Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 34 of 218
Found at i:10654044 original size:28 final size:28
Alignment explanation
Indices: 10654013--10654068 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
10654003 TTTAATAATT
* *
10654013 AAATATTTAAAAATTAA-ATTAAATTATA
1 AAATATAT-AAAATTAATATTAAAATATA
*
10654041 AAATATATAATATTAATATTAAAATATA
1 AAATATATAAAATTAATATTAAAATATA
10654069 TTTTTATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 7 0.29
28 17 0.71
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (28 bp):
AAATATATAAAATTAATATTAAAATATA
Found at i:10655671 original size:6 final size:5
Alignment explanation
Indices: 10655646--10655676 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
10655636 ATATAATCTT
10655646 AAATA AAATA AAATA AAATAA AAATA AAATA
1 AAATA AAATA AAATA AAAT-A AAATA AAATA
10655677 CAATTTATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:10655671 original size:11 final size:11
Alignment explanation
Indices: 10655646--10655676 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
10655636 ATATAATCTT
10655646 AAATAAAAT-A
1 AAATAAAATAA
10655656 AAATAAAATAA
1 AAATAAAATAA
10655667 AAATAAAATA
1 AAATAAAATA
10655677 CAATTTATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:10671198 original size:45 final size:46
Alignment explanation
Indices: 10671136--10671260 Score: 171
Period size: 45 Copynumber: 2.7 Consensus size: 46
10671126 TTATACGCCT
* * *
10671136 AAAATGATTAAGACCATAGCTGAAAGATGCTATGGCTTCATGATA-
1 AAAATGACTAAGACCATAGCTGAAAGACGCTATGGCATCATGATAG
* *
10671181 AAAATGAGTAAGACCATAGCTGAAAGGCGCTATGGCATCATGATAG
1 AAAATGACTAAGACCATAGCTGAAAGACGCTATGGCATCATGATAG
* *
10671227 AAACAAGACTAAGACCATGGCTGAAAGACGCTAT
1 AAA-ATGACTAAGACCATAGCTGAAAGACGCTAT
10671261 TGTAATACCC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
45 41 0.59
46 3 0.04
47 26 0.37
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.21
Consensus pattern (46 bp):
AAAATGACTAAGACCATAGCTGAAAGACGCTATGGCATCATGATAG
Found at i:10683559 original size:172 final size:172
Alignment explanation
Indices: 10683267--10683601 Score: 571
Period size: 172 Copynumber: 1.9 Consensus size: 172
10683257 GACTCGATGG
* ** * *
10683267 ATGTAACATCCTAAACCTGGCCTAGACGGAAAACTATGTTTAGAATGTTACATTGTCTTACCAAA
1 ATGTAACACCCTAAACCCAGCCTAAACGGAAAACTAAGTTTAGAATGTTACATTGTCTTACCAAA
10683332 ACCCAGTCATACTTAACCATTGTTAAATTATAAAACAACCAATATCCAAAATATAGTCATGTCAT
66 ACCCAGTCATACTTAACCATTGTTAAATTATAAAACAACCAATATCCAAAATATAGTCATGTCAT
* *
10683397 ACAAGTTTAAATAATACAAACTAATCATAGGTTTAACACTAA
131 ACAAGTTTAAACAATACAAACTAAACATAGGTTTAACACTAA
* *
10683439 ATGTAACACCCTAAACCCAGCCTAAATGGAAAACTAAGTTTAGAATGTTACATTGTCTTACCAGA
1 ATGTAACACCCTAAACCCAGCCTAAACGGAAAACTAAGTTTAGAATGTTACATTGTCTTACCAAA
*
10683504 ACCCAGTCATACTTAACCATTGTTAAATTATAAAACAACCAATATCCAGAATATAGTCATGTCAT
66 ACCCAGTCATACTTAACCATTGTTAAATTATAAAACAACCAATATCCAAAATATAGTCATGTCAT
*
10683569 ACAAGTTTAAACAATACGAACTAAACATAGGTT
131 ACAAGTTTAAACAATACAAACTAAACATAGGTT
10683602 CACACACATT
Statistics
Matches: 152, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
172 152 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (172 bp):
ATGTAACACCCTAAACCCAGCCTAAACGGAAAACTAAGTTTAGAATGTTACATTGTCTTACCAAA
ACCCAGTCATACTTAACCATTGTTAAATTATAAAACAACCAATATCCAAAATATAGTCATGTCAT
ACAAGTTTAAACAATACAAACTAAACATAGGTTTAACACTAA
Found at i:10686536 original size:51 final size:50
Alignment explanation
Indices: 10686471--10686657 Score: 214
Period size: 51 Copynumber: 3.7 Consensus size: 50
10686461 TTGGTTCACA
10686471 TAGTAGCCTACACATAGTACTACACATGTGACCATTACCATCCGATACATG
1 TAGTAGCCTACACATAGTACTACACATGTGACCA-TACCATCCGATACATG
* * * * * * ***
10686522 TAGTAGTCTGCACATAGTACTACACATGTGATCGAAACTATCCAATACGCA
1 TAGTAGCCTACACATAGTACTACACATGTGA-CCATACCATCCGATACATG
* ** * *
10686573 TAGTAGCCTGCACATAGTACTACACATACGACC-TATCATTCCGGTACATG
1 TAGTAGCCTACACATAGTACTACACATGTGACCATACCA-TCCGATACATG
10686623 TAGTAGCCTACACATAGTACTACACATGTGACCAT
1 TAGTAGCCTACACATAGTACTACACATGTGACCAT
10686658 CACTTTCACT
Statistics
Matches: 109, Mismatches: 24, Indels: 6
0.78 0.17 0.04
Matches are distributed among these distances:
49 2 0.02
50 37 0.34
51 68 0.62
52 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTACACATAGTACTACACATGTGACCATACCATCCGATACATG
Found at i:10686648 original size:101 final size:101
Alignment explanation
Indices: 10686469--10686653 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
10686459 GTTTGGTTCA
** * *
10686469 CATAGTAGCCTACACATAGTACTACACATGTGACCATTACCATCCGATACATGTAGTAGTCTGCA
1 CATAGTAGCCTACACATAGTACTACACATACGACCA-TACCATCCGATACATGTAGTAGCCTACA
10686534 CATAGTACTACACATGTGATCGAAACTATCCAATACG
65 CATAGTACTACACATGTGATCGAAACTATCCAATACG
* * *
10686571 CATAGTAGCCTGCACATAGTACTACACATACGACC-TATCATTCCGGTACATGTAGTAGCCTACA
1 CATAGTAGCCTACACATAGTACTACACATACGACCATACCA-TCCGATACATGTAGTAGCCTACA
10686635 CATAGTACTACACATGTGA
65 CATAGTACTACACATGTGA
10686654 CCATCACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.52
102 32 0.43
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATACGACCATACCATCCGATACATGTAGTAGCCTACAC
ATAGTACTACACATGTGATCGAAACTATCCAATACG
Found at i:10689061 original size:55 final size:55
Alignment explanation
Indices: 10688995--10689100 Score: 212
Period size: 55 Copynumber: 1.9 Consensus size: 55
10688985 GGCACTAAGT
10688995 GTGCGAAACTAAAATATCGATGTTGAATAACGGGCACTAAGTGTGCGAAACTTTA
1 GTGCGAAACTAAAATATCGATGTTGAATAACGGGCACTAAGTGTGCGAAACTTTA
10689050 GTGCGAAACTAAAATATCGATGTTGAATAACGGGCACTAAGTGTGCGAAAC
1 GTGCGAAACTAAAATATCGATGTTGAATAACGGGCACTAAGTGTGCGAAAC
10689101 AAAAATGACG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.24
Consensus pattern (55 bp):
GTGCGAAACTAAAATATCGATGTTGAATAACGGGCACTAAGTGTGCGAAACTTTA
Found at i:10689113 original size:42 final size:42
Alignment explanation
Indices: 10689050--10689139 Score: 128
Period size: 42 Copynumber: 2.1 Consensus size: 42
10689040 CGAAACTTTA
* ** *
10689050 GTGCGAAACTAAAATATCGATGTTGAATAACGGGCACTAAGT
1 GTGCGAAACAAAAATATCGATGTCAAATAACGGGAACTAAGT
10689092 GTGCGAAACAAAAATGA-CGATGTCAAATAACGGGAACTAAGT
1 GTGCGAAACAAAAAT-ATCGATGTCAAATAACGGGAACTAAGT
10689134 GTGCGA
1 GTGCGA
10689140 TACCAAGATC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 42 0.98
43 1 0.02
ACGTcount: A:0.40, C:0.14, G:0.26, T:0.20
Consensus pattern (42 bp):
GTGCGAAACAAAAATATCGATGTCAAATAACGGGAACTAAGT
Found at i:10699693 original size:6 final size:6
Alignment explanation
Indices: 10699684--10699714 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
10699674 CATGCGCATG
*
10699684 AAAATA AAAATA ATAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA AAAATA A
10699715 TACAAGATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:10699906 original size:15 final size:16
Alignment explanation
Indices: 10699888--10699920 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
10699878 AAATGTAAAC
10699888 AAATTTGAAAAT-AAT
1 AAATTTGAAAATGAAT
10699903 AAATTTGAAAATGAAT
1 AAATTTGAAAATGAAT
10699919 AA
1 AA
10699921 TAAGGGAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (16 bp):
AAATTTGAAAATGAAT
Found at i:10703632 original size:61 final size:62
Alignment explanation
Indices: 10703556--10703719 Score: 219
Period size: 61 Copynumber: 2.6 Consensus size: 62
10703546 TTGTTATTAA
*
10703556 ATTTTAATA-AGATTATTATTAAATGTAATTTAATAAAAATAAAAATAAATAATTTAAT-CAT
1 ATTTTAATATA-ATTATTATTAAATATAATTTAATAAAAATAAAAATAAATAATTTAATACAT
* * *
10703617 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAACAATAATATATAATTTAATAACAT
1 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAAAAATAAATAATTTAAT-ACAT
*
10703680 -TTTTAATATAATTATTATAAAAATATGAA-TTAATAAAAAT
1 ATTTTAATATAATTATTAT-TAAATAT-AATTTAATAAAAAT
10703720 CATAACATAA
Statistics
Matches: 92, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
61 52 0.57
62 19 0.21
63 19 0.21
64 2 0.02
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (62 bp):
ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAAAAATAAATAATTTAATACAT
Found at i:10710399 original size:6 final size:6
Alignment explanation
Indices: 10710388--10710412 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
10710378 TATCAATTTT
10710388 TCTTTC TCTTTC TCTTTC TCTTTC T
1 TCTTTC TCTTTC TCTTTC TCTTTC T
10710413 TCATACTCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TCTTTC
Found at i:10729407 original size:3 final size:3
Alignment explanation
Indices: 10729401--10729441 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
10729391 CTACTACTAC
10729401 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
10729442 AAAACTAGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:10731019 original size:41 final size:41
Alignment explanation
Indices: 10730966--10731059 Score: 134
Period size: 41 Copynumber: 2.3 Consensus size: 41
10730956 CGAATCTATG
10730966 AAAGGTTGAAAAGAAAGTTATCCGAAAAAGATAACAAATGA
1 AAAGGTTGAAAAGAAAGTTATCCGAAAAAGATAACAAATGA
* * * * **
10731007 AAATGTTGAAAAGGATGTTATTCGAAAGGGATAACAAATGA
1 AAAGGTTGAAAAGAAAGTTATCCGAAAAAGATAACAAATGA
10731048 AAAGGTTGAAAA
1 AAAGGTTGAAAA
10731060 TATATCAATG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.52, C:0.05, G:0.22, T:0.20
Consensus pattern (41 bp):
AAAGGTTGAAAAGAAAGTTATCCGAAAAAGATAACAAATGA
Found at i:10731093 original size:24 final size:24
Alignment explanation
Indices: 10731028--10731124 Score: 106
Period size: 24 Copynumber: 4.0 Consensus size: 24
10731018 AGGATGTTAT
* *
10731028 TCGAAAGGGATAACAAATGAAAAGG
1 TCGAAAAGGATATC-AATGAAAAGG
* * *
10731053 TTGAAAA-TATATCAATGAAAAGA
1 TCGAAAAGGATATCAATGAAAAGG
10731076 TCGAAAAGGATATCAATGAAAAGG
1 TCGAAAAGGATATCAATGAAAAGG
* * *
10731100 TTGAAAAGAATAGCAATGAAAAGG
1 TCGAAAAGGATATCAATGAAAAGG
10731124 T
1 T
10731125 TGGTATCTCA
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
23 15 0.25
24 40 0.67
25 5 0.08
ACGTcount: A:0.53, C:0.06, G:0.23, T:0.19
Consensus pattern (24 bp):
TCGAAAAGGATATCAATGAAAAGG
Found at i:10731100 original size:47 final size:49
Alignment explanation
Indices: 10731028--10731122 Score: 140
Period size: 48 Copynumber: 2.0 Consensus size: 49
10731018 AGGATGTTAT
* * *
10731028 TCGAAAGGGATAACAAATGAAAAGGTTGAAAA-TATATCAATGAAAAGA
1 TCGAAAAGGATAACAAATGAAAAGGTTGAAAAGAATAGCAATGAAAAGA
*
10731076 TCGAAAAGGATATC-AATGAAAAGGTTGAAAAGAATAGCAATGAAAAG
1 TCGAAAAGGATAACAAATGAAAAGGTTGAAAAGAATAGCAATGAAAAG
10731123 GTTGGTATCT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 17 0.40
48 25 0.60
ACGTcount: A:0.54, C:0.06, G:0.22, T:0.18
Consensus pattern (49 bp):
TCGAAAAGGATAACAAATGAAAAGGTTGAAAAGAATAGCAATGAAAAGA
Found at i:10731125 original size:24 final size:24
Alignment explanation
Indices: 10731043--10731126 Score: 116
Period size: 24 Copynumber: 3.5 Consensus size: 24
10731033 AGGGATAACA
*
10731043 AATGAAAAGGTTGAAAA-TATATC
1 AATGAAAAGGTTGAAAAGAATATC
* * *
10731066 AATGAAAAGATCGAAAAGGATATC
1 AATGAAAAGGTTGAAAAGAATATC
*
10731090 AATGAAAAGGTTGAAAAGAATAGC
1 AATGAAAAGGTTGAAAAGAATATC
10731114 AATGAAAAGGTTG
1 AATGAAAAGGTTG
10731127 GTATCTCATC
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
23 15 0.28
24 38 0.72
ACGTcount: A:0.52, C:0.05, G:0.23, T:0.20
Consensus pattern (24 bp):
AATGAAAAGGTTGAAAAGAATATC
Found at i:10736057 original size:11 final size:11
Alignment explanation
Indices: 10736037--10736065 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
10736027 TATTAAACAC
10736037 TTTT-TTTTCA
1 TTTTCTTTTCA
10736047 TTTTCTTTTCA
1 TTTTCTTTTCA
10736058 TTTTCTTT
1 TTTTCTTT
10736066 CTTCTTCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTCTTTTCA
Found at i:10737339 original size:36 final size:36
Alignment explanation
Indices: 10737292--10737361 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
10737282 TCGTGCTTCA
10737292 CATTAGGCTATTTCATTAACCTGCCGTTTGACTGTC
1 CATTAGGCTATTTCATTAACCTGCCGTTTGACTGTC
10737328 CATTAGGCTATTTCATTAACCTGCCGTTTGACTG
1 CATTAGGCTATTTCATTAACCTGCCGTTTGACTG
10737362 ACGGTCAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (36 bp):
CATTAGGCTATTTCATTAACCTGCCGTTTGACTGTC
Found at i:10737710 original size:30 final size:30
Alignment explanation
Indices: 10737667--10737764 Score: 119
Period size: 30 Copynumber: 3.3 Consensus size: 30
10737657 TAGATAGTAA
*
10737667 CAAATACAGATACAAATTCAGACACAGATG
1 CAAATACAAATACAAATTCAGACACAGATG
*
10737697 CATATACAAATACAAATTCAGACACAGATG
1 CAAATACAAATACAAATTCAGACACAGATG
* *
10737727 CAAAAATAGAAAT--AAATTCAGACACAAATG
1 C--AAATACAAATACAAATTCAGACACAGATG
*
10737757 CAGATACA
1 CAAATACA
10737765 GAATTAGACA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
28 5 0.08
30 46 0.78
32 8 0.14
ACGTcount: A:0.53, C:0.18, G:0.11, T:0.17
Consensus pattern (30 bp):
CAAATACAAATACAAATTCAGACACAGATG
Found at i:10737730 original size:24 final size:24
Alignment explanation
Indices: 10737676--10737790 Score: 70
Period size: 30 Copynumber: 4.3 Consensus size: 24
10737666 ACAAATACAG
10737676 ATACAAATTCAGACACAGATGCATATACAA
1 ATACAAATTCAGACACAGATG------CAA
10737706 ATACAAATTCAGACACAGATGCAAAA
1 ATACAAATTCAGACACAGATGC--AA
* * *
10737732 ATAGAAATAAATTCAGACACAAATGCAG
1 AT----ACAAATTCAGACACAGATGCAA
10737760 ATACAGAATT-AGACACAGATGCAA
1 ATACA-AATTCAGACACAGATGCAA
*
10737784 AAACAAA
1 ATACAAA
10737791 AATAGAAATA
Statistics
Matches: 71, Mismatches: 7, Indels: 21
0.72 0.07 0.21
Matches are distributed among these distances:
23 2 0.03
24 19 0.27
25 4 0.06
26 4 0.06
28 3 0.04
30 39 0.55
ACGTcount: A:0.54, C:0.17, G:0.12, T:0.17
Consensus pattern (24 bp):
ATACAAATTCAGACACAGATGCAA
Found at i:10737796 original size:24 final size:24
Alignment explanation
Indices: 10737746--10737796 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
10737736 AAATAAATTC
* * * *
10737746 AGACACAAATGCAGATACAGAATT
1 AGACACAAATGCAAAAACAAAAAT
*
10737770 AGACACAGATGCAAAAACAAAAAT
1 AGACACAAATGCAAAAACAAAAAT
10737794 AGA
1 AGA
10737797 AATAGATACT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.57, C:0.16, G:0.16, T:0.12
Consensus pattern (24 bp):
AGACACAAATGCAAAAACAAAAAT
Found at i:10744944 original size:26 final size:25
Alignment explanation
Indices: 10744909--10744957 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
10744899 ATAGATAAAA
**
10744909 AAAATAAAATGTTAATAAATAAATGT
1 AAAATAAAATCATAATAAA-AAATGT
*
10744935 AAAATTAAATCATAATAAAAAAT
1 AAAATAAAATCATAATAAAAAAT
10744958 AAATACATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (25 bp):
AAAATAAAATCATAATAAAAAATGT
Found at i:10744953 original size:16 final size:17
Alignment explanation
Indices: 10744934--10744976 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
10744924 TAAATAAATG
10744934 TAAAATTAAAT-CATAA
1 TAAAATTAAATACATAA
*
10744950 TAAAAAATAAATACATAA
1 T-AAAATTAAATACATAA
10744968 -AAAATTAAA
1 TAAAATTAAA
10744977 ACAAAGAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 9 0.39
17 9 0.39
18 5 0.22
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAAATTAAATACATAA
Found at i:10748355 original size:26 final size:26
Alignment explanation
Indices: 10748320--10748475 Score: 121
Period size: 26 Copynumber: 6.3 Consensus size: 26
10748310 TGGCTATCCG
*
10748320 GAGC-TCCTGATTAATGGCTCTTCGT
1 GAGCTTCCTGATTAATGGCTCTTTGT
** *
10748345 GAGCTTCCTGATTAAAAGTTCTTTGT
1 GAGCTTCCTGATTAATGGCTCTTTGT
* *
10748371 GAACTTCCTGATT-ATGGCTC-TTAT
1 GAGCTTCCTGATTAATGGCTCTTTGT
* ****
10748395 GAGCTTCCTG-TTATATAGC-CCGAAT
1 GAGCTTCCTGATTA-ATGGCTCTTTGT
*
10748420 AAGCTTCCTGA-T-A-GGCTCTTTGT
1 GAGCTTCCTGATTAATGGCTCTTTGT
* *
10748443 GAGCTTCCCGATTAATGGCTTTTTGT
1 GAGCTTCCTGATTAATGGCTCTTTGT
10748469 GAGCTTC
1 GAGCTTC
10748476 ATATTATATG
Statistics
Matches: 100, Mismatches: 22, Indels: 17
0.72 0.16 0.12
Matches are distributed among these distances:
22 2 0.02
23 14 0.14
24 14 0.14
25 25 0.25
26 45 0.45
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (26 bp):
GAGCTTCCTGATTAATGGCTCTTTGT
Found at i:10751376 original size:19 final size:20
Alignment explanation
Indices: 10751332--10751376 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
10751322 AAAATAAAAA
10751332 TCAAAATAATTTTCAAGATT
1 TCAAAATAATTTTCAAGATT
* *
10751352 TTAAAATAATTTTTAA-ATT
1 TCAAAATAATTTTCAAGATT
10751371 TCAAAA
1 TCAAAA
10751377 CATTTATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (20 bp):
TCAAAATAATTTTCAAGATT
Found at i:10757084 original size:27 final size:26
Alignment explanation
Indices: 10757036--10757086 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
10757026 ATCTCTTATT
* **
10757036 AATTATTTTTAATTGATTTAAAATCA
1 AATTATTTTTAATTCAAGTAAAATCA
10757062 AATTATATTTTAATTCAAGTAAAAT
1 AATTAT-TTTTAATTCAAGTAAAAT
10757087 TTAATATTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (26 bp):
AATTATTTTTAATTCAAGTAAAATCA
Found at i:10758747 original size:24 final size:23
Alignment explanation
Indices: 10758720--10758765 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
10758710 TTAGATTTTA
10758720 TTAGAAATAAACTATATATTAACT
1 TTAGAAATAAACTATAT-TTAACT
*
10758744 TTAGAAATAAATTATATTTAAC
1 TTAGAAATAAACTATATTTAAC
10758766 ATATACTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (23 bp):
TTAGAAATAAACTATATTTAACT
Found at i:10758770 original size:33 final size:33
Alignment explanation
Indices: 10758733--10758795 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
10758723 GAAATAAACT
* *
10758733 ATATATTAACTTTAGAA-ATAAATTATATTTAAC
1 ATATACTAACATTAGAATATAAATTA-ATTTAAC
*
10758766 ATATACTAACATTAGAATATAATTTAATTT
1 ATATACTAACATTAGAATATAAATTAATTT
10758796 GATAATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 19 0.73
34 7 0.27
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (33 bp):
ATATACTAACATTAGAATATAAATTAATTTAAC
Found at i:10769247 original size:43 final size:43
Alignment explanation
Indices: 10769182--10769272 Score: 157
Period size: 43 Copynumber: 2.1 Consensus size: 43
10769172 ATGACATATC
10769182 TGGA-GTGATTGCAAGCACCTATCATGATAAGGAAACCAACAT
1 TGGATGTGATTGCAAGCACCTATCATGATAAGGAAACCAACAT
* *
10769224 TGGATGTGATTGGAAGCACCTATCATGATAATGAAACCAACAT
1 TGGATGTGATTGCAAGCACCTATCATGATAAGGAAACCAACAT
10769267 TGGATG
1 TGGATG
10769273 GTCCAAAGAG
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 4 0.09
43 42 0.91
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.24
Consensus pattern (43 bp):
TGGATGTGATTGCAAGCACCTATCATGATAAGGAAACCAACAT
Found at i:10775580 original size:16 final size:16
Alignment explanation
Indices: 10775554--10775591 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
10775544 TCCTTCCACT
10775554 ATTTCTCTTGATATGAA
1 ATTT-TCTTGATATGAA
10775571 ATTTTCTTGATATGAA
1 ATTTTCTTGATATGAA
10775587 ATTTT
1 ATTTT
10775592 AACAACATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.29, C:0.08, G:0.11, T:0.53
Consensus pattern (16 bp):
ATTTTCTTGATATGAA
Found at i:10778992 original size:22 final size:23
Alignment explanation
Indices: 10778945--10778999 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
10778935 TGAGGTTATG
* *
10778945 CTTAATTAAGTGGTTTAATTAGA
1 CTTAATTAAGTGATTTAATTAAA
10778968 CTTAATTAA-TGATTT-ATTAAAA
1 CTTAATTAAGTGATTTAATT-AAA
10778990 CTTAATTAAG
1 CTTAATTAAG
10779000 AAAGTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 3 0.11
22 16 0.57
23 9 0.32
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.44
Consensus pattern (23 bp):
CTTAATTAAGTGATTTAATTAAA
Found at i:10779871 original size:37 final size:37
Alignment explanation
Indices: 10779825--10779909 Score: 116
Period size: 37 Copynumber: 2.3 Consensus size: 37
10779815 CTATTGATCC
*
10779825 TACTAAATGAAGCTCAATCGAGCAAATCTTACCATTA
1 TACTAAATGAAGCTCAATCGAGAAAATCTTACCATTA
* * **
10779862 TACTGAATGAAGTTCAATCGAGAAAATCTTACTGTTA
1 TACTAAATGAAGCTCAATCGAGAAAATCTTACCATTA
*
10779899 TACTAAGTGAA
1 TACTAAATGAA
10779910 ACTCGAACGA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.29
Consensus pattern (37 bp):
TACTAAATGAAGCTCAATCGAGAAAATCTTACCATTA
Found at i:10785236 original size:24 final size:24
Alignment explanation
Indices: 10785208--10785258 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
10785198 TATGTTAGAT
10785208 TTAAAAAGTGAACTGGTCCTTCTA
1 TTAAAAAGTGAACTGGTCCTTCTA
10785232 TTAAAAAGTGAACTGGTCCTTCTA
1 TTAAAAAGTGAACTGGTCCTTCTA
10785256 TTA
1 TTA
10785259 CAATTTAGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (24 bp):
TTAAAAAGTGAACTGGTCCTTCTA
Found at i:10793481 original size:26 final size:27
Alignment explanation
Indices: 10793449--10793513 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
10793439 TAGTAAATTA
* *
10793449 GGGTTCGCCAGTTGG-TTGGTGAGCTG
1 GGGTTCGCCAGTTGGTTTGGCGAACTG
*
10793475 GGGTTCGCTAGTTGGTTTGGCGAACTG
1 GGGTTCGCCAGTTGGTTTGGCGAACTG
10793502 GGGTTCGCCAGT
1 GGGTTCGCCAGT
10793514 ACAAGTCAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 14 0.41
27 20 0.59
ACGTcount: A:0.09, C:0.17, G:0.43, T:0.31
Consensus pattern (27 bp):
GGGTTCGCCAGTTGGTTTGGCGAACTG
Found at i:10798672 original size:134 final size:134
Alignment explanation
Indices: 10798490--10799086 Score: 678
Period size: 134 Copynumber: 4.5 Consensus size: 134
10798480 GAAATATATT
* * *
10798490 AAACAGTTTGTTGATTTGCGATCACGACTGATATTATTAAGGCTCGTTGATTTATGATTACAACC
1 AAACAGTTTGCTGATTTACGATCACGACTGATATTATTAAGGCTCGTTGATTTATGATCACAACC
* * * * *
10798555 TAAGTGT-ATTGATTTACGATCATAAACAA-TTTTATCTGAGTTAGTTGATTTGCAATCACAACT
66 TAAGT-TCATTGATTTACAATCATGAACAAGTTCT-TCTGAGTTAGTTGATTTACAATCGCAACT
10798618 CCATTC
129 CCATTC
* * * *
10798624 AAACAGTTCGCTGATTTATGATCACAACTAATATTATTAAGGCTCGTTGATTTATGATCACAACC
1 AAACAGTTTGCTGATTTACGATCACGACTGATATTATTAAGGCTCGTTGATTTATGATCACAACC
* * * * **
10798689 TAAGTTCATTTATTTATAATTATGAACAAGTTCTTCTGAATTAGTTGATTTATGATCGCAACTCC
66 TAAGTTCATTGATTTACAATCATGAACAAGTTCTTCTGAGTTAGTTGATTTACAATCGCAACTCC
10798754 ATTC
131 ATTC
* * * * * * *
10798758 CAATAGTTTGTTGATTTACGATTACGACTGATATTGTTAAGGCTCGCTAATTTATGATCACAACC
1 AAACAGTTTGCTGATTTACGATCACGACTGATATTATTAAGGCTCGTTGATTTATGATCACAACC
*** * * * * *
10798823 TAAGTTCATTGATTTTTGACCATGAACAAGTTCTTCTAAGCTAGTTGATTTACGATCGCAACTTC
66 TAAGTTCATTGATTTACAATCATGAACAAGTTCTTCTGAGTTAGTTGATTTACAATCGCAACTCC
*
10798888 ATTT
131 ATTC
* * * * ** **
10798892 AAACAGTTTGCTAATTTATGATCATGACTAATATTATTAAGGCTTATTGATTTACAATCACAACC
1 AAACAGTTTGCTGATTTACGATCACGACTGATATTATTAAGGCTCGTTGATTTATGATCACAACC
* * *
10798957 TAAGTTCATTGATTAACAATCATGAACAAGTTCTTCTGAGTAAGCTT-ATTTACAATCTCAACTC
66 TAAGTTCATTGATTTACAATCATGAACAAGTTCTTCTGAGTTAG-TTGATTTACAATCGCAACTC
*
10799021 TATTC
130 CATTC
** * ** *
10799026 AAACAGTTCACTAATTTACGATCACGACTGATGCTATTAAGGCTCGTTGATTTACGATCAC
1 AAACAGTTTGCTGATTTACGATCACGACTGATATTATTAAGGCTCGTTGATTTATGATCAC
10799087 GACTAATATT
Statistics
Matches: 382, Mismatches: 78, Indels: 6
0.82 0.17 0.01
Matches are distributed among these distances:
133 1 0.00
134 376 0.98
135 5 0.01
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (134 bp):
AAACAGTTTGCTGATTTACGATCACGACTGATATTATTAAGGCTCGTTGATTTATGATCACAACC
TAAGTTCATTGATTTACAATCATGAACAAGTTCTTCTGAGTTAGTTGATTTACAATCGCAACTCC
ATTC
Found at i:10799079 original size:36 final size:36
Alignment explanation
Indices: 10799039--10799122 Score: 132
Period size: 36 Copynumber: 2.3 Consensus size: 36
10799029 CAGTTCACTA
* * *
10799039 ATTTACGATCACGACTGATGCTATTAAGGCTCGTTG
1 ATTTACGATCACGACTAATACTATTAAGGCTAGTTG
*
10799075 ATTTACGATCACGACTAATATTATTAAGGCTAGTTG
1 ATTTACGATCACGACTAATACTATTAAGGCTAGTTG
10799111 ATTTACGATCAC
1 ATTTACGATCAC
10799123 AACCTAAGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (36 bp):
ATTTACGATCACGACTAATACTATTAAGGCTAGTTG
Found at i:10804487 original size:20 final size:20
Alignment explanation
Indices: 10804462--10804501 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10804452 AATATTTTCC
*
10804462 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
10804482 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
10804502 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:10804507 original size:34 final size:34
Alignment explanation
Indices: 10804450--10804515 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 34
10804440 CAAACACCAG
*
10804450 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTAC-GAAAAGT
10804485 AAAACATTTTCCAG-AAATCATTTTACGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACGAAAA
10804516 ATATTTTACT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.40
35 13 0.43
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.32
Consensus pattern (34 bp):
AAAACATTTTCCAGTAAATCATTTTACGAAAAGT
Found at i:10807362 original size:17 final size:18
Alignment explanation
Indices: 10807324--10807364 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
10807314 GAAAAGATGA
10807324 TATTT-TCATCATTTAAT
1 TATTTATCATCATTTAAT
* *
10807341 CATTTATCATC-TTTTAT
1 TATTTATCATCATTTAAT
10807358 TATTTAT
1 TATTTAT
10807365 TCCTTCCAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTTATCATCATTTAAT
Found at i:10817853 original size:32 final size:32
Alignment explanation
Indices: 10817811--10817873 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
10817801 TTTAAGATCC
* *
10817811 AGTCTAAACAATCCTTTAAGCAAATTGCATCA
1 AGTCTAAACAACCCTTGAAGCAAATTGCATCA
* *
10817843 AGTCTCAACAACCCTTGAAGCAGATTGCATC
1 AGTCTAAACAACCCTTGAAGCAAATTGCATC
10817874 TGTTGAAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (32 bp):
AGTCTAAACAACCCTTGAAGCAAATTGCATCA
Found at i:10820802 original size:133 final size:133
Alignment explanation
Indices: 10820553--10820981 Score: 632
Period size: 133 Copynumber: 3.2 Consensus size: 133
10820543 GCAACTTCAG
*
10820553 GGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCT-
1 GGAGATAGGACTGGTGGCTTAAATCTACTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTC
* * * *
10820617 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATATTCAACCTACTCCACTACTGTT
66 TTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACTGCT
10820682 CAA
131 CAA
* *
10820685 GGAGATAGGACTGGTGGTTTAAATCTACTTCCCTACTACCTTTGGAAGATAAGATTCACTC-TCT
1 GGAGATAGGACTGGTGGCTTAAATCTACTTCCCTACTACCTTGGGAAGATAAGATTCAC-CGTCT
* *
10820749 CTTGATCTGCTCCACTATTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCATTACTGC
65 CTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACTGC
*
10820814 TCAG
130 TCAA
* * *
10820818 GGAGATAGGACTGATGGCTTAAATCTGCTTCCTTACTACCTTGGGAAGATAAGATTCACCGTCTC
1 GGAGATAGGACTGGTGGCTTAAATCTACTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTC
* **
10820883 TTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTTCAATCTTCAACCTACTCCACTGTTGCT
66 TTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACTGCT
10820948 C-A
131 CAA
** *
10820950 GTGAGATAAGG-CTGGTGTTTTCAATCTACTTC
1 G-GAGAT-AGGACTGGTGGCTTAAATCTACTTC
10820982 ACTGCTAGTA
Statistics
Matches: 266, Mismatches: 26, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
132 61 0.23
133 202 0.76
134 3 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.31
Consensus pattern (133 bp):
GGAGATAGGACTGGTGGCTTAAATCTACTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTC
TTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACTGCT
CAA
Found at i:10821107 original size:89 final size:89
Alignment explanation
Indices: 10820957--10821283 Score: 399
Period size: 89 Copynumber: 3.7 Consensus size: 89
10820947 TCAGTGAGAT
* * * * * * *
10820957 AAGGCTGGTGTTTTCAATCTACTTCACTGCTAGTACAGGAATACAAGATATATTA-CTTTCATTC
1 AAGGCTGGTGTATTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTATC-TTCATTC
*
10821021 TGCTCCGCTGTAAACTCAGGGAGGC
65 TGCTCCGCTGCAAACTCAGGGAGGC
* *
10821046 AAGGCTGGTGTATTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTATCTTCATTTT
1 AAGGCTGGTGTATTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTATCTTCATTCT
10821111 GCTCCG-TCGCAAACTCAGGGAGGC
66 GCTCCGCT-GCAAACTCAGGGAGGC
* * * *
10821135 AAGGCTGGTGTATTCGATCTACTTCGCTGCCAATACAGGAAGGCAAGATCTGCTATCTTCAGTCT
1 AAGGCTGGTGTATTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTATCTTCATTCT
* * *
10821200 GCTCAGCTACAAACTCAAGGAGGTC
66 GCTCCGCTGCAAACTCAGGGAGG-C
* * * * * *
10821225 -AGGCTGGTGTCTTCGATCTGCTTCGCTACCAGTACAGGAAGACAAGATCTGCTATCTTC
1 AAGGCTGGTGTATTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTATCTTC
10821284 TTCAATCCAT
Statistics
Matches: 210, Mismatches: 24, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
88 1 0.00
89 206 0.98
90 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (89 bp):
AAGGCTGGTGTATTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTATCTTCATTCT
GCTCCGCTGCAAACTCAGGGAGGC
Found at i:10826112 original size:150 final size:151
Alignment explanation
Indices: 10825834--10826328 Score: 857
Period size: 153 Copynumber: 3.3 Consensus size: 151
10825824 GTAGAACTCT
10825834 AAATTAAAAAAATAGTATATTTTTTAAAAGTAATAAAATCTGAAAAAAAATACGAACATAGGGCC
1 AAATT-AAAAAATAGTATATTTTTTAAAAGTAATAAAATCTG-AAAAAAATACGAACATAGGGCC
*
10825899 GAAATAAGGGTTTTTTTAAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAATATAATA
64 GAAATAAGGGTTTTTTTAAAATTTATTTAAAAAAGACACTAAATTAATACATTTCAAATATAATA
10825964 TACTAAAATAATGTAAAATAAAA
129 TACTAAAATAATGTAAAATAAAA
*
10825987 AAACTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCTGAAAAAAATACGAACATAGGGCCGA
1 AAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCTGAAAAAAATACGAACATAGGGCCGA
* *
10826052 AATAAGGG-TTTTTTAAAATTTATTTAAGAAAGACACTAAATTAATACATTTCAAATATAATTTA
66 AATAAGGGTTTTTTTAAAATTTATTTAAAAAAGACACTAAATTAATACATTTCAAATATAATATA
*
10826116 CTAAAATAATGTAAAATTAAA
131 CTAAAATAATGTAAAATAAAA
10826137 AAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCTGGGAAAAAAATACGAACATAGGGCC
1 AAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCT--GAAAAAAATACGAACATAGGGCC
* *
10826202 GAAATAAGGGTTTTTTTAAAATTTATTTAAAAAAGACACTAAATTACTACATTTCAAATATAATG
64 GAAATAAGGGTTTTTTTAAAATTTATTTAAAAAAGACACTAAATTAATACATTTCAAATATAATA
*
10826267 TACTAAAATAATATAAAATAAAA
129 TACTAAAATAATGTAAAATAAAA
* *
10826290 ATATTAAAAAATGGTATATTTTTTAAAAGTAATAAAATC
1 AAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATC
10826329 CGAGGAAAAA
Statistics
Matches: 326, Mismatches: 13, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
150 112 0.34
151 32 0.10
152 69 0.21
153 113 0.35
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.32
Consensus pattern (151 bp):
AAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCTGAAAAAAATACGAACATAGGGCCGA
AATAAGGGTTTTTTTAAAATTTATTTAAAAAAGACACTAAATTAATACATTTCAAATATAATATA
CTAAAATAATGTAAAATAAAA
Found at i:10826276 original size:153 final size:152
Alignment explanation
Indices: 10825834--10826349 Score: 858
Period size: 150 Copynumber: 3.4 Consensus size: 152
10825824 GTAGAACTCT
*
10825834 AAATTAAAAAAATAGTATATTTTTTAAAAGTAATAAAATCTGAAAAAAAATACGAACATAGGGCC
1 AAATT-AAAAAATAGTATATTTTTTAAAAGTAATAAAATCTGGAAAAAAATACGAACATAGGGCC
*
10825899 GAAATAAGGGTTTTTTTAAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAATATAATA
65 GAAATAAGGGTTTTTTTAAAATTTATTTAAAAAAGACACTAAATTAATACATTTCAAATATAATA
*
10825964 TACTAAAATAATGTAAAATAAAA
130 TACTAAAATAATGTAAAATTAAA
*
10825987 AAACTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCT-GAAAAAAATACGAACATAGGGCCG
1 AAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCTGGAAAAAAATACGAACATAGGGCCG
* *
10826051 AAATAAGGG-TTTTTTAAAATTTATTTAAGAAAGACACTAAATTAATACATTTCAAATATAATTT
66 AAATAAGGGTTTTTTTAAAATTTATTTAAAAAAGACACTAAATTAATACATTTCAAATATAATAT
10826115 ACTAAAATAATGTAAAATTAAA
131 ACTAAAATAATGTAAAATTAAA
10826137 AAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCTGGGAAAAAAATACGAACATAGGGCC
1 AAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCT-GGAAAAAAATACGAACATAGGGCC
* *
10826202 GAAATAAGGGTTTTTTTAAAATTTATTTAAAAAAGACACTAAATTACTACATTTCAAATATAATG
65 GAAATAAGGGTTTTTTTAAAATTTATTTAAAAAAGACACTAAATTAATACATTTCAAATATAATA
*
10826267 TACTAAAATAATATAAAA-TAAA
130 TACTAAAATAATGTAAAATTAAA
* *
10826289 AATATTAAAAAATGGTATATTTTTTAAAAGTAATAAAATCCGAGGAAAAAAAATACGAACA
1 AA-ATTAAAAAATAGTATATTTTTTAAAAGTAATAAAAT-C-TGG-AAAAAAATACGAACA
10826350 AATGGCTGAA
Statistics
Matches: 343, Mismatches: 13, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
150 112 0.33
151 32 0.09
152 74 0.22
153 107 0.31
154 3 0.01
155 15 0.04
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.30
Consensus pattern (152 bp):
AAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATCTGGAAAAAAATACGAACATAGGGCCG
AAATAAGGGTTTTTTTAAAATTTATTTAAAAAAGACACTAAATTAATACATTTCAAATATAATAT
ACTAAAATAATGTAAAATTAAA
Found at i:10828751 original size:26 final size:26
Alignment explanation
Indices: 10828718--10828771 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
10828708 TATAACAAAT
*
10828718 ATATATGTATATATATAAATTATAAA
1 ATATATGTACATATATAAATTATAAA
* **
10828744 ATATATGTACATCTATGTATTATAAA
1 ATATATGTACATATATAAATTATAAA
10828770 AT
1 AT
10828772 GTATATAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.43
Consensus pattern (26 bp):
ATATATGTACATATATAAATTATAAA
Found at i:10833609 original size:27 final size:27
Alignment explanation
Indices: 10833574--10833626 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
10833564 AAGATTAAGA
10833574 TATGAAAACAAAATTAA-AAATCGAAAC
1 TATGAAAACAAAATTAACAAA-CGAAAC
* *
10833601 TATGGAAACAAGATTAACAAACGAAA
1 TATGAAAACAAAATTAACAAACGAAA
10833627 ATCTTTTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.60, C:0.11, G:0.11, T:0.17
Consensus pattern (27 bp):
TATGAAAACAAAATTAACAAACGAAAC
Found at i:10848765 original size:57 final size:57
Alignment explanation
Indices: 10848655--10848765 Score: 134
Period size: 57 Copynumber: 1.9 Consensus size: 57
10848645 TTTTCTTTTA
*
10848655 TTTTGAACCGGTGCTGACCACTTCAACACCGACACCAAAAAAATAATTTTTTTTAAG
1 TTTTGAACCGGTGCTGACCACTTCAACACCGACACCAAAAAAATAATTATTTTTAAG
* * * * * **
10848712 TTTTGAATCGGTGTTGGCCACTTCAACGCCGGCACCTATTAAAAT-ATTATTTTT
1 TTTTGAACCGGTGCTGACCACTTCAACACCGACACC-AAAAAAATAATTATTTTT
10848766 TATTTTTCTT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
57 39 0.87
58 6 0.13
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (57 bp):
TTTTGAACCGGTGCTGACCACTTCAACACCGACACCAAAAAAATAATTATTTTTAAG
Found at i:10850670 original size:35 final size:35
Alignment explanation
Indices: 10850624--10850693 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
10850614 TCGTATTATA
10850624 TAATACTATCAAACCCATGGTTCACCTCATGAATG
1 TAATACTATCAAACCCATGGTTCACCTCATGAATG
*
10850659 TAATACTATCAAACCCGTGGTTCACCTCATGAATG
1 TAATACTATCAAACCCATGGTTCACCTCATGAATG
10850694 GACTGACACC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.29
Consensus pattern (35 bp):
TAATACTATCAAACCCATGGTTCACCTCATGAATG
Found at i:10866286 original size:17 final size:19
Alignment explanation
Indices: 10866256--10866290 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
10866246 TGTTCGAACC
10866256 ATATATACTCCACATTCAA
1 ATATATACTCCACATTCAA
10866275 ATATATA-T-CACATTCA
1 ATATATACTCCACATTCA
10866291 GTCATACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 1 0.06
19 7 0.44
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.34
Consensus pattern (19 bp):
ATATATACTCCACATTCAA
Found at i:10867176 original size:12 final size:14
Alignment explanation
Indices: 10867137--10867172 Score: 63
Period size: 15 Copynumber: 2.5 Consensus size: 14
10867127 GACTCTATTT
10867137 TAATTATATTAAGA
1 TAATTATATTAAGA
10867151 TAATTAATATTAAGA
1 TAATT-ATATTAAGA
10867166 TAATTAT
1 TAATTAT
10867173 TAAGGATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (14 bp):
TAATTATATTAAGA
Found at i:10869387 original size:13 final size:13
Alignment explanation
Indices: 10869369--10869393 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10869359 ACAAACGATA
10869369 AAATTTTCACACG
1 AAATTTTCACACG
10869382 AAATTTTCACAC
1 AAATTTTCACAC
10869394 ATATAAATCA
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:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:10869719 original size:25 final size:25
Alignment explanation
Indices: 10869675--10869868 Score: 136
Period size: 25 Copynumber: 8.0 Consensus size: 25
10869665 GTCCTCTTTC
*
10869675 GAGCCATATAACGTGG-AGCTCATGT
1 GAGCCATATAACG-GGAAGCTCATAT
* *
10869700 GAGCCATGTAACGGGAAGCTTATAT
1 GAGCCATATAACGGGAAGCTCATAT
* **
10869725 GGGCTGTATAACGGGAAGCTCATAAT
1 GAGCCATATAACGGGAAGCTCAT-AT
* * *
10869751 -AGCCATA-ATCAGAAAGCTCATAT
1 GAGCCATATAACGGGAAGCTCATAT
* * *
10869774 GAGACA-ATAACGGGTAGCTC-TGAA
1 GAGCCATATAACGGGAAGCTCAT-AT
*
10869798 GAGCCAT-TAACGGGAAGCTCCAAAT
1 GAGCCATATAACGGGAAGCT-CATAT
* * * *
10869823 -AGCCATATATCGGGAAGTTCAAAC
1 GAGCCATATAACGGGAAGCTCATAT
10869847 GAGCCATAT--CGGGAAGCTCATA
1 GAGCCATATAACGGGAAGCTCATA
10869869 AAGAGACTTT
Statistics
Matches: 130, Mismatches: 29, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
23 15 0.12
24 52 0.40
25 61 0.47
26 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.21
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATAT
Found at i:10869826 original size:24 final size:23
Alignment explanation
Indices: 10869732--10869865 Score: 76
Period size: 24 Copynumber: 5.6 Consensus size: 23
10869722 TATGGGCTGT
10869732 ATAACGGGAAGCT-CATAATAGCC
1 ATAACGGGAAGCTCCA-AATAGCC
* * * *
10869755 ATAATCAGAAAGCT-CATATGAGACA
1 ATAA-CGGGAAGCTCCAAAT-AG-CC
* ** *
10869780 ATAACGGGTAGCTCTGAAGAGCC
1 ATAACGGGAAGCTCCAAATAGCC
10869803 ATTAACGGGAAGCTCCAAATAGCC
1 A-TAACGGGAAGCTCCAAATAGCC
* *
10869827 ATATATCGGGAAG-TTCAAACGAGCC
1 ATA-A-CGGGAAGCTCCAAA-TAGCC
*
10869852 ATATCGGGAAGCTC
1 ATAACGGGAAGCTC
10869866 ATAAAGAGAC
Statistics
Matches: 82, Mismatches: 20, Indels: 17
0.69 0.17 0.14
Matches are distributed among these distances:
23 17 0.21
24 45 0.55
25 20 0.24
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (23 bp):
ATAACGGGAAGCTCCAAATAGCC
Found at i:10869865 original size:72 final size:74
Alignment explanation
Indices: 10869733--10869906 Score: 167
Period size: 72 Copynumber: 2.4 Consensus size: 74
10869723 ATGGGCTGTA
* * *
10869733 TAACGGGAAGCT-CATAATAGCCATA-ATCAGAAAGCTCATATGAGACAATAACGGGTAGCTC-T
1 TAACGGGAAGCTCCA-AATAGCCATATATCAGAAAGCTCAAACGAGACAATAACGGGAAGCTCAT
* *
10869795 GAAGAGCCAT
65 AAAGAGACAT
* * * * *
10869805 TAACGGGAAGCTCCAAATAGCCATATATCGGGAAGTTCAAACGAG-CCATATCGGGAAGCTCATA
1 TAACGGGAAGCTCCAAATAGCCATATATCAGAAAGCTCAAACGAGACAATAACGGGAAGCTCATA
*
10869869 AAGAGACTT
66 AAGAGACAT
* * *
10869878 TAATCGAGAAGCTCACGAAGAGCCATATA
1 TAA-CGGGAAGCTC-CAAATAGCCATATA
10869907 ATGGGACGCT
Statistics
Matches: 83, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
72 35 0.42
73 27 0.33
74 9 0.11
75 12 0.14
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (74 bp):
TAACGGGAAGCTCCAAATAGCCATATATCAGAAAGCTCAAACGAGACAATAACGGGAAGCTCATA
AAGAGACAT
Found at i:10876403 original size:22 final size:21
Alignment explanation
Indices: 10876378--10876426 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
10876368 TTATATTAAA
*
10876378 TTATAAATATTGAAAAAT-TATT
1 TTATAAATA-T-AAAAATACATT
10876400 TTATTAAATATAAAAATACATT
1 TTA-TAAATATAAAAATACATT
10876422 TTATA
1 TTATA
10876427 TCCAATATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 8 0.33
22 10 0.42
23 6 0.25
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
TTATAAATATAAAAATACATT
Found at i:10883307 original size:21 final size:21
Alignment explanation
Indices: 10883278--10883317 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10883268 TATTTAAGCT
10883278 TTTACAATCCAATTAGTATGAG
1 TTTACAATCCAATTA-TATGAG
*
10883300 TTTA-AATCTAATTATATG
1 TTTACAATCCAATTATATG
10883318 CATATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (21 bp):
TTTACAATCCAATTATATGAG
Found at i:10888316 original size:5 final size:6
Alignment explanation
Indices: 10888289--10888315 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
10888279 TGGTTTTTAT
10888289 AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAA
10888316 TCATCAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:10900595 original size:5 final size:5
Alignment explanation
Indices: 10900585--10900631 Score: 94
Period size: 5 Copynumber: 9.4 Consensus size: 5
10900575 AGAGTTGCCC
10900585 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
10900632 TGCAACTGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:10903341 original size:22 final size:24
Alignment explanation
Indices: 10903317--10903361 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
10903307 ATTTAAACTT
*
10903317 AAATTTACATG-TATTTAAAAATA
1 AAATTCACATGCTATTTAAAAATA
10903340 AAATTCACATGCTA-TTAAAAAT
1 AAATTCACATGCTATTTAAAAAT
10903362 TCATATCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (24 bp):
AAATTCACATGCTATTTAAAAATA
Found at i:10903933 original size:31 final size:29
Alignment explanation
Indices: 10903898--10903968 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 29
10903888 TTAAATTAGT
* *
10903898 AATGATAAAATTGTACTTTAGTCTCCTTAAA
1 AATGATAAAATT-TAATTTAATC-CCTTAAA
*
10903929 AATGATAAAAATTTAATTTAATCCTTTAAA
1 AATGAT-AAAATTTAATTTAATCCCTTAAA
*
10903959 AATTATAAAA
1 AATGATAAAA
10903969 ATATAGACTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
29 4 0.11
30 11 0.31
31 14 0.40
32 6 0.17
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (29 bp):
AATGATAAAATTTAATTTAATCCCTTAAA
Found at i:10903960 original size:30 final size:32
Alignment explanation
Indices: 10903898--10903970 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 32
10903888 TTAAATTAGT
* *
10903898 AATGAT-AAAATTGTACTTTAGTCTCCTTAAA
1 AATGATAAAAATTGTAATTTAATCTCCTTAAA
*
10903929 AATGATAAAAATT-TAATTTAATC-CTTTAAA
1 AATGATAAAAATTGTAATTTAATCTCCTTAAA
*
10903959 AATTATAAAAAT
1 AATGATAAAAAT
10903971 ATAGACTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 17 0.46
31 14 0.38
32 6 0.16
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.38
Consensus pattern (32 bp):
AATGATAAAAATTGTAATTTAATCTCCTTAAA
Found at i:10910241 original size:31 final size:29
Alignment explanation
Indices: 10910164--10910244 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
10910154 TTTTTTTGGC
10910164 TCAAAT-T-ACATTTTAGTCACTTATGTT
1 TCAAATGTAACATTTTAGTCACTTATGTT
* * *
10910191 TGAAATGTTACGTTTTAGTCACTTATGTT
1 TCAAATGTAACATTTTAGTCACTTATGTT
**
10910220 ATCACGTTGTAACATTTTAGTCACT
1 -TCA-AATGTAACATTTTAGTCACT
10910245 GAGCCGTTAG
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 19 0.44
30 2 0.05
31 16 0.37
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (29 bp):
TCAAATGTAACATTTTAGTCACTTATGTT
Found at i:10912520 original size:11 final size:11
Alignment explanation
Indices: 10912504--10912598 Score: 67
Period size: 11 Copynumber: 8.9 Consensus size: 11
10912494 CTTGACAACA
10912504 TCTCAATTTCC
1 TCTCAATTTCC
*
10912515 TCTCAATTTGC
1 TCTCAATTTCC
10912526 TCTCAATTTCC
1 TCTCAATTTCC
10912537 T-TCCAAATTT-C
1 TCT-C-AATTTCC
*
10912548 TCTCAA-ATCC
1 TCTCAATTTCC
**
10912558 -CT--ATTTAA
1 TCTCAATTTCC
*
10912566 TCTCAATTTGC
1 TCTCAATTTCC
*
10912577 TCTCAATTTGC
1 TCTCAATTTCC
10912588 TCTCAAATTTC
1 TCTC-AATTTC
10912599 TCTTAAATAT
Statistics
Matches: 66, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 5 0.08
10 4 0.06
11 44 0.67
12 11 0.17
ACGTcount: A:0.23, C:0.29, G:0.03, T:0.44
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:10912529 original size:22 final size:22
Alignment explanation
Indices: 10912504--10912598 Score: 85
Period size: 22 Copynumber: 4.5 Consensus size: 22
10912494 CTTGACAACA
10912504 TCTCAATTTCCTCTCAATTTGC
1 TCTCAATTTCCTCTCAATTTGC
10912526 TCTCAATTTCCT-TCCAAATTT-C
1 TCTCAATTTCCTCT-C-AATTTGC
* **
10912548 TCTCAA-ATCC-CT--ATTTAA
1 TCTCAATTTCCTCTCAATTTGC
*
10912566 TCTCAATTTGCTCTCAATTTGC
1 TCTCAATTTCCTCTCAATTTGC
10912588 TCTCAAATTTC
1 TCTC-AATTTC
10912599 TCTTAAATAT
Statistics
Matches: 57, Mismatches: 7, Indels: 17
0.70 0.09 0.21
Matches are distributed among these distances:
17 4 0.07
18 6 0.11
19 2 0.04
20 2 0.04
21 5 0.09
22 28 0.49
23 10 0.18
ACGTcount: A:0.23, C:0.29, G:0.03, T:0.44
Consensus pattern (22 bp):
TCTCAATTTCCTCTCAATTTGC
Found at i:10912606 original size:11 final size:12
Alignment explanation
Indices: 10912566--10912606 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 12
10912556 CCCTATTTAA
10912566 TCTC-AATTTGC
1 TCTCAAATTTGC
10912577 TCTC-AATTTGC
1 TCTCAAATTTGC
10912588 TCTCAAATTT-C
1 TCTCAAATTTGC
*
10912599 TCTTAAAT
1 TCTCAAAT
10912607 ATTTATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
11 23 0.82
12 5 0.18
ACGTcount: A:0.24, C:0.24, G:0.05, T:0.46
Consensus pattern (12 bp):
TCTCAAATTTGC
Found at i:10914471 original size:18 final size:18
Alignment explanation
Indices: 10914448--10914490 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
10914438 TGCCAGGTGC
*
10914448 GTATCCTAACCCTTTTAT
1 GTATCCTAACCCTTATAT
10914466 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
10914484 GTTTCCT
1 GTATCCT
10914491 TTTCTGAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.07, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:10914771 original size:21 final size:21
Alignment explanation
Indices: 10914747--10914792 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
10914737 GATACCCTAT
* *
10914747 CGGAGGAACCAGAATCCCCGC
1 CGGAGCAACCAGAACCCCCGC
*
10914768 CGGAGCAACCATAACCCCCGC
1 CGGAGCAACCAGAACCCCCGC
10914789 CGGA
1 CGGA
10914793 AGCTGGACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.41, G:0.26, T:0.04
Consensus pattern (21 bp):
CGGAGCAACCAGAACCCCCGC
Found at i:10915553 original size:225 final size:224
Alignment explanation
Indices: 10915053--10915809 Score: 1228
Period size: 225 Copynumber: 3.3 Consensus size: 224
10915043 TCATATTTTG
*
10915053 AAAAATAATAAACACGAAAACTAATCCAATTTTGAAAATTTTATAAATAATTTAATTGACAAACC
1 AAAAATAATAAACACGAAAACTAATCCAATTTTGAAAATTTTTTAAATAATTTAATTGACAAACC
*
10915118 CTAAACTCTAAACCCTAACTTATTTGATTTTTCCTTAAAAACCCTTAACTTAAAAATACCAAAAC
66 CTAAACTCTAAACCCTAACTTATTTGATTTTTCCTTAAAAACCCTTAACTTAAAAACACCAAAAC
10915183 CCTAACAAAAACCCTAACCCTAACCTTAATCTAATTTTTAAAATTTTTTTAATTAAATTACTCAA
131 CCTAACAAAAACCCTAA--C---CC-TAATCTAATTTTT-AAATTTTTTTAATTAAATTACTCAA
10915248 GTAACCCTAAACCACAATTTAATTAATTTTTTCTTA
189 GTAACCCTAAACCACAATTTAATTAATTTTTTCTTA
**
10915284 AAAAATAATAAACACGAAAACTAATCCAATTTTGAATTTTTTTTAAATAATTTAATTGACAAACC
1 AAAAATAATAAACACGAAAACTAATCCAATTTTGAAAATTTTTTAAATAATTTAATTGACAAACC
*
10915349 CTAAACTCTAAACTCTAACTTATTTGATTTTTCCTTAAAAACCCTTAACTTAAAAACACCAAAAC
66 CTAAACTCTAAACCCTAACTTATTTGATTTTTCCTTAAAAACCCTTAACTTAAAAACACCAAAAC
10915414 CCTAACAAAAACCCTAACCCTAATCTAATTTTTAAATTTTTTTTAATTAAATTACTCAAGTAACC
131 CCTAACAAAAACCCTAACCCTAATCTAATTTTTAAA-TTTTTTTAATTAAATTACTCAAGTAACC
*
10915479 CTAAATCACAATTTAATTAATTTTTTCTTA
195 CTAAACCACAATTTAATTAATTTTTTCTTA
*
10915509 AAAAATAATAAACACGAAAACTAATCCAATTTTGAAAATTTTTTAAATAATTTAATTGACAAATC
1 AAAAATAATAAACACGAAAACTAATCCAATTTTGAAAATTTTTTAAATAATTTAATTGACAAACC
*
10915574 CTAAACTCTAAACCCTAACTTATTTGATTTTTCCTTAAAAACCCTTAACTTAAAAACACTAAAAC
66 CTAAACTCTAAACCCTAACTTATTTGATTTTTCCTTAAAAACCCTTAACTTAAAAACACCAAAAC
* *
10915639 CCTAACAAAAACCCTAACCCTAACCCTAATCTAATTTTT-AATTTTTTTAATTAAATTATTCAAA
131 CCTAAC--AAA----AACCCTAACCCTAATCTAATTTTTAAATTTTTTTAATTAAATTACTCAAG
* * *
10915703 TAACCCTAAACCATAATTTAATTGATTTTTCCTTA
190 TAACCCTAAACCACAATTTAATTAATTTTTTCTTA
* * * *
10915738 AAAATTAATAAACACAAAAACTAATCTAATTTTGAAATTTTTTTAAATAATTTAATTGACAAACC
1 AAAAATAATAAACACGAAAACTAATCCAATTTTGAAAATTTTTTAAATAATTTAATTGACAAACC
10915803 CTAAACT
66 CTAAACT
10915810 AGAGGTGTTC
Statistics
Matches: 497, Mismatches: 22, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
224 3 0.01
225 201 0.40
226 2 0.00
227 3 0.01
229 120 0.24
230 2 0.00
231 166 0.33
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.35
Consensus pattern (224 bp):
AAAAATAATAAACACGAAAACTAATCCAATTTTGAAAATTTTTTAAATAATTTAATTGACAAACC
CTAAACTCTAAACCCTAACTTATTTGATTTTTCCTTAAAAACCCTTAACTTAAAAACACCAAAAC
CCTAACAAAAACCCTAACCCTAATCTAATTTTTAAATTTTTTTAATTAAATTACTCAAGTAACCC
TAAACCACAATTTAATTAATTTTTTCTTA
Found at i:10916316 original size:15 final size:15
Alignment explanation
Indices: 10916298--10916330 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
10916288 CATAAACCAT
*
10916298 AAACCCTAAAACCTA
1 AAACCCTAAAACCCA
10916313 AAACCCTAAAACCCA
1 AAACCCTAAAACCCA
10916328 AAA
1 AAA
10916331 ACGAGAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.58, C:0.33, G:0.00, T:0.09
Consensus pattern (15 bp):
AAACCCTAAAACCCA
Found at i:10916320 original size:8 final size:8
Alignment explanation
Indices: 10916298--10916332 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
10916288 CATAAACCAT
10916298 AAACCCTA
1 AAACCCTA
10916306 AAA-CCTA
1 AAACCCTA
10916313 AAACCCTA
1 AAACCCTA
*
10916321 AAACCCAA
1 AAACCCTA
10916329 AAAC
1 AAAC
10916333 GAGAAAAACG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.57, C:0.34, G:0.00, T:0.09
Consensus pattern (8 bp):
AAACCCTA
Found at i:10918778 original size:23 final size:24
Alignment explanation
Indices: 10918751--10918800 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
10918741 TTTAATTAGT
*
10918751 AAATATA-TATTTTAAAATTATAA
1 AAATATATTATTTAAAAATTATAA
*
10918774 AAATATATTATTTAAAAATTTTAA
1 AAATATATTATTTAAAAATTATAA
10918798 AAA
1 AAA
10918801 ATAAACACGC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
AAATATATTATTTAAAAATTATAA
Found at i:10919760 original size:4 final size:4
Alignment explanation
Indices: 10919751--10919790 Score: 71
Period size: 4 Copynumber: 10.0 Consensus size: 4
10919741 TTTACATGCT
*
10919751 TACA TACA TACA TACA TACA TACA TACA TACA TCCA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
10919791 CCCTTTTGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:10921906 original size:151 final size:151
Alignment explanation
Indices: 10921632--10921932 Score: 548
Period size: 151 Copynumber: 2.0 Consensus size: 151
10921622 AAAAAGTAGG
* * *
10921632 GAATTTCAAGTAGTTTTTGAGATAGGGAAGATGTCTAATATTTTTAAAGTTTTAAATTCGCTACT
1 GAATTTCAAGTAGTTTTTGAAATAGGGAAGATGGCTAATATTTTTAAAGCTTTAAATTCGCTACT
*
10921697 TGGATTATTTATGCTGTTTAGTATTATTTTAGTGTGAATTTTCAATGTATGATTATCTGTAAATT
66 TGGATTATCTATGCTGTTTAGTATTATTTTAGTGTGAATTTTCAATGTATGATTATCTGTAAATT
10921762 ATACTAAGACAATATCAGTGT
131 ATACTAAGACAATATCAGTGT
*
10921783 GAATTTCAAGTAGTTTTTGAAATAGGGAAGATGGCTAATATTTTTAAGGCTTTAAATTCGCTACT
1 GAATTTCAAGTAGTTTTTGAAATAGGGAAGATGGCTAATATTTTTAAAGCTTTAAATTCGCTACT
*
10921848 TGGATTGTCTATGCTGTTTAGTATTATTTTAGTGTGAATTTTCAATGTATGATTATCTGTAAATT
66 TGGATTATCTATGCTGTTTAGTATTATTTTAGTGTGAATTTTCAATGTATGATTATCTGTAAATT
10921913 ATACTAAGACAATATCAGTG
131 ATACTAAGACAATATCAGTG
10921933 AAAACAATTA
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
151 144 1.00
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (151 bp):
GAATTTCAAGTAGTTTTTGAAATAGGGAAGATGGCTAATATTTTTAAAGCTTTAAATTCGCTACT
TGGATTATCTATGCTGTTTAGTATTATTTTAGTGTGAATTTTCAATGTATGATTATCTGTAAATT
ATACTAAGACAATATCAGTGT
Found at i:10923411 original size:17 final size:18
Alignment explanation
Indices: 10923378--10923415 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
10923368 AAAACTTAAA
10923378 ATTTTTATATAAAAATGT
1 ATTTTTATATAAAAATGT
10923396 ATTTTTA-A-AAATAATGT
1 ATTTTTATATAAA-AATGT
10923413 ATT
1 ATT
10923416 GATTTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.16
17 9 0.47
18 7 0.37
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
ATTTTTATATAAAAATGT
Found at i:10925285 original size:21 final size:22
Alignment explanation
Indices: 10925255--10925299 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
10925245 GAACAAATTG
10925255 TTGATTCTATTTCTTTCTTG-AT
1 TTGATTCTA-TTCTTTCTTGTAT
*
10925277 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCTTTCTTGTAT
10925298 TT
1 TT
10925300 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCTTTCTTGTAT
Found at i:10925666 original size:21 final size:21
Alignment explanation
Indices: 10925642--10925696 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
10925632 AAAGCTTAAG
*
10925642 TTTGGAAACTTGATTTGAAAA
1 TTTGGAAACTTAATTTGAAAA
*
10925663 TTTGAAAACTTAATTTGAAAA
1 TTTGGAAACTTAATTTGAAAA
10925684 TTTGGAAACTTAA
1 TTTGGAAACTTAA
10925697 AAATTAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (21 bp):
TTTGGAAACTTAATTTGAAAA
Found at i:10925974 original size:35 final size:35
Alignment explanation
Indices: 10925930--10926096 Score: 264
Period size: 35 Copynumber: 4.8 Consensus size: 35
10925920 TTCACTTGTC
* * *
10925930 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* *
10925965 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
*
10926000 -TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
10926034 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
*
10926069 TGTTGTTGCAGGGAATCTCTCCTGTTCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCA
10926097 TGTATCATTT
Statistics
Matches: 121, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
34 31 0.26
35 90 0.74
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.40
Consensus pattern (35 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
Found at i:10926031 original size:69 final size:69
Alignment explanation
Indices: 10925931--10926096 Score: 278
Period size: 69 Copynumber: 2.4 Consensus size: 69
10925921 TCACTTGTCT
* *
10925931 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAC
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAC
10925996 ATCA
66 ATCA
*
10926000 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACGC
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAC
*
10926065 ATTA
66 ATCA
*
10926069 TGTTGTTGCAGGGAATCTCTCCTGTTCA
1 T-TTCTTGCAGGGAATCTCTCCTGTTCA
10926097 TGTATCATTT
Statistics
Matches: 91, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
69 66 0.73
70 25 0.27
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.39
Consensus pattern (69 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAC
ATCA
Found at i:10928915 original size:20 final size:22
Alignment explanation
Indices: 10928878--10928921 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
10928868 GAACAAATTG
10928878 TTGATTCTATTTCTTTTTG-AT
1 TTGATTCTATTTCTTTTTGTAT
10928899 TTGA-TCTA-TTCTTTTTTGTAT
1 TTGATTCTATTTC-TTTTTGTAT
10928920 TT
1 TT
10928922 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 3 0.14
20 10 0.48
21 8 0.38
ACGTcount: A:0.14, C:0.09, G:0.09, T:0.68
Consensus pattern (22 bp):
TTGATTCTATTTCTTTTTGTAT
Found at i:10932738 original size:34 final size:35
Alignment explanation
Indices: 10932655--10932746 Score: 132
Period size: 35 Copynumber: 2.7 Consensus size: 35
10932645 TTCACTTGTC
* * * *
10932655 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
*
10932690 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATCA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
10932725 -TTTCTTGCAGGGAATCTCTCCT
1 TTTTCTTGCAGGGAATCTCTCCT
10932747 ATTACGAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 21 0.41
35 30 0.59
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.40
Consensus pattern (35 bp):
TTTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
Found at i:10933997 original size:37 final size:38
Alignment explanation
Indices: 10933932--10934010 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 38
10933922 TGTCAATTTA
* * * *
10933932 TTACTTCGGATTTATTCGATGAGGCACTGGGTGGCAAT
1 TTACTTCAGATTTAATCAATGAGACACTGGGTGGCAAT
*
10933970 TTACTTCAG-TTTAATCAATGAGACACTGGGTGTCAAT
1 TTACTTCAGATTTAATCAATGAGACACTGGGTGGCAAT
10934007 TTAC
1 TTAC
10934011 CACTTCGAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 28 0.78
38 8 0.22
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (38 bp):
TTACTTCAGATTTAATCAATGAGACACTGGGTGGCAAT
Found at i:10934790 original size:21 final size:20
Alignment explanation
Indices: 10934748--10934790 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
10934738 ATTTAAAATG
* * *
10934748 ATGATTTGAATGATGTTTTA
1 ATGATATGAATGATGATGTA
10934768 ATGATATGAAATGATGATGTA
1 ATGATATG-AATGATGATGTA
10934789 AT
1 AT
10934791 TGTGGTACTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (20 bp):
ATGATATGAATGATGATGTA
Found at i:10946176 original size:26 final size:26
Alignment explanation
Indices: 10946122--10946181 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
10946112 GAATTTGAGC
* **
10946122 TCATAAATTAATTAAAATAAAATTTA
1 TCATAAATTAATAAAAATAAAATCAA
*
10946148 TCATAAATTGATAAAAATAAAATCAA
1 TCATAAATTAATAAAAATAAAATCAA
*
10946174 TCAAAAAT
1 TCATAAAT
10946182 GAAGTAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.32
Consensus pattern (26 bp):
TCATAAATTAATAAAAATAAAATCAA
Found at i:10946293 original size:4 final size:4
Alignment explanation
Indices: 10946284--10946313 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
10946274 AAATTTAGAC
10946284 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
10946314 GCGTTGGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (4 bp):
TTAA
Found at i:10950873 original size:9 final size:8
Alignment explanation
Indices: 10950862--10950893 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
10950852 TATTTTGTTT
10950862 TTTTTATA
1 TTTTTATA
10950870 TTTTTATA
1 TTTTTATA
10950878 TTTTTACTA
1 TTTTTA-TA
10950887 TTTTTAT
1 TTTTTAT
10950894 TTCCATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTATA
Found at i:10950881 original size:17 final size:17
Alignment explanation
Indices: 10950862--10950893 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10950852 TATTTTGTTT
10950862 TTTTTA-TATTTTTATA
1 TTTTTACTATTTTTATA
10950878 TTTTTACTATTTTTAT
1 TTTTTACTATTTTTAT
10950894 TTCCATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTACTATTTTTATA
Found at i:10950976 original size:22 final size:21
Alignment explanation
Indices: 10950951--10951030 Score: 72
Period size: 22 Copynumber: 3.6 Consensus size: 21
10950941 AATTGTCTTC
10950951 ATTTTTTATTATATTTTATTAT
1 ATTTTTTATTATATTTTATT-T
* *
10950973 ATTTTTTATTTTCATTTCATTT
1 ATTTTTTATTAT-ATTTTATTT
*
10950995 CATTTTTATATTAT-TATTATTT
1 -ATTTTT-TATTATATTTTATTT
10951017 ATTATTATTATTAT
1 ATT-TT-TTATTAT
10951031 CATCATTATT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
21 3 0.06
22 26 0.54
23 14 0.29
24 5 0.10
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (21 bp):
ATTTTTTATTATATTTTATTT
Found at i:10950979 original size:12 final size:12
Alignment explanation
Indices: 10950951--10950982 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
10950941 AATTGTCTTC
10950951 ATTTTTTATTAT
1 ATTTTTTATTAT
10950963 A--TTTTATTAT
1 ATTTTTTATTAT
10950973 ATTTTTTATT
1 ATTTTTTATT
10950983 TTCATTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 10 0.56
12 8 0.44
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
ATTTTTTATTAT
Found at i:10951018 original size:10 final size:10
Alignment explanation
Indices: 10950955--10951030 Score: 54
Period size: 10 Copynumber: 7.8 Consensus size: 10
10950945 GTCTTCATTT
10950955 TTTATTA-TA
1 TTTATTATTA
10950964 TTTTATTA-TA
1 -TTTATTATTA
*
10950974 TTTTTTATT-
1 TTTATTATTA
* *
10950983 TTCATT-TCA
1 TTTATTATTA
*
10950992 TTTCATTTTTA
1 TTT-ATTATTA
10951003 TATTATTATTA
1 T-TTATTATTA
10951014 TTTATTATTA
1 TTTATTATTA
10951024 -TTATTAT
1 TTTATTAT
10951031 CATCATTATT
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
8 1 0.02
9 19 0.35
10 22 0.41
11 10 0.19
12 2 0.04
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTATTATTA
Found at i:10951024 original size:16 final size:15
Alignment explanation
Indices: 10950999--10951030 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
10950989 TCATTTCATT
10950999 TTTATATTATTATTA
1 TTTATATTATTATTA
10951014 TTTATTATTATTATTA
1 TTTA-TATTATTATTA
10951030 T
1 T
10951031 CATCATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTATATTATTATTA
Found at i:10951060 original size:3 final size:3
Alignment explanation
Indices: 10951003--10951041 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
10950993 TTCATTTTTA
* *
10951003 TAT TAT TAT TATT TAT TAT TAT TAT TAT CAT CAT TAT TA
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TA
10951042 AACTGTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:10955768 original size:45 final size:45
Alignment explanation
Indices: 10955688--10956196 Score: 159
Period size: 45 Copynumber: 10.8 Consensus size: 45
10955678 AGCCACCAGC
* * ** * *
10955688 CTTATCTCCCTAAAGTTGCAGCAGAGCAGACTAAAGACATCGAAT
1 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGACATCGAAT
*** *
10955733 CTTATTTCCCTGGTTTTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGGAT
1 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAG--AC-----AT--CGAAT
** * * * **
10955787 CTTATCTT-CCTGAAGTTGCAGTGGAGTAGATTGAAGCCA-CCAGC
1 CTTAT-TTCCCTGAAGTTGCAGTGGAACAGATTAAAGACATCGAAT
* * * *
10955831 CTTATTTCCCTAAAGTTGCAGCGGAGCAGATTAAAGACAGCGAAT
1 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGACATCGAAT
** *
10955876 CTTATTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGGAT
1 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAG--AC-----AT--CGAAT
* * * * * * * **
10955930 CTTATCTT-CTTGAAGTTACAGTGGAGCATATTGAAGCCA-CCAGC
1 CTTAT-TTCCCTGAAGTTGCAGTGGAACAGATTAAAGACATCGAAT
* * * * * * *
10955974 CTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAAT
1 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGACATCGAAT
* * * *
10956019 CTTATTTCCCT-AGCGTTACAGTGGAACAGATTAAATCACAAATTATGGCGGAT
1 CTTATTTCCCTGA-AGTTGCAGTGGAACAGATTAAA-GAC-----AT--CGAAT
* * * * * *
10956072 CTTATCTT-CCTGAAGTTGCAGTGGAGCATATTGAAGTCA-CCAAC
1 CTTAT-TTCCCTGAAGTTGCAGTGGAACAGATTAAAGACATCGAAT
* ** * * * * *
10956116 CTTATCTCCCTGAAGTTATAGCGGAGCAGACTGAAGACAGCGAAT
1 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGACATCGAAT
* *
10956161 CTTATTTCCCTAAAGTTGCAGTGGAATAGATTAAAG
1 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAG
10956197 CTATAAGTTA
Statistics
Matches: 330, Mismatches: 97, Indels: 74
0.66 0.19 0.15
Matches are distributed among these distances:
43 4 0.01
44 95 0.29
45 118 0.36
46 2 0.01
47 7 0.02
51 1 0.00
52 6 0.02
53 29 0.09
54 64 0.19
55 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (45 bp):
CTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGACATCGAAT
Found at i:10955797 original size:143 final size:143
Alignment explanation
Indices: 10955347--10956242 Score: 1255
Period size: 143 Copynumber: 6.3 Consensus size: 143
10955337 GATTGAAATC
* * * * *
10955347 ATTATAGCGAATCTTATCTTTCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAACCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * * ** *
10955412 CTGAAGTTGCAGCGGAGTAGACTGAAGAGAGCGAATCTTATTTCCCTAACGTTGTAGTGGAACAG
66 CTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGTGTTGCAGTGGAACAG
*
10955477 ATTAAAGCTATAA
131 ATTAAAGCTACAA
* * * * *
10955490 ATTATGGCAGATCTTATCTTCTTGAAGTTGTAGTGGAGCAGATTGAAGCCACTAGCCTTATCACC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * *
10955555 CTAAAGTTGCAGCGAAACAGACTAAAGACAGCG-ATCTTATTTCCCTAGTGTTGCAGTGGAAGAG
66 CTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGTGTTGCAGTGGAACAG
10955619 ATTAAAGCTACAA
131 ATTAAAGCTACAA
* * * * *
10955632 ATTATGGGGGATCTTATTTTCCTAAAGTTGCAATGAAGCAGATTGAAGCCACCAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * *
10955697 CTAAAGTTGCAGCAGAGCAGACTAAAGACATCGAATCTTATTTCCCTGGTTTTGCAGTGGAACAG
66 CTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGTGTTGCAGTGGAACAG
10955762 ATTAAAGCTACAA
131 ATTAAAGCTACAA
* *
10955775 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACCAGCCTTATTTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* *
10955840 CTAAAGTTGCAGCGGAGCAGATTAAAGACAGCGAATCTTATTTCCCTGGTGTTGCAGTGGAACAG
66 CTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGTGTTGCAGTGGAACAG
10955905 ATTAAAGCTACAA
131 ATTAAAGCTACAA
* * *
10955918 ATTATGGCGGATCTTATCTTCTTGAAGTTACAGTGGAGCATATTGAAGCCACCAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * *
10955983 CTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGCGTTACAGTGGAACAG
66 CTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGTGTTGCAGTGGAACAG
*
10956048 ATTAAATC-ACAA
131 ATTAAAGCTACAA
* * *
10956060 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCATATTGAAGTCACCAACCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* ** * ** *
10956125 CTGAAGTTATAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAATAG
66 CTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGTGTTGCAGTGGAACAG
*
10956190 ATTAAAGCTATAA
131 ATTAAAGCTACAA
* *
10956203 GTTA---CGGATCTTATC-TCTCTGAAGTTGCAGTAGAGCAGAT
1 ATTATGGCGGATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGAT
10956243 CATATCAAAC
Statistics
Matches: 676, Mismatches: 74, Indels: 9
0.89 0.10 0.01
Matches are distributed among these distances:
139 2 0.00
140 31 0.05
142 253 0.37
143 390 0.58
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (143 bp):
ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
CTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGTGTTGCAGTGGAACAG
ATTAAAGCTACAA
Found at i:10955868 original size:285 final size:286
Alignment explanation
Indices: 10955347--10956242 Score: 1257
Period size: 285 Copynumber: 3.2 Consensus size: 286
10955337 GATTGAAATC
* * * *
10955347 ATTATAGCGAATCTTATCTTT-CTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAACCTTATCTC
1 ATTATGGCGGATCTTAT-TTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTC
* * * * *
10955411 CCTGAAGTTGCAGCGGAGTAGACTGAAGAGAGCGAATCTTATTTCCCTAACGTTGTAGTGGAACA
65 CCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAACA
* * * *
10955476 GATTAAAGCTATAAATTATGGCAGATCTTATCTTCTTGAAGTTGTAGTGGAGCAGATTGAAGCCA
130 GATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA
* * * *
10955541 CTAGCCTTATCACCCTAAAGTTGCAGCGAAACAGACTAAAGACAGCG-ATCTTATTTCCCTAGTG
195 CCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGTG
*
10955605 TTGCAGTGGAAGAGATTAAAGCTACAA
260 TTGCAGTGGAACAGATTAAAGCTACAA
* * * *
10955632 ATTATGGGGGATCTTATTTTCCTAAAGTTGCAATGAAGCAGATTGAAGCCACCAGCCTTATCTCC
1 ATTATGGCGGATCTTATTTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * * **
10955697 CTAAAGTTGCAGCAGAGCAGACTAAAGACATCGAATCTTATTTCCCTGGTTTTGCAGTGGAACAG
66 CTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAACAG
*
10955762 ATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTGAAGCCAC
131 ATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAC
* * *
10955827 CAGCCTTATTTCCCTAAAGTTGCAGCGGAGCAGATTAAAGACAGCGAATCTTATTTCCCTGGTGT
196 CAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGTGT
10955892 TGCAGTGGAACAGATTAAAGCTACAA
261 TGCAGTGGAACAGATTAAAGCTACAA
* * * *
10955918 ATTATGGCGGATCTTATCTTCTTGAAGTTACAGTGGAGCATATTGAAGCCACCAGCCTTATCTCC
1 ATTATGGCGGATCTTATTTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
*
10955983 CTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGCGTTACAGTGGAACAG
66 CTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAACAG
* * *
10956048 ATTAAATC-ACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCATATTGAAGTCAC
131 ATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAC
* * ** * **
10956112 CAACCTTATCTCCCTGAAGTTATAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAAAGT
196 CAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGTGT
* *
10956177 TGCAGTGGAATAGATTAAAGCTATAA
261 TGCAGTGGAACAGATTAAAGCTACAA
* * *
10956203 GTTA---CGGATCTTA-TCTCTCTGAAGTTGCAGTAGAGCAGAT
1 ATTATGGCGGATCTTATTTTC-CTGAAGTTGCAGTGGAGCAGAT
10956243 CATATCAAAC
Statistics
Matches: 538, Mismatches: 70, Indels: 9
0.87 0.11 0.01
Matches are distributed among these distances:
281 2 0.00
282 27 0.05
284 3 0.01
285 342 0.64
286 164 0.30
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (286 bp):
ATTATGGCGGATCTTATTTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
CTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAACAG
ATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAC
CAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAGTGT
TGCAGTGGAACAGATTAAAGCTACAA
Found at i:10956162 original size:428 final size:427
Alignment explanation
Indices: 10955347--10956242 Score: 1269
Period size: 428 Copynumber: 2.1 Consensus size: 427
10955337 GATTGAAATC
* * *
10955347 ATTATAGCGAATCTTATCTTTCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAACCTTATCTCC
1 ATTAT-GCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCC
* * * * *
10955412 CTGAAGTTGCAGCGGAGTAGACTGAAGAGAGCGAATCTTATTTCCCTAACGTTGTAGTGGAACAG
65 CTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAACGTTGCAGTGGAACAG
* **
10955477 ATTAAAGCTATAAATTATGGCAGATCTTATCTTCTTGAAGTTGTAGTGGAGCAGATTGAAGCCAC
130 ATTAAAGCTACAAATTATGGCAGATCTTATCTTCTTGAAGTTACAGTGGAGCAGATTGAAGCCAC
* *
10955542 TAGCCTTATCACCCTAAAGTTGCAGCGAAACAGACTAAAGACAGCGATCTTATTTCCCTAGTGTT
195 CAGCCTTATCACCCTAAAGTTGCAGCGAAACAGACTAAAGACAGCGATCTTATTTCCCTAGCGTT
* * * *
10955607 GCAGTGGAAGAGATTAAAGCTACAAATTATGGGGGATCTTATTTTCCTAAAGTTGCAATGAAGCA
260 ACAGTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTAAAGTTGCAATGAAGCA
* * *
10955672 GATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCAGAGCAGACTAAAGACATCGAATCTTA
325 GATTGAAGCCACCAACCTTATCTCCCTAAAGTTACAGCAGAGCAGACTAAAGACAGCGAATCTTA
****
10955737 TTTCCCTGGTTTTGCAGTGGAACAGATTAAAGCTACAA
390 TTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAA
* * *
10955775 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACCAGCCTTATTTCC
1 ATTAT-GCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCC
* ***
10955840 CTAAAGTTGCAGCGGAGCAGATTAAAGACAGCGAATCTTATTTCCCTGGTGTTGCAGTGGAACAG
65 CTAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAACGTTGCAGTGGAACAG
* *
10955905 ATTAAAGCTACAAATTATGGCGGATCTTATCTTCTTGAAGTTACAGTGGAGCATATTGAAGCCAC
130 ATTAAAGCTACAAATTATGGCAGATCTTATCTTCTTGAAGTTACAGTGGAGCAGATTGAAGCCAC
* * * *
10955970 CAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAGCGT
195 CAGCCTTATCACCCTAAAGTTGCAGCGAAACAGACTAAAGACAGCG-ATCTTATTTCCCTAGCGT
* * * *
10956035 TACAGTGGAACAGATTAAATC-ACAAATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGC
259 TACAGTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTAAAGTTGCAATGAAGC
* * * * * *
10956099 ATATTGAAGTCACCAACCTTATCTCCCTGAAGTTATAGCGGAGCAGACTGAAGACAGCGAATCTT
324 AGATTGAAGCCACCAACCTTATCTCCCTAAAGTTACAGCAGAGCAGACTAAAGACAGCGAATCTT
* *
10956164 ATTTCCCTAAAGTTGCAGTGGAATAGATTAAAGCTATAA
389 ATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAA
* *
10956203 GTTA--CGGATCTTATC-TCTCTGAAGTTGCAGTAGAGCAGAT
1 ATTATGCGGATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGAT
10956243 CATATCAAAC
Statistics
Matches: 413, Mismatches: 53, Indels: 7
0.87 0.11 0.01
Matches are distributed among these distances:
424 2 0.00
425 31 0.08
428 345 0.84
429 35 0.08
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (427 bp):
ATTATGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCC
TAAAGTTGCAGCGGAGCAGACTAAAGACAGCGAATCTTATTTCCCTAACGTTGCAGTGGAACAGA
TTAAAGCTACAAATTATGGCAGATCTTATCTTCTTGAAGTTACAGTGGAGCAGATTGAAGCCACC
AGCCTTATCACCCTAAAGTTGCAGCGAAACAGACTAAAGACAGCGATCTTATTTCCCTAGCGTTA
CAGTGGAACAGATTAAAGCTACAAATTATGGCGGATCTTATCTTCCTAAAGTTGCAATGAAGCAG
ATTGAAGCCACCAACCTTATCTCCCTAAAGTTACAGCAGAGCAGACTAAAGACAGCGAATCTTAT
TTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAA
Found at i:10957928 original size:24 final size:25
Alignment explanation
Indices: 10957892--10957947 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
10957882 AATTGTCTTC
*
10957892 ATTTTT-TTATCATATT-TTTTATAT
1 ATTTTTATTATCAT-TTCATTTATAT
*
10957916 -TTTTTATTTTCATTTCATTTATAT
1 ATTTTTATTATCATTTCATTTATAT
10957940 ATTTTTAT
1 ATTTTTAT
10957948 ATATTTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 7 0.26
24 13 0.48
25 7 0.26
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.71
Consensus pattern (25 bp):
ATTTTTATTATCATTTCATTTATAT
Found at i:10957928 original size:35 final size:36
Alignment explanation
Indices: 10957889--10957959 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
10957879 TAAAATTGTC
* *
10957889 TTCATTT-TTTTATCATATTTTT-TATATTTTTTATT
1 TTCATTTCATTTAT-ATATTTTTATATATTTATTATT
10957924 TTCATTTCATTTATATATTTTTATATATTTATTATT
1 TTCATTTCATTTATATATTTTTATATATTTATTATT
10957960 ATTATCATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
35 15 0.47
36 17 0.53
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (36 bp):
TTCATTTCATTTATATATTTTTATATATTTATTATT
Found at i:10959827 original size:15 final size:15
Alignment explanation
Indices: 10959807--10959836 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10959797 CAGAAGAATA
10959807 TTGGCATATCATTCT
1 TTGGCATATCATTCT
10959822 TTGGCATATCATTCT
1 TTGGCATATCATTCT
10959837 GAAGAAAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (15 bp):
TTGGCATATCATTCT
Found at i:10961001 original size:16 final size:16
Alignment explanation
Indices: 10960948--10961013 Score: 69
Period size: 16 Copynumber: 3.9 Consensus size: 16
10960938 TAATTAATGA
10960948 ATAAAGACAAAATAAC
1 ATAAAGACAAAATAAC
* ***
10960964 ATGAAGTTATCAAGGGAAC
1 ATAAAG--A-CAAAATAAC
10960983 ATAAAGACAAAATAAC
1 ATAAAGACAAAATAAC
10960999 ATAAAGACAAAATAA
1 ATAAAGACAAAATAA
10961014 AATGCCTTAA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
16 26 0.67
17 1 0.03
18 1 0.03
19 11 0.28
ACGTcount: A:0.62, C:0.11, G:0.12, T:0.15
Consensus pattern (16 bp):
ATAAAGACAAAATAAC
Found at i:10962129 original size:44 final size:44
Alignment explanation
Indices: 10962046--10962129 Score: 132
Period size: 44 Copynumber: 1.9 Consensus size: 44
10962036 CTCAAGGTCC
* * *
10962046 ATGTTTATAACATGGCAATTAAGGAAGAATTGGCAGAAAAGTCT
1 ATGTTTATAACATGGAAATTAAGAAAGAATTGACAGAAAAGTCT
*
10962090 ATGTTTATAACATGGAAATTAAGAAAGAATTGACGGAAAA
1 ATGTTTATAACATGGAAATTAAGAAAGAATTGACAGAAAA
10962130 TACCATGGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.26
Consensus pattern (44 bp):
ATGTTTATAACATGGAAATTAAGAAAGAATTGACAGAAAAGTCT
Found at i:10968749 original size:15 final size:15
Alignment explanation
Indices: 10968729--10968758 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10968719 CAGAAGAATA
10968729 TTGGCATATCATTCT
1 TTGGCATATCATTCT
10968744 TTGGCATATCATTCT
1 TTGGCATATCATTCT
10968759 GAAGAAAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (15 bp):
TTGGCATATCATTCT
Found at i:10972954 original size:26 final size:26
Alignment explanation
Indices: 10972900--10972959 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
10972890 GAATTTGAGC
* **
10972900 TCATAAATTAATTAAAATAAAATTTA
1 TCATAAATTAATAAAAATAAAATCAA
*
10972926 TCATAAATTGATAAAAATAAAATCAA
1 TCATAAATTAATAAAAATAAAATCAA
*
10972952 TCAAAAAT
1 TCATAAAT
10972960 GAAGTAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.32
Consensus pattern (26 bp):
TCATAAATTAATAAAAATAAAATCAA
Found at i:10973071 original size:4 final size:4
Alignment explanation
Indices: 10973062--10973091 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
10973052 AAATTTAGAC
10973062 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
10973092 GCGTTGGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (4 bp):
TTAA
Found at i:10973724 original size:57 final size:59
Alignment explanation
Indices: 10973610--10973724 Score: 132
Period size: 57 Copynumber: 2.0 Consensus size: 59
10973600 TGATTTAATA
* * *
10973610 TAATTATACATAATATATATTTTAAATACTTTTAATAATTAATAAATTATTTGTAAATT
1 TAATTATACATAATATACATTTTAAATACTTTTAATAAATAATAAATTATTTCTAAATT
*
10973669 TAATTATACATGA-A-ACATTTTAAA-A-TTTTAAATATAATAATAAA-TATTATCTAAAT
1 TAATTATACATAATATACATTTTAAATACTTTT-AATA-AATAATAAATTATT-TCTAAAT
10973725 AATTTAACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
55 4 0.08
56 9 0.18
57 23 0.47
58 1 0.02
59 12 0.24
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (59 bp):
TAATTATACATAATATACATTTTAAATACTTTTAATAAATAATAAATTATTTCTAAATT
Found at i:10973792 original size:33 final size:31
Alignment explanation
Indices: 10973753--10973824 Score: 81
Period size: 33 Copynumber: 2.3 Consensus size: 31
10973743 TTGTAAACAA
*
10973753 ATTTAAATAAGTTAATACAATGGTACATTAAAT
1 ATTTAAATAAGTTAATACAATGATACA-T-AAT
* * * *
10973786 ATTTAAATGATTTAATATAATGATATATAAT
1 ATTTAAATAAGTTAATACAATGATACATAAT
10973817 ATTTAAAT
1 ATTTAAAT
10973825 TTATCCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 11 0.32
32 1 0.03
33 22 0.65
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.42
Consensus pattern (31 bp):
ATTTAAATAAGTTAATACAATGATACATAAT
Found at i:10978125 original size:39 final size:39
Alignment explanation
Indices: 10978082--10978157 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
10978072 ATACTAATTA
*
10978082 CATAAAGGACTTATATAGTTTCGGGTGTTGATTTTGGTT
1 CATAAAGGACTTATACAGTTTCGGGTGTTGATTTTGGTT
10978121 CATAAAGGACTTATACAGTTTCGGGTGTTGATTTTGG
1 CATAAAGGACTTATACAGTTTCGGGTGTTGATTTTGG
10978158 ATGTCCTACC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.24, C:0.09, G:0.26, T:0.41
Consensus pattern (39 bp):
CATAAAGGACTTATACAGTTTCGGGTGTTGATTTTGGTT
Found at i:10978458 original size:39 final size:39
Alignment explanation
Indices: 10978367--10978542 Score: 176
Period size: 39 Copynumber: 4.5 Consensus size: 39
10978357 CGAGTCTTGG
* * * *
10978367 GCCTAGTAGGCTTTATGCCGATGTATTGTATCGGGCCTTGA
1 GCCTAGTAGGCTTTGTGCCGATG-ACT-TATCAGGCTTTGA
* *
10978408 GCCTAATAGGCTTTGTGCCGGTGACTTATCAGGCTTTGA
1 GCCTAGTAGGCTTTGTGCCGATGACTTATCAGGCTTTGA
* **
10978447 GCCTAGCAGGCTTCATGCCGATGACTTATCAGGCTTTGA
1 GCCTAGTAGGCTTTGTGCCGATGACTTATCAGGCTTTGA
* * * *
10978486 GCGTAATAGGCTTTGTGCCGATG-TTTATCGGGC-TTGA
1 GCCTAGTAGGCTTTGTGCCGATGACTTATCAGGCTTTGA
* *
10978523 TGCCTAGCAGGCTTCGTGCC
1 -GCCTAGTAGGCTTTGTGCC
10978543 TGTGTAATGA
Statistics
Matches: 112, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
37 4 0.04
38 23 0.21
39 63 0.56
40 2 0.02
41 20 0.18
ACGTcount: A:0.17, C:0.22, G:0.29, T:0.32
Consensus pattern (39 bp):
GCCTAGTAGGCTTTGTGCCGATGACTTATCAGGCTTTGA
Found at i:10978536 original size:77 final size:80
Alignment explanation
Indices: 10978367--10978542 Score: 225
Period size: 78 Copynumber: 2.2 Consensus size: 80
10978357 CGAGTCTTGG
* * * * *
10978367 GCCTAGTAGGCTTTATGCCGATGTATTGTATCGGGCCTTGAGCCTAATAGGCTTTGTGCCGGTGA
1 GCCTAGCAGGCTTCATGCCGATGTACTGTATCAGGCCTTGAGCCTAATAGGCTTTGTGCCGATGA
10978432 CTTATCAGGCTTTGA
66 CTTATCAGGCTTTGA
* *
10978447 GCCTAGCAGGCTTCATGCCGATG-ACT-TATCAGGCTTTGAGCGTAATAGGCTTTGTGCCGATG-
1 GCCTAGCAGGCTTCATGCCGATGTACTGTATCAGGCCTTGAGCCTAATAGGCTTTGTGCCGATGA
* *
10978509 TTTATCGGGC-TTGA
66 CTTATCAGGCTTTGA
*
10978523 TGCCTAGCAGGCTTCGTGCC
1 -GCCTAGCAGGCTTCATGCC
10978543 TGTGTAATGA
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
76 4 0.05
77 26 0.31
78 32 0.38
79 2 0.02
80 21 0.25
ACGTcount: A:0.17, C:0.22, G:0.29, T:0.32
Consensus pattern (80 bp):
GCCTAGCAGGCTTCATGCCGATGTACTGTATCAGGCCTTGAGCCTAATAGGCTTTGTGCCGATGA
CTTATCAGGCTTTGA
Found at i:10989764 original size:29 final size:31
Alignment explanation
Indices: 10989732--10989789 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
10989722 GTAAATACTC
**
10989732 AAAATTT-AAGGGTTAA-AGTGTAAATATGA
1 AAAATTTAAAGGAATAATAGTGTAAATATGA
10989761 AAAATTTAAAGGAATAATAGTGTAAATAT
1 AAAATTTAAAGGAATAATAGTGTAAATAT
10989790 TTAATGGTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 7 0.28
30 7 0.28
31 11 0.44
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.31
Consensus pattern (31 bp):
AAAATTTAAAGGAATAATAGTGTAAATATGA
Found at i:10991998 original size:13 final size:13
Alignment explanation
Indices: 10991980--10992005 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10991970 AAGGTTGTAT
10991980 TTAAAAAATTTTG
1 TTAAAAAATTTTG
10991993 TTAAAAAATTTTG
1 TTAAAAAATTTTG
10992006 ATTTTTGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TTAAAAAATTTTG
Found at i:11001576 original size:25 final size:25
Alignment explanation
Indices: 11001548--11001804 Score: 73
Period size: 26 Copynumber: 10.0 Consensus size: 25
11001538 ACTATTATCC
11001548 ATTTTAATTTTGTTATATATTATTT
1 ATTTTAATTTTGTTATATATTATTT
*** ** *
11001573 ATTTTTAAACCATCATATATATTTTTT
1 A-TTTT-AATTTTGTTATATATTATTT
*
11001600 ATTTTGAATTGTTTTTATATATATCATTT
1 ATTTT-AATT-TTGTTATATAT-T-ATTT
* *
11001629 -TTTTAAACTGTT-TTGTATATTA-TT
1 ATTTT-AA-TTTTGTTATATATTATTT
* * *
11001653 ATTTTAAACTTCTTTTTACATATTACTT
1 ATTTT-AA-TT-TTGTTATATATTATTT
*
11001681 ATATTAATCTTT-TTATATATTA--T
1 ATTTTAAT-TTTGTTATATATTATTT
* * * **
11001704 -TTTAAATTGTCTTATATGCTATTT
1 ATTTTAATTTTGTTATATATTATTT
* * *
11001728 ATTTTAA-ATTGATTTGTATACTATTT
1 ATTTTAATTTTG--TTATATATTATTT
* *
11001754 ATTTTAATTTGTTTTACATATTATTT
1 ATTTTAATTT-TGTTATATATTATTT
* * * *
11001780 ACTTTAA-ATTGTTTTATACTATTT
1 ATTTTAATTTTGTTATATATTATTT
11001804 A
1 A
11001805 CTTCGAATTG
Statistics
Matches: 170, Mismatches: 43, Indels: 39
0.67 0.17 0.15
Matches are distributed among these distances:
21 2 0.01
22 13 0.08
23 1 0.01
24 16 0.09
25 26 0.15
26 50 0.29
27 42 0.25
28 16 0.09
29 4 0.02
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.60
Consensus pattern (25 bp):
ATTTTAATTTTGTTATATATTATTT
Found at i:11001619 original size:29 final size:30
Alignment explanation
Indices: 11001587--11001658 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 30
11001577 TTAAACCATC
* *
11001587 ATATATATTTTTTATTTTGAATTGTTTT-T
1 ATATATATTTTTTATTTTAAACTGTTTTGT
**
11001616 ATATATATCATTT-TTTTAAACTGTTTTGT
1 ATATATATTTTTTATTTTAAACTGTTTTGT
11001645 ATAT-TATTATTTTA
1 ATATATATT-TTTTA
11001659 AACTTCTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
28 15 0.44
29 19 0.56
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.64
Consensus pattern (30 bp):
ATATATATTTTTTATTTTAAACTGTTTTGT
Found at i:11001733 original size:26 final size:25
Alignment explanation
Indices: 11001700--11001804 Score: 122
Period size: 26 Copynumber: 4.1 Consensus size: 25
11001690 TTTTTATATA
*
11001700 TTATTTTAAATTGTCTTATATGCTAT
1 TTATTTTAAATTGT-TTATATACTAT
*
11001726 TTATTTTAAATTGATTTGTATACTAT
1 TTATTTTAAATTG-TTTATATACTAT
* * *
11001752 TTATTTTAATTTGTTTTACATATTAT
1 TTATTTTAAATTG-TTTATATACTAT
*
11001778 TTACTTTAAATTGTTT-TATACTAT
1 TTATTTTAAATTGTTTATATACTAT
11001802 TTA
1 TTA
11001805 CTTCGAATTG
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
24 9 0.13
25 3 0.04
26 54 0.81
27 1 0.01
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.60
Consensus pattern (25 bp):
TTATTTTAAATTGTTTATATACTAT
Found at i:11001779 original size:52 final size:50
Alignment explanation
Indices: 11001465--11001829 Score: 180
Period size: 52 Copynumber: 7.2 Consensus size: 50
11001455 TTTTCTCCAT
* * * **
11001465 ATATCATTTATTTTAAATTGTTTTAT--TATTTATTTCAAGTT-TTCCAC
1 ATATTATTTATTTTAAATTGTTTTATACTATTTATTTTAATTTGTTTTAC
* * * * * * *
11001512 ATATCATGTATTTTAAATTATTTCAAACTATTATCCATTTTAATTT-TGTTAT
1 ATATTATTTATTTTAAATTGTTTTATACTATT-T--ATTTTAATTTGTTTTAC
* ** * * * *
11001564 ATATTATTTATTTTTAAACCATCATATATATTTTTTATTTTGAA-TTGTTTTTAT
1 ATATTATTTA-TTTTAAA--TTGTTTTATACTATTTATTTT-AATTTG-TTTTAC
* *
11001618 ATATATCATTT-TTTTAAACTGTTTTGTA-TATTATTATTTTAAACTTCT-TTTTAC
1 ATAT-T-ATTTATTTTAAATTGTTTTATACTA-T-TTATTTT-AA-TT-TGTTTTAC
* * * * *
11001672 ATATTACTTATATT-AATCT-TTTTATA-TA-TTATTTTAAATTGTCTTAT
1 ATATTATTTATTTTAAAT-TGTTTTATACTATTTATTTTAATTTGTTTTAC
**
11001719 ATGCTATTTATTTTAAATTGATTTGTATACTATTTATTTTAATTTGTTTTAC
1 ATATTATTTATTTTAAATTG-TTT-TATACTATTTATTTTAATTTGTTTTAC
* ** *
11001771 ATATTATTTACTTTAAATTGTTTTATACTATTTACTTCGAA-TTGTTCTAC
1 ATATTATTTATTTTAAATTGTTTTATACTATTTA-TTTTAATTTGTTTTAC
11001821 ATATTATTT
1 ATATTATTT
11001830 TTGTTTCGTT
Statistics
Matches: 241, Mismatches: 49, Indels: 53
0.70 0.14 0.15
Matches are distributed among these distances:
46 1 0.00
47 38 0.16
48 5 0.02
49 14 0.06
50 33 0.14
51 10 0.04
52 77 0.32
53 23 0.10
54 26 0.11
55 9 0.04
56 5 0.02
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.58
Consensus pattern (50 bp):
ATATTATTTATTTTAAATTGTTTTATACTATTTATTTTAATTTGTTTTAC
Found at i:11001816 original size:50 final size:52
Alignment explanation
Indices: 11001723--11001829 Score: 148
Period size: 50 Copynumber: 2.1 Consensus size: 52
11001713 TCTTATATGC
* ** *
11001723 TATTTATTTTAAATTGATTTGTATACTATTTATTTTAATTTGTTTTACATAT
1 TATTTACTTTAAATTGATTTGTATACTATTTATTCGAATTTGTTCTACATAT
11001775 TATTTACTTTAAATTG-TTT-TATACTATTTACTTCGAA-TTGTTCTACATAT
1 TATTTACTTTAAATTGATTTGTATACTATTTA-TTCGAATTTGTTCTACATAT
11001825 TATTT
1 TATTT
11001830 TTGTTTCGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
50 28 0.56
51 7 0.14
52 15 0.30
ACGTcount: A:0.28, C:0.07, G:0.06, T:0.59
Consensus pattern (52 bp):
TATTTACTTTAAATTGATTTGTATACTATTTATTCGAATTTGTTCTACATAT
Found at i:11002998 original size:21 final size:22
Alignment explanation
Indices: 11002966--11003027 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
11002956 GTTTCCATTC
*
11002966 AGCTCTTTTGAGCTTCT-GTTTA
1 AGCTCTTATGAGCTTCTCG-TTA
*
11002988 A-CTCTTATGAG-TTTTCGTTA
1 AGCTCTTATGAGCTTCTCGTTA
11003008 AGCTCTTATGAGCTT-TCGTT
1 AGCTCTTATGAGCTTCTCGTT
11003028 CAACCCATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
20 7 0.20
21 25 0.71
22 3 0.09
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.48
Consensus pattern (22 bp):
AGCTCTTATGAGCTTCTCGTTA
Found at i:11004231 original size:10 final size:11
Alignment explanation
Indices: 11004203--11004240 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
11004193 TTTATGATTG
*
11004203 GTTTTTGAAAT
1 GTTTATGAAAT
11004214 GTTTATGAAAT
1 GTTTATGAAAT
11004225 G-TTATGAAAT
1 GTTTATGAAAT
*
11004235 TTTTAT
1 GTTTAT
11004241 ATTTGATCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.53
Consensus pattern (11 bp):
GTTTATGAAAT
Found at i:11008486 original size:48 final size:50
Alignment explanation
Indices: 11008386--11008543 Score: 142
Period size: 49 Copynumber: 3.2 Consensus size: 50
11008376 AAGCTCTTCC
* * *
11008386 GAGCCATATAACGGGAAGCTCATGTGAGCCATGTAACGGGAAGCTCATAA
1 GAGCCATATAACGGGAAGCTCATGCGAGCCATATAACGGGAAGCTCAGAA
* * * *
11008436 GAGCCCTAT-ACGGGAAGCTCATGCGAGCTA-ATATCGGGAAGCTCCGAA
1 GAGCCATATAACGGGAAGCTCATGCGAGCCATATAACGGGAAGCTCAGAA
** * * ** * *
11008484 GAGCCAT-TAATTAGGAAGCTCGTACGAGCCATATGTCGGGAAGCTCCGGA
1 GAGCCATATAA-CGGGAAGCTCATGCGAGCCATATAACGGGAAGCTCAGAA
*
11008534 GGGCCATATA
1 GAGCCATATA
11008544 TTGGGACGCT
Statistics
Matches: 88, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
47 1 0.01
48 21 0.24
49 34 0.39
50 30 0.34
51 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.29, T:0.18
Consensus pattern (50 bp):
GAGCCATATAACGGGAAGCTCATGCGAGCCATATAACGGGAAGCTCAGAA
Done.