAATG
168211 CAAATCGCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 6 0.19
20 26 0.81
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:168217 original size:19 final size:18
Alignment explanation
Indices: 168195--168273 Score: 94
Period size: 19 Copynumber: 4.5 Consensus size: 18
168185 GGAAATGGCT
168195 ATCGCAATGCGAAATGCAA
1 ATCGCAATGCGAAATG-AA
*
168214 ATCGCAA--CGACA--AA
1 ATCGCAATGCGAAATGAA
168228 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG-AA
*
168247 ATCGCAACGCGAAATGAA
1 ATCGCAATGCGAAATGAA
168265 ATCGCAATG
1 ATCGCAATG
168274 ACAAAATCGC
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
14 9 0.18
16 4 0.08
17 4 0.08
18 10 0.20
19 24 0.47
ACGTcount: A:0.44, C:0.22, G:0.20, T:0.14
Consensus pattern (18 bp):
ATCGCAATGCGAAATGAA
Found at i:168284 original size:51 final size:52
Alignment explanation
Indices: 168175--168292 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 52
168165 GAAAATGACT
*** *
168175 ATCGCAACGCGGAAATGGCTATCGCAATGCGAAATGCAAATCGCAACGACAAA
1 ATCGCAACGC-GAAATGAAAATCGCAACGCGAAATGCAAATCGCAACGACAAA
* *
168228 ATCGCAATGCGAAATGAAAATCGCAACGCGAAATG-AAATCGCAATGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGCGAAATGCAAATCGCAACGACAAA
168279 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
168293 CACAAATCGC
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 28 0.48
52 21 0.36
53 9 0.16
ACGTcount: A:0.43, C:0.23, G:0.21, T:0.13
Consensus pattern (52 bp):
ATCGCAACGCGAAATGAAAATCGCAACGCGAAATGCAAATCGCAACGACAAA
Found at i:168310 original size:51 final size:52
Alignment explanation
Indices: 168195--168310 Score: 164
Period size: 51 Copynumber: 2.2 Consensus size: 52
168185 GGAAATGGCT
* *
168195 ATCGCAATGCGAAATGCAAATCGCAACGACAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGCAAATCGCAACGACAAAATCGCAACGCGAAATCAAA
* *
168247 ATCGCAACGCGAAATG-AAATCGCAATGACAAAATCGCAACGCGAAA-CACAA
1 ATCGCAATGCGAAATGCAAATCGCAACGACAAAATCGCAACGCGAAATCA-AA
*
168298 ATCGCATTGCGAA
1 ATCGCAATGCGAA
168311 TTTCATTTCG
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
50 1 0.02
51 41 0.72
52 15 0.26
ACGTcount: A:0.45, C:0.23, G:0.19, T:0.13
Consensus pattern (52 bp):
ATCGCAATGCGAAATGCAAATCGCAACGACAAAATCGCAACGCGAAATCAAA
Found at i:168346 original size:14 final size:14
Alignment explanation
Indices: 168327--168379 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 14
168317 TTCGCATTGT
168327 GATTTTGTCGTTGC
1 GATTTTGTCGTTGC
*
168341 GATTTTCATTTCGCATTGC
1 GA-TTT--TGTCG--TTGC
168360 GATTTTGTCGTTGC
1 GATTTTGTCGTTGC
168374 GATTTT
1 GATTTT
168380 CATTTCGCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 12 0.38
15 3 0.09
16 4 0.12
17 4 0.12
18 3 0.09
19 6 0.19
ACGTcount: A:0.11, C:0.15, G:0.23, T:0.51
Consensus pattern (14 bp):
GATTTTGTCGTTGC
Found at i:168348 original size:33 final size:33
Alignment explanation
Indices: 168304--168395 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
168294 ACAAATCGCA
* *
168304 TTGCGAATTTCATTTCGCATTGTGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
168337 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
168370 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
168396 AGCCATTTCC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.14, C:0.17, G:0.21, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:168395 original size:19 final size:19
Alignment explanation
Indices: 168299--168395 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
168289 GAAACACAAA
*
168299 TCGCATTGCGAATTTCATT
1 TCGCATTGCGATTTTCATT
* *
168318 TCGCATTGTGA-TTT--TG
1 TCGCATTGCGATTTTCATT
168334 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
168351 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
168367 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
168384 TCGCATTGCGAT
1 TCGCATTGCGAT
168396 AGCCATTTCC
Statistics
Matches: 62, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 11 0.18
15 6 0.10
16 8 0.13
17 8 0.13
18 6 0.10
19 23 0.37
ACGTcount: A:0.14, C:0.19, G:0.21, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:168402 original size:19 final size:20
Alignment explanation
Indices: 168380--168423 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
168370 TTGCGATTTT
168380 CATTT-CGCATTGCGATAGC
1 CATTTCCGCATTGCGATAGC
* *
168399 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCATTGCGATAGC
168419 CATTT
1 CATTT
168424 TCATGTTGCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (20 bp):
CATTTCCGCATTGCGATAGC
Found at i:168431 original size:20 final size:20
Alignment explanation
Indices: 168389--168434 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
168379 TCATTTCGCA
*
168389 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCACG
* * *
168409 TTGCGATAGTCATTTTCATG
1 TTGCGATAGCCATTTCCACG
168429 TTGCGA
1 TTGCGA
168435 AAGTAAACTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCACG
Found at i:168942 original size:18 final size:18
Alignment explanation
Indices: 168916--168960 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
168906 GTCGATCAGA
*
168916 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
168934 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
168952 TGATGGCTC
1 TGATGGCTC
168961 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:170328 original size:20 final size:20
Alignment explanation
Indices: 170280--170338 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
170270 AATAGTTTCT
** *
170280 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
170300 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
170320 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
170339 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:170629 original size:22 final size:22
Alignment explanation
Indices: 170602--170645 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
170592 GATGGAGATA
170602 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
170624 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
170646 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:170919 original size:20 final size:20
Alignment explanation
Indices: 170813--170947 Score: 121
Period size: 20 Copynumber: 6.7 Consensus size: 20
170803 CGCTTTGAAA
*
170813 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* * *
170834 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
170854 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
170874 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
*
170895 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTCAGT
170915 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
170935 ATCGCATTGCGAT
1 ATCGCATTGCGAT
170948 TTTCCCAATT
Statistics
Matches: 96, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.05
20 66 0.69
21 23 0.24
22 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:170919 original size:61 final size:61
Alignment explanation
Indices: 170813--170950 Score: 195
Period size: 61 Copynumber: 2.3 Consensus size: 61
170803 CGCTTTGAAA
* * * *
170813 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
* * * * *
170874 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
170935 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
170951 CCCAATTCGC
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 66 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (61 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
Found at i:170966 original size:61 final size:61
Alignment explanation
Indices: 170813--170968 Score: 161
Period size: 61 Copynumber: 2.6 Consensus size: 61
170803 CGCTTTGAAA
* ** * * * *
170813 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGT
* * ** * * * *
170874 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGT
170935 ATCGCATTGCGATTTTCCCAAT-TCGCGTTGCGAT
1 ATCGCATTGCGATTTT-CCAATATCGCGTTGCGAT
170969 TTACTTATTC
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
61 77 0.97
62 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (61 bp):
ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGT
Found at i:171058 original size:21 final size:21
Alignment explanation
Indices: 171018--171058 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
171008 ACTGTAGACC
** *
171018 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACT
171039 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
171059 GTGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAAATGCAACT
Found at i:171511 original size:43 final size:43
Alignment explanation
Indices: 171445--171531 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
171435 AATATTTCAT
* *
171445 TTGTTATGTTCGACTTATTAATTTAATTTATCTAACATGTCAA
1 TTGTTATATTCGACTTATCAATTTAATTTATCTAACATGTCAA
* * **
171488 TTGTTATATTTGAGTTATCAATTTAATTTATCTTTCATGTCAA
1 TTGTTATATTCGACTTATCAATTTAATTTATCTAACATGTCAA
171531 T
1 T
171532 CATCATGTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.52
Consensus pattern (43 bp):
TTGTTATATTCGACTTATCAATTTAATTTATCTAACATGTCAA
Found at i:189341 original size:19 final size:19
Alignment explanation
Indices: 189317--189357 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
189307 AGAAGAAGAA
* * *
189317 GAAGAAGCACCAGACATGT
1 GAAGAAGAAACAGACACGT
189336 GAAGAAGAAACAGACACGT
1 GAAGAAGAAACAGACACGT
189355 GAA
1 GAA
189358 ATGGTTTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.17, G:0.27, T:0.07
Consensus pattern (19 bp):
GAAGAAGAAACAGACACGT
Found at i:189342 original size:3 final size:3
Alignment explanation
Indices: 189296--189323 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
189286 GGTTTAATGT
189296 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
189324 CACCAGACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:189473 original size:19 final size:19
Alignment explanation
Indices: 189449--189489 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
189439 AAAAGAAGAA
* * *
189449 GAAGAAGCACCAGACATGT
1 GAAGAAGAAACAGACACGT
189468 GAAGAAGAAACAGACACGT
1 GAAGAAGAAACAGACACGT
189487 GAA
1 GAA
189490 ATGGTTTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.17, G:0.27, T:0.07
Consensus pattern (19 bp):
GAAGAAGAAACAGACACGT
Found at i:189529 original size:132 final size:132
Alignment explanation
Indices: 189309--189580 Score: 517
Period size: 132 Copynumber: 2.1 Consensus size: 132
189299 GAAGAAGAAG
189309 AAGAAGAAGAAGAAGCACCAGACATGTGAAGAAGAAACAGACACGTGAAATGGTTTGTGGAATTG
1 AAGAAGAAGAAGAAGCACCAGACATGTGAAGAAGAAACAGACACGTGAAATGGTTTGTGGAATTG
189374 AAATGGTCATGTGTGCATATAGAGAGAGAGGGCTTACACGTGAAATGCTCATGTGTGGTTTAATG
66 AAATGGTCATGTGTGCATATAGAGAGAGAGGGCTTACACGTGAAATGCTCATGTGTGGTTTAATG
189439 AA
131 AA
*
189441 AAGAAGAAGAAGAAGCACCAGACATGTGAAGAAGAAACAGACACGTGAAATGGTTTGTGGAGTTG
1 AAGAAGAAGAAGAAGCACCAGACATGTGAAGAAGAAACAGACACGTGAAATGGTTTGTGGAATTG
189506 AAATGGTCATGTGTGCATATAGAGAGAGAGGGCTTACACGTGAAATGCTCATGTGTGGTTTAATG
66 AAATGGTCATGTGTGCATATAGAGAGAGAGGGCTTACACGTGAAATGCTCATGTGTGGTTTAATG
**
189571 TG
131 AA
189573 AAGAAGAA
1 AAGAAGAA
189581 TAAAAGACAC
Statistics
Matches: 137, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
132 137 1.00
ACGTcount: A:0.38, C:0.10, G:0.30, T:0.22
Consensus pattern (132 bp):
AAGAAGAAGAAGAAGCACCAGACATGTGAAGAAGAAACAGACACGTGAAATGGTTTGTGGAATTG
AAATGGTCATGTGTGCATATAGAGAGAGAGGGCTTACACGTGAAATGCTCATGTGTGGTTTAATG
AA
Found at i:192517 original size:3 final size:3
Alignment explanation
Indices: 192511--192537 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
192501 ATAATAATAA
192511 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
192538 AATAAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:196019 original size:20 final size:22
Alignment explanation
Indices: 195994--196034 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
195984 TTTTTTTAAA
195994 ATTTTT-TAATTAAAA-ATAAT
1 ATTTTTATAATTAAAATATAAT
*
196014 ATTTTTATTATTAAAATATAA
1 ATTTTTATAATTAAAATATAA
196035 AAATAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 8 0.44
22 4 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTTTTATAATTAAAATATAAT
Found at i:200120 original size:29 final size:29
Alignment explanation
Indices: 200087--200207 Score: 143
Period size: 31 Copynumber: 4.0 Consensus size: 29
200077 TATTTTTATA
* *
200087 ATATTTTAAAATTAAGATAAAAATAAAAT
1 ATATTTTTAAATTAAAATAAAAATAAAAT
* *
200116 ATATTTTTAACTTAAAATAAGAATAAAAT
1 ATATTTTTAAATTAAAATAAAAATAAAAT
* *
200145 ATACATTTTTAAATCAAAATAAAAATAAAAA
1 AT--ATTTTTAAATTAAAATAAAAATAAAAT
*
200176 ATATATTTTAAATTAAAAATAAGAATAAAAT
1 ATAT-TTTTAAATT-AAAATAAAAATAAAAT
200207 A
1 A
200208 GTTAAGTTAG
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
29 29 0.38
30 8 0.10
31 40 0.52
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (29 bp):
ATATTTTTAAATTAAAATAAAAATAAAAT
Found at i:200197 original size:62 final size:60
Alignment explanation
Indices: 200089--200207 Score: 175
Period size: 60 Copynumber: 1.9 Consensus size: 60
200079 TTTTTATAAT
* * * *
200089 ATTTTAAAATTAAGATAAAAATAAAATATATTTTTAACTTAAAATAAGAATAAAATATAC
1 ATTTTAAAATCAAAATAAAAATAAAAAATATTTTTAAATTAAAATAAGAATAAAATATAC
*
200149 ATTTTTAAATCAAAATAAAAATAAAAAATATATTTTAAATTAAAAATAAGAATAAAATA
1 ATTTTAAAATCAAAATAAAAATAAAAAATAT-TTTTAAATT-AAAATAAGAATAAAATA
200208 GTTAAGTTAG
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
60 27 0.52
61 8 0.15
62 17 0.33
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (60 bp):
ATTTTAAAATCAAAATAAAAATAAAAAATATTTTTAAATTAAAATAAGAATAAAATATAC
Found at i:207262 original size:2 final size:2
Alignment explanation
Indices: 207255--207284 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
207245 ATAATTCTTC
207255 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
207285 TAAACCCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:219771 original size:14 final size:14
Alignment explanation
Indices: 219752--219779 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
219742 CTGAGGTTGC
219752 AGCAGTCATATAAT
1 AGCAGTCATATAAT
219766 AGCAGTCATATAAT
1 AGCAGTCATATAAT
219780 GTCTTTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (14 bp):
AGCAGTCATATAAT
Done.