Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015233.1 Kokia drynarioides strain JFW-HI SEQ_130278, 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: 371888
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Warning! 345 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:1632 original size:22 final size:21
Alignment explanation
Indices: 1600--1641 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
1590 TAATCTCAAA
1600 ATATATAAAATCT-TAATTAAT
1 ATATATAAAAT-TATAATTAAT
1621 ATATGATAAAATTATAATTAA
1 ATAT-ATAAAATTATAATTAA
1642 CCCCTTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
ATATATAAAATTATAATTAAT
Found at i:5038 original size:24 final size:24
Alignment explanation
Indices: 5009--5064 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
4999 TTAAATTTGA
**
5009 TATTTTAATTTGTTATATTTTTAT
1 TATTTTAATTTGTTATATCATTAT
* *
5033 TATTTTTATTTTTTATATCATTAT
1 TATTTTAATTTGTTATATCATTAT
*
5057 TAATTTAA
1 TATTTTAA
5065 ATAGTTAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (24 bp):
TATTTTAATTTGTTATATCATTAT
Found at i:22268 original size:136 final size:137
Alignment explanation
Indices: 22100--22372 Score: 530
Period size: 136 Copynumber: 2.0 Consensus size: 137
22090 AATTTTTTCT
22100 TTTAATTTTGTTTTTTTAAGTTATAAAAATATCATAGAGATCTTTCTACTAAGAATCAGATTATA
1 TTTAATTTTGTTTTTTTAAGTTATAAAAATATCATAGAGATCTTTCTACTAAGAATCAGATTATA
22165 TTTTTCTTTGGATAAATTAATTTATAGACGAAAGAACTGACGGTTTAGTGTGTTTACTGTTCAGT
66 TTTTTCTTTGGATAAATTAATTTATAGACGAAAGAACTGACGGTTTAGTGTGTTTACTGTTCAGT
22230 TGGAAAA
131 TGGAAAA
*
22237 TTTAATTTTG-TTTTTTAAGTTATAAAAATATCATAGAGGTCTTTCTACTAAGAATCAGATTATA
1 TTTAATTTTGTTTTTTTAAGTTATAAAAATATCATAGAGATCTTTCTACTAAGAATCAGATTATA
22301 TTTTTCTTTGGATAAATTAATTTATAGACGAAAGAACTGACGGTTTAGTGTGTTTACTGTTCAGT
66 TTTTTCTTTGGATAAATTAATTTATAGACGAAAGAACTGACGGTTTAGTGTGTTTACTGTTCAGT
22366 TGGAAAA
131 TGGAAAA
22373 GCTTGTATAA
Statistics
Matches: 135, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
136 125 0.93
137 10 0.07
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (137 bp):
TTTAATTTTGTTTTTTTAAGTTATAAAAATATCATAGAGATCTTTCTACTAAGAATCAGATTATA
TTTTTCTTTGGATAAATTAATTTATAGACGAAAGAACTGACGGTTTAGTGTGTTTACTGTTCAGT
TGGAAAA
Found at i:25861 original size:1 final size:1
Alignment explanation
Indices: 25857--25881 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
25847 CTTTTTTATT
25857 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
25882 NNNNNNNNNN
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:33051 original size:29 final size:28
Alignment explanation
Indices: 32989--33051 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 28
32979 TATTTTATAT
* *
32989 AAATTTTAATTTTTATTTAAACTCATTCC
1 AAATTTAAATTTTTATTTAAACT-ATCCC
*
33018 TAATTTAATATTTTTATTTAAAACT-TCCC
1 AAATTTAA-ATTTTTATTT-AAACTATCCC
33047 AAATT
1 AAATT
33052 ATTAAAGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
29 13 0.46
30 10 0.36
31 5 0.18
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.51
Consensus pattern (28 bp):
AAATTTAAATTTTTATTTAAACTATCCC
Found at i:33757 original size:19 final size:18
Alignment explanation
Indices: 33726--33763 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
33716 TTTAAATATC
33726 TTTTAAAATTATAT-TAT
1 TTTTAAAATTATATGTAT
33743 TTTTATAAATATATATGTAT
1 TTTTA-AAAT-TATATGTAT
33763 T
1 T
33764 AATTGCATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.28
18 4 0.22
19 5 0.28
20 4 0.22
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
TTTTAAAATTATATGTAT
Found at i:36495 original size:2 final size:2
Alignment explanation
Indices: 36488--36514 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
36478 GTTTTAATTT
36488 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
36515 TATTGTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38974 original size:20 final size:20
Alignment explanation
Indices: 38927--38967 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
38917 AAAATCAAAA
38927 GAAGTTTTGAGTTTCTTCAT
1 GAAGTTTTGAGTTTCTTCAT
38947 GAAGTTTTGAGTTTCTTCAT
1 GAAGTTTTGAGTTTCTTCAT
38967 G
1 G
38968 GTGTTTTTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.10, G:0.22, T:0.49
Consensus pattern (20 bp):
GAAGTTTTGAGTTTCTTCAT
Found at i:46734 original size:31 final size:30
Alignment explanation
Indices: 46670--46734 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
46660 TAAAAAAATC
*
46670 AATTCGTCTATTTTTAAAAGTTGATAGTTA
1 AATTCGTCTATTTTTAAAAGTTGATAGTAA
* *
46700 AATTCTTCTCTTTTTAAAAGTTTGAT-GTCAA
1 AATTCGTCTATTTTTAAAAG-TTGATAGT-AA
46731 AATT
1 AATT
46735 TAATTATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 20 0.67
31 10 0.33
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (30 bp):
AATTCGTCTATTTTTAAAAGTTGATAGTAA
Found at i:51827 original size:13 final size:13
Alignment explanation
Indices: 51809--51837 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
51799 TTTGTTTGCC
51809 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
51822 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
51835 TTT
1 TTT
51838 GAGAGTGGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (13 bp):
TTTTTCTTTTTTT
Found at i:54966 original size:21 final size:20
Alignment explanation
Indices: 54942--54983 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
54932 ACAAATAATA
*
54942 TTAAAATTTATTATGTATTTT
1 TTAAAATTTATT-TATATTTT
54963 TTAAAATTTATTTATATTTT
1 TTAAAATTTATTTATATTTT
54983 T
1 T
54984 ATATTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TTAAAATTTATTTATATTTT
Found at i:54982 original size:20 final size:21
Alignment explanation
Indices: 54942--54997 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 21
54932 ACAAATAATA
*
54942 TTAAAATTTATTATGTATTTT
1 TTAAAATTTATTATATATTTT
54963 TTAAAATTTATT-TATA-TTT
1 TTAAAATTTATTATATATTTT
* *
54982 TTATATTTTATTATAT
1 TTAAAATTTATTATAT
54998 TTCGATAGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 13 0.42
20 6 0.19
21 12 0.39
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TTAAAATTTATTATATATTTT
Found at i:55512 original size:16 final size:15
Alignment explanation
Indices: 55493--55536 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
55483 ATATATATTA
55493 AAAATTAAATATGATC
1 AAAATTAAATAT-ATC
*
55509 AAAATTTAAATATATT
1 AAAA-TTAAATATATC
*
55525 TAAATTAAATAT
1 AAAATTAAATAT
55537 TTACAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 8 0.32
16 9 0.36
17 8 0.32
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (15 bp):
AAAATTAAATATATC
Found at i:70126 original size:17 final size:17
Alignment explanation
Indices: 70106--70157 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
70096 AGAAAACAAC
70106 TTAAAACTCAAAATAAA
1 TTAAAACTCAAAATAAA
* *
70123 TTAAAA-ACAAAATAAC
1 TTAAAACTCAAAATAAA
70139 TTAAAACTCAAAATAAA
1 TTAAAACTCAAAATAAA
70156 TT
1 TT
70158 TAAATCCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 14 0.47
17 16 0.53
ACGTcount: A:0.63, C:0.12, G:0.00, T:0.25
Consensus pattern (17 bp):
TTAAAACTCAAAATAAA
Found at i:70145 original size:33 final size:33
Alignment explanation
Indices: 70093--70157 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
70083 TTTAAACTTG
*
70093 AAAAGAAAACAACTTAAAACTCAAAATAAATTA
1 AAAACAAAACAACTTAAAACTCAAAATAAATTA
*
70126 AAAACAAAATAACTTAAAACTCAAAATAAATT
1 AAAACAAAACAACTTAAAACTCAAAATAAATT
70158 TAAATCCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.66, C:0.12, G:0.02, T:0.20
Consensus pattern (33 bp):
AAAACAAAACAACTTAAAACTCAAAATAAATTA
Found at i:70167 original size:17 final size:16
Alignment explanation
Indices: 70106--70169 Score: 74
Period size: 17 Copynumber: 3.8 Consensus size: 16
70096 AGAAAACAAC
70106 TTAAAACTCAAAATAAA
1 TTAAAAC-CAAAATAAA
* *
70123 TTAAAAACAAAATAAC
1 TTAAAACCAAAATAAA
70139 TTAAAACTCAAAATAAA
1 TTAAAAC-CAAAATAAA
*
70156 TTTAAATCCAAAAT
1 -TTAAAACCAAAAT
70170 TATTCAAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
16 14 0.35
17 20 0.50
18 6 0.15
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.25
Consensus pattern (16 bp):
TTAAAACCAAAATAAA
Found at i:73000 original size:101 final size:101
Alignment explanation
Indices: 72819--73020 Score: 334
Period size: 101 Copynumber: 2.0 Consensus size: 101
72809 GTAAAAAATT
* *
72819 ATAATTTTTTTCGATCCTAACACAAAATTCCTAACAAATTTTACATGTTATGACCTTGAATTTTC
1 ATAATTTTTTTCGATCCTAACACAAAATTCCTAACAAATTTTACATGTTATGACCATGAAATTTC
*
72884 TATGCATTTAAGAAATATATAAAATGAT-CGGGAAA
66 TATGCATTTAAGAAATACATAAAATGATACGGGAAA
* *
72919 ATAATTGTTTTTCGATCCTAACACAAAATTCTTAATAAATTTTACATGTTATGACCATGAAATTT
1 ATAATT-TTTTTCGATCCTAACACAAAATTCCTAACAAATTTTACATGTTATGACCATGAAATTT
*
72984 CTATGCATTTAAGAAATACGTAAAATGATACGGGAAA
65 CTATGCATTTAAGAAATACATAAAATGATACGGGAAA
73021 TTTTGATTCA
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
100 6 0.06
101 81 0.86
102 7 0.07
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (101 bp):
ATAATTTTTTTCGATCCTAACACAAAATTCCTAACAAATTTTACATGTTATGACCATGAAATTTC
TATGCATTTAAGAAATACATAAAATGATACGGGAAA
Found at i:74885 original size:75 final size:76
Alignment explanation
Indices: 74761--74918 Score: 291
Period size: 75 Copynumber: 2.1 Consensus size: 76
74751 GATCCCTTCC
* *
74761 TCATCATCTTGAAGGGCATATATAGTGGAGATCCTATGCTTGGTATTGTTGACATTGTAAATCGA
1 TCATCATCCTGAAGGGCATATACAGTGGAGATCCTATGCTTGGTATTGTTGACATTGTAAATCGA
74826 CTACCAATAAG
66 CTACCAATAAG
74837 TCATCA-CCTGAAGGGCATATACAGTGGAGATCCTATGCTTGGTATTGTTGACATTGTAAATCGA
1 TCATCATCCTGAAGGGCATATACAGTGGAGATCCTATGCTTGGTATTGTTGACATTGTAAATCGA
74901 CTACCAATAAG
66 CTACCAATAAG
74912 TCATCAT
1 TCATCAT
74919 TGTGGAATAC
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
75 73 0.92
76 6 0.08
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (76 bp):
TCATCATCCTGAAGGGCATATACAGTGGAGATCCTATGCTTGGTATTGTTGACATTGTAAATCGA
CTACCAATAAG
Found at i:80416 original size:115 final size:117
Alignment explanation
Indices: 80289--80511 Score: 423
Period size: 117 Copynumber: 1.9 Consensus size: 117
80279 ATTAAAACTA
*
80289 AAAAAAATACTAAATTAATTTACGGTTTCTAAAATTAAGTAAT-AA-ATATATAAATTATGAAGT
1 AAAAAAATACTAAATTAATTTACGGTTTCGAAAATTAAGTAATAAATATATATAAATTATGAAGT
80352 TGTTTTTTATTATATATTAAACCTTAAAAAATCTCATTTCTACTATATATCT
66 TGTTTTTTATTATATATTAAACCTTAAAAAATCTCATTTCTACTATATATCT
80404 AAAAAAATACTAAATTAATTTACGGTTTCGAAAATTAAGTAATAAATATATATAAATTATGAAGT
1 AAAAAAATACTAAATTAATTTACGGTTTCGAAAATTAAGTAATAAATATATATAAATTATGAAGT
80469 TGTTTTTTATTATATATTAAACCTTAAAAAATCTCATTTCTAC
66 TGTTTTTTATTATATATTAAACCTTAAAAAATCTCATTTCTAC
80512 CATTAATATA
Statistics
Matches: 105, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
115 42 0.40
116 2 0.02
117 61 0.58
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.41
Consensus pattern (117 bp):
AAAAAAATACTAAATTAATTTACGGTTTCGAAAATTAAGTAATAAATATATATAAATTATGAAGT
TGTTTTTTATTATATATTAAACCTTAAAAAATCTCATTTCTACTATATATCT
Found at i:81553 original size:118 final size:111
Alignment explanation
Indices: 81329--81635 Score: 374
Period size: 118 Copynumber: 2.7 Consensus size: 111
81319 TAAGAATGTA
* *
81329 TGTTTGTTTTAG-GTTTTAGGAA-GA--ACTGAACCGGTTTATATGTAACAAAACTGGACATGTT
1 TGTTTGTTTTAGTGTTTTA--AATGAGGACTAAACCAGTTTATATGTAA-AAAACTGGACATGTT
* * *
81390 T-AAGCTTTAGCTTGGTGTCTGTAGTCTAAACTATAGCCTAGTGTTTTACTGTTGAC
63 TAAAGC-TTAGCTTGGTGTCTGTAATCTAAACTAGAGCCTAATG---T--T-TT-AC
* *
81446 TGTTTGTTTTATTGTTTTAAATTAGGACTAAACCAGTTTATATGTAAAAAACTGGACATGTTTAA
1 TGTTTGTTTTAGTGTTTTAAATGAGGACTAAACCAGTTTATATGTAAAAAACTGGACATGTTTAA
* * *
81511 AGCTTAGCTTGGTGTCTGTAATCTAAGCTGGAGCTTAATGTTTTAC
66 AGCTTAGCTTGGTGTCTGTAATCTAAACTAGAGCCTAATGTTTTAC
*
81557 TGTTTGTTTTAGTGTTTTAAATGAGGACTAAACCAGTTTATATGT-AAGAACTGGACATGTTTAA
1 TGTTTGTTTTAGTGTTTTAAATGAGGACTAAACCAGTTTATATGTAAAAAACTGGACATGTTTAA
81621 AGCTTAGCTTGGTGT
66 AGCTTAGCTTGGTGT
81636 GTTTCTATAT
Statistics
Matches: 172, Mismatches: 13, Indels: 17
0.85 0.06 0.08
Matches are distributed among these distances:
110 33 0.19
111 45 0.26
112 2 0.01
113 1 0.01
115 1 0.01
116 2 0.01
117 12 0.07
118 53 0.31
119 23 0.13
ACGTcount: A:0.27, C:0.11, G:0.21, T:0.40
Consensus pattern (111 bp):
TGTTTGTTTTAGTGTTTTAAATGAGGACTAAACCAGTTTATATGTAAAAAACTGGACATGTTTAA
AGCTTAGCTTGGTGTCTGTAATCTAAACTAGAGCCTAATGTTTTAC
Found at i:94216 original size:141 final size:144
Alignment explanation
Indices: 93946--94216 Score: 431
Period size: 141 Copynumber: 1.9 Consensus size: 144
93936 CTGGTATGAT
* *
93946 TTTACTTCTAATAGTTCTTTTGCTTATCAACTTAATAGGATGTTTTACTAATACTTGTAGGTCAA
1 TTTACTTCTAACAGTTCTTTTGCTTATCAACTTAATAGGATGTTTTACTAATACTTGTAGGTAAA
* * *
94011 CAATAAGCATCCTTGCTTGTACTCCTGAGAAAATTCAAAATTATATTTGAAATGCACACATGTAT
66 CAACAAGCATCCTTGCTTCTACACCTGAGAAAATTCAAAATTATATTTGAAATGCACACATGTAT
94076 ACATATAGTATGCG
131 ACATATAGTATGCG
*
94090 TTTACTTCTTACAGTTCTTTTGCTTATCAACTTAATAGGATGTTTTACT-A-A-TTGTAGGTAAA
1 TTTACTTCTAACAGTTCTTTTGCTTATCAACTTAATAGGATGTTTTACTAATACTTGTAGGTAAA
* * * *
94152 CAACAAGCATCCTTGTTTCTACACTTGAGAAAATTCAAAATTATATTTGACATTCACACATGTAT
66 CAACAAGCATCCTTGCTTCTACACCTGAGAAAATTCAAAATTATATTTGAAATGCACACATGTAT
94217 GCATCTATAC
Statistics
Matches: 117, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
141 68 0.58
142 1 0.01
143 1 0.01
144 47 0.40
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.39
Consensus pattern (144 bp):
TTTACTTCTAACAGTTCTTTTGCTTATCAACTTAATAGGATGTTTTACTAATACTTGTAGGTAAA
CAACAAGCATCCTTGCTTCTACACCTGAGAAAATTCAAAATTATATTTGAAATGCACACATGTAT
ACATATAGTATGCG
Found at i:101880 original size:2 final size:2
Alignment explanation
Indices: 101873--101899 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
101863 TTTGAAAGAG
101873 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
101900 TCTACCTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:106164 original size:43 final size:43
Alignment explanation
Indices: 106028--106317 Score: 294
Period size: 43 Copynumber: 6.6 Consensus size: 43
106018 GTCGCAAAAG
106028 CGCCGCTAAAGAACACGATCTTTAGCGGCGCTTTTTCCCACAAA
1 CGCCGCTAAAGAACACGATCTTTAGCGGCGC-TTTTCCCACAAA
* *
106072 TGCCGCTAAAGAACACGGTATTTAGTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAGAACAC-G-A--T-CTTTAGCGGCGCTTTTCCCACAAA
* *
106120 CGCCGCTAAAAAACACGGTCTTTAGCGGCGCTTTTCCCGA-AAA
1 CGCCGCTAAAGAACACGATCTTTAGCGGCGCTTTTCCC-ACAAA
* * * **
106163 CGCCGTTAAAGAACATGATCTTTAGTGGCGCTTTTCATACAAA
1 CGCCGCTAAAGAACACGATCTTTAGCGGCGCTTTTCCCACAAA
* * * *
106206 CGCCACTAAAGAACATGTTCTTTAGCGGCGCTTTTCTCACAAA
1 CGCCGCTAAAGAACACGATCTTTAGCGGCGCTTTTCCCACAAA
* * * ** ** *
106249 TGCCGCTAAAGAACATGTTCTTTAATGGCGCTTTTATCATAAA
1 CGCCGCTAAAGAACACGATCTTTAGCGGCGCTTTTCCCACAAA
* * *
106292 TGCCGTTAAAGAACATGATCTTTAGC
1 CGCCGCTAAAGAACACGATCTTTAGC
106318 ACTGTTTTTC
Statistics
Matches: 210, Mismatches: 29, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
42 1 0.00
43 151 0.72
44 17 0.08
45 1 0.00
46 1 0.00
47 1 0.00
48 27 0.13
49 11 0.05
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (43 bp):
CGCCGCTAAAGAACACGATCTTTAGCGGCGCTTTTCCCACAAA
Found at i:106271 original size:129 final size:132
Alignment explanation
Indices: 106022--106317 Score: 348
Period size: 129 Copynumber: 2.2 Consensus size: 132
106012 CTAAAAGTCG
* * * * *
106022 CAAAAGCGCCGCTAAAGAACACGATCTTTAGCGGCGCTTTTTCCCACAAATGCCGCTAAAGAACA
1 CAAAA-CGCCGTTAAAGAACATGATCTTTAGCGGCGCTTTTTCACACAAACGCCACTAAAGAACA
* * *
106087 CGGTATTTAGTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAAACACGGTCTTTAGCGGCGCT
65 --GTAGTTACTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAAACACGGTCTTTAACGGCGCT
*
106152 TTTCC
128 TTTAC
* *
106157 CGAAAACGCCGTTAAAGAACATGATCTTTAGTGGCGC-TTTTCATACAAACGCCACTAAAGAACA
1 C-AAAACGCCGTTAAAGAACATGATCTTTAGCGGCGCTTTTTCACACAAACGCCACTAAAGAACA
* * * * * *
106221 -T-GTT-CTTTAGCGGCGCTTTTCTCACAAATGCCGCTAAAGAACATGTTCTTTAATGGCGCTTT
65 GTAGTTACTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAAACACGGTCTTTAACGGCGCTTT
*
106283 TAT
130 TAC
*
106286 CATAAATGCCGTTAAAGAACATGATCTTTAGC
1 CA-AAACGCCGTTAAAGAACATGATCTTTAGC
106318 ACTGTTTTTC
Statistics
Matches: 139, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
128 1 0.01
129 79 0.57
130 2 0.01
131 1 0.01
134 23 0.17
135 29 0.21
136 4 0.03
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (132 bp):
CAAAACGCCGTTAAAGAACATGATCTTTAGCGGCGCTTTTTCACACAAACGCCACTAAAGAACAG
TAGTTACTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAAACACGGTCTTTAACGGCGCTTTT
AC
Found at i:106348 original size:129 final size:129
Alignment explanation
Indices: 106097--106348 Score: 310
Period size: 129 Copynumber: 2.0 Consensus size: 129
106087 CGGTATTTAG
* *
106097 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAAACACGGTCTTTAGCGGCGCTTTTCCCGAAA
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAAACACGGTCTTTAACGGCGCTTTTACCGAAA
** * * *
106162 ACGCCGTTAAAGAACATGATCTTTAGTGGCGCTTTTCATACAAACGCCACTAAAGAACATGTTC
66 ACGCCGTTAAAGAACATGATCTTTAGTCACGCTTTTCACAAAAACCCCACTAAAGAACATGTTC
* * * * * * *
106226 TTTAGCGGCGCTTTTCTCACAAATGCCGCTAAAGAACATGTTCTTTAATGGCGCTTTTATC-ATA
1 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAAACACGGTCTTTAACGGCGCTTTTACCGA-A
* * * *
106290 AATGCCGTTAAAGAACATGATCTTTAG-CACTGTTTTTCACAAAAACCCCGCTATAGAAC
65 AACGCCGTTAAAGAACATGATCTTTAGTCAC-GCTTTTCACAAAAACCCCACTAAAGAAC
106349 CCGAATTTTT
Statistics
Matches: 103, Mismatches: 18, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
128 2 0.02
129 101 0.98
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (129 bp):
TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAAACACGGTCTTTAACGGCGCTTTTACCGAAA
ACGCCGTTAAAGAACATGATCTTTAGTCACGCTTTTCACAAAAACCCCACTAAAGAACATGTTC
Found at i:112306 original size:209 final size:207
Alignment explanation
Indices: 111936--112628 Score: 865
Period size: 209 Copynumber: 3.3 Consensus size: 207
111926 TACCCAAAAT
* * * * *
111936 AGTGA-GCTGGTCATCTTCCTGATGAGATA-TAGAGAAGTAGACCAACTCGATGAAGCCAAGTTC
1 AGTGATGC-GGTCATCTTCCTGATGAGATACT-GAGAAGAAGACCAAATCAATGAAACCAAGCTC
*
111999 AAAGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAATAA
64 AAAGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAA
* *
112064 AATAGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGA
129 AAGA-TTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAA
*
112129 GAAGCGATTTGAAATA
193 GAAGCGA-TTGAAACA
* * *
112145 AGTGATACGGTCATCTTCCTTATGAGTTACTGAGAAGAAGACCAAATCAATGAAACCAAGCTCAA
1 AGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAACCAAGCTCAA
* *
112210 AGTGAGCAAATCGTT-GAACCCT-GACTTCCTGATGAGATACTGAGAAGCAGTTCGAAGAAATAA
66 AGTGAGCAAATC-TTCGAACCCTAG-CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAA
* * * ** * * * *
112273 AGCGATTACCTTCCTAATGAGATACAAAGAAGTGAACCAGATTCGTCTTCCTGATGACACACAAA
129 A-AGATTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAA
* * *
112338 GAAGTGGA-TCAACGCA
193 GAAG-CGATTGAA-ACA
** ** * * * *
112354 AGTGATGTAGTCATCTTCCTGATGAGATACTTTGAAGTAGATCAAATTAATGAAACCAGGCTCAA
1 AGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAACCAAGCTCAA
* *
112419 AGTGAGCAAATCTTCGAACCCAAGCTTCCTGATGAGATACTGAGAAGTAGGTCGAAGCAATAAAA
66 AGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAA
* * * *
112484 TGGTTAGCTTCTTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATAAGATACAAAGA
131 -GATTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAGA
*
112549 AGCGGATCGAAACA
195 AGC-GATTGAAACA
* *
112563 AGTGATGCGGTCATCTTCCTGATGAGACACTGAGAAGAAGGCCAAATCAATGAAACCAAGCTCAA
1 AGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAACCAAGCTCAA
112628 A
66 A
112629 AGAAGCGGGT
Statistics
Matches: 404, Mismatches: 68, Indels: 24
0.81 0.14 0.05
Matches are distributed among these distances:
208 6 0.01
209 388 0.96
210 10 0.02
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.23
Consensus pattern (207 bp):
AGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAACCAAGCTCAA
AGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAA
GATTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAGAA
GCGATTGAAACA
Found at i:112657 original size:83 final size:83
Alignment explanation
Indices: 112544--112704 Score: 250
Period size: 83 Copynumber: 1.9 Consensus size: 83
112534 GATAAGATAC
* *
112544 AAAGAAGCGGATCGAAACAAGTGATGCGGTCATCTTCCTGATGAGACACTGAGAAGAAGGCCAAA
1 AAAGAAGCGGATCGAAACAAGTGATACGGTCATCTTCCTGAAGAGACACTGAGAAGAAGGCCAAA
*
112609 TCAATGAAACCAAGCTCA
66 TCAACGAAACCAAGCTCA
* * * *
112627 AAAGAAGCGGGTTGAAACAAGTGATACGGTCATCTTCCTGAAGAGATACTGAGAAGTAGGCCAAA
1 AAAGAAGCGGATCGAAACAAGTGATACGGTCATCTTCCTGAAGAGACACTGAGAAGAAGGCCAAA
*
112692 TCAACGACACCAA
66 TCAACGAAACCAA
112705 ACCATTCAAG
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
83 70 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (83 bp):
AAAGAAGCGGATCGAAACAAGTGATACGGTCATCTTCCTGAAGAGACACTGAGAAGAAGGCCAAA
TCAACGAAACCAAGCTCA
Found at i:113030 original size:18 final size:17
Alignment explanation
Indices: 113015--113108 Score: 134
Period size: 18 Copynumber: 5.4 Consensus size: 17
113005 ATTTATTTTG
113015 AATTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
113032 AATTTACTTTTAAATTTA
1 AATTTA-TTTTAAATTTA
*
113050 AATTTGTTTTAAAATTTA
1 AATTTATTTT-AAATTTA
* *
113068 AATTTAATTTAAGTTTA
1 AATTTATTTTAAATTTA
113085 AATTTATATTTAAATTTA
1 AATTTAT-TTTAAATTTA
113103 AATTTA
1 AATTTA
113109 ATCCAAATTT
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
17 22 0.32
18 46 0.68
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.55
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:113033 original size:6 final size:6
Alignment explanation
Indices: 113000--113109 Score: 102
Period size: 6 Copynumber: 18.8 Consensus size: 6
112990 CTAAACCCAT
* * * **
113000 TTTAAA TTT-AT TTTGAA TTT-AT TTTAAA TTTAAA TTTACT TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
** * *
113046 TTTAAA TTT-GT TTTAAAA TTTAAA TTT-AA TTTAAG TTTAAA TTTATA
1 TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
113093 TTTAAA TTTAAA TTTAA
1 TTTAAA TTTAAA TTTAA
113110 TCCAAATTTA
Statistics
Matches: 83, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
5 16 0.19
6 64 0.77
7 3 0.04
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:113061 original size:35 final size:34
Alignment explanation
Indices: 113015--113120 Score: 140
Period size: 35 Copynumber: 3.0 Consensus size: 34
113005 ATTTATTTTG
*
113015 AATTTATTTTAAATTTAAATTTACTTTTAAATTTA
1 AATTTATTTTAAATTTAAATTTA-ATTTAAATTTA
* *
113050 AATTTGTTTTAAAATTTAAATTTAATTTAAGTTTA
1 AATTTATTTT-AAATTTAAATTTAATTTAAATTTA
**
113085 AATTTATATTTAAATTTAAATTTAATCCAAATTTA
1 AATTTAT-TTTAAATTTAAATTTAATTTAAATTTA
113120 A
1 A
113121 GTAAATAATA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
35 46 0.74
36 16 0.26
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (34 bp):
AATTTATTTTAAATTTAAATTTAATTTAAATTTA
Found at i:114837 original size:29 final size:29
Alignment explanation
Indices: 114805--114900 Score: 72
Period size: 29 Copynumber: 3.2 Consensus size: 29
114795 AAAAATTATA
*
114805 TTTTTACCCCCGAACTTCCAAAATTCAAT
1 TTTTTACCCCAGAACTTCCAAAATTCAAT
* **
114834 TTTTGA-CCTTGAACTATCCAAAACTT-ACA-
1 TTTTTACCCCAGAACT-TCCAAAA-TTCA-AT
* *
114863 TTTTTACCCCTAAAATTTCCAAAAATTCAAT
1 TTTTTACCCC-AGAACTTCC-AAAATTCAAT
114894 TTTTTAC
1 TTTTTAC
114901 GTTGAACTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
28 7 0.14
29 18 0.35
30 11 0.22
31 15 0.29
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.39
Consensus pattern (29 bp):
TTTTTACCCCAGAACTTCCAAAATTCAAT
Found at i:114884 original size:30 final size:30
Alignment explanation
Indices: 114782--114948 Score: 123
Period size: 30 Copynumber: 5.7 Consensus size: 30
114772 CCTAAAAGGT
* * *
114782 CCCTCAACTATCCAAAAATTATATTTTTAC
1 CCCTAAACTTTCCAAAAATTACATTTTTAC
**
114812 CCCCGAAC-TTCC-AAAATT-CAATTTTTGA-
1 CCCTAAACTTTCCAAAAATTAC-ATTTTT-AC
* * * *
114840 CCTTGAACTATCCAAAACTTACATTTTTAC
1 CCCTAAACTTTCCAAAAATTACATTTTTAC
*
114870 CCCTAAAATTTCCAAAAATT-CAATTTTTTA-
1 CCCTAAACTTTCCAAAAATTAC-A-TTTTTAC
** * *
114900 CGTTGAACTTTCTAAAAATTACATTTTTAC
1 CCCTAAACTTTCCAAAAATTACATTTTTAC
114930 CCC-AAACTTTCCAAAAATT
1 CCCTAAACTTTCCAAAAATT
114949 TTTAACAACT
Statistics
Matches: 105, Mismatches: 22, Indels: 21
0.71 0.15 0.14
Matches are distributed among these distances:
28 18 0.17
29 29 0.28
30 50 0.48
31 8 0.08
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.37
Consensus pattern (30 bp):
CCCTAAACTTTCCAAAAATTACATTTTTAC
Found at i:114922 original size:60 final size:59
Alignment explanation
Indices: 114787--114948 Score: 218
Period size: 60 Copynumber: 2.7 Consensus size: 59
114777 AAGGTCCCTC
* ** *
114787 AACTATCCAAAAATTATATTTTTACCCCCGAACTTCC-AAAATTCAATTTTTGACCTTG
1 AACTATCCAAAAATTACATTTTTACCCCAAAATTTCCAAAAATTCAATTTTTGACCTTG
* * *
114845 AACTATCCAAAACTTACATTTTTACCCCTAAAATTTCCAAAAATTCAATTTTTTACGTTG
1 AACTATCCAAAAATTACATTTTTACCCC-AAAATTTCCAAAAATTCAATTTTTGACCTTG
* * *
114905 AACTTTCTAAAAATTACATTTTTACCCCAAACTTTCCAAAAATT
1 AACTATCCAAAAATTACATTTTTACCCCAAAATTTCCAAAAATT
114949 TTTAACAACT
Statistics
Matches: 91, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
58 26 0.29
59 21 0.23
60 44 0.48
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.37
Consensus pattern (59 bp):
AACTATCCAAAAATTACATTTTTACCCCAAAATTTCCAAAAATTCAATTTTTGACCTTG
Found at i:115001 original size:59 final size:57
Alignment explanation
Indices: 114796--115188 Score: 272
Period size: 59 Copynumber: 6.8 Consensus size: 57
114786 CAACTATCCA
* ** * * * * **
114796 AAAATTATATTTTTACCCCCGAAC-TTCCAAAATTCAATTTTTGACCTTGAAC-TATCC
1 AAAATTACATTTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACC--AAACTTTTTG
* * * ** * *
114853 AAAACTTACATTTTTACCCCTAAAATTTCCAAAAATTCAATTTTTTACGTTGAACTTTCTA
1 AAAA-TTACATTTTTACCCCTAAACTTTCC-AAAATTCCATTTTTAAC--CAAACTTTTTG
114914 AAAATTACATTTTTACCCC-AAACTTTCCAAAA----ATTTTTAA-C-AACTTTTTG
1 AAAATTACATTTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCAAACTTTTTG
114964 AAAATTACATTTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCTAAACTTTTTG
1 AAAATTACATTTTTACCCCTAAACTTTCCAAAATTCCATTTTTAA-CC-AAACTTTTTG
* ** * *
115023 AAAATTACATTTTTACCCCTAAACTTTCCAAAGTTTTATTTTTAGACCCCAAACTTTCTA
1 AAAATTACATTTTTACCCCTAAACTTTCCAAAATTCCATTTTTA-A--CCAAACTTTTTG
* * * **
115083 AAAATTACATTTTTAGCCCC-AAACTTTCCAAATTTCAATTATTTGACCCTAAAC-TTTCC
1 AAAATTACATTTTTA-CCCCTAAACTTTCCAAAATTCCATT-TTT-AACC-AAACTTTTTG
** **
115142 AAAATTACCA-TTTTACCCCCGAA-TGTTTAAAAATTCCATTTTTAACC
1 AAAATTA-CATTTTTACCCCTAAACT-TTCCAAAATTCCATTTTTAACC
115189 CTGAACCTTC
Statistics
Matches: 279, Mismatches: 33, Indels: 48
0.77 0.09 0.13
Matches are distributed among these distances:
50 26 0.09
51 13 0.05
54 7 0.03
55 8 0.03
57 8 0.03
58 28 0.10
59 91 0.33
60 82 0.29
61 15 0.05
62 1 0.00
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.39
Consensus pattern (57 bp):
AAAATTACATTTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCAAACTTTTTG
Found at i:115003 original size:29 final size:29
Alignment explanation
Indices: 114964--115212 Score: 193
Period size: 29 Copynumber: 8.4 Consensus size: 29
114954 CAACTTTTTG
*
114964 AAAATTACATTTTTACCCCTAAACTTTCC
1 AAAATTCCATTTTTACCCCTAAACTTTCC
* **
114993 AAAATTCCATTTTTAACCCTAAACTTTTTG
1 AAAATTCCATTTTTACCCCTAAAC-TTTCC
*
115023 AAAATTACATTTTTACCCCTAAACTTTCC
1 AAAATTCCATTTTTACCCCTAAACTTTCC
* ** *
115052 AAAGTTTTATTTTTAGACCCC-AAACTTTCTA
1 AAAATTCCATTTTT--ACCCCTAAACTTTC-C
*
115083 AAAATTACATTTTTAGCCCC-AAACTTTCC
1 AAAATTCCATTTTTA-CCCCTAAACTTTCC
* *
115112 AAATTTCAATTATTTGA-CCCTAAACTTTCC
1 AAAATTCCATT-TTT-ACCCCTAAACTTTCC
** **
115142 AAAATTACCA-TTTTACCCCCGAA-TGTTTA
1 AAAATT-CCATTTTTACCCCTAAACT-TTCC
* * *
115171 AAAATTCCATTTTTAACCCTGAACCTTCC
1 AAAATTCCATTTTTACCCCTAAACTTTCC
115200 AAAACTTACCATT
1 AAAA-TT-CCATT
115213 CTACCCTCGA
Statistics
Matches: 175, Mismatches: 30, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
28 5 0.03
29 81 0.46
30 65 0.37
31 24 0.14
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.38
Consensus pattern (29 bp):
AAAATTCCATTTTTACCCCTAAACTTTCC
Found at i:115212 original size:59 final size:58
Alignment explanation
Indices: 115128--115273 Score: 193
Period size: 59 Copynumber: 2.5 Consensus size: 58
115118 CAATTATTTG
* * * *
115128 ACCCTAAACTTTCCAAAATTACCATTTTACCCCCGAATGTTTAAAAATTCCATTTTTA
1 ACCCTGAACCTTCCAAAATTACCATTTTACCCCCGAATATCTAAAAATTCCATTTTTA
* * *
115186 ACCCTGAACCTTCCAAAACTTACCATTCTACCCTCGAATATCTAAAAATTTCATTTTTA
1 ACCCTGAACCTTCCAAAA-TTACCATTTTACCCCCGAATATCTAAAAATTCCATTTTTA
* *
115245 ACCCCGAACCTTTCAAAAATTACCATTTT
1 ACCCTGAACC-TTCCAAAATTACCATTTT
115274 GTTCCCAGAG
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
58 16 0.21
59 53 0.70
60 7 0.09
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.34
Consensus pattern (58 bp):
ACCCTGAACCTTCCAAAATTACCATTTTACCCCCGAATATCTAAAAATTCCATTTTTA
Found at i:115265 original size:30 final size:30
Alignment explanation
Indices: 114964--115273 Score: 176
Period size: 30 Copynumber: 10.4 Consensus size: 30
114954 CAACTTTTTG
* * *
114964 AAAATTACATTTTT-ACCCCTAAACTTTCC
1 AAAATTCCATTTTTAACCCCGAAACTTTCA
* **
114993 AAAATTCCATTTTTAA-CCCTAAACTTTTTG
1 AAAATTCCATTTTTAACCCCGAAAC-TTTCA
* * *
115023 AAAATTACATTTTT-ACCCCTAAACTTTCC
1 AAAATTCCATTTTTAACCCCGAAACTTTCA
* **
115052 AAAGTTTTATTTTTAGACCCC-AAACTTTCTA
1 AAAATTCCATTTTTA-ACCCCGAAACTTTC-A
* * *
115083 AAAATTACATTTTTAGCCCC-AAACTTTCC
1 AAAATTCCATTTTTAACCCCGAAACTTTCA
* * * * *
115112 AAATTTCAATTATTTGA-CCCTAAACTTTCC
1 AAAATTCCATT-TTTAACCCCGAAACTTTCA
* **
115142 AAAATTACCA-TTTTACCCCCGAATGTTT-A
1 AAAATT-CCATTTTTAACCCCGAAACTTTCA
* * *
115171 AAAATTCCATTTTTAACCCTGAACCTTCCA
1 AAAATTCCATTTTTAACCCCGAAACTTTCA
* * *
115201 AAACTTACCA-TTCT-ACCCTCG-AA-TATCTA
1 AAAATT-CCATTTTTAACCC-CGAAACTTTC-A
* *
115230 AAAATTTCATTTTTAACCCCGAACCTTTCA
1 AAAATTCCATTTTTAACCCCGAAACTTTCA
115260 AAAATTACCATTTT
1 AAAATT-CCATTTT
115274 GTTCCCAGAG
Statistics
Matches: 216, Mismatches: 45, Indels: 38
0.72 0.15 0.13
Matches are distributed among these distances:
28 7 0.03
29 85 0.39
30 93 0.43
31 31 0.14
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.37
Consensus pattern (30 bp):
AAAATTCCATTTTTAACCCCGAAACTTTCA
Found at i:119041 original size:10 final size:10
Alignment explanation
Indices: 118967--119048 Score: 51
Period size: 10 Copynumber: 8.0 Consensus size: 10
118957 TTTTTAAATT
118967 AAAATTACT-A
1 AAAATTA-TAA
* *
118977 AAAATCATTA
1 AAAATTATAA
*
118987 AAAATTGTAA
1 AAAATTATAA
* *
118997 AAGATTATAT
1 AAAATTATAA
*
119007 AAACTTATAA
1 AAAATTATAA
*
119017 AAAATTGCAAAAA
1 AAAATT---ATAA
119030 AAAATTAT-A
1 AAAATTATAA
119039 AAAATTATAA
1 AAAATTATAA
119049 TTAGGCAGAA
Statistics
Matches: 54, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
9 10 0.19
10 35 0.65
13 9 0.17
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (10 bp):
AAAATTATAA
Found at i:119223 original size:16 final size:18
Alignment explanation
Indices: 119197--119236 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
119187 ACATCTTAAA
119197 TAAATTAATTTTC-CAAT
1 TAAATTAATTTTCTCAAT
119214 TAAA-TAATTTTCTCAAT
1 TAAATTAATTTTCTCAAT
*
119231 TCAATT
1 TAAATT
119237 CTAATCTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 8 0.40
17 11 0.55
18 1 0.05
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:122533 original size:13 final size:13
Alignment explanation
Indices: 122515--122539 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
122505 TTCATTTAAT
122515 TAATTAATTATTC
1 TAATTAATTATTC
122528 TAATTAATTATT
1 TAATTAATTATT
122540 TTCTCTATTC
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:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
TAATTAATTATTC
Found at i:122546 original size:17 final size:16
Alignment explanation
Indices: 122497--122543 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
122487 TGCCCAAAAT
*
122497 ATTATTTATTCATT-TA
1 ATTAATTATT-ATTCTA
122513 ATTAATTAATTATTCTA
1 ATTAATT-ATTATTCTA
122530 ATTAATTATT-TTCT
1 ATTAATTATTATTCT
122544 CTATTCAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 4 0.14
16 12 0.43
17 12 0.43
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTAATTATTATTCTA
Found at i:123544 original size:44 final size:44
Alignment explanation
Indices: 123494--123581 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
123484 GTCAATCACA
123494 TCTATGTTTTCATCTTCTAGGAGTAGTCCACTTCGATACCTAAG
1 TCTATGTTTTCATCTTCTAGGAGTAGTCCACTTCGATACCTAAG
123538 TCTATGTTTTCATCTTCTAGGAGTAGTCCACTTCGATACCTAAG
1 TCTATGTTTTCATCTTCTAGGAGTAGTCCACTTCGATACCTAAG
123582 ATTATTGGTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.39
Consensus pattern (44 bp):
TCTATGTTTTCATCTTCTAGGAGTAGTCCACTTCGATACCTAAG
Found at i:124104 original size:31 final size:31
Alignment explanation
Indices: 124067--124125 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
124057 ACTTATCAAG
*
124067 ATAAATATTAGATCAAATTTAAAATTAAAAT
1 ATAAATATTAAATCAAATTTAAAATTAAAAT
* * *
124098 ATAAATATTAAATTATATTTAATATTAA
1 ATAAATATTAAATCAAATTTAAAATTAA
124126 GATAATCACT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (31 bp):
ATAAATATTAAATCAAATTTAAAATTAAAAT
Found at i:124151 original size:20 final size:18
Alignment explanation
Indices: 124088--124152 Score: 53
Period size: 20 Copynumber: 3.5 Consensus size: 18
124078 ATCAAATTTA
* *
124088 AAATTAAAATATAAATATT
1 AAATTAATATTTAAA-ATT
*
124107 AAATT-ATATTTAATATT
1 AAATTAATATTTAAAATT
124124 AAGA-TAATCACTTTAAAATT
1 AA-ATTAAT-A-TTTAAAATT
124144 AAATTAATA
1 AAATTAATA
124153 AAATACTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
17 6 0.16
18 9 0.24
19 8 0.22
20 14 0.38
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (18 bp):
AAATTAATATTTAAAATT
Found at i:124175 original size:51 final size:50
Alignment explanation
Indices: 124028--124176 Score: 121
Period size: 51 Copynumber: 3.0 Consensus size: 50
124018 TGATTAAAAT
* * * *
124028 TAATCACTTTAATATTAAATTATTATAATACTTATCAAGATAAATATT-AGA
1 TAATCACTTTAAAATTAAATTAATAAAATAC-TATTAAGAT-AATATTAAGA
* * **
124079 TCAA--A-TTTAAAATTAAAAT-ATAAATATTA-AATTATATTTAATATTAAGA
1 T-AATCACTTTAAAATTAAATTAATAAA-A-TACTATTA-AGATAATATTAAGA
124128 TAATCACTTTAAAATTAAATTAATAAAATACTATTAAGATAAGTATTAA
1 TAATCACTTTAAAATTAAATTAATAAAATACTATTAAGATAA-TATTAA
124177 ATTAAATTAA
Statistics
Matches: 75, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
48 14 0.19
49 19 0.25
50 10 0.13
51 25 0.33
52 7 0.09
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (50 bp):
TAATCACTTTAAAATTAAATTAATAAAATACTATTAAGATAATATTAAGA
Found at i:124211 original size:36 final size:36
Alignment explanation
Indices: 124139--124211 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 36
124129 AATCACTTTA
* *
124139 AAATTAAATTAATAAAATACTATTAAGATAAGTATT
1 AAATTAAATTAATAAAATACTACTAAAATAAGTATT
124175 AAATTAAATTAATATTAAAT-CTACTAAAATAA-TATT
1 AAATTAAATTAATA--AAATACTACTAAAATAAGTATT
124211 A
1 A
124212 TTTTTGGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 19 0.58
37 10 0.30
38 4 0.12
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (36 bp):
AAATTAAATTAATAAAATACTACTAAAATAAGTATT
Found at i:128418 original size:77 final size:77
Alignment explanation
Indices: 128281--128467 Score: 232
Period size: 77 Copynumber: 2.4 Consensus size: 77
128271 AAGTTCTTAT
* * * * *
128281 GCCCATCGCTAGTCGGAT-AATCGACAAATATAAAATGTGAGCTCAACTCTAATTGGATATACCA
1 GCCCAGCGCTAGTCGGATAAATCGACGAATATAAAATGTAAGCCCAACTCTAATTGAATATACCA
* * *
128345 ACAGTGTTTTGA
66 ACAATATTCTGA
* * * *
128357 GCCTAGCGCTAGTCGAATAAACCGACGAATATAAAATGTAAGCCCAACTCTAGTTGAATATACCA
1 GCCCAGCGCTAGTCGGATAAATCGACGAATATAAAATGTAAGCCCAACTCTAATTGAATATACCA
*
128422 ACAATATTCTGT
66 ACAATATTCTGA
* *
128434 GCCCAGTGCTAGTTGGATAAATCGACGAATATAA
1 GCCCAGCGCTAGTCGGATAAATCGACGAATATAA
128468 GGAATGTGCC
Statistics
Matches: 92, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
76 15 0.16
77 77 0.84
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (77 bp):
GCCCAGCGCTAGTCGGATAAATCGACGAATATAAAATGTAAGCCCAACTCTAATTGAATATACCA
ACAATATTCTGA
Found at i:133995 original size:18 final size:18
Alignment explanation
Indices: 133964--133998 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
133954 ACTTAGTCGG
* *
133964 TTTCTTCTTTCCCTTAGC
1 TTTCTACTTCCCCTTAGC
133982 TTTCTACTTCCCCTTAG
1 TTTCTACTTCCCCTTAG
133999 AGGACGAGGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.34, G:0.06, T:0.51
Consensus pattern (18 bp):
TTTCTACTTCCCCTTAGC
Found at i:137123 original size:16 final size:16
Alignment explanation
Indices: 137102--137133 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
137092 AGTAATTTTT
*
137102 ATGTTAAAGGACTAAA
1 ATGTTAAAGGAATAAA
137118 ATGTTAAAGGAATAAA
1 ATGTTAAAGGAATAAA
137134 TTTGTAAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.19, T:0.25
Consensus pattern (16 bp):
ATGTTAAAGGAATAAA
Found at i:137691 original size:52 final size:53
Alignment explanation
Indices: 137592--137731 Score: 174
Period size: 52 Copynumber: 2.7 Consensus size: 53
137582 GTCGTAAATG
* *
137592 TAAAAGGTCCGATGATTTTGTGTCATCGTGAGTATACAAATCTTATTACGGAT
1 TAAAAGGTTCGATGATTTTGTGTCATCGTGAGTATACAAATCCTATTACGGAT
* * **
137645 TAACAGGTTCGAT-ATTTTTTGTCATCGTGAGTATATGAATCCTATTACGGAT
1 TAAAAGGTTCGATGATTTTGTGTCATCGTGAGTATACAAATCCTATTACGGAT
* * * * *
137697 TAAAAAGTTCGATGACTATATGTCATCATGAGTAT
1 TAAAAGGTTCGATGATTTTGTGTCATCGTGAGTAT
137732 TAAATGAGAA
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
52 46 0.62
53 28 0.38
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (53 bp):
TAAAAGGTTCGATGATTTTGTGTCATCGTGAGTATACAAATCCTATTACGGAT
Found at i:140584 original size:19 final size:20
Alignment explanation
Indices: 140562--140600 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
140552 TTTAATTAAT
140562 TTGATC-AATTTAATTTTCC
1 TTGATCAAATTTAATTTTCC
140581 TTGATCAAATTTAATTTTCC
1 TTGATCAAATTTAATTTTCC
140601 CAAAAATCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.28, C:0.15, G:0.05, T:0.51
Consensus pattern (20 bp):
TTGATCAAATTTAATTTTCC
Found at i:142498 original size:18 final size:18
Alignment explanation
Indices: 142471--142513 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
142461 TCAAAAAATT
*
142471 ATAAATATTAAAAAATAAA
1 ATAAA-ATTAAAAAAGAAA
*
142490 ATAAAATTAAAAAAGAAT
1 ATAAAATTAAAAAAGAAA
142508 ATAAAA
1 ATAAAA
142514 GTTCATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (18 bp):
ATAAAATTAAAAAAGAAA
Found at i:143929 original size:20 final size:19
Alignment explanation
Indices: 143906--143957 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
143896 GTAAAATAGT
143906 TTTTATAATTTTAAATAAAA
1 TTTTATAATTTTAAA-AAAA
* *
143926 TTTTA-CATTTTAAAAAGA
1 TTTTATAATTTTAAAAAAA
*
143944 TTTTTTAGATTTTA
1 TTTTATA-ATTTTA
143958 TATTTTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 7 0.27
19 8 0.31
20 11 0.42
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (19 bp):
TTTTATAATTTTAAAAAAA
Found at i:150987 original size:11 final size:11
Alignment explanation
Indices: 150973--151050 Score: 53
Period size: 11 Copynumber: 7.4 Consensus size: 11
150963 GAGTGATTTC
150973 TTAAATAATTA
1 TTAAATAATTA
150984 TTAAATGAA-TA
1 TTAAAT-AATTA
*
150995 -TAAATTATTA
1 TTAAATAATTA
151005 -TAGAA-AATTA
1 TTA-AATAATTA
*
151015 TTTCAA-AATTA
1 -TTAAATAATTA
151026 TT-AATAATT-
1 TTAAATAATTA
151035 TATAAATAATTA
1 T-TAAATAATTA
151047 TTAA
1 TTAA
151051 TTGTTTAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
9 4 0.07
10 20 0.36
11 27 0.49
12 4 0.07
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.44
Consensus pattern (11 bp):
TTAAATAATTA
Found at i:151041 original size:18 final size:18
Alignment explanation
Indices: 151020--151077 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
151010 AATTATTTCA
151020 AAATTATTAATAATTTAT
1 AAATTATTAATAATTTAT
* * *
151038 AAATAATTATTAATTGTTT
1 AAATTATTAATAATT-TAT
*
151057 AAAATTA-TAAAAATTTAT
1 -AAATTATTAATAATTTAT
151075 AAA
1 AAA
151078 ATTTAATTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
17 3 0.10
18 15 0.48
19 8 0.26
20 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
AAATTATTAATAATTTAT
Found at i:151057 original size:21 final size:20
Alignment explanation
Indices: 151021--151061 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
151011 ATTATTTCAA
151021 AATTATTAATAATTTATAAAT
1 AATTATTAATAATTTA-AAAT
**
151042 AATTATTAATTGTTTAAAAT
1 AATTATTAATAATTTAAAAT
151062 TATAAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
AATTATTAATAATTTAAAAT
Found at i:151347 original size:20 final size:20
Alignment explanation
Indices: 151309--151350 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
151299 TATAATTAAT
*
151309 TATAATTTTTTAAAATTTTA
1 TATAATTTTGTAAAATTTTA
* *
151329 TATAATTTTGTATATTTTTA
1 TATAATTTTGTAAAATTTTA
151349 TA
1 TA
151351 ACTATTTAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
TATAATTTTGTAAAATTTTA
Found at i:152349 original size:16 final size:17
Alignment explanation
Indices: 152320--152357 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
152310 TAATTTTATA
*
152320 ATATATTATTTTTATTTT
1 ATATATTA-TTTTAATTT
152338 ATATATTA-TTTAATTT
1 ATATATTATTTTAATTT
152354 ATAT
1 ATAT
152358 CACATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 11 0.58
18 8 0.42
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATATATTATTTTAATTT
Found at i:154571 original size:29 final size:30
Alignment explanation
Indices: 154515--154571 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
154505 ATTTTGATTC
* *
154515 TTTAAAAATGATAAAAATTTGATATAATAT
1 TTTAAAAATGATAAAAATATGAGATAATAT
* *
154545 TTTAAAAATTATAAAGATAT-AGATAAT
1 TTTAAAAATGATAAAAATATGAGATAAT
154572 TTAGTTTCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 6 0.26
30 17 0.74
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTAAAAATGATAAAAATATGAGATAATAT
Found at i:155884 original size:3 final size:3
Alignment explanation
Indices: 155878--155911 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
155868 TAATTTTGTA
155878 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
155912 TCAAAAATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:156893 original size:45 final size:45
Alignment explanation
Indices: 156841--156932 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
156831 TTGGGGAACT
156841 TGATATTGGTGTGTAGCGAAGATAGGTAGGAAATCCTCTAAATTG
1 TGATATTGGTGTGTAGCGAAGATAGGTAGGAAATCCTCTAAATTG
*
156886 TGATATTGGTGTGTAGCGGAGATAGGTAGGAAATCCTCTAAATTG
1 TGATATTGGTGTGTAGCGAAGATAGGTAGGAAATCCTCTAAATTG
156931 TG
1 TG
156933 CATTGTTCAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.29, C:0.09, G:0.30, T:0.32
Consensus pattern (45 bp):
TGATATTGGTGTGTAGCGAAGATAGGTAGGAAATCCTCTAAATTG
Found at i:166597 original size:58 final size:56
Alignment explanation
Indices: 166535--166642 Score: 144
Period size: 58 Copynumber: 1.9 Consensus size: 56
166525 TAAATTATTT
* * *
166535 ATCATCAAACTATAAAAAATTATAAAATGGTCACTCAATTATTAGTAATTTTTTTTTG
1 ATCATCAAACTATAAAAAATTACAAAATGGTCACCCAACTATT--TAATTTTTTTTTG
* * *
166593 ATCATCTAACTATGAAAAGTTACAAAATGGTCACCCAACTATTTAATTTT
1 ATCATCAAACTATAAAAAATTACAAAATGGTCACCCAACTATTTAATTTT
166643 GTCCTTTTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
56 7 0.16
58 37 0.84
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (56 bp):
ATCATCAAACTATAAAAAATTACAAAATGGTCACCCAACTATTTAATTTTTTTTTG
Found at i:167693 original size:59 final size:60
Alignment explanation
Indices: 167536--167724 Score: 213
Period size: 60 Copynumber: 3.2 Consensus size: 60
167526 TAATAAATTT
** *
167536 AGATACCAAATTGAATCTAAAAAAAGCTTAGGTACCAAATTAGGAAAAAATG-CTAAGTTC
1 AGATACCAAATTGGGTCTAAAAAAAGTTTAGGTACCAAATTAGGAAAAAATGTC-AAGTTC
* * * * *
167596 AAATACCAAATTAGGTCTAAAAAATGTTTAGGTGCCAAATTAGGAAAAATTGTCAAGTTC
1 AGATACCAAATTGGGTCTAAAAAAAGTTTAGGTACCAAATTAGGAAAAAATGTCAAGTTC
* ** * * *
167656 AGATACCAAATTGGGT-AAAAAAAAGTTTAAATACCAAATTA-AAAAAAAGGTCAAATTC
1 AGATACCAAATTGGGTCTAAAAAAAGTTTAGGTACCAAATTAGGAAAAAATGTCAAGTTC
*
167714 AGGTACCAAAT
1 AGATACCAAAT
167725 ATTATATTAA
Statistics
Matches: 108, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
58 23 0.21
59 20 0.19
60 64 0.59
61 1 0.01
ACGTcount: A:0.49, C:0.12, G:0.15, T:0.24
Consensus pattern (60 bp):
AGATACCAAATTGGGTCTAAAAAAAGTTTAGGTACCAAATTAGGAAAAAATGTCAAGTTC
Found at i:168012 original size:105 final size:105
Alignment explanation
Indices: 167830--168041 Score: 406
Period size: 105 Copynumber: 2.0 Consensus size: 105
167820 GATTAATGGC
167830 TAAGTTAAATTAAATTTTTACGAATGGAAAAACTAAATCCTCTTCTCTCAGGCCTTCAACGATAT
1 TAAGTTAAATTAAATTTTTACGAATGGAAAAACTAAATCCTCTTCTCTCAGGCCTTCAACGATAT
*
167895 CATTTAAATGGACAAGCGCCCATAGCTGAATCTCTCGAGG
66 CATTTAAATGGACAAGCGACCATAGCTGAATCTCTCGAGG
167935 TAAGTTAAATTAAATTTTTACGAATGGAAAAACTAAATCCTCTTCTCTCAGGCCTTCAACGATAT
1 TAAGTTAAATTAAATTTTTACGAATGGAAAAACTAAATCCTCTTCTCTCAGGCCTTCAACGATAT
*
168000 CATTTAAATGGACAAGCGACTATAGCTGAATCTCTCGAGG
66 CATTTAAATGGACAAGCGACCATAGCTGAATCTCTCGAGG
168040 TA
1 TA
168042 CCCCTTTTGG
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 105 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (105 bp):
TAAGTTAAATTAAATTTTTACGAATGGAAAAACTAAATCCTCTTCTCTCAGGCCTTCAACGATAT
CATTTAAATGGACAAGCGACCATAGCTGAATCTCTCGAGG
Found at i:178434 original size:34 final size:34
Alignment explanation
Indices: 178391--178460 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
178381 CGACAAAGAA
178391 GTCAGTCTTCGAGTTCCCTAGGTTTGGTCTTTTG
1 GTCAGTCTTCGAGTTCCCTAGGTTTGGTCTTTTG
*
178425 GTCAGTCTTCGTGTTCCCTAGGTTTGGTCTTTTG
1 GTCAGTCTTCGAGTTCCCTAGGTTTGGTCTTTTG
178459 GT
1 GT
178461 TGTGATGTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.07, C:0.20, G:0.27, T:0.46
Consensus pattern (34 bp):
GTCAGTCTTCGAGTTCCCTAGGTTTGGTCTTTTG
Found at i:189207 original size:17 final size:17
Alignment explanation
Indices: 189185--189226 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
189175 ATACAAAAAA
189185 AAAAATGTAGTG-ACAAT
1 AAAAATGTA-TGCACAAT
*
189202 AAAAATGCATGCACAAT
1 AAAAATGTATGCACAAT
189219 -AAAATGTA
1 AAAAATGTA
189227 AGAATGCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.55, C:0.10, G:0.14, T:0.21
Consensus pattern (17 bp):
AAAAATGTATGCACAAT
Found at i:198581 original size:25 final size:25
Alignment explanation
Indices: 198552--198624 Score: 101
Period size: 25 Copynumber: 2.9 Consensus size: 25
198542 TGACCTAACC
*
198552 CTATCTGGGCTTGTAAGAGTTAAAT
1 CTATCTGGGCTTGTAAGAGCTAAAT
* *
198577 TTATCTGGGCTCGTAAGAGCTAAAT
1 CTATCTGGGCTTGTAAGAGCTAAAT
* *
198602 CTGTCTGGGCTTGTATGAGCTAA
1 CTATCTGGGCTTGTAAGAGCTAA
198625 TCTCTGGAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (25 bp):
CTATCTGGGCTTGTAAGAGCTAAAT
Found at i:198582 original size:50 final size:51
Alignment explanation
Indices: 198519--198616 Score: 126
Period size: 50 Copynumber: 1.9 Consensus size: 51
198509 TCATATACTG
* *
198519 GTTAAACTCTATCTGGGCTCATATGACCTAACCCTATCTGGGCTTGTAAGA
1 GTTAAACTCTATCTGGGCTCATAAGACCTAAACCTATCTGGGCTTGTAAGA
* * * * *
198570 GTTAAA-TTTATCTGGGCTCGTAAGAGCTAAATCTGTCTGGGCTTGTA
1 GTTAAACTCTATCTGGGCTCATAAGACCTAAACCTATCTGGGCTTGTA
198617 TGAGCTAATC
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
50 34 0.85
51 6 0.15
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.34
Consensus pattern (51 bp):
GTTAAACTCTATCTGGGCTCATAAGACCTAAACCTATCTGGGCTTGTAAGA
Found at i:207308 original size:25 final size:25
Alignment explanation
Indices: 207274--207324 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
207264 GTTTTGGAAT
*
207274 TTTTATTTTTCATT-TTTATGGTTAA
1 TTTTAATTTT-ATTGTTTATGGTTAA
*
207299 TTTTAATTTTATTGTTTATGTTTAA
1 TTTTAATTTTATTGTTTATGGTTAA
207324 T
1 T
207325 AAAGGGGGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 3 0.13
25 20 0.87
ACGTcount: A:0.22, C:0.02, G:0.08, T:0.69
Consensus pattern (25 bp):
TTTTAATTTTATTGTTTATGGTTAA
Found at i:211363 original size:8 final size:8
Alignment explanation
Indices: 211350--211376 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
211340 TCCCTCATCA
211350 CTCACATT
1 CTCACATT
211358 CTCACATT
1 CTCACATT
211366 CTCACATT
1 CTCACATT
211374 CTC
1 CTC
211377 TCATCCTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.41, G:0.00, T:0.37
Consensus pattern (8 bp):
CTCACATT
Found at i:212272 original size:15 final size:15
Alignment explanation
Indices: 212212--212277 Score: 53
Period size: 15 Copynumber: 4.1 Consensus size: 15
212202 ATCATTCATA
*
212212 TAGATTATTTGCATATT
1 TAGATCATTTGC--ATT
*
212229 TAGATTAATTTGCA-T
1 TAGA-TCATTTGCATT
*
212244 TAGGAATCAATTGCATT
1 TA-G-ATCATTTGCATT
212261 TAGATCATTTGCATT
1 TAGATCATTTGCATT
212276 TA
1 TA
212278 ATTTTAAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
15 16 0.39
16 10 0.24
17 8 0.20
18 7 0.17
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (15 bp):
TAGATCATTTGCATT
Found at i:215399 original size:35 final size:35
Alignment explanation
Indices: 215353--215423 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
215343 AACTCTCATC
*
215353 ATCATACCATAAATCGAACATCAATTAGACATAAA
1 ATCATACCATAAATCAAACATCAATTAGACATAAA
*
215388 ATCATACCATAAGTCAAACATCAATTAGACATAAA
1 ATCATACCATAAATCAAACATCAATTAGACATAAA
215423 A
1 A
215424 CCATGTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.52, C:0.20, G:0.06, T:0.23
Consensus pattern (35 bp):
ATCATACCATAAATCAAACATCAATTAGACATAAA
Found at i:218023 original size:56 final size:56
Alignment explanation
Indices: 217945--218057 Score: 183
Period size: 56 Copynumber: 2.0 Consensus size: 56
217935 CTTGCCAAAG
*
217945 AATCCAGAGAAACAGTCACACCCTCTGAGGTGCCTTAACCTTCTAAATTAACTCCC
1 AATCCAGAGAAACAGTCACACCCTCTGAGGTGCCTTAACCTTCTAAATGAACTCCC
* *
218001 AATCTAGAGAAACA-TTAGCACCCTCTGAGGTGCCTTAACCTTCTAAATGAACTCCC
1 AATCCAGAGAAACAGTCA-CACCCTCTGAGGTGCCTTAACCTTCTAAATGAACTCCC
218057 A
1 A
218058 CACTTTAGGG
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
55 2 0.04
56 51 0.96
ACGTcount: A:0.33, C:0.30, G:0.13, T:0.24
Consensus pattern (56 bp):
AATCCAGAGAAACAGTCACACCCTCTGAGGTGCCTTAACCTTCTAAATGAACTCCC
Found at i:221348 original size:20 final size:20
Alignment explanation
Indices: 221310--221355 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
221300 AGAGTACCAA
* *
221310 TATCGATACTTGAAGAAATT
1 TATCGATACTAGAAGAAATG
221330 TATCGATACTAAGAA-AAATG
1 TATCGATACT-AGAAGAAATG
221350 TATCGA
1 TATCGA
221356 CACCATATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.30
Consensus pattern (20 bp):
TATCGATACTAGAAGAAATG
Found at i:233657 original size:15 final size:15
Alignment explanation
Indices: 233619--233657 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
233609 TCGAGAAAGA
*
233619 AAAACTGAGAAACCG
1 AAAACTGATAAACCG
*
233634 AAAACTGATAAACTG
1 AAAACTGATAAACCG
233649 AAAACTGAT
1 AAAACTGAT
233658 CCAAACCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.15
Consensus pattern (15 bp):
AAAACTGATAAACCG
Found at i:241019 original size:24 final size:24
Alignment explanation
Indices: 240991--241039 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
240981 GGGTCACGTG
* *
240991 GCTGACGTGGCAGTTTATGTGGCA
1 GCTGACGTGGCAGATGATGTGGCA
*
241015 GCTGACGTGGCTGATGATGTGGCA
1 GCTGACGTGGCAGATGATGTGGCA
241039 G
1 G
241040 GGCAATGGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.16, C:0.16, G:0.41, T:0.27
Consensus pattern (24 bp):
GCTGACGTGGCAGATGATGTGGCA
Found at i:241747 original size:39 final size:39
Alignment explanation
Indices: 241704--242330 Score: 615
Period size: 39 Copynumber: 15.9 Consensus size: 39
241694 TTGTGGTTTT
* * *
241704 AATCTACCCCATGATCAGGGTAAGAGATTAGATGGTTGC
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTTGC
* * * **
241743 AATCTGCCCTATGATCGGGGTAAGAGATCGGATAGTTTTT
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGAT-GGTTGC
* * ** *
241783 ATTCTGCCTCATGATCGGGGTAAGAGATTGGATGACTAC
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTTGC
* **
241822 GATCTGCCCCATGATCGGGGTAAGAGATTGGATGACTGC
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTTGC
* **
241861 GATCTGCCCCATGATCGGGGTAAGAGATTGGATGACTGC
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTTGC
* * **
241900 GATCTGCCCCATGATCGGGGTAAGAGATTGTATGGTTTTT
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGG-TTGC
* ** * ** *
241940 AATCTGCCCCACGATCAAGGTAAGAGATAGGATGCCTGT
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTTGC
*
241979 GATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTTGC
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTTGC
* * *** *
242018 GATCTGCCTCATGATCAAAGTAAGAGATTGGATGGTTAC
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTTGC
* * **
242057 GATCTGCCCCATGATCGGGGTAAGAGATCGGATGGTTTTT
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGG-TTGC
* ** * * *
242097 AATCTGCCCCATGACCAAGGTAAGAGATTAGATGGCTGT
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTTGC
* * * * * **
242136 GATCTACCCCATAATCGAGGTAAGAGATTGAATGGTTTTT
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGG-TTGC
* *
242176 AATCTGCCTCATGATCAGGGTAAGAGATTGGATGGTTGC
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTTGC
* * * **
242215 GATCTGCCCCATGATCGGGGTAAGAGATCGAATGGTTTTT
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGG-TTGC
* * *
242255 AATCTGCCCCATGATCGGGGTGAGAGATCGGATGGTTTTC
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGG-TTGC
*
242295 AATCTGCCCCATGATCGGGGTAAAAGATTGGATGGT
1 AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGT
242331 GATGTAACTT
Statistics
Matches: 489, Mismatches: 94, Indels: 10
0.82 0.16 0.02
Matches are distributed among these distances:
39 297 0.61
40 192 0.39
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.27
Consensus pattern (39 bp):
AATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTTGC
Found at i:241804 original size:79 final size:79
Alignment explanation
Indices: 241700--242330 Score: 762
Period size: 79 Copynumber: 8.0 Consensus size: 79
241690 CGGGTTGTGG
* * * * *
241700 TTTTAATCTACCCCATGATCAGGGTAAGAGATTAGATGGTTGCAATCTGCCCTATGATCGGGGTA
1 TTTTAATCTGCCCCATGATCAGGGTAAGAGATTGGATGGCTGCGATCTGCCCCATGATCGGGGTA
* *
241765 AGAGATCGGATAGT
66 AGAGATTGGATGGT
* * * * *
241779 TTTTATTCTGCCTCATGATCGGGGTAAGAGATTGGATGACTACGATCTGCCCCATGATCGGGGTA
1 TTTTAATCTGCCCCATGATCAGGGTAAGAGATTGGATGGCTGCGATCTGCCCCATGATCGGGGTA
*
241844 AGAGATTGGAT-GA
66 AGAGATTGGATGGT
* *** * *
241857 CTGCGATCTGCCCCATGATCGGGGTAAGAGATTGGATGACTGCGATCTGCCCCATGATCGGGGTA
1 TTTTAATCTGCCCCATGATCAGGGTAAGAGATTGGATGGCTGCGATCTGCCCCATGATCGGGGTA
*
241922 AGAGATTGTATGGT
66 AGAGATTGGATGGT
* * * * *
241936 TTTTAATCTGCCCCACGATCAAGGTAAGAGATAGGATGCCTGTGATCTGCCCCATGATCGGGGTA
1 TTTTAATCTGCCCCATGATCAGGGTAAGAGATTGGATGGCTGCGATCTGCCCCATGATCGGGGTA
242001 AGAGATTGGATGG-
66 AGAGATTGGATGGT
*** * ** * *
242014 TTGCGATCTGCCTCATGATCAAAGTAAGAGATTGGATGGTTACGATCTGCCCCATGATCGGGGTA
1 TTTTAATCTGCCCCATGATCAGGGTAAGAGATTGGATGGCTGCGATCTGCCCCATGATCGGGGTA
*
242079 AGAGATCGGATGGT
66 AGAGATTGGATGGT
* * * * * * *
242093 TTTTAATCTGCCCCATGACCAAGGTAAGAGATTAGATGGCTGTGATCTACCCCATAATCGAGGTA
1 TTTTAATCTGCCCCATGATCAGGGTAAGAGATTGGATGGCTGCGATCTGCCCCATGATCGGGGTA
*
242158 AGAGATTGAATGGT
66 AGAGATTGGATGGT
* *
242172 TTTTAATCTGCCTCATGATCAGGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCGGGGTA
1 TTTTAATCTGCCCCATGATCAGGGTAAGAGATTGGATGGCTGCGATCTGCCCCATGATCGGGGTA
* *
242237 AGAGATCGAATGGT
66 AGAGATTGGATGGT
* * * * * *
242251 TTTTAATCTGCCCCATGATCGGGGTGAGAGATCGGATGGTTTTCAATCTGCCCCATGATCGGGGT
1 TTTTAATCTGCCCCATGATCAGGGTAAGAGATTGGATGG-CTGCGATCTGCCCCATGATCGGGGT
*
242316 AAAAGATTGGATGGT
65 AAGAGATTGGATGGT
242331 GATGTAACTT
Statistics
Matches: 471, Mismatches: 78, Indels: 5
0.85 0.14 0.01
Matches are distributed among these distances:
78 135 0.29
79 301 0.64
80 35 0.07
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (79 bp):
TTTTAATCTGCCCCATGATCAGGGTAAGAGATTGGATGGCTGCGATCTGCCCCATGATCGGGGTA
AGAGATTGGATGGT
Found at i:241996 original size:157 final size:157
Alignment explanation
Indices: 241705--242328 Score: 809
Period size: 157 Copynumber: 4.0 Consensus size: 157
241695 TGTGGTTTTA
* * * *
241705 ATCTACCCCATGATCAGGGTAAGAGATTAGATGGTTGCAATCTGCCCTATGATCGGGGTAAGAGA
1 ATCTGCCCCATGATCAGGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCGGGGTAAGAGA
* * * ** * * **
241770 TCGGATAGTTTTTATTCTGCCTCATGATCGGGGTAAGAGATTGGATGACTACGATCTGCCCCATG
66 TCGGATGGTTTTTAATCTGCCCCATGATCAAGGTAAGAGATAGGATGGCTGTGATCTGCCCCATG
*
241835 ATCGGGGTAAGAGATTGGATGACTGCG
131 ATCGGGGTAAGAGATTGGATGATTGCG
* **
241862 ATCTGCCCCATGATCGGGGTAAGAGATTGGATGACTGCGATCTGCCCCATGATCGGGGTAAGAGA
1 ATCTGCCCCATGATCAGGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCGGGGTAAGAGA
* * * *
241927 TTGTATGGTTTTTAATCTGCCCCACGATCAAGGTAAGAGATAGGATGCCTGTGATCTGCCCCATG
66 TCGGATGGTTTTTAATCTGCCCCATGATCAAGGTAAGAGATAGGATGGCTGTGATCTGCCCCATG
*
241992 ATCGGGGTAAGAGATTGGATGGTTGCG
131 ATCGGGGTAAGAGATTGGATGATTGCG
* ** *
242019 ATCTGCCTCATGATCAAAGTAAGAGATTGGATGGTTACGATCTGCCCCATGATCGGGGTAAGAGA
1 ATCTGCCCCATGATCAGGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCGGGGTAAGAGA
* *
242084 TCGGATGGTTTTTAATCTGCCCCATGACCAAGGTAAGAGATTA-GATGGCTGTGATCTACCCCAT
66 TCGGATGGTTTTTAATCTGCCCCATGATCAAGGTAAGAGA-TAGGATGGCTGTGATCTGCCCCAT
* * * * ***
242148 AATCGAGGTAAGAGATTGAATGGTTTTTA
130 GATCGGGGTAAGAGATTGGAT-GATTGCG
*
242177 ATCTGCCTCATGATCAGGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCGGGGTAAGAGA
1 ATCTGCCCCATGATCAGGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCGGGGTAAGAGA
* ** * * * * *
242242 TCGAATGGTTTTTAATCTGCCCCATGATCGGGGTGAGAGATCGGATGGTTTTCAATCTGCCCCAT
66 TCGGATGGTTTTTAATCTGCCCCATGATCAAGGTAAGAGATAGGATGGCTGT-GATCTGCCCCAT
*
242307 GATCGGGGTAAAAGATTGGATG
130 GATCGGGGTAAGAGATTGGATG
242329 GTGATGTAAC
Statistics
Matches: 405, Mismatches: 58, Indels: 7
0.86 0.12 0.01
Matches are distributed among these distances:
157 268 0.66
158 110 0.27
159 27 0.07
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.27
Consensus pattern (157 bp):
ATCTGCCCCATGATCAGGGTAAGAGATTGGATGGTTGCGATCTGCCCCATGATCGGGGTAAGAGA
TCGGATGGTTTTTAATCTGCCCCATGATCAAGGTAAGAGATAGGATGGCTGTGATCTGCCCCATG
ATCGGGGTAAGAGATTGGATGATTGCG
Found at i:242736 original size:49 final size:49
Alignment explanation
Indices: 242676--242848 Score: 142
Period size: 49 Copynumber: 3.6 Consensus size: 49
242666 TGGCACTGGA
*
242676 TTCGCCGTTGCGGCCTCAATCC-TCCCATCACATCTTCTAAGGTACCAAG
1 TTCGCCATTGCGGCCTCAATCCTTCCCATCACATCTTCT-AGGTACCAAG
* * * * *
242725 TTCGCCATTGCGACCTCAA-CCTTCCCCTTCAAATCTTCGT-GGTATCGAG
1 TTCGCCATTGCGGCCTCAATCCTT-CCCATCACATCTTC-TAGGTACCAAG
* * * *
242774 TTCGCCGTTGTGGCCTCAACCCTTCCCATCACAT-TTC-ATGGTGCCGAA-
1 TTCGCCATTGCGGCCTCAATCCTTCCCATCACATCTTCTA-GGTACC-AAG
* * *
242822 TTCACCATTGCGGCTTCAATCTTTCCC
1 TTCGCCATTGCGGCCTCAATCCTTCCC
242849 TGTCAAATCT
Statistics
Matches: 97, Mismatches: 20, Indels: 15
0.73 0.15 0.11
Matches are distributed among these distances:
48 30 0.31
49 50 0.52
50 16 0.16
51 1 0.01
ACGTcount: A:0.18, C:0.36, G:0.16, T:0.30
Consensus pattern (49 bp):
TTCGCCATTGCGGCCTCAATCCTTCCCATCACATCTTCTAGGTACCAAG
Found at i:242848 original size:98 final size:98
Alignment explanation
Indices: 242676--242858 Score: 230
Period size: 98 Copynumber: 1.9 Consensus size: 98
242666 TGGCACTGGA
* *
242676 TTCGCCGTTGCGGCCTCAATCCTCCCATCACATCTTCTAAGGTACCAAGTTCGCCATTGCGACCT
1 TTCGCCGTTGCGGCCTCAACCCTCCCATCACATCTTCTAAGGTACCAAGTTCACCATTGCGACCT
242741 CAACCTTCCCCT-TCAAATCTTCGTGGTATCGAG
66 CAACCTT-CCCTGTCAAATCTTCGTGGTATCGAG
* * * *
242774 TTCGCCGTTGTGGCCTCAACCCTTCCCATCACAT-TTC-ATGGTGCCGAA-TTCACCATTGCGGC
1 TTCGCCGTTGCGGCCTCAACCC-TCCCATCACATCTTCTAAGGTACC-AAGTTCACCATTGCGAC
* *
242836 TTCAATCTTTCCCTGTCAAATCT
64 CTCAA-CCTTCCCTGTCAAATCT
242859 GTAGAATATG
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
97 26 0.36
98 36 0.49
99 11 0.15
ACGTcount: A:0.19, C:0.35, G:0.16, T:0.31
Consensus pattern (98 bp):
TTCGCCGTTGCGGCCTCAACCCTCCCATCACATCTTCTAAGGTACCAAGTTCACCATTGCGACCT
CAACCTTCCCTGTCAAATCTTCGTGGTATCGAG
Found at i:243430 original size:113 final size:112
Alignment explanation
Indices: 243233--243567 Score: 474
Period size: 113 Copynumber: 3.0 Consensus size: 112
243223 TATTCCTTAT
* *
243233 ATCATTAGACCACTA-ACCGTCATTTCAATGCAAAAATGCTTGAACAGGGTTGTAAGGTGGATAA
1 ATCATTAGCCCAC-AGACCGTTATTTCAATGCAAAAATGCTTGAACAGGGTTGTAAGGTGGATAA
*
243297 AATTGAATTTTATTGGAGGCAAAGCTCACGTGAATGAAAATATTAAGA
65 AATTGAATTTTATTGGAGGCAAAGCTCACGTGAATGAAAAGATTAAGA
* * *
243345 ATCATTAGTCCACAGACTGTTATTTCAATGCAAAAAATGCTTGAACAGGATTGTAAGGTGGATAA
1 ATCATTAGCCCACAGACCGTTATTTCAATGC-AAAAATGCTTGAACAGGGTTGTAAGGTGGATAA
** * * *
243410 AATTGAATTTTATCAGAGGCAGAGTTCATGTGAATGAAAAGATTAAGA
65 AATTGAATTTTATTGGAGGCAAAGCTCACGTGAATGAAAAGATTAAGA
* * *
243458 ATCATTAGCCCACTGACCGTTATTTCAATGCAAAGATGCTTGAACAGGGTTGTAAGGTAGATAAA
1 ATCATTAGCCCACAGACCGTTATTTCAATGCAAAAATGCTTGAACAGGGTTGTAAGGTGGATAAA
* * * * *
243523 ATTGAATTTTATTGGACGCAAAGCTCTCATGAATAAAAAGGTTAA
66 ATTGAATTTTATTGGAGGCAAAGCTCACGTGAATGAAAAGATTAA
243568 AAATGACCCA
Statistics
Matches: 195, Mismatches: 26, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
111 1 0.01
112 92 0.47
113 102 0.52
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.29
Consensus pattern (112 bp):
ATCATTAGCCCACAGACCGTTATTTCAATGCAAAAATGCTTGAACAGGGTTGTAAGGTGGATAAA
ATTGAATTTTATTGGAGGCAAAGCTCACGTGAATGAAAAGATTAAGA
Found at i:243884 original size:6 final size:6
Alignment explanation
Indices: 243875--243917 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
243865 CCTTAACCTC
* *
243875 TCTTTT TCTTTT TC--TT TCTTTT CCTTTT CCTTTT TCTTTT TCT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCT
243918 CTTCCCTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 4 0.12
6 29 0.88
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (6 bp):
TCTTTT
Found at i:243912 original size:18 final size:19
Alignment explanation
Indices: 243889--243928 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
243879 TTTCTTTTTC
*
243889 TTTCTTTTCCT-TTTCCTT
1 TTTCTTTTCCTCTTCCCTT
*
243907 TTTCTTTTTCTCTTCCCTT
1 TTTCTTTTCCTCTTCCCTT
243926 TTT
1 TTT
243929 TTTATTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTCTTTTCCTCTTCCCTT
Found at i:243930 original size:28 final size:27
Alignment explanation
Indices: 243876--243931 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
243866 CTTAACCTCT
*
243876 CTTTTTCTTTTTCTTTCTTTTCCTTTTC
1 CTTTTTCTTTTTCTTTCCTTT-CTTTTC
*
243904 CTTTTTCTTTTTCTCTTCCCTTTTTTTT
1 CTTTTTCTTTTTCT-TT-CCTTTCTTTT
243932 ATTTATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 14 0.58
29 6 0.25
30 4 0.17
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (27 bp):
CTTTTTCTTTTTCTTTCCTTTCTTTTC
Found at i:244881 original size:14 final size:14
Alignment explanation
Indices: 244864--244890 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
244854 TTTATCTTGA
244864 CTTTTCTTTCTTTC
1 CTTTTCTTTCTTTC
244878 CTTTTCTTTCTTT
1 CTTTTCTTTCTTT
244891 TTTGATCTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (14 bp):
CTTTTCTTTCTTTC
Found at i:251426 original size:16 final size:15
Alignment explanation
Indices: 251401--251430 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
251391 TCATCTTGTT
251401 TTATTATATTTATGA
1 TTATTATATTTATGA
251416 TTATGTATATTTATG
1 TTAT-TATATTTATG
251431 TCATGATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (15 bp):
TTATTATATTTATGA
Found at i:251742 original size:103 final size:103
Alignment explanation
Indices: 251564--251766 Score: 246
Period size: 103 Copynumber: 2.0 Consensus size: 103
251554 GCAAAGTTTC
* * * * * * * *
251564 TTTATTTAGGGAATTTGAGAAATTGTACTCAAATGTATTGAGTATAATTTTTTTTTGAACCGAAG
1 TTTATTTAGGAAACTTGAAAAATTATACTCAAACGTACTGAGTATAATTTTTCTTTGAACCGAAA
**
251629 TAATTGAATATCCTATTTGATAAA-CGAGGCAATATTTA
66 TAATCAAATATCCTATTTGA-AAATCGAGGCAATATTTA
* * * * *
251667 TTTATTTAGGAAACTTGAAAAATTATGCTCAAACGTACTGGGTATGATTTTTCTTTGGACCTAAA
1 TTTATTTAGGAAACTTGAAAAATTATACTCAAACGTACTGAGTATAATTTTTCTTTGAACCGAAA
*
251732 TAATCAAATATCCTATTTTAAAATCGAGGCAATAT
66 TAATCAAATATCCTATTTGAAAATCGAGGCAATAT
251767 CCTTTTGTGC
Statistics
Matches: 83, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
102 3 0.04
103 80 0.96
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.39
Consensus pattern (103 bp):
TTTATTTAGGAAACTTGAAAAATTATACTCAAACGTACTGAGTATAATTTTTCTTTGAACCGAAA
TAATCAAATATCCTATTTGAAAATCGAGGCAATATTTA
Found at i:255980 original size:14 final size:14
Alignment explanation
Indices: 255961--255988 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
255951 ACTTGAATTT
255961 GAGCAACAACACAA
1 GAGCAACAACACAA
255975 GAGCAACAACACAA
1 GAGCAACAACACAA
255989 ATATCACAAC
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:0.57, C:0.29, G:0.14, T:0.00
Consensus pattern (14 bp):
GAGCAACAACACAA
Found at i:257670 original size:98 final size:98
Alignment explanation
Indices: 257476--258215 Score: 888
Period size: 98 Copynumber: 7.6 Consensus size: 98
257466 GATTTGACCA
* * * * * * *
257476 GGAAAGATTGAAGCTGCAATGACGAATCTAGTACCACGAAAATATGGAGAGAAGGGTTGAAGTCG
1 GGAAAGATTGAAGCCGCAACGGCGAATCTGGTACCACGAAGATATGGAGGGAAAGGTTGAAGTCG
* *
257541 CAATGACGAACCTTGTACCTTAAAAACATGCTG
66 CAATGGCGAACCTTGTACCTCAAAAACATGCTG
* * * *
257574 GGAAAGATTGAAGCTGCAACGGCGAATCTGGTACCATGAAAATATGGAAGGAAAGGTTGAAGTCG
1 GGAAAGATTGAAGCCGCAACGGCGAATCTGGTACCACGAAGATATGGAGGGAAAGGTTGAAGTCG
* * * * * *
257639 CGATGGCAAACATTGTGCCTCAGAAATATGCTG
66 CAATGGCGAACCTTGTACCTCAAAAACATGCTG
* * * *
257672 GGAAAGATTGAAGCCGTAACGGTGAATCTGGTACCATGAAGATATGGAGGGAAAGGTTGAAGTTG
1 GGAAAGATTGAAGCCGCAACGGCGAATCTGGTACCACGAAGATATGGAGGGAAAGGTTGAAGTCG
*
257737 CAACGGCGAACCTTGTACCTCAAAAACATGCTG
66 CAATGGCGAACCTTGTACCTCAAAAACATGCTG
* * * * *** *
257770 GGAAAGATTGAAGCCACAATGGTGAATTTGGTATTGCGAAGATATGGAGGGAAAGTTTGAAGTCG
1 GGAAAGATTGAAGCCGCAACGGCGAATCTGGTACCACGAAGATATGGAGGGAAAGGTTGAAGTCG
** * *
257835 CAATGATGAACCTTGTACCTCAGAAACATGCTA
66 CAATGGCGAACCTTGTACCTCAAAAACATGCTG
* * * * * *
257868 GGAAAGATTGAAGCCGTAACAGCGAATCTGGTACCACTAAGATATGAAAGGAAAGGTTGAAGTCA
1 GGAAAGATTGAAGCCGCAACGGCGAATCTGGTACCACGAAGATATGGAGGGAAAGGTTGAAGTCG
** * * * *
257933 CAACAGTGAACCTTATACTTCAGAAACATGCTG
66 CAATGGCGAACCTTGTACCTCAAAAACATGCTG
* * * *
257966 GGAAAGATTAAAGCTGCAATGGCGAATCTGGTACCACGAAGATATGGAGGGAAAGGTTGAAGTTG
1 GGAAAGATTGAAGCCGCAACGGCGAATCTGGTACCACGAAGATATGGAGGGAAAGGTTGAAGTCG
* * * * *
258031 CAACGGTGAACTTTGCACCACAAAAACATGCTG
66 CAATGGCGAACCTTGTACCTCAAAAACATGCTG
* *
258064 GGAAAGATTGAAGCCGCAACGGCGAATCTAGTACCATGAAGATATGG-GGGAAAAGGTTGAAGTC
1 GGAAAGATTGAAGCCGCAACGGCGAATCTGGTACCACGAAGATATGGAGGG-AAAGGTTGAAGTC
*
258128 GCAATGGCGAGCCTTGTACCTCAAAAACATGCTG
65 GCAATGGCGAACCTTGTACCTCAAAAACATGCTG
* * * *
258162 GGAAATATTGAAGCCGTAACGGTGAATCTAGTACCACGAAGATATGGAGGGAAA
1 GGAAAGATTGAAGCCGCAACGGCGAATCTGGTACCACGAAGATATGGAGGGAAA
258216 TACCACGAAG
Statistics
Matches: 544, Mismatches: 96, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
97 3 0.01
98 538 0.99
99 3 0.01
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (98 bp):
GGAAAGATTGAAGCCGCAACGGCGAATCTGGTACCACGAAGATATGGAGGGAAAGGTTGAAGTCG
CAATGGCGAACCTTGTACCTCAAAAACATGCTG
Found at i:258217 original size:49 final size:49
Alignment explanation
Indices: 257573--258215 Score: 312
Period size: 49 Copynumber: 13.1 Consensus size: 49
257563 AAAACATGCT
* * * *
257573 GGGAAAGATTGAAGCTGCAACGGCGAATCTGGTACCATGAAAATATGGA
1 GGGAAAGATTGAAGCCGCAACGGTGAATCTGGTACCACGAAGATATGGA
* * * * * * * * * * **
257622 AGGAAAGGTTGAAGTCGCGATGG-CAAACATTGTGCCTCAGAA-ATATGCT
1 GGGAAAGATTGAAGCCGCAACGGTGAATC-TGGTACCAC-GAAGATATGGA
* *
257671 GGGAAAGATTGAAGCCGTAACGGTGAATCTGGTACCATGAAGATATGGA
1 GGGAAAGATTGAAGCCGCAACGGTGAATCTGGTACCACGAAGATATGGA
* ** * * * * * * * **
257720 GGGAAAGGTTGAAGTTGCAACGGCGAACCTTGTACCTCAAAAACATGCT
1 GGGAAAGATTGAAGCCGCAACGGTGAATCTGGTACCACGAAGATATGGA
* * * ***
257769 GGGAAAGATTGAAGCCACAATGGTGAATTTGGTATTGCGAAGATATGGA
1 GGGAAAGATTGAAGCCGCAACGGTGAATCTGGTACCACGAAGATATGGA
* * * * * * * * *
257818 GGGAAAGTTTGAAGTCGCAATGATGAACCTTGTACCTCAGAA-ACATGCTA
1 GGGAAAGATTGAAGCCGCAACGGTGAATCTGGTACCAC-GAAGATATG-GA
* * * * *
257868 -GGAAAGATTGAAGCCGTAACAGCGAATCTGGTACCACTAAGATATGAA
1 GGGAAAGATTGAAGCCGCAACGGTGAATCTGGTACCACGAAGATATGGA
* * * * * * ** * **
257916 AGGAAAGGTTGAAGTCACAACAGTGAACCTTATACTTCA-GAA-ACATGCT
1 GGGAAAGATTGAAGCCGCAACGGTGAATCTGGTAC--CACGAAGATATGGA
* * * *
257965 GGGAAAGATTAAAGCTGCAATGGCGAATCTGGTACCACGAAGATATGGA
1 GGGAAAGATTGAAGCCGCAACGGTGAATCTGGTACCACGAAGATATGGA
* ** * * * * * **
258014 GGGAAAGGTTGAAGTTGCAACGGTGAA-CTTTGCACCACAAAAACATGCT
1 GGGAAAGATTGAAGCCGCAACGGTGAATC-TGGTACCACGAAGATATGGA
* * *
258063 GGGAAAGATTGAAGCCGCAACGGCGAATCTAGTACCATGAAGATATGG-
1 GGGAAAGATTGAAGCCGCAACGGTGAATCTGGTACCACGAAGATATGGA
* * * * ** * * * * * **
258111 GGGAAAAGGTTGAAGTCGCAATGGCGAGCCTTGTACCTCAAAAACATGCT
1 GGG-AAAGATTGAAGCCGCAACGGTGAATCTGGTACCACGAAGATATGGA
* * *
258161 GGGAAATATTGAAGCCGTAACGGTGAATCTAGTACCACGAAGATATGGA
1 GGGAAAGATTGAAGCCGCAACGGTGAATCTGGTACCACGAAGATATGGA
258210 GGGAAA
1 GGGAAA
258216 TACCACGAAG
Statistics
Matches: 417, Mismatches: 161, Indels: 32
0.68 0.26 0.05
Matches are distributed among these distances:
47 2 0.00
48 16 0.04
49 381 0.91
50 16 0.04
51 2 0.00
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.20
Consensus pattern (49 bp):
GGGAAAGATTGAAGCCGCAACGGTGAATCTGGTACCACGAAGATATGGA
Found at i:258223 original size:23 final size:23
Alignment explanation
Indices: 258193--258238 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
258183 GTGAATCTAG
*
258193 TACCACGAAGATATGGAGGGAAA
1 TACCACGAAGATATGAAGGGAAA
258216 TACCACGAAGATATGAAGGGAAA
1 TACCACGAAGATATGAAGGGAAA
258239 GGTTGAAGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.13, G:0.28, T:0.13
Consensus pattern (23 bp):
TACCACGAAGATATGAAGGGAAA
Found at i:258310 original size:121 final size:121
Alignment explanation
Indices: 258095--258336 Score: 389
Period size: 121 Copynumber: 2.0 Consensus size: 121
258085 GCGAATCTAG
* * *
258095 TACCATGAAGATATGGGGGAAAAGGTTGAAGTCGCAATGGCGAGCCTTGTACCTCAAAAACATGC
1 TACCACGAAGATATGAGGGAAAAGGTTGAAGTCGCAATAGCGAGCCTTGTACCTCAAAAACATGC
* **
258160 TGGGAAATATTGAAGCCGTAACGGTGAATCTAGTACCACGAAGATATGGAGGGAAA
66 TGGGAAAGATTGAAGCCGTAACGAAGAATCTAGTACCACGAAGATATGGAGGGAAA
258216 TACCACGAAGATATGAAGGG-AAAGGTTGAAGTCGCAATAGC-AGACCTTGTACCTCAAAAACAT
1 TACCACGAAGATATG-AGGGAAAAGGTTGAAGTCGCAATAGCGAG-CCTTGTACCTCAAAAACAT
*
258279 GCTGGGAAAGATTGAAGCCGTAACGAAGAATCTGGTACCACGAAGATATGGAGGGAAA
64 GCTGGGAAAGATTGAAGCCGTAACGAAGAATCTAGTACCACGAAGATATGGAGGGAAA
258337 GGTTGAAGTC
Statistics
Matches: 112, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
120 2 0.02
121 107 0.96
122 3 0.03
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.19
Consensus pattern (121 bp):
TACCACGAAGATATGAGGGAAAAGGTTGAAGTCGCAATAGCGAGCCTTGTACCTCAAAAACATGC
TGGGAAAGATTGAAGCCGTAACGAAGAATCTAGTACCACGAAGATATGGAGGGAAA
Found at i:258317 original size:49 final size:49
Alignment explanation
Indices: 258264--258408 Score: 137
Period size: 49 Copynumber: 3.0 Consensus size: 49
258254 AGCAGACCTT
* * *
258264 GTACCTCAAAAACATGCTGGGAAAGATTGAAGCCGTAACGAAGAATCTG
1 GTACCTCAAAAACATGCTGGGAAAGATTGAAGTCGCAACGACGAATCTG
* * * * ** * * * *
258313 GTACCACGAAGATATGGAGGGAAAGGTTGAAGTCGCAACGGCGAACCTT
1 GTACCTCAAAAACATGCTGGGAAAGATTGAAGTCGCAACGACGAATCTG
* * * *
258362 GTACCTTAGAAGCATGTTGGGAAAGATTGAAGTCGCAACGACGAATC
1 GTACCTCAAAAACATGCTGGGAAAGATTGAAGTCGCAACGACGAATC
258409 CAGTACCATG
Statistics
Matches: 71, Mismatches: 25, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (49 bp):
GTACCTCAAAAACATGCTGGGAAAGATTGAAGTCGCAACGACGAATCTG
Found at i:258385 original size:98 final size:98
Alignment explanation
Indices: 258216--259082 Score: 546
Period size: 99 Copynumber: 8.8 Consensus size: 98
258206 TGGAGGGAAA
* * ** * * * *
258216 TACCACGAAGATATGAAGGGAAAGGTTGAAGTCGCAATAGCAGACCTTGTACCTCAAAAACATG-
1 TACCATGAAGATATGAAGGGAAAGGTTGAGGTCGCAACGGCAAACCTTGTACCT-TAGAAGATGT
* * *
258280 CTGGGAAAGATTGAAGCCGTAACGAAGAATCTGG
65 ATGGGAAAGATTGAAGTCGTAACGACGAATCTGG
* * * *
258314 TACCACGAAGATATGGAGGGAAAGGTTGAAGTCGCAACGGCGAACCTTGTACCTTAGAAGCATGT
1 TACCATGAAGATATGAAGGGAAAGGTTGAGGTCGCAACGGCAAACCTTGTACCTTAGAAG-ATGT
* **
258379 -TGGGAAAGATTGAAGTCGCAACGACGAATCCAG
65 ATGGGAAAGATTGAAGTCGTAACGACGAATCTGG
* ** * * **
258412 TACCATGAAGATACGAAGGGAAAGGTTGAGGTCATAATGGCGAACCCAGTACCTTAGAAGATGTG
1 TACCATGAAGATATGAAGGGAAAGGTTGAGGTCGCAACGGCAAACCTTGTACCTTAGAAGATGT-
* * *
258477 ATGGG-AAGAATT-AATATCGTAATGGCGAAT-TCGG
65 ATGGGAAAG-ATTGAA-GTCGTAACGACGAATCT-GG
* * * *
258511 TACCATGAAGATATGAAGGGAAAGGTTGAGGCCACAACAGCAAACCTTGTACCTTAAAAGATGTG
1 TACCATGAAGATATGAAGGGAAAGGTTGAGGTCGCAACGGCAAACCTTGTACCTTAGAAGATGT-
* * * * **
258576 ATGGGAAGGATTGAGGCCGTAACGGCGAATCTAA
65 ATGGGAAAGATTGAAGTCGTAACGACGAATCTGG
* * * *
258610 TACCATGAAGATATGAAGGTAAAGATTGAGGTCGCAACGACAAACCTTATACCTTAGAAGATGTG
1 TACCATGAAGATATGAAGGGAAAGGTTGAGGTCGCAACGGCAAACCTTGTACCTTAGAAGATGT-
* * * * *
258675 ATGGGAAGGATTGAGGTCGCAAC-AGCGAATCCGA
65 ATGGGAAAGATTGAAGTCGTAACGA-CGAATCTGG
* * * * * *
258709 TACCATGAAGATATGAAGGGAAAGGTT-ATGGCCGCAACGGTAAACCCTGCACTTTAAAAGATGT
1 TACCATGAAGATATGAAGGGAAAGGTTGA-GGTCGCAACGGCAAACCTTGTACCTTAGAAGATG-
* * * * * * *
258773 TATGAGAAGGATTGATGCCGCAACGACGAAACTAG
64 TATGGGAAAGATTGAAGTCGTAACGACGAATCTGG
* * * * * * * *
258808 CACCATGAAGATATGAAGAGAAAGGTTGAGGTCACAATGACAAACCCTGT---TTAAAAGATATG
1 TACCATGAAGATATGAAGGGAAAGGTTGAGGTCGCAACGGCAAACCTTGTACCTTAGAAGATGT-
* * * * **
258870 ATGAGAAGGATTG-AGGCTATAACGGTGAAT-TCGG
65 ATGGGAAAGATTGAAGTC-GTAACGACGAATCT-GG
* * * * * * * *
258904 TACCATTAAAATATATTAAGGAAAAGGTTGAGGCCACAACGGCGAA-CTTGGTACCTTAGAAGAC
1 TACCA-T-GAAGATATGAAGGGAAAGGTTGAGGTCGCAACGGCAAACCTT-GTACCTTAGAAGAT
* * * * *
258968 GTGATGGGAAAGATCG-AGGCTATAACGAC-AGATTTAG
63 GT-ATGGGAAAGATTGAAGTC-GTAACGACGA-ATCTGG
* * * * * *** *
259005 TACCATG-AGA-ATAAATGGAAAGGCTGAGGCCGCAATGATGAACCTAGTACCTTAGAAGCATG-
1 TACCATGAAGATATGAAGGGAAAGGTTGAGGTCGCAACGGCAAACCTTGTACCTTAGAAG-ATGT
*
259067 ACGGGAAAGATTGAAG
65 ATGGGAAAGATTGAAG
259083 CTGCGACGGT
Statistics
Matches: 615, Mismatches: 125, Indels: 59
0.77 0.16 0.07
Matches are distributed among these distances:
95 4 0.01
96 45 0.07
97 48 0.08
98 174 0.28
99 296 0.48
100 9 0.01
101 38 0.06
102 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.20
Consensus pattern (98 bp):
TACCATGAAGATATGAAGGGAAAGGTTGAGGTCGCAACGGCAAACCTTGTACCTTAGAAGATGTA
TGGGAAAGATTGAAGTCGTAACGACGAATCTGG
Found at i:258385 original size:219 final size:219
Alignment explanation
Indices: 257997--258434 Score: 592
Period size: 219 Copynumber: 2.0 Consensus size: 219
257987 GCGAATCTGG
* * * ** *
257997 TACCACGAAGATATGGAGGGAAAGGTTGAAGTTGCAACGGTGAACTTTGCACCACAAAAACATGC
1 TACCACGAAGATATGAAGGGAAAGGTTGAAGTCGCAAAGCAGAACCTTGCACCACAAAAACATGC
** *
258062 TGGGAAAGATTGAAGCCGCAACGGCGAATCTAGTACCATGAAGATATGGGGGAAAAGGTTGAAGT
66 TGGGAAAGATTGAAGCCGCAACGAAGAATCTAGTACCACGAAGATATGGGGGAAAAGGTTGAAGT
* * * * ** *
258127 CGCAATGGCGAGCCTTGTACCTCAAAAACATGCTGGGAAATATTGAAGCCGTAACGGTGAATCTA
131 CGCAACGGCGAACCTTGTACCTCAAAAACATGCTGGGAAAGATTGAAGCCGCAACGACGAATCCA
* *
258192 GTACCACGAAGATATGGAGGGAAA
196 GTACCACGAAGATACGAAGGGAAA
* *
258216 TACCACGAAGATATGAAGGGAAAGGTTGAAGTCGCAATAGCAG-ACCTTGTACCTCAAAAACATG
1 TACCACGAAGATATGAAGGGAAAGGTTGAAGTCGCAA-AGCAGAACCTTGCACCACAAAAACATG
* *
258280 CTGGGAAAGATTGAAGCCGTAACGAAGAATCTGGTACCACGAAGATATGGAGGG-AAAGGTTGAA
65 CTGGGAAAGATTGAAGCCGCAACGAAGAATCTAGTACCACGAAGATATGG-GGGAAAAGGTTGAA
* * * * *
258344 GTCGCAACGGCGAACCTTGTACCTTAGAAGCATGTTGGGAAAGATTGAAGTCGCAACGACGAATC
129 GTCGCAACGGCGAACCTTGTACCTCAAAAACATGCTGGGAAAGATTGAAGCCGCAACGACGAATC
*
258409 CAGTACCATGAAGATACGAAGGGAAA
194 CAGTACCACGAAGATACGAAGGGAAA
258435 GGTTGAGGTC
Statistics
Matches: 189, Mismatches: 28, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
219 184 0.97
220 5 0.03
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.18
Consensus pattern (219 bp):
TACCACGAAGATATGAAGGGAAAGGTTGAAGTCGCAAAGCAGAACCTTGCACCACAAAAACATGC
TGGGAAAGATTGAAGCCGCAACGAAGAATCTAGTACCACGAAGATATGGGGGAAAAGGTTGAAGT
CGCAACGGCGAACCTTGTACCTCAAAAACATGCTGGGAAAGATTGAAGCCGCAACGACGAATCCA
GTACCACGAAGATACGAAGGGAAA
Found at i:258433 original size:49 final size:49
Alignment explanation
Indices: 258282--258732 Score: 227
Period size: 49 Copynumber: 9.1 Consensus size: 49
258272 AAAACATGCT
* * * * ** * *
258282 GGGAAAGATTGAAGCCGTAACGAAGAATCTGGTACCACGAAGATATGGA
1 GGGAAAGATTGAGGTCGCAACGACGAATCCAGTACCATGAAGATATGAA
* * * * * * **
258331 GGGAAAGGTTGAAGTCGCAACGGCGAA-CCTTGTACCTTAGAAG-CATGTT
1 GGGAAAGATTGAGGTCGCAACGACGAATCC-AGTACCAT-GAAGATATGAA
* *
258380 GGGAAAGATTGAAGTCGCAACGACGAATCCAGTACCATGAAGATACGAA
1 GGGAAAGATTGAGGTCGCAACGACGAATCCAGTACCATGAAGATATGAA
* ** * * * * * *
258429 GGGAAAGGTTGAGGTCATAATGGCGAACCCAGTACCTTAGAAGATGTGAT
1 GGGAAAGATTGAGGTCGCAACGACGAATCCAGTACCAT-GAAGATATGAA
* ** * * * * *
258479 GGG-AAGAATTAATATCGTAATGGCGAATTCGGTACCATGAAGATATGAA
1 GGGAAAG-ATTGAGGTCGCAACGACGAATCCAGTACCATGAAGATATGAA
* * * * * * * * *
258528 GGGAAAGGTTGAGGCCACAAC-A-GCAAACCTTGTACCTTAAAAGATGTGAT
1 GGGAAAGATTGAGGTCGCAACGACG-AATCC-AGTACCAT-GAAGATATGAA
* * * * * *
258578 GGGAAGGATTGAGGCCGTAACGGCGAATCTAATACCATGAAGATATGAA
1 GGGAAAGATTGAGGTCGCAACGACGAATCCAGTACCATGAAGATATGAA
* * * * *
258627 GGTAAAGATTGAGGTCGCAACGAC-AAACCTTA-TACCTTAGAAGATGTGAT
1 GGGAAAGATTGAGGTCGCAACGACGAATCC--AGTACCAT-GAAGATATGAA
*
258677 GGGAAGGATTGAGGTCGCAAC-AGCGAATCC-GATACCATGAAGATATGAA
1 GGGAAAGATTGAGGTCGCAACGA-CGAATCCAG-TACCATGAAGATATGAA
258726 GGGAAAG
1 GGGAAAG
258733 GTTATGGCCG
Statistics
Matches: 295, Mismatches: 88, Indels: 38
0.70 0.21 0.09
Matches are distributed among these distances:
47 1 0.00
48 11 0.04
49 168 0.57
50 107 0.36
51 7 0.02
52 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.29, T:0.20
Consensus pattern (49 bp):
GGGAAAGATTGAGGTCGCAACGACGAATCCAGTACCATGAAGATATGAA
Found at i:258590 original size:50 final size:50
Alignment explanation
Indices: 258517--258746 Score: 186
Period size: 50 Copynumber: 4.6 Consensus size: 50
258507 TCGGTACCAT
* *
258517 GAAGATATGAAGGGAAAGG-TTGAGGCCACAACAGCAAACCTTGTACCTTA
1 GAAGATATGAAGGG-AAGGATTGAGGCCGCAACAGCAAACCTTATACCTTA
* * * * * * * * *
258567 AAAGATGTGATGGGAAGGATTGAGGCCGTAACGGCGAATCTAATACCAT-
1 GAAGATATGAAGGGAAGGATTGAGGCCGCAACAGCAAACCTTATACCTTA
* * *
258616 GAAGATATGAAGGTAAAGATTGAGGTCGCAAC-GACAAACCTTATACCTTA
1 GAAGATATGAAGGGAAGGATTGAGGCCGCAACAG-CAAACCTTATACCTTA
* * * * * *
258666 GAAGATGTGATGGGAAGGATTGAGGTCGCAACAGCGAATCC-GATACCAT-
1 GAAGATATGAAGGGAAGGATTGAGGCCGCAACAGC-AAACCTTATACCTTA
258715 GAAGATATGAAGGGAAAGG-TT-ATGGCCGCAAC
1 GAAGATATGAAGGG-AAGGATTGA-GGCCGCAAC
258747 GGTAAACCCT
Statistics
Matches: 141, Mismatches: 32, Indels: 15
0.75 0.17 0.08
Matches are distributed among these distances:
48 2 0.01
49 62 0.44
50 72 0.51
51 5 0.04
ACGTcount: A:0.37, C:0.16, G:0.29, T:0.19
Consensus pattern (50 bp):
GAAGATATGAAGGGAAGGATTGAGGCCGCAACAGCAAACCTTATACCTTA
Found at i:258680 original size:198 final size:196
Alignment explanation
Indices: 258306--258854 Score: 636
Period size: 198 Copynumber: 2.8 Consensus size: 196
258296 CCGTAACGAA
* * * * * * *
258306 GAATCTGGTACCACGAAGATATGGAGGGAAAGGTTGAAGTCGCAACGGCGAACCTTGTACCTTAG
1 GAATCCGGTACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCTTGTACCTTAA
* * * *
258371 AAGCATGT-TGGGAAAGATTGAAGTCGCAACGACGAATCCAGTACCATGAAGATACGAAGGGAAA
66 AAG-ATGTATGGGAAGGATTGAAGCCGCAACGACGAATCTAGTACCATGAAGATATGAA-GGAAA
* * * * * *
258435 GGTTGAGGTCATAATGGCGAACCCAGTACCTTAGAAGATGTGATGGGAAGAATTAATATCGTAAT
129 GGTTGAGGTCACAATGACAAACCCAGTACCTTAGAAGATGTGATGGGAAGAATTAAGATCGCAAC
*
258500 GGC
194 AGC
* * *
258503 GAATTCGGTACCATGAAGATATGAAGGGAAAGGTTGAGGCCACAACAGCAAACCTTGTACCTTAA
1 GAATCCGGTACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCTTGTACCTTAA
* * * *
258568 AAGATGTGATGGGAAGGATTGAGGCCGTAACGGCGAATCTAATACCATGAAGATATGAAGGTAAA
66 AAGATGT-ATGGGAAGGATTGAAGCCGCAACGACGAATCTAGTACCATGAAGATATGAAGG-AAA
* * * * * * *
258633 GATTGAGGTCGCAACGACAAACCTTA-TACCTTAGAAGATGTGATGGGAAGGATTGAGGTCGCAA
129 GGTTGAGGTCACAATGACAAACC-CAGTACCTTAGAAGATGTGATGGGAAGAATTAAGATCGCAA
258697 CAGC
193 CAGC
* * * * *
258701 GAATCCGATACCATGAAGATATGAAGGGAAAGGTT-ATGGCCGCAACGGTAAACCCTGCACTTTA
1 GAATCCGGTACCATGAAGATATGAAGGGAAAGGTTGA-GGCCGCAACGGCAAACCTTGTACCTTA
* * * *
258765 AAAGATGTTATGAGAAGGATTGATGCCGCAACGACGAAACTAGCACCATGAAGATATGAAGAGAA
65 AAAGATG-TATGGGAAGGATTGAAGCCGCAACGACGAATCTAGTACCATGAAGATATGAAG-GAA
258830 AGGTTGAGGTCACAATGACAAACCC
128 AGGTTGAGGTCACAATGACAAACCC
258855 TGTTTAAAAG
Statistics
Matches: 294, Mismatches: 51, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
196 4 0.01
197 61 0.21
198 226 0.77
199 3 0.01
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (196 bp):
GAATCCGGTACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCTTGTACCTTAA
AAGATGTATGGGAAGGATTGAAGCCGCAACGACGAATCTAGTACCATGAAGATATGAAGGAAAGG
TTGAGGTCACAATGACAAACCCAGTACCTTAGAAGATGTGATGGGAAGAATTAAGATCGCAACAG
C
Found at i:259403 original size:42 final size:42
Alignment explanation
Indices: 259344--260080 Score: 591
Period size: 42 Copynumber: 18.1 Consensus size: 42
259334 GCTACATTAC
*
259344 CATCCAATCTCTTACCCCGATCATGGGGTAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
*
259386 CATCCAATCTCTTACCCCGATCATGGGGTAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * * **
259428 CATTCAATCTCTTACCTCGATCATGAGATAGATTGAAGACA-
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* ** * * *
259469 CA-CCAATCTCTTACCTCGATCATGGGGTGGGTTAAAGATAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
*
259510 CATCCAATCTCTTACCCCGATCATGGGGCAAATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
*
259552 CATCCAATCTCTTACCCCGATTATGGGGCAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * * *
259594 CATTCAATCTCTTACCCCAATCATGAGGCAGATTGAAGAC-G
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
*
259635 CA-CCGATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
** *
259676 CATCCAATCTCTTACCCTAATCATGGGGCAGATTGAAGATAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * *
259718 CATCGAATCTCTTACTCCGATCATGGGGCAGATTG--G--AG
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* *** * *
259756 CATCCAATCTTTTACCTTAATCA-GAAGGCAGAATGAAGACA-
1 CATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAAGACAT
*** *
259797 -A-CCTAATCTCTTACCTTAATCA-GAAGGCAGATTGAAGACA-
1 CATCC-AATCTCTTACCCCGATCATG-GGGCAGATTGAAGACAT
* ** * *
259837 -AACCAATCTCTTACCCTAAT-AAGAGGACAGATTGAAGACA-
1 CATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAAGACAT
* ** ** *
259877 -AACCAATCTCTTACCCTAATCAAAGGACAGATTGAAGACA-
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
*** * ** * *
259917 -ATCCAATCTCTTACCTTAATTA-GAATGTAGATTTAAGACA-
1 CATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAAGACAT
* * * * *
259957 -ATCTAATCTCTTATCCCAATCATGAGGCAAATTGAAG----
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * ** *
259994 CATCCGATCTTTTACCCTAATTA-GAGGGCAGATTGAAGACA-
1 CATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAAGACAT
* *
260035 CA-CCATTCTCTTACCCCGATCAGGGGGCAGATTGAAG-CTAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGAC-AT
260076 CATCC
1 CATCC
260081 TACAGAAGTG
Statistics
Matches: 586, Mismatches: 85, Indels: 48
0.82 0.12 0.07
Matches are distributed among these distances:
37 2 0.00
38 53 0.09
39 4 0.01
40 253 0.43
41 18 0.03
42 256 0.44
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (42 bp):
CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
Found at i:259567 original size:124 final size:124
Alignment explanation
Indices: 259344--260080 Score: 549
Period size: 124 Copynumber: 6.0 Consensus size: 124
259334 GCTACATTAC
259344 CATCCAATCTCTTACCCCGATCATGGGGTAGATTGAAGACATCATCCAATCTCTTACCCCGATCA
1 CATCCAATCTCTTACCCCGATCATGGGGTAGATTGAAGA-ATCATCCAATCTCTTACCCCGATCA
* * * **
259409 TGGGGTAGATTGAAGACATCATTCAATCTCTTACCTCGATCATGAGATAGATTGAAGACA-
65 TGGGGCAGATTGAAGACATCATCCAATCTCTTACC-CGATCATGGGGCAGATTGAAGACAT
* * * *
259469 CA-CCAATCTCTTACCTCGATCATGGGGTGGGTTAAAGATATCATCCAATCTCTTACCCCGATCA
1 CATCCAATCTCTTACCCCGATCATGGGGTAGATTGAAGA-ATCATCCAATCTCTTACCCCGATCA
* *
259533 TGGGGCAAATTGAAGACATCATCCAATCTCTTACCCCGATTATGGGGCAGATTGAAGACAT
65 TGGGGCAGATTGAAGACATCATCCAATCTCTTA-CCCGATCATGGGGCAGATTGAAGACAT
* * * * ** *
259594 CATTCAATCTCTTACCCCAATCATGAGGCAGATTGAAGACGCA-CCGATCTCTTACCCCGATCAT
1 CATCCAATCTCTTACCCCGATCATGGGGTAGATTGAAGAATCATCCAATCTCTTACCCCGATCAT
* *
259658 GGGGCAGATTGAAGACATCATCCAATCTCTTACCCTAATCATGGGGCAGATTGAAGATAT
66 GGGGCAGATTGAAGACATCATCCAATCTCTTACCC-GATCATGGGGCAGATTGAAGACAT
* * * * * ***
259718 CATCGAATCTCTTACTCCGATCATGGGGCAGATTG--G-AGCATCCAATCTTTTACCTTAATCA-
1 CATCCAATCTCTTACCCCGATCATGGGGTAGATTGAAGAATCATCCAATCTCTTACCCCGATCAT
* * ** *
259779 GAAGGCAGAATGAAGACA--A-CCTAATCTCTTACCTTAATCA-GAAGGCAGATTGAAGACA-
66 G-GGGCAGATTGAAGACATCATCC-AATCTCTTACC-CGATCATG-GGGCAGATTGAAGACAT
* ** * ** * **
259837 -AACCAATCTCTTACCCTAAT-AAGAGGACAGATTGAAG-A-CAAACCAATCTCTTACCCTAATC
1 CATCCAATCTCTTACCCCGATCATG-GGGTAGATTGAAGAATC-ATCCAATCTCTTACCCCGATC
** * ** * ** * *
259898 AAAGGACAGATTGAAGACA--ATCCAATCTCTTACCTTAATTA-GAATGTAGATTTAAGACA-
64 ATGGGGCAGATTGAAGACATCATCCAATCTCTTACC-CGATCATG-GGGCAGATTGAAGACAT
* * * * * * * * ** *
259957 -ATCTAATCTCTTATCCCAATCATGAGGCAAATTGAAG---CATCCGATCTTTTACCCTAATTA-
1 CATCCAATCTCTTACCCCGATCATGGGGTAGATTGAAGAATCATCCAATCTCTTACCCCGATCAT
* *
260017 GAGGGCAGATTGAAGACA-CA-CCATTCTCTTACCCCGATCAGGGGGCAGATTGAAG-CTAT
66 G-GGGCAGATTGAAGACATCATCCAATCTCTTA-CCCGATCATGGGGCAGATTGAAGAC-AT
260076 CATCC
1 CATCC
260081 TACAGAAGTG
Statistics
Matches: 505, Mismatches: 84, Indels: 51
0.79 0.13 0.08
Matches are distributed among these distances:
117 3 0.01
118 80 0.16
119 9 0.02
120 127 0.25
121 8 0.02
122 30 0.06
123 3 0.01
124 209 0.41
125 8 0.02
126 28 0.06
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (124 bp):
CATCCAATCTCTTACCCCGATCATGGGGTAGATTGAAGAATCATCCAATCTCTTACCCCGATCAT
GGGGCAGATTGAAGACATCATCCAATCTCTTACCCGATCATGGGGCAGATTGAAGACAT
Found at i:259619 original size:166 final size:166
Alignment explanation
Indices: 259344--260071 Score: 658
Period size: 166 Copynumber: 4.5 Consensus size: 166
259334 GCTACATTAC
*
259344 CATCCAATCTCTTACCCCGATCATGGGGTAGATTGAAGACATCATCCAATCTCTTACCCCGATCA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCA
* * * *
259409 TGGGGTAGATTGAAGACATCATTCAATCTCTTACCTCGATCATGAGATAGATTGAAGACACACCA
66 TGGGGCAGATTGAAGACATCATTCAATCTCTTACCCCAATCATGAGACAGATTGAAGACACACCA
* ** * *
259474 ATCTCTTACCTCGATCATGGGGTGGGTTAAAGATAT
131 ATCTCTTACCCCGATCATGGGGCAGATTAAAGACAT
* *
259510 CATCCAATCTCTTACCCCGATCATGGGGCAAATTGAAGACATCATCCAATCTCTTACCCCGATTA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCA
* * *
259575 TGGGGCAGATTGAAGACATCATTCAATCTCTTACCCCAATCATGAGGCAGATTGAAGACGCACCG
66 TGGGGCAGATTGAAGACATCATTCAATCTCTTACCCCAATCATGAGACAGATTGAAGACACACCA
*
259640 ATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
131 ATCTCTTACCCCGATCATGGGGCAGATTAAAGACAT
** * * *
259676 CATCCAATCTCTTACCCTAATCATGGGGCAGATTGAAGATATCATCGAATCTCTTACTCCGATCA
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCA
* * ** * *
259741 TGGGGCAGATTGGAG-CATC---CAATCTTTTACCTTAATCA-GAAGGCAGAATGAAGACA-ACC
66 TGGGGCAGATTGAAGACATCATTCAATCTCTTACCCCAATCATG-AGACAGATTGAAGACACACC
*** * *
259800 TAATCTCTTACCTTAATCA-GAAGGCAGATTGAAGACA-
130 -AATCTCTTACCCCGATCATG-GGGCAGATTAAAGACAT
* ** * * * **
259837 -AACCAATCTCTTACCCTAAT-AAGAGGACAGATTGAAGACA--AACCAATCTCTTACCCTAATC
1 CATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATC
** * * ** * * *
259898 AAAGGACAGATTGAAGACA--ATCCAATCTCTTACCTTAATTA-GA-ATGTAGATTTAAGACA-A
65 ATGGGGCAGATTGAAGACATCATTCAATCTCTTACCCCAATCATGAGA--CAGATTGAAGACACA
* * * * * *
259958 TCTAATCTCTTATCCCAATCATGAGGCAAATT---GA-AG
128 -CCAATCTCTTACCCCGATCATGGGGCAGATTAAAGACAT
* * ** * *
259994 CATCCGATCTTTTACCCTAATTA-GAGGGCAGATTGAAGACA-CA-CCATTCTCTTACCCCGATC
1 CATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATC
*
260056 AGGGGGCAGATTGAAG
65 ATGGGGCAGATTGAAG
260072 CTATCATCCT
Statistics
Matches: 478, Mismatches: 68, Indels: 40
0.82 0.12 0.07
Matches are distributed among these distances:
156 1 0.00
157 2 0.00
158 91 0.19
159 7 0.01
160 85 0.18
161 7 0.01
162 59 0.12
165 4 0.01
166 222 0.46
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (166 bp):
CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCA
TGGGGCAGATTGAAGACATCATTCAATCTCTTACCCCAATCATGAGACAGATTGAAGACACACCA
ATCTCTTACCCCGATCATGGGGCAGATTAAAGACAT
Found at i:260063 original size:40 final size:41
Alignment explanation
Indices: 259344--260071 Score: 596
Period size: 40 Copynumber: 17.9 Consensus size: 41
259334 GCTACATTAC
* *
259344 CATCCAATCTCTTACCCCGATCATGGGGTAGATTGAAGACA
1 CATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACA
* *
259385 TCATCCAATCTCTTACCCCGATCATGGGGTAGATTGAAGACA
1 -CATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACA
* * * * **
259427 TCATTCAATCTCTTACCTCGATCATGAGATAGATTGAAGACA
1 -CATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACA
* * ** * * *
259469 CA-CCAATCTCTTACCTCGATCATGGGGTGGGTTAAAGATA
1 CATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACA
* *
259509 TCATCCAATCTCTTACCCCGATCATGGGGCAAATTGAAGACA
1 -CATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACA
* *
259551 TCATCCAATCTCTTACCCCGATTATGGGGCAGATTGAAGACA
1 -CATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACA
* * *
259593 TCATTCAATCTCTTACCCCAATCATGAGGCAGATTGAAGACG
1 -CATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACA
* *
259635 CA-CCGATCTCTTACCCCGATCATGGGGCAGATTGAAGACA
1 CATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACA
* *
259675 TCATCCAATCTCTTACCCTAATCATGGGGCAGATTGAAGATA
1 -CATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACA
* * * *
259717 TCATCGAATCTCTTACTCCGATCATGGGGCAGATTG--GA-G
1 -CATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACA
* ** * *
259756 CATCCAATCTTTTACCTTAATCA-GAAGGCAGAATGAAGACA
1 CATCCAATCTCTTACCCCAATCATG-GGGCAGATTGAAGACA
** *
259797 -A-CCTAATCTCTTACCTTAATCA-GAAGGCAGATTGAAGACA
1 CATCC-AATCTCTTACCCCAATCATG-GGGCAGATTGAAGACA
* * * *
259837 -AACCAATCTCTTACCCTAAT-AAGAGGACAGATTGAAGACA
1 CATCCAATCTCTTACCCCAATCATG-GGGCAGATTGAAGACA
* * ** *
259877 -AACCAATCTCTTACCCTAATCAAAGGACAGATTGAAGACA
1 CATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACA
** * ** * *
259917 -ATCCAATCTCTTACCTTAATTA-GAATGTAGATTTAAGACA
1 CATCCAATCTCTTACCCCAATCATG-GGGCAGATTGAAGACA
* * * *
259957 -ATCTAATCTCTTATCCCAATCATGAGGCAAATTGAAG---
1 CATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACA
* * * *
259994 CATCCGATCTTTTACCCTAATTA-GAGGGCAGATTGAAGACA
1 CATCCAATCTCTTACCCCAATCATG-GGGCAGATTGAAGACA
* * *
260035 CA-CCATTCTCTTACCCCGATCAGGGGGCAGATTGAAG
1 CATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAG
260072 CTATCATCCT
Statistics
Matches: 580, Mismatches: 86, Indels: 42
0.82 0.12 0.06
Matches are distributed among these distances:
37 2 0.00
38 52 0.09
39 3 0.01
40 254 0.44
41 16 0.03
42 253 0.44
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (41 bp):
CATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGACA
Found at i:262793 original size:103 final size:103
Alignment explanation
Indices: 262594--262795 Score: 237
Period size: 103 Copynumber: 2.0 Consensus size: 103
262584 GAAATTGTGC
* *
262594 TCAAACGTACTGGATATAATTTTTCTTTGAACCGAAGTAATTGAATATCCTAATTGAAAAACGAG
1 TCAAACGTACTGGATATAATTTTTCTTTGAACCGAAATAATCGAATATCCTAATTGAAAAACGAG
** * * * *
262659 GCAATATTTTTTTATTTAGGAAACTCGAAGAATTATGT
66 GCAATATCCTTTTATGTAGAAAAATCAAAGAATTATGT
* * * * * *
262697 TCAAACGTACT-GAGTATGATTTTTCTTTGGACCTAAATAATCGAATATCCTATTTTAAAATCGA
1 TCAAACGTACTGGA-TATAATTTTTCTTTGAACCGAAATAATCGAATATCCTAATTGAAAAACGA
*
262761 GGCAATATCCTTTTGTGT-GAAAATATCAAAGAATT
65 GGCAATATCCTTTTATGTAGAAAA-ATCAAAGAATT
262796 GTGCCCTAAC
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
102 6 0.07
103 76 0.93
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (103 bp):
TCAAACGTACTGGATATAATTTTTCTTTGAACCGAAATAATCGAATATCCTAATTGAAAAACGAG
GCAATATCCTTTTATGTAGAAAAATCAAAGAATTATGT
Found at i:263534 original size:27 final size:28
Alignment explanation
Indices: 263494--263552 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
263484 AAAAAGGGTT
*
263494 AAAAGAAAGTTAAAAC-AAGATTTAAAAA
1 AAAAGAAAGTTAAAACGAA-ACTTAAAAA
*
263522 AAAAGAAAG-TAAATCGAAACTTAAAAA
1 AAAAGAAAGTTAAAACGAAACTTAAAAA
263549 AAAA
1 AAAA
263553 AAAAAAACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 17 0.61
28 11 0.39
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (28 bp):
AAAAGAAAGTTAAAACGAAACTTAAAAA
Found at i:269234 original size:16 final size:15
Alignment explanation
Indices: 269208--269237 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
269198 ATTAATCATT
269208 TCTTCATTCTCTCAA
1 TCTTCATTCTCTCAA
269223 TCTTCTATTCTCTCA
1 TCTTC-ATTCTCTCA
269238 TTTCTCTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.17, C:0.33, G:0.00, T:0.50
Consensus pattern (15 bp):
TCTTCATTCTCTCAA
Found at i:275053 original size:8 final size:8
Alignment explanation
Indices: 275040--275109 Score: 52
Period size: 8 Copynumber: 8.0 Consensus size: 8
275030 ACAACATATA
275040 TTTCTTTT
1 TTTCTTTT
275048 TTTCTTCTT
1 TTTCTT-TT
275057 TTCTCTTTT
1 TT-TCTTTT
*
275066 CCTCTTCTTTC
1 --T-TTCTTTT
*
275077 TTTCTTTC
1 TTTCTTTT
275085 TTT-TTTT
1 TTTCTTTT
275092 TTTCTTCTT
1 TTTCTT-TT
275101 TTCTCTTTT
1 TT-TCTTTT
275110 CCTCTTTGTA
Statistics
Matches: 52, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
7 6 0.12
8 18 0.35
9 13 0.25
10 8 0.15
11 6 0.12
12 1 0.02
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTCTTTT
Found at i:275071 original size:15 final size:14
Alignment explanation
Indices: 275047--275116 Score: 70
Period size: 15 Copynumber: 4.8 Consensus size: 14
275037 ATATTTCTTT
275047 TTTTCTTCTTTTCTC
1 TTTTCTTCTTTT-TC
*
275062 TTTTCCTCTTCTTTC
1 TTTTCTTCTT-TTTC
*
275077 -TTTCTTTCTTTTTT
1 TTTTC-TTCTTTTTC
275091 TTTTCTTCTTTTCTC
1 TTTTCTTCTTTT-TC
*
275106 TTTTCCTCTTT
1 TTTTCTTCTTT
275117 GTAATGGGCG
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
14 14 0.30
15 30 0.65
16 2 0.04
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTCTTCTTTTTC
Found at i:282116 original size:33 final size:33
Alignment explanation
Indices: 282054--282117 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
282044 TATAAGTTTT
* * * *
282054 CTTTTCGTATTATGATCCGACTATGTAATACCA
1 CTTTTCGTATTACGATCCAACCATATAATACCA
282087 CTTTTCGTATTACGATCCAACCATATAATAC
1 CTTTTCGTATTACGATCCAACCATATAATAC
282118 TGCTTACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (33 bp):
CTTTTCGTATTACGATCCAACCATATAATACCA
Found at i:288324 original size:26 final size:26
Alignment explanation
Indices: 288255--288324 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
288245 AGCTTGGCGC
* *
288255 CCAGAATTGTCACTGCAGGAACTTGT
1 CCAGAATTGTCGCTGCATGAACTTGT
* *
288281 TCAGAATTATCGCTGCATGAA-TATGT
1 CCAGAATTGTCGCTGCATGAACT-TGT
*
288307 CCAGAGTTGTCGCTGCAT
1 CCAGAATTGTCGCTGCAT
288325 AAGCAGGTCC
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
25 1 0.03
26 35 0.97
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (26 bp):
CCAGAATTGTCGCTGCATGAACTTGT
Found at i:308467 original size:17 final size:17
Alignment explanation
Indices: 308402--308481 Score: 63
Period size: 17 Copynumber: 4.6 Consensus size: 17
308392 TGTTAGTAAG
* *
308402 CATTGTCATCGCATTCC
1 CATTGTCATTGCATTTC
* *
308419 CATT-TCCATTACATTTT
1 CATTGT-CATTGCATTTC
* * * *
308436 AATTGTCACTACATTTG
1 CATTGTCATTGCATTTC
308453 CATTGTCATTGCATTTC
1 CATTGTCATTGCATTTC
308470 CATTTGTCATTG
1 CA-TTGTCATTG
308482 TAATTTAATG
Statistics
Matches: 49, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
16 1 0.02
17 38 0.78
18 10 0.20
ACGTcount: A:0.21, C:0.24, G:0.10, T:0.45
Consensus pattern (17 bp):
CATTGTCATTGCATTTC
Found at i:317288 original size:27 final size:26
Alignment explanation
Indices: 317258--317313 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
317248 AGTTAAGGTG
* *
317258 AAATTATCATTATATTGAAAAAGAATT
1 AAATTATCATTAGAAT-AAAAAGAATT
* *
317285 AAATTATTATTAGAATAAAAAGTATT
1 AAATTATCATTAGAATAAAAAGAATT
317311 AAA
1 AAA
317314 CTCTATAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (26 bp):
AAATTATCATTAGAATAAAAAGAATT
Found at i:321756 original size:29 final size:29
Alignment explanation
Indices: 321716--321776 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
321706 ATAGTATTTA
321716 TTTTTATAATTTTAAATAATT-AAAT-TAAT
1 TTTTTATAATTTT-AAT-ATTAAAATATAAT
*
321745 TTTTTATTATTTTAATATTAAAATATAAT
1 TTTTTATAATTTTAATATTAAAATATAAT
321774 TTT
1 TTT
321777 ATCATTACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 3 0.10
28 7 0.24
29 19 0.66
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (29 bp):
TTTTTATAATTTTAATATTAAAATATAAT
Found at i:323673 original size:56 final size:56
Alignment explanation
Indices: 323605--323757 Score: 218
Period size: 56 Copynumber: 2.7 Consensus size: 56
323595 AGTAGTTACA
*
323605 TAGGAATCAAATTGCTAAAAGATAATATCTTATAATAATATCATATAATAT-CTCAT
1 TAGGAATCAAATTGCTAAAAGATAATATCTTATAATAATATCATATAACATCCT-AT
* * * * *
323661 TAGGAGTCAAATTGTTAAGAGATAATATTTTATAATAATATCCTATAACATCCTAT
1 TAGGAATCAAATTGCTAAAAGATAATATCTTATAATAATATCATATAACATCCTAT
* *
323717 TAGCAATCAAATTGCTAAAAGATAATATCTCATAATAATAT
1 TAGGAATCAAATTGCTAAAAGATAATATCTTATAATAATAT
323758 TCAAACAGCC
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
56 82 0.98
57 2 0.02
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.35
Consensus pattern (56 bp):
TAGGAATCAAATTGCTAAAAGATAATATCTTATAATAATATCATATAACATCCTAT
Found at i:327848 original size:56 final size:55
Alignment explanation
Indices: 327781--327911 Score: 181
Period size: 56 Copynumber: 2.3 Consensus size: 55
327771 AGTAGTTACA
* * * *
327781 TAGGAAGCAAATTGCTAAACGATAATATCTCATAATAATATCTTATAATATCCCAT
1 TAGGAATCAAATTGCTAAA-GATAATATCCCATAATAATATCCTATAACATCCCAT
* *
327837 TAGGAATCAAATTGTTAAGAGATAATTTCCCATAATAATATCCTATAACATCCCAT
1 TAGGAATCAAATTGCTAA-AGATAATATCCCATAATAATATCCTATAACATCCCAT
*
327893 TAGGAATCAAACTGCTAAA
1 TAGGAATCAAATTGCTAAA
327912 AGATTTCATA
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
55 1 0.02
56 64 0.97
57 1 0.02
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.31
Consensus pattern (55 bp):
TAGGAATCAAATTGCTAAAGATAATATCCCATAATAATATCCTATAACATCCCAT
Found at i:331688 original size:27 final size:27
Alignment explanation
Indices: 331652--331708 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
331642 TCGTAAGTGA
** *
331652 GGGTTCACCAGTGTTTTGATGAACTAG
1 GGGTTCACCAGTACTTTGACGAACTAG
* *
331679 GGGTTTACCAGTACTTTGACGAACTGG
1 GGGTTCACCAGTACTTTGACGAACTAG
331706 GGG
1 GGG
331709 GTTCGCCAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.30
Consensus pattern (27 bp):
GGGTTCACCAGTACTTTGACGAACTAG
Found at i:332473 original size:13 final size:13
Alignment explanation
Indices: 332457--332491 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
332447 GTTTCCAATA
*
332457 TATGTTTTTAAGT
1 TATGTTTTAAAGT
332470 TATGTTTTAAAGT
1 TATGTTTTAAAGT
*
332483 TAAGTTTTA
1 TATGTTTTA
332492 TACCAGCTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
TATGTTTTAAAGT
Found at i:336034 original size:23 final size:22
Alignment explanation
Indices: 336003--336048 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
335993 GATGAGATCG
336003 AGAGAAAAAGA-AAGTAAAAATAA
1 AGAGAAAAAGAGAA--AAAAATAA
*
336026 AGAGCAAAAGAGAAAAAAATAA
1 AGAGAAAAAGAGAAAAAAATAA
336048 A
1 A
336049 AAATAAATCG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 9 0.43
23 10 0.48
24 2 0.10
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.07
Consensus pattern (22 bp):
AGAGAAAAAGAGAAAAAAATAA
Found at i:338143 original size:43 final size:43
Alignment explanation
Indices: 338094--338177 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
338084 TTTGTGGTTA
*
338094 TTGATTGATTCTCTAAAATGGCATATTTCATTCCTTGGCATTC
1 TTGATTGATTCTCTAAAATGGCACATTTCATTCCTTGGCATTC
*
338137 TTGATTGATTCTCTAAAATGGTACATTTCATTCCTTGGCAT
1 TTGATTGATTCTCTAAAATGGCACATTTCATTCCTTGGCAT
338178 AAAACTGACG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.44
Consensus pattern (43 bp):
TTGATTGATTCTCTAAAATGGCACATTTCATTCCTTGGCATTC
Found at i:353397 original size:17 final size:18
Alignment explanation
Indices: 353374--353428 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 18
353364 AATGCAATGT
*
353374 TTATTTAACTCTTATATA
1 TTATTTAACTATTATATA
*
353392 -TATTT-ACTATTTTATA
1 TTATTTAACTATTATATA
*
353408 TTATTTAAATAATTATATA
1 TTATTTAACT-ATTATATA
353427 TT
1 TT
353429 TTGTAATTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
16 9 0.30
17 10 0.33
18 2 0.07
19 9 0.30
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATTTAACTATTATATA
Done.