Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold35
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: 4812169
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 17994 characters in sequence are not A, C, G, or T
File 23 of 30
Found at i:3620510 original size:13 final size:13
Alignment explanation
Indices: 3620492--3620516 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3620482 ATCACTTAAA
3620492 TGTATCGATACAT
1 TGTATCGATACAT
3620505 TGTATCGATACA
1 TGTATCGATACA
3620517 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3620581 original size:52 final size:52
Alignment explanation
Indices: 3620525--3620653 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
3620515 CACTGATCTT
*
3620525 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
3620577 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
3620629 TGTATCGATATATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
3620654 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:3624654 original size:22 final size:22
Alignment explanation
Indices: 3624626--3624670 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
3624616 CTAAGCAAAT
3624626 TATGAGAGCAGGTTATTATTGG
1 TATGAGAGCAGGTTATTATTGG
3624648 TATGAGAGCAGGTTATTATTGG
1 TATGAGAGCAGGTTATTATTGG
3624670 T
1 T
3624671 TGGCCCTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.04, G:0.31, T:0.38
Consensus pattern (22 bp):
TATGAGAGCAGGTTATTATTGG
Found at i:3625796 original size:19 final size:19
Alignment explanation
Indices: 3625772--3625834 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
3625762 TAGCCAAACT
3625772 TGTATCGATACAGCAAGTA
1 TGTATCGATACAGCAAGTA
3625791 TGTATCGAT--A-C-A--A
1 TGTATCGATACAGCAAGTA
3625804 TGTATCGATACAGCAAGTA
1 TGTATCGATACAGCAAGTA
3625823 TGTATCGATACA
1 TGTATCGATACA
3625835 ATGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 10 0.26
15 2 0.05
16 2 0.05
17 2 0.05
19 22 0.58
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.29
Consensus pattern (19 bp):
TGTATCGATACAGCAAGTA
Found at i:3625808 original size:13 final size:13
Alignment explanation
Indices: 3625790--3625847 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
3625780 TACAGCAAGT
3625790 ATGTATCGATACA
1 ATGTATCGATACA
3625803 ATGTATCGATACAGCAA
1 ATGTATCGAT--A-C-A
3625820 GTATGTATCGATACA
1 --ATGTATCGATACA
3625835 ATGTATCGATACA
1 ATGTATCGATACA
3625848 CAAAAAATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.59
15 2 0.05
16 2 0.05
17 2 0.05
19 10 0.26
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3625810 original size:32 final size:32
Alignment explanation
Indices: 3625772--3625847 Score: 152
Period size: 32 Copynumber: 2.4 Consensus size: 32
3625762 TAGCCAAACT
3625772 TGTATCGATACAGCAAGTATGTATCGATACAA
1 TGTATCGATACAGCAAGTATGTATCGATACAA
3625804 TGTATCGATACAGCAAGTATGTATCGATACAA
1 TGTATCGATACAGCAAGTATGTATCGATACAA
3625836 TGTATCGATACA
1 TGTATCGATACA
3625848 CAAAAAATTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (32 bp):
TGTATCGATACAGCAAGTATGTATCGATACAA
Found at i:3626881 original size:12 final size:12
Alignment explanation
Indices: 3626864--3626910 Score: 76
Period size: 13 Copynumber: 3.8 Consensus size: 12
3626854 CCTTCATACC
3626864 AAAAAAAAACCA
1 AAAAAAAAACCA
3626876 AAAAAAAAACCA
1 AAAAAAAAACCA
3626888 AGAAAAAAAACCA
1 A-AAAAAAAACCA
3626901 AAAATAAAAA
1 AAAA-AAAAA
3626911 AAACAAACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
12 16 0.48
13 17 0.52
ACGTcount: A:0.83, C:0.13, G:0.02, T:0.02
Consensus pattern (12 bp):
AAAAAAAAACCA
Found at i:3626882 original size:13 final size:13
Alignment explanation
Indices: 3626864--3626926 Score: 74
Period size: 13 Copynumber: 4.8 Consensus size: 13
3626854 CCTTCATACC
3626864 AAAAAAAAACC-A
1 AAAAAAAAACCAA
3626876 AAAAAAAAACCAA
1 AAAAAAAAACCAA
*
3626889 GAAAAAAAACCAAA
1 AAAAAAAAACC-AA
*
3626903 AATAAAAAAAACAA
1 AA-AAAAAAACCAA
*
3626917 ACAAAAAAAC
1 AAAAAAAAAC
3626927 AAACAAACAA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
12 11 0.26
13 18 0.42
14 6 0.14
15 8 0.19
ACGTcount: A:0.83, C:0.14, G:0.02, T:0.02
Consensus pattern (13 bp):
AAAAAAAAACCAA
Found at i:3626904 original size:32 final size:32
Alignment explanation
Indices: 3626868--3626952 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 32
3626858 CATACCAAAA
*
3626868 AAAAACCAAAAAAAA-AACCAAGAAAAA-AAACC
1 AAAAA-CAAAAAAAACAAACAA-AAAAACAAACC
*
3626900 AAAAATAAAAAAAACAAACAAAAAAACAAA-C
1 AAAAACAAAAAAAACAAACAAAAAAACAAACC
*
3626931 --AAAC-AAATAAACAAACAAAAAA
1 AAAAACAAAAAAAACAAACAAAAAA
3626953 GGGGTCTAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
28 17 0.36
29 3 0.06
31 14 0.30
32 13 0.28
ACGTcount: A:0.81, C:0.15, G:0.01, T:0.02
Consensus pattern (32 bp):
AAAAACAAAAAAAACAAACAAAAAAACAAACC
Found at i:3626922 original size:12 final size:11
Alignment explanation
Indices: 3626863--3626952 Score: 76
Period size: 12 Copynumber: 7.9 Consensus size: 11
3626853 CCCTTCATAC
*
3626863 CAAAAAAAAAC
1 CAAAAAAAAAA
3626874 CAAAAAAAAAA
1 CAAAAAAAAAA
3626885 CCAAGAAAAAAAA
1 -CAA-AAAAAAAA
* *
3626898 C-CAAAAATAA
1 CAAAAAAAAAA
*
3626908 -AAAAAACAAA
1 CAAAAAAAAAA
3626918 CAAAAAAACAAA
1 CAAAAAAA-AAA
*
3626930 CAAACAAATAAA
1 CAAA-AAAAAAA
3626942 CAAACAAAAAA
1 CAAA-AAAAAA
3626953 GGGGTCTAGA
Statistics
Matches: 64, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
10 13 0.20
11 16 0.25
12 24 0.38
13 11 0.17
ACGTcount: A:0.81, C:0.16, G:0.01, T:0.02
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:3626930 original size:4 final size:4
Alignment explanation
Indices: 3626911--3626949 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
3626901 AAAATAAAAA
* *
3626911 AAAC AAAC AAAA AAAC AAAC AAAC AAAT AAAC AAAC AAA
1 AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAA
3626950 AAAGGGGTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.79, C:0.18, G:0.00, T:0.03
Consensus pattern (4 bp):
AAAC
Found at i:3626931 original size:16 final size:16
Alignment explanation
Indices: 3626906--3626949 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
3626896 AACCAAAAAT
3626906 AAAAA-AAACAAACAA
1 AAAAACAAACAAACAA
3626921 AAAAACAAACAAACAA
1 AAAAACAAACAAACAA
*
3626937 ATAAACAAACAAA
1 AAAAACAAACAAA
3626950 AAAGGGGTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
15 5 0.19
16 22 0.81
ACGTcount: A:0.82, C:0.16, G:0.00, T:0.02
Consensus pattern (16 bp):
AAAAACAAACAAACAA
Found at i:3628292 original size:30 final size:29
Alignment explanation
Indices: 3628205--3628971 Score: 700
Period size: 28 Copynumber: 26.4 Consensus size: 29
3628195 CGTTCATCTC
* * * *
3628205 TTCAAAGCCCACAGGTCAATGGC-ATCTT
1 TTCAAAGCCCACAAGTCAGTGGCAACCCT
*
3628233 TTCAAAGCCTACAAGTCAGTGGC-ACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAACCCT
3628261 TTCAAAGCCCACAAGTCCA-TGGCATACCCT
1 TTCAAAGCCCACAAGT-CAGTGGCA-ACCCT
* *
3628291 TTCAAAGCCCACACAAGTCGGTGGCAACTCT
1 TTCAAAG-CC-CACAAGTCAGTGGCAACCCT
* *
3628322 CTTCAAAAGCCCACAAGTCAGTGGCATCTC-
1 -TTC-AAAGCCCACAAGTCAGTGGCAACCCT
3628352 TTCAAAAGCCCACAAGTCAGTGGC-ACCCT
1 TTC-AAAGCCCACAAGTCAGTGGCAACCCT
* * *
3628381 TTTAAAGCCCACACAAGTCGGTGGCAACTCTT
1 TTCAAAG-CC-CACAAGTCAGTGGCAAC-CCT
* * * *
3628413 TTCAAAGCCTACAAGTCAATGGCATCTC-
1 TTCAAAGCCCACAAGTCAGTGGCAACCCT
* * * *
3628441 TTCAGAAGACCACAAGTTAGTGGC-ATCAT
1 TTCA-AAGCCCACAAGTCAGTGGCAACCCT
3628470 TTCAAAGCCCACAAGTCAGTGGCATACCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-ACCCT
*
3628500 TTCAAAGCCCACAAGTC-GATGGC-ACCAT
1 TTCAAAGCCCACAAGTCAG-TGGCAACCCT
*
3628528 TTCAAAGCCCACACAAGTC-GATGGCAACTCTT
1 TTCAAAG-CC-CACAAGTCAG-TGGCAAC-CCT
*
3628560 TTCAAAGCCCACAAGTCAGTGGC-ACTCT
1 TTCAAAGCCCACAAGTCAGTGGCAACCCT
*
3628588 TTCAAAGCCCACAAGTC-GATGGC-ACTCT
1 TTCAAAGCCCACAAGTCAG-TGGCAACCCT
* * * *
3628616 TTCAAATTCCACACAAATCGGTGGCAACTCTT
1 TTCAAA-GCC-CACAAGTCAGTGGCAAC-CCT
*
3628648 TTCAAAGCCCCCAAGT-AGGTGGC-ACCCT
1 TTCAAAGCCCACAAGTCA-GTGGCAACCCT
* * * *
3628676 TTCAAAACCCACAAGTTAGTGGC-ATCTT
1 TTCAAAGCCCACAAGTCAGTGGCAACCCT
3628704 TTCAAAG-CCACAAGTCAGTGGC-ACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAACCCT
* * * *
3628731 TTCAAAGCTCGCAAGTTAGTGGCGTACCCT
1 TTCAAAGCCCACAAGTCAGTGGC-AACCCT
* *
3628761 TTCAAAGCCCACAAATTAGTGGC-ACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAACCCT
* *
3628789 TCCAAAGCCCACAAGTTAGTGGC-ACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAACCCT
3628817 TTCAAAGCCCACAAGTCAGTGGC-ACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAACCCT
* * *
3628845 TCCAAAGCCCACAAGTTAGTGG-AACCTT
1 TTCAAAGCCCACAAGTCAGTGGCAACCCT
3628873 TTCAAAGCCCACAAGTCAGTGGC-ACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAACCCT
* * *
3628901 TTCACAGCCCACAAGTCAGTGG-TACCCC
1 TTCAAAGCCCACAAGTCAGTGGCAACCCT
* *
3628929 TTCAAAGCCCACAAGTCAATGGCATCCCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-ACCCT
*
3628959 TTCAAACCCCACA
1 TTCAAAGCCCACA
3628972 CAAGTCGATG
Statistics
Matches: 621, Mismatches: 79, Indels: 76
0.80 0.10 0.10
Matches are distributed among these distances:
27 25 0.04
28 305 0.49
29 59 0.10
30 149 0.24
31 38 0.06
32 41 0.07
33 4 0.01
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (29 bp):
TTCAAAGCCCACAAGTCAGTGGCAACCCT
Found at i:3629143 original size:45 final size:47
Alignment explanation
Indices: 3629085--3629206 Score: 131
Period size: 48 Copynumber: 2.6 Consensus size: 47
3629075 AAGTCTGATA
* * * *
3629085 TCGCTTGCATTAAATCAACATATTG-GCACCTTT-ATTAGCTCAATG
1 TCGCTGGCCTTAAATCAACACATTGTCCACCTTTCATTAGCTCAATG
* * * *
3629130 TCGCTGGCCTTAAATTAGCACATTGTCCACTTTTCCTTTAGCTCAATG
1 TCGCTGGCCTTAAATCAACACATTGTCCACCTTT-CATTAGCTCAATG
* *
3629178 TCGCTGGCCTTGAATCAGCACATTGTCCA
1 TCGCTGGCCTTAAATCAACACATTGTCCA
3629207 TTTTTCCCTT
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
45 20 0.31
46 6 0.09
48 38 0.59
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (47 bp):
TCGCTGGCCTTAAATCAACACATTGTCCACCTTTCATTAGCTCAATG
Found at i:3629177 original size:48 final size:48
Alignment explanation
Indices: 3629119--3629250 Score: 192
Period size: 48 Copynumber: 2.8 Consensus size: 48
3629109 GGCACCTTTA
* *
3629119 TTAGCTCAATGTCGCTGGCCTTAAATTAGCACATTGTCCACTTTTCCT
1 TTAGCTCAATGTCGCTGGCCTTGAATTAGCACATTGTCCACTTTTCCC
* *
3629167 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCATTTTTCCC
1 TTAGCTCAATGTCGCTGGCCTTGAATTAGCACATTGTCCACTTTTCCC
* ** *
3629215 TTAGCTCGATGTCATTGGCCTTGAATTGGCACATTG
1 TTAGCTCAATGTCGCTGGCCTTGAATTAGCACATTG
3629251 GCACTCCTCT
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 75 1.00
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (48 bp):
TTAGCTCAATGTCGCTGGCCTTGAATTAGCACATTGTCCACTTTTCCC
Found at i:3630093 original size:20 final size:19
Alignment explanation
Indices: 3630017--3630091 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
3630007 TTTTACCCAG
3630017 ATGTATCGATACAATTTTCA
1 ATGTATCGATAC-ATTTTCA
* *
3630037 ATGTATCGATACATGTATGA
1 ATGTATCGATACAT-TTTCA
*
3630057 ATGTATCGTTACATTCTTCA
1 ATGTATCGATACATT-TTCA
*
3630077 ATGTATTGATACATT
1 ATGTATCGATACATT
3630092 CTATCTTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 3 0.07
20 43 0.93
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (19 bp):
ATGTATCGATACATTTTCA
Found at i:3630117 original size:71 final size:71
Alignment explanation
Indices: 3630037--3630212 Score: 228
Period size: 71 Copynumber: 2.5 Consensus size: 71
3630027 ACAATTTTCA
* * * * * *
3630037 ATGTATCGATACATGTATGAATGTATCGTTACAT-TCTTCAATGTATTGATACATTCTATCTTTT
1 ATGTATCGATACATATTTCAATGTATCGATACATGT-ATCAATGTATTGATACATTCGATCTTTT
3630101 TACCCAG
65 TACCCAG
* * * *
3630108 ATGTATCGATACATTTTTCAATGTATCAATACATGTATGAATGTATTGATACATTCGGTCTTTTT
1 ATGTATCGATACATATTTCAATGTATCGATACATGTATCAATGTATTGATACATTCGATCTTTTT
* *
3630173 TCCTAG
66 ACCCAG
3630179 ATGTATCGATACATATTTCAATGTATCGATACAT
1 ATGTATCGATACATATTTCAATGTATCGATACAT
3630213 CTTGTTAAAA
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
71 90 0.99
72 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (71 bp):
ATGTATCGATACATATTTCAATGTATCGATACATGTATCAATGTATTGATACATTCGATCTTTTT
ACCCAG
Found at i:3630133 original size:20 final size:20
Alignment explanation
Indices: 3630108--3630162 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
3630098 TTTTACCCAG
*
3630108 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTATCA
* * *
3630128 ATGTATCAATACATGTATGA
1 ATGTATCGATACATTTATCA
*
3630148 ATGTATTGATACATT
1 ATGTATCGATACATT
3630163 CGGTCTTTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTATCA
Found at i:3630141 original size:91 final size:91
Alignment explanation
Indices: 3629986--3630163 Score: 293
Period size: 91 Copynumber: 2.0 Consensus size: 91
3629976 TTTTACCTAG
* *
3629986 ATGTATCGATACATTATGTCTTTTTACCCAGATGTATCGATACAATTTTCAATGTATCGATACAT
1 ATGTATCGATACATTATATCTTTTTACCCAGATGTATCGATACAATTTTCAATGTATCAATACAT
*
3630051 GTATGAATGTATCGTTACATTCTTCA
66 GTATGAATGTATCGATACATTCTTCA
* * *
3630077 ATGTATTGATACATTCTATCTTTTTACCCAGATGTATCGATACATTTTTCAATGTATCAATACAT
1 ATGTATCGATACATTATATCTTTTTACCCAGATGTATCGATACAATTTTCAATGTATCAATACAT
*
3630142 GTATGAATGTATTGATACATTC
66 GTATGAATGTATCGATACATTC
3630164 GGTCTTTTTT
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
91 80 1.00
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (91 bp):
ATGTATCGATACATTATATCTTTTTACCCAGATGTATCGATACAATTTTCAATGTATCAATACAT
GTATGAATGTATCGATACATTCTTCA
Found at i:3634449 original size:22 final size:22
Alignment explanation
Indices: 3634421--3634473 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
3634411 GGCTTAATGT
*
3634421 ACAGTGATGTATCGATACATGA
1 ACAGTGATGTATCGATACATAA
3634443 ACAGTGATGTATCGATACATAA
1 ACAGTGATGTATCGATACATAA
3634465 ACAGTGATG
1 ACAGTGATG
3634474 AATAGTGATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (22 bp):
ACAGTGATGTATCGATACATAA
Found at i:3634665 original size:21 final size:21
Alignment explanation
Indices: 3634625--3634665 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3634615 GTCAACGTTG
*
3634625 TGTATTGATACCAATAGTATA
1 TGTATTGATACCAACAGTATA
3634646 TGTATTGATA-CAACACGTAT
1 TGTATTGATACCAACA-GTAT
3634666 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (21 bp):
TGTATTGATACCAACAGTATA
Found at i:3635515 original size:13 final size:13
Alignment explanation
Indices: 3635497--3635522 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3635487 ATTTTGGTAA
3635497 GTATCGATACATT
1 GTATCGATACATT
3635510 GTATCGATACATT
1 GTATCGATACATT
3635523 TTGGTAAGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:3635520 original size:33 final size:33
Alignment explanation
Indices: 3635476--3635541 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
3635466 CATACTCAGA
3635476 TGTATCAATACATTTTGGTAAGTATCGATACAT
1 TGTATCAATACATTTTGGTAAGTATCGATACAT
*
3635509 TGTATCGATACATTTTGGTAAGTATCGATACAT
1 TGTATCAATACATTTTGGTAAGTATCGATACAT
3635542 AGCATTGGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (33 bp):
TGTATCAATACATTTTGGTAAGTATCGATACAT
Found at i:3635535 original size:20 final size:20
Alignment explanation
Indices: 3635477--3635541 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 20
3635467 ATACTCAGAT
*
3635477 GTATCAATACATTTTGGTAA
1 GTATCGATACATTTTGGTAA
3635497 GTATCGATACA---T--T--
1 GTATCGATACATTTTGGTAA
3635510 GTATCGATACATTTTGGTAA
1 GTATCGATACATTTTGGTAA
3635530 GTATCGATACAT
1 GTATCGATACAT
3635542 AGCATTGGCA
Statistics
Matches: 37, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
13 11 0.30
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
20 22 0.59
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (20 bp):
GTATCGATACATTTTGGTAA
Found at i:3635625 original size:22 final size:22
Alignment explanation
Indices: 3635600--3635658 Score: 118
Period size: 22 Copynumber: 2.7 Consensus size: 22
3635590 CACAGTATTA
3635600 ATACATCACTGTTCATGTATCG
1 ATACATCACTGTTCATGTATCG
3635622 ATACATCACTGTTCATGTATCG
1 ATACATCACTGTTCATGTATCG
3635644 ATACATCACTGTTCA
1 ATACATCACTGTTCA
3635659 CACTATTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.36
Consensus pattern (22 bp):
ATACATCACTGTTCATGTATCG
Found at i:3636162 original size:34 final size:35
Alignment explanation
Indices: 3636099--3636165 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
3636089 CTAAGTGATT
3636099 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
3636135 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
3636166 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:3637107 original size:166 final size:164
Alignment explanation
Indices: 3636906--3637205 Score: 440
Period size: 165 Copynumber: 1.8 Consensus size: 164
3636896 TTTTATTATT
** * ***
3636906 ATTTTTTTATTTTTGAAAATTTCATTCCGTACCTTAATAAAAATCTGGAAAGATACGAAAAGTTT
1 ATTTTTTTATTTTTGAAAATACCATTCCGTACCTTAAT-AAAAGCCCAAAAGATACGAAAAGTTT
* * *
3636971 TTAAAATCTTTTATACCCCTACGAATGCCCATAGGAATATAAAGGATT-GAATAAAATGATTAAA
65 TTAAAATCTTTTATACCCCTACGAATGCCCATAAGAATATAAAAGATTAGAAGAAAATGATTAAA
3637035 ATTTATTTCAATTATGAAAGTGTTAATCTAATTCA
130 ATTTATTTCAATTATGAAAGTGTTAATCTAATTCA
** *
3637070 ATTTTATTTATTTTTTGAAAATACCATTTTGTACCTTAATGAAAGCCCAAAAGATACGAAAAGTT
1 ATTTT-TTTA-TTTTTGAAAATACCATTCCGTACCTTAATAAAAGCCCAAAAGATACGAAAAGTT
* *
3637135 TTTGAAATCTTTTATACCCCTACGAATGCCCATAAGAATATAAAAGATTAGAAGAAAATGATTTA
64 TTTAAAATCTTTTATACCCCTACGAATGCCCATAAGAATATAAAAGATTAGAAGAAAATGATTAA
3637200 AATTTA
129 AATTTA
3637206 ATTTTTACTA
Statistics
Matches: 119, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
164 5 0.04
165 70 0.59
166 44 0.37
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (164 bp):
ATTTTTTTATTTTTGAAAATACCATTCCGTACCTTAATAAAAGCCCAAAAGATACGAAAAGTTTT
TAAAATCTTTTATACCCCTACGAATGCCCATAAGAATATAAAAGATTAGAAGAAAATGATTAAAA
TTTATTTCAATTATGAAAGTGTTAATCTAATTCA
Found at i:3639135 original size:227 final size:227
Alignment explanation
Indices: 3638858--3639297 Score: 614
Period size: 227 Copynumber: 1.9 Consensus size: 227
3638848 AAACTGATTT
* *
3638858 AATAAATAATAATATTTGATGAATTTAAAAAATTTAAAAACAAGAAAAATC-CTCCAAAAAAATT
1 AATAAATAATAATATTTGATAAATTTAAAAAATTTAAAAACAAAAAAAATCTC-CCAAAAAAATT
** * * *
3638922 TATGGAGTAGAAAACTCTATTTTTCAAAAATAAGGGAATTTTAAGAAAAAAATTCAAAAACTCAT
65 TACAGAGTAGAAAACTCCATTTTTCAAAAACAAGAGAATTTTAAGAAAAAAATTCAAAAACTCAT
* **
3638987 GAAAATGAACGAATTTTTTAAAACTAATTTAATATGAAATAAATAATAATCTTTTATCAATTTTA
130 GAAAATGAACGAATTTTTGAAAACTAATTTAATATGAAATAAATAATAATAATTTATCAATTTTA
3639052 AAAATTAAAAACCAAGAAACGGATTTAATATGA
195 AAAATTAAAAACCAAGAAACGGATTTAATATGA
* * *
3639085 AATAAATAATAATATTTTATAAATTTTAAAAA-TTAAAAACTAAAAAAAATCTCCCGAAAAAATT
1 AATAAATAATAATATTTGATAAATTTAAAAAATTTAAAAAC-AAAAAAAATCTCCCAAAAAAATT
* * * * *
3639149 TACAGAGTAGAAAACTCCGTTTTTCGAAAACATGAGAATTTTAAGAAAAAAATTTAAAAAGTCAT
65 TACAGAGTAGAAAACTCCATTTTTCAAAAACAAGAGAATTTTAAGAAAAAAATTCAAAAACTCAT
* * * * * **
3639214 GAAAATGAATGTATTTTTGAATATTTATTTAATATGAAATAAATAATAATAATTTATGTATTTTA
130 GAAAATGAACGAATTTTTGAAAACTAATTTAATATGAAATAAATAATAATAATTTATCAATTTTA
*
3639279 AAAATTAAAAACTAAGAAA
195 AAAATTAAAAACCAAGAAA
3639298 AATCCCCCCA
Statistics
Matches: 185, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
226 8 0.04
227 176 0.95
228 1 0.01
ACGTcount: A:0.53, C:0.07, G:0.08, T:0.32
Consensus pattern (227 bp):
AATAAATAATAATATTTGATAAATTTAAAAAATTTAAAAACAAAAAAAATCTCCCAAAAAAATTT
ACAGAGTAGAAAACTCCATTTTTCAAAAACAAGAGAATTTTAAGAAAAAAATTCAAAAACTCATG
AAAATGAACGAATTTTTGAAAACTAATTTAATATGAAATAAATAATAATAATTTATCAATTTTAA
AAATTAAAAACCAAGAAACGGATTTAATATGA
Found at i:3639440 original size:161 final size:162
Alignment explanation
Indices: 3639068--3639623 Score: 646
Period size: 161 Copynumber: 3.4 Consensus size: 162
3639058 AAAAACCAAG
* * *
3639068 AAACGGATTTAATATGAAATAAATAATAATATTTTATAAATTTTAAAAATTAAAAACTAAAAAAA
1 AAACTGATTTAATATGAAATAAATAATAATATTTGATAAATTTTAAAAATTAAAAACTAAGAAAA
** *
3639133 ATCTCCCGAAAAAATTTAC-AGAGTAGAAAACTCCGTTTTTCGAAAACATGAGAATTTTAAGAAA
66 ATCTCCC--AAAAATTTACGA-AGTAGAAAACTTTGTTTTTCGAAAACAAGAGAATTTTAAGAAA
* *
3639197 AAAATTTAAAAAGTCATGAAAATGAATGTATTTTTGA
128 AAAA-TTAAAAAATCATGAAAATG-ATGAATTTTTGA
* * * **
3639234 ATATTTATTTAATATGAAATAAATAATAATAATTT-ATGTATTTTAAAAATTAAAAACTAAGAAA
1 AAACTGATTTAATATGAAATAAATAATAAT-ATTTGATAAATTTTAAAAATTAAAAACTAAGAAA
** * * * * * * * *
3639298 AATC-CCC-CCAATTTACGAATTAGAAAATTTTATTTTTCAAAAATAGGAAAATTTTAAG-AATA
65 AATCTCCCAAAAATTTACGAAGTAGAAAACTTTGTTTTTCGAAAACAAGAGAATTTTAAGAAAAA
* *
3639360 AATTAAAAAATGATTGAAAATGGATGAATTTTTTA
130 AATTAAAAAATCA-TGAAAAT-GATGAATTTTTGA
* *
3639395 AAACTGACTTAATATGAAATAAATAATAATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAA
1 AAACTGATTTAATATGAAATAAATAATAATATTTGATAAATTTTAAAAATTAAAAACTAAGAAAA
* *
3639460 TTTCTCCCAAAAAAATTTACGAAGTAGAAAACTTTGTTTTTTGAAAACAAGAGAATTTTAAGAAA
66 -ATCTCCC--AAAAATTTACGAAGTAGAAAACTTTGTTTTTCGAAAACAAGAGAATTTTAAGAAA
*
3639525 AAAATTCAAAAACTCAT---AA--ATGAATTTTTGA
128 AAAATT-AAAAAATCATGAAAATGATGAATTTTTGA
* *
3639556 AAACTGATTTACTATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAA
1 AAACTGATTTAATATGAAATAAATAATAATATTTGATAAATTTTAAAAATTAAAAACTAAGAAAA
3639621 ATC
66 ATC
3639624 CTCTCGAAAA
Statistics
Matches: 328, Mismatches: 50, Indels: 30
0.80 0.12 0.07
Matches are distributed among these distances:
160 15 0.05
161 147 0.45
162 41 0.12
163 4 0.01
164 2 0.01
165 3 0.01
166 97 0.30
167 12 0.04
168 7 0.02
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (162 bp):
AAACTGATTTAATATGAAATAAATAATAATATTTGATAAATTTTAAAAATTAAAAACTAAGAAAA
ATCTCCCAAAAATTTACGAAGTAGAAAACTTTGTTTTTCGAAAACAAGAGAATTTTAAGAAAAAA
ATTAAAAAATCATGAAAATGATGAATTTTTGA
Found at i:3640897 original size:301 final size:300
Alignment explanation
Indices: 3640354--3640929 Score: 972
Period size: 301 Copynumber: 1.9 Consensus size: 300
3640344 GTAAAAAAGA
* *
3640354 AAAATAACAGATAAATTTACACAAAACAAACGCACAAAAATACATAAAAAAGAGGGACGATCAAA
1 AAAATAACAGACAAATTTACACAAAACAAACGCACAAAAATACATAAAAAAGAAGGACGATCAAA
* * *
3640419 GTGTGTCTCATGATTGTCTTTGATTAATGAGGTATAATCGTGATAACAATGTTGAGACTTGATTG
66 GTGTATCTCATGATTGTCTTCGATTAATGAGGTATAATCGTGATAACAATGTTGAGACTTGATTA
*
3640484 GATTCTGTGAGGTTTTAGAAAATGATCTAGAGGTGCCCCAAAGAAAAGTTTGGAATTTAAAAGAA
131 GATTCTGTAAGGTTTTAGAAAATGATCTAGAGGTGCCCCAAAGAAAAGTTTGGAATTTAAAAGAA
*
3640549 ATTAAAAAATAGGGTTAGAATATTCCCTCAGGGTACGCCACTGGAGTACATCCCCCGATAAAAAG
196 ATTAAAAAACAGGGTTAGAATATTCCCTCAGGGTACGCCACTGGAGTACATCCCCCGAT-AAAAG
3640614 TTTAATATTTTAGAGAAAATCGAGGTTGAAGTATCTCCTCG
260 TTTAATATTTTAGAGAAAATCGAGGTTGAAGTATCTCCTCG
* * * *
3640655 AAAATAACAGACAAATTTACACAAAACAAATGCACAAAAGTACATAAAAAGGAAGGATGATCAAA
1 AAAATAACAGACAAATTTACACAAAACAAACGCACAAAAATACATAAAAAAGAAGGACGATCAAA
3640720 GTGTATCTCATGATTGTCTTCGATTAATGAGGTATAATCGTGATAACAATGTTGAGACTTGATTA
66 GTGTATCTCATGATTGTCTTCGATTAATGAGGTATAATCGTGATAACAATGTTGAGACTTGATTA
* * * *
3640785 GATTCTGTAAGGTTTTAGAAAATGATCTAGAGGTGTCCTAGAGAAAAGTTTGGAATTTAAAATAA
131 GATTCTGTAAGGTTTTAGAAAATGATCTAGAGGTGCCCCAAAGAAAAGTTTGGAATTTAAAAGAA
* * *
3640850 ATTAAAAAACAGGGTTAGAATATTCTCTCAGGGTACGCGATTGGAGTACATCCCCCGATAAAAGT
196 ATTAAAAAACAGGGTTAGAATATTCCCTCAGGGTACGCCACTGGAGTACATCCCCCGATAAAAGT
*
3640915 TTAATATTTTGGAGA
261 TTAATATTTTAGAGA
3640930 TAAAACCGAG
Statistics
Matches: 256, Mismatches: 19, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
300 20 0.08
301 236 0.92
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.28
Consensus pattern (300 bp):
AAAATAACAGACAAATTTACACAAAACAAACGCACAAAAATACATAAAAAAGAAGGACGATCAAA
GTGTATCTCATGATTGTCTTCGATTAATGAGGTATAATCGTGATAACAATGTTGAGACTTGATTA
GATTCTGTAAGGTTTTAGAAAATGATCTAGAGGTGCCCCAAAGAAAAGTTTGGAATTTAAAAGAA
ATTAAAAAACAGGGTTAGAATATTCCCTCAGGGTACGCCACTGGAGTACATCCCCCGATAAAAGT
TTAATATTTTAGAGAAAATCGAGGTTGAAGTATCTCCTCG
Found at i:3641093 original size:79 final size:79
Alignment explanation
Indices: 3640921--3641123 Score: 237
Period size: 79 Copynumber: 2.6 Consensus size: 79
3640911 AAGTTTAATA
* * * * * * * *
3640921 TTTTGGAGATAAAACCGAGGTTAGAGTATCCCTTAAAAAATAATGGGGTTAGAGTATCCTCGATT
1 TTTTGGAAATAAAATCGGGGTTGGAGTATCCCTTCAAAAATAATGGGGTCAGAATATCCCCGATT
*
3640986 ATAAAAAATCGGTG
66 ATAAAAAATCGATG
** * *
3641000 TTTTAAAAATAAAATCGGGGTTGGAGTATCCCTTCGAAAATAATGGGGTCGGAATATCCCCGATT
1 TTTTGGAAATAAAATCGGGGTTGGAGTATCCCTTCAAAAATAATGGGGTCAGAATATCCCCGATT
* *
3641065 GTGAAAAATCGATG
66 ATAAAAAATCGATG
* *
3641079 TTTTGGAAATAAAATTGGTGTTGGAGTATCTCC-TCAAAAATAATG
1 TTTTGGAAATAAAATCGGGGTTGGAGTATC-CCTTCAAAAATAATG
3641124 ATGTTGGGGT
Statistics
Matches: 103, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
79 101 0.98
80 2 0.02
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (79 bp):
TTTTGGAAATAAAATCGGGGTTGGAGTATCCCTTCAAAAATAATGGGGTCAGAATATCCCCGATT
ATAAAAAATCGATG
Found at i:3641138 original size:107 final size:106
Alignment explanation
Indices: 3641017--3641245 Score: 293
Period size: 107 Copynumber: 2.2 Consensus size: 106
3641007 AATAAAATCG
* * *
3641017 GGGTTGGAGTATCCCTTCGAAAATAATGGGG-TCGGAATATCCCCGATTGTGAAAAATCGA-TGT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGCT-GGAATATCCCCGATTGTGAAAAAT-GAGTAT
* *
3641080 TTTGGAAATAAAATTG-GTGTTGGAGTATCTCCTCAAAAATAAT
64 TTTGGAAATAAAACTGAG-GTTGGAGTATCCCCTCAAAAATAAT
* * * * *
3641123 GATGTTGGGGTATCCCCTCGAAAATAACGGGGCTGGAGTATCCTCGATTGTGAAAAATTAGTATT
1 G-GGTTGGAGTATCCCCTCGAAAATAACGGGGCTGGAATATCCCCGATTGTGAAAAATGAGTATT
**
3641188 TTGGAAATAAAACTGAGGTTGGAGTATCCCCTCGGAAATAAT
65 TTGGAAATAAAACTGAGGTTGGAGTATCCCCTCAAAAATAAT
3641230 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
3641246 AATTATGAAA
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
106 15 0.14
107 88 0.84
108 2 0.02
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (106 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGGGGCTGGAATATCCCCGATTGTGAAAAATGAGTATTT
TGGAAATAAAACTGAGGTTGGAGTATCCCCTCAAAAATAAT
Found at i:3641163 original size:28 final size:28
Alignment explanation
Indices: 3641100--3641165 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 28
3641090 AAATTGGTGT
* * * *
3641100 TGGAGTATCTCCTCAAAAATAATGATGT
1 TGGAGTATCCCCTCAAAAATAACGAGGC
* * *
3641128 TGGGGTATCCCCTCGAAAATAACGGGGC
1 TGGAGTATCCCCTCAAAAATAACGAGGC
3641156 TGGAGTATCC
1 TGGAGTATCC
3641166 TCGATTGTGA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (28 bp):
TGGAGTATCCCCTCAAAAATAACGAGGC
Found at i:3641277 original size:78 final size:79
Alignment explanation
Indices: 3641126--3641306 Score: 242
Period size: 78 Copynumber: 2.3 Consensus size: 79
3641116 AAATAATGAT
* * * * * *
3641126 GTTGGGGTATCCCCTCGAAAATAACGGGGCTGGAGTATCCTCGATTGTGAAAAATTAGTATTTTG
1 GTTGGAGTATCCCCTCGGAAATAACGGGGCTGGAGTATCCCCAATTATGAAAAATGAGTATTTTG
3641191 GAAATAAAACTGAG
66 GAAATAAAACTGAG
* *
3641205 GTTGGAGTATCCCCTCGGAAATAA-TGGGTTGGAGTATCCCCAATTATGAAAAATCGATGT-TTT
1 GTTGGAGTATCCCCTCGGAAATAACGGGGCTGGAGTATCCCCAATTATGAAAAAT-GA-GTATTT
3641268 T-GAAATAAAACTGAG
64 TGGAAATAAAACTGAG
*
3641283 GTTGGAGTATCCCCTCGGGAATAA
1 GTTGGAGTATCCCCTCGGAAATAA
3641307 AAACATGAAT
Statistics
Matches: 91, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
78 62 0.68
79 27 0.30
80 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.28
Consensus pattern (79 bp):
GTTGGAGTATCCCCTCGGAAATAACGGGGCTGGAGTATCCCCAATTATGAAAAATGAGTATTTTG
GAAATAAAACTGAG
Found at i:3646545 original size:28 final size:28
Alignment explanation
Indices: 3646446--3647100 Score: 842
Period size: 28 Copynumber: 23.0 Consensus size: 28
3646436 TAAAAAAAAT
3646446 GGTGCCACTAACTTGTGTGGGCTTTGAAAAG
1 GGTGCCACTAAC-T-TGTGGGCTTTG-AAAG
* *
3646477 AGTTGCCACTGACTCATGTGGGCTTTGAAAAG
1 -GGTGCCACTAACT--TGTGGGCTTTG-AAAG
*
3646509 AGTGCCACTAACTTGTGGGCTTTGAAAG
1 GGTGCCACTAACTTGTGGGCTTTGAAAG
*
3646537 GGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTAACTTGTGGGCTTTGAAAG
*
3646565 GATGCCACTAACTTGTGGGCTTTGAAAG
1 GGTGCCACTAACTTGTGGGCTTTGAAAG
* *
3646593 GATGCCACTGACTTGTGGGCTTTGAAAAG
1 GGTGCCACTAACTTGTGGGCTTTG-AAAG
* *
3646622 AGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTAACTTGTGGGCTTTGAAAG
*
3646650 GGTGCCACTAACTTGTGGACTTTGAAAG
1 GGTGCCACTAACTTGTGGGCTTTGAAAG
*
3646678 GGTGCCACTAACTTGTGGGCTTTGAAAT
1 GGTGCCACTAACTTGTGGGCTTTGAAAG
**
3646706 GACGCCACTAACTTGTGGGCTTTGAAAAG
1 GGTGCCACTAACTTGTGGGCTTTG-AAAG
** **
3646735 AATGCCACTGCCTTGTGGGCTTTGAAAG
1 GGTGCCACTAACTTGTGGGCTTTGAAAG
3646763 GGTGCCACTAACTTGTGGGCTTTGAAAG
1 GGTGCCACTAACTTGTGGGCTTTGAAAG
* * *
3646791 GGTGCCACTGACTTCTGTGCTTTGAAAG
1 GGTGCCACTAACTTGTGGGCTTTGAAAG
** *
3646819 GGCACCACTAACTTATGGGCTTTGAAAG
1 GGTGCCACTAACTTGTGGGCTTTGAAAG
*
3646847 GATGCCACTAACTTGTGGGCTTTGAAAAG
1 GGTGCCACTAACTTGTGGGCTTTG-AAAG
* * *
3646876 AGTGCCACTGACTTTTGGGCTTTGAAAG
1 GGTGCCACTAACTTGTGGGCTTTGAAAG
*
3646904 AGTGCCACTAACTTGTGGGCTTTGAAAAG
1 GGTGCCACTAACTTGTGGGCTTTG-AAAG
* * * *
3646933 AGTGCCACTGACTTCTAGGCTTTGAAAG
1 GGTGCCACTAACTTGTGGGCTTTGAAAG
* *
3646961 GGTGCCACTGACTTCTGGGCTTTGAAAG
1 GGTGCCACTAACTTGTGGGCTTTGAAAG
*
3646989 GGTGCCACTCACTTGTGGGCTTTGAAAG
1 GGTGCCACTAACTTGTGGGCTTTGAAAG
*
3647017 GATGCCACTAACTTGTGGGCTTTGAAAAG
1 GGTGCCACTAACTTGTGGGCTTTG-AAAG
* *
3647046 AGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTAACTTGTGGGCTTTGAAAG
* *
3647074 AGTGCCACTGACTTGTGGGCTTTGAAA
1 GGTGCCACTAACTTGTGGGCTTTGAAA
3647101 AGATGAACGT
Statistics
Matches: 558, Mismatches: 59, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
28 387 0.69
29 134 0.24
31 11 0.02
32 26 0.05
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (28 bp):
GGTGCCACTAACTTGTGGGCTTTGAAAG
Found at i:3646632 original size:85 final size:85
Alignment explanation
Indices: 3646447--3647105 Score: 871
Period size: 85 Copynumber: 7.7 Consensus size: 85
3646437 AAAAAAAATG
* * * *
3646447 GTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACTGACTCATGTGGGCTTTGAAAAGAGT
1 GTGCCACTGAC-T-TGTGGGCTTTG-AAAG-GATGCCACTAACT--TGTGGGCTTTGAAAGGA-T
*
3646512 GCCACTAACTTGTGGGCTTTG-AAAGG
59 GCCACTAACTTGTGGGCTTTGAAAAGA
*
3646538 GTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTG
1 GTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTA
3646603 ACTTGTGGGCTTTGAAAAGA
66 ACTTGTGGGCTTTGAAAAGA
* * *
3646623 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGACTTTGAAAGGGTGCCACTA
1 GTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTA
*
3646688 ACTTGTGGGCTTTGAAATGA
66 ACTTGTGGGCTTTGAAAAGA
* * * ** *
3646708 -CGCCACTAACTTGTGGGCTTTGAAAAGAATGCCACTGCCTTGTGGGCTTTGAAAGGGTGCCACT
1 GTGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACT
*
3646772 AACTTGTGGGCTTTG-AAAGG
65 AACTTGTGGGCTTTGAAAAGA
* * *** *
3646792 GTGCCACTGACTTCTGTGCTTTGAAAGGGCACCACTAACTTATGGGCTTTGAAAGGATGCCACTA
1 GTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTA
3646857 ACTTGTGGGCTTTGAAAAGA
66 ACTTGTGGGCTTTGAAAAGA
* *
3646877 GTGCCACTGACTTTTGGGCTTTGAAA-GAGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTGAAAGGA-TGCCAC
* * * *
3646941 TGACTTCTAGGCTTTG-AAAGG
64 TAACTTGTGGGCTTTGAAAAGA
* * *
3646962 GTGCCACTGACTTCTGGGCTTTGAAAGGGTGCCACTCACTTGTGGGCTTTGAAAGGATGCCACTA
1 GTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTA
3647027 ACTTGTGGGCTTTGAAAAGA
66 ACTTGTGGGCTTTGAAAAGA
* *
3647047 GTGCCACTGACTTGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTGAAAAGATG
1 GTGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTGAAAGGATG
3647106 AACGTTCTAG
Statistics
Matches: 503, Mismatches: 56, Indels: 24
0.86 0.10 0.04
Matches are distributed among these distances:
84 113 0.22
85 333 0.66
86 20 0.04
87 11 0.02
88 4 0.01
89 11 0.02
90 1 0.00
91 10 0.02
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (85 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTA
ACTTGTGGGCTTTGAAAAGA
Found at i:3646652 original size:113 final size:113
Alignment explanation
Indices: 3646448--3647100 Score: 909
Period size: 113 Copynumber: 5.7 Consensus size: 113
3646438 AAAAAAATGG
*
3646448 TGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACTGACTCATGTGGGCTTTGAAAAGAGTG
1 TGCCACTAAC-T-TGTGGGCTTTG-AAAG-GATGCCACTGACT--TGTGGGCTTTGAAAAGAGTG
* *
3646513 CCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGA
60 CCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGA
3646567 TGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTG
1 TGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTG
* *
3646632 ACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGACTTTGAAAGGG
66 ACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGA
* * * *
3646680 TGCCACTAACTTGTGGGCTTTGAAATGACGCCACTAACTTGTGGGCTTTGAAAAGAATGCCACTG
1 TGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTG
* *
3646745 CCTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGG
66 ACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGA
* * * *** * * * *
3646793 TGCCACTGACTTCTGTGCTTTGAAAGGGCACCACTAACTTATGGGCTTTGAAAGGA-TGCCACTA
1 TGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTG
* * *
3646857 ACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTTTGGGCTTTGAAA-GA
66 ACTTGTGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGA
* * * *
3646905 GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTCTAGGCTTTG-AAAGGGTGCCAC
1 -TGCCACTAACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
* *
3646969 TGACTTCTGGGCTTTGAAAGGGTGCCACTCACTTGTGGGCTTTGAAAGGA
64 TGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGA
*
3647019 TGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACT
1 TGCCACTAACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACT
3647083 GACTTGTGGGCTTTGAAA
65 GACTTGTGGGCTTTGAAA
3647101 AGATGAACGT
Statistics
Matches: 483, Mismatches: 46, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
112 21 0.04
113 385 0.80
114 39 0.08
115 12 0.02
116 4 0.01
117 11 0.02
118 1 0.00
119 10 0.02
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (113 bp):
TGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTG
ACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGA
Found at i:3648347 original size:19 final size:19
Alignment explanation
Indices: 3648318--3648369 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
3648308 GACCCCTTTC
*
3648318 TGTTTTTTTTTTTGCTATTT
1 TGTTCTTTTTTTTG-TATTT
*
3648338 T-TTCTTTTTTTTGTTTTT
1 TGTTCTTTTTTTTGTATTT
*
3648356 TGTTTTTTTTTTTG
1 TGTTCTTTTTTTTG
3648370 GGGTGTAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 5 0.18
19 22 0.79
20 1 0.04
ACGTcount: A:0.02, C:0.04, G:0.10, T:0.85
Consensus pattern (19 bp):
TGTTCTTTTTTTTGTATTT
Found at i:3648354 original size:16 final size:16
Alignment explanation
Indices: 3648335--3648365 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3648325 TTTTTTGCTA
3648335 TTTTTTCTTTTTTTTG
1 TTTTTTCTTTTTTTTG
*
3648351 TTTTTTGTTTTTTTT
1 TTTTTTCTTTTTTTT
3648366 TTTGGGGTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.03, G:0.06, T:0.90
Consensus pattern (16 bp):
TTTTTTCTTTTTTTTG
Found at i:3662477 original size:79 final size:79
Alignment explanation
Indices: 3662292--3662590 Score: 365
Period size: 79 Copynumber: 3.8 Consensus size: 79
3662282 TTTCATCTCA
** * * * *
3662292 GGGATACTCCAACCCCGGTTCCATTTCCAAAATATCAATTT-T--TCATCGAGGATACTCCAACC
1 GGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAACC
3662354 CCGTTATTTCCGAGG
66 CCGTTATTTCCGA-G
* * * * *
3662369 GGGATACTCCAACCCTGGCTTTATTTCTAAAATATTAATTTCTCATAATCGGGAATACTCCAACC
1 GGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAACC
*
3662434 CCGTTATTTCTGAG
66 CCGTTATTTCCGAG
* * *
3662448 GGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCCATC
1 GGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAACC
3662513 CCGTTATTTCCGAG
66 CCGTTATTTCCGAG
* * * *
3662527 GAGATACTCCAACCTCC-ATTTTATTTCTAAAACACCAA-TTCTCCACAATCGGGGATACTCCAA
1 GGGATACTCCAACC-CCGGTTTTATTTCTAAAACATCAATTTCT-CATAATCGGGGATACTCCAA
3662590 C
64 C
3662591 TCCGATTTTA
Statistics
Matches: 191, Mismatches: 26, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
77 35 0.18
78 4 0.02
79 121 0.63
80 31 0.16
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (79 bp):
GGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAACC
CCGTTATTTCCGAG
Found at i:3662610 original size:51 final size:50
Alignment explanation
Indices: 3662529--3662647 Score: 161
Period size: 51 Copynumber: 2.3 Consensus size: 50
3662519 TTTCCGAGGA
*
3662529 GATACTCCAACCTCCATTTTATTTCTAAAACACC-AA-TTCTCCACAATCGGG
1 GATACTCCAA-CTCCATTTTATTTCCAAAAC-CCTAATTTCT-CACAATCGGG
*
3662580 GATACTCCAACTCCGATTTTATTTCCAAAACCCTGATTTCTCACAATCGGG
1 GATACTCCAACTCC-ATTTTATTTCCAAAACCCTAATTTCTCACAATCGGG
*
3662631 GATACTCCAACCCCATT
1 GATACTCCAACTCCATT
3662648 ATTTCATCGG
Statistics
Matches: 62, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
50 9 0.15
51 49 0.79
52 4 0.06
ACGTcount: A:0.29, C:0.32, G:0.09, T:0.29
Consensus pattern (50 bp):
GATACTCCAACTCCATTTTATTTCCAAAACCCTAATTTCTCACAATCGGG
Found at i:3662657 original size:79 final size:79
Alignment explanation
Indices: 3662574--3662723 Score: 228
Period size: 79 Copynumber: 1.9 Consensus size: 79
3662564 ATTCTCCACA
* * *
3662574 ATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACCCTGATTTCTCACAATCGGGGATACTCC
1 ATCGGGGATACTCCAACCCCGACTTTATTTCCAAAACACTGATTTCTCACAATCGGGGATACTCC
3662639 AACCCCATTATTTC
66 AACCCCATTATTTC
* * * * *
3662653 ATCGGGGATACTTCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCACAATCGGGGATACTTC
1 ATCGGGGATACTCCAACCCCGACTTTATTTCCAAAACACTGATTTCTCACAATCGGGGATACTCC
3662718 AACCCC
66 AACCCC
3662724 GGCCTTATTT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 63 1.00
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGACTTTATTTCCAAAACACTGATTTCTCACAATCGGGGATACTCC
AACCCCATTATTTC
Found at i:3662713 original size:51 final size:51
Alignment explanation
Indices: 3662653--3662774 Score: 208
Period size: 51 Copynumber: 2.4 Consensus size: 51
3662643 CCATTATTTC
*
3662653 ATCGGGGATACTTCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCACA
1 ATCGGGGATACTTCAACCCCGGCCTTATTTCCAAAATATTGATTTCTCACA
* *
3662704 ATCGGGGATACTTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCATA
1 ATCGGGGATACTTCAACCCCGGCCTTATTTCCAAAATATTGATTTCTCACA
*
3662755 ATCGGGGATACTCCAACCCC
1 ATCGGGGATACTTCAACCCC
3662775 ATTATTTTTA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (51 bp):
ATCGGGGATACTTCAACCCCGGCCTTATTTCCAAAATATTGATTTCTCACA
Found at i:3662789 original size:79 final size:79
Alignment explanation
Indices: 3662706--3662853 Score: 190
Period size: 79 Copynumber: 1.9 Consensus size: 79
3662696 TTCTCACAAT
* * * *
3662706 CGGGGATACTTCAACCCCGGCCTTATTTCTAAAATATTGA-TTTCTCATAATCGGGGATACTCCA
1 CGGGGATACTCCAACCCCGACCTTATTTCTAAAACATTGATTTTCT-ATAATCGAGGATACTCCA
3662770 ACCCCATTATTTTTA
65 ACCCCATTATTTTTA
* * ** * *
3662785 CGGGGATACTCCAATCCTGATTTTATTTTTAAAACATTGATTTTCTATAATCGAGGATACTCCAG
1 CGGGGATACTCCAACCCCGACCTTATTTCTAAAACATTGATTTTCTATAATCGAGGATACTCCAA
3662850 CCCC
66 CCCC
3662854 GTTGTTATCT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
79 53 0.91
80 5 0.09
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.34
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGACCTTATTTCTAAAACATTGATTTTCTATAATCGAGGATACTCCAA
CCCCATTATTTTTA
Found at i:3662824 original size:130 final size:128
Alignment explanation
Indices: 3662447--3662854 Score: 426
Period size: 130 Copynumber: 3.1 Consensus size: 128
3662437 TTATTTCTGA
** * * *
3662447 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCCAT
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTGATTTCTCATAATCGGGGATACTCCAAC
* * * ** *
3662512 CCCGTTA-TTTCCGAGGAGATACTCCAACCTCCATTTTATTTCTAAAACA-CCAATTCTCCACAA
66 CCCATTATTTTACG-GG-GATACTCCAACCT-GATTTTATTTCTAAAACATTGATTTCT-CACAA
3662575 TC
127 TC
* * * ** *
3662577 GGGGATACTCCAACTCCGATTTTATTTCCAAAACCCTGATTTCTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTGATTTCTCATAATCGGGGATACTCCAAC
* * * ** * *
3662642 CCCATTATTTCATCGGGGATACTTCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCACAATC
66 CCCATTATTTTA-CGGGGATACTCCAA-CCTGATTTTATTTCTAAAACATTGATTTCTCACAATC
* ** *
3662707 GGGGATACTTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTGATTTCTCATAATCGGGGATACTCCAAC
* *
3662772 CCCATTATTTTTACGGGGATACTCCAATCCTGATTTTATTTTTAAAACATTGATTT-TCTATAAT
66 CCCATTA-TTTTACGGGGATACTCCAA-CCTGATTTTATTTCTAAAACATTGATTTCTC-ACAAT
3662836 C
128 C
* *
3662837 GAGGATACTCCAGCCCCG
1 GGGGATACTCCAACCCCG
3662855 TTGTTATCTC
Statistics
Matches: 225, Mismatches: 47, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
129 2 0.01
130 206 0.92
131 15 0.07
132 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (128 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTGATTTCTCATAATCGGGGATACTCCAAC
CCCATTATTTTACGGGGATACTCCAACCTGATTTTATTTCTAAAACATTGATTTCTCACAATC
Found at i:3666665 original size:20 final size:20
Alignment explanation
Indices: 3666640--3666715 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
3666630 AAAAACGCAG
3666640 AATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
* *
3666660 AATGTATCGATACATTCAAT
1 AATGTATCGATACATTGAAA
* *
3666680 CATGTATCGATACATTGAAG
1 AATGTATCGATACATTGAAA
*
3666700 AATGTATCAATACATT
1 AATGTATCGATACATT
3666716 TGGGTACTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:3667873 original size:50 final size:50
Alignment explanation
Indices: 3667819--3667953 Score: 182
Period size: 50 Copynumber: 2.7 Consensus size: 50
3667809 AAAAATACTT
* * * * *
3667819 GAATGTATCGATATATTG-AGAAATGTATCGATTCATTTAGGTAAAACCCA
1 GAATGTATCGATACAATGAAG-AATGTATCGATACATCTAGGAAAAACCCA
* *
3667869 GAATGTATCGATACAATGAATAATGTATCGATACATCTAGGAAAAATCCA
1 GAATGTATCGATACAATGAAGAATGTATCGATACATCTAGGAAAAACCCA
*
3667919 GAATGTATCGGTACAATGAAGAATGTATCGATACA
1 GAATGTATCGATACAATGAAGAATGTATCGATACA
3667954 AATAGTGAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
50 74 0.99
51 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.28
Consensus pattern (50 bp):
GAATGTATCGATACAATGAAGAATGTATCGATACATCTAGGAAAAACCCA
Found at i:3671580 original size:79 final size:78
Alignment explanation
Indices: 3671476--3671729 Score: 266
Period size: 79 Copynumber: 3.2 Consensus size: 78
3671466 TTTTTATTAC
* * * * *
3671476 CAAAATA-TCAATTTTTTACCATCGGGGATATTCCAACCTCGTTATTTTTTAGGGGAAACTCAAA
1 CAAAATATTAAATTTTTCATCATCGGGGATACTCCAACCTCGTTATTTTTAAGGGGAAACTCAAA
3671540 TCCCGTTTTTAATTT
66 -CCC-TTTTTAATTT
* * * *
3671555 CAAAATATTAAAATTTTCATC-TCGGGGATACTCCAACCCCGTTATTTTTAAGGGGATACTCTAA
1 CAAAATATTAAATTTTTCATCATCGGGGATACTCCAACCTCGTTATTTTTAAGGGGAAACTCAAA
*
3671619 CTCTATCTTT-ATTT
66 CCCT-T-TTTAATTT
* * * *
3671633 CCAAAATA-TAGATTTTTCATCATTGGGGATACTCCAACCTCGTTATTTTCAA-GGGAATACTCC
1 -CAAAATATTAAATTTTTCATCATCGGGGATACTCCAACCTCGTTATTTTTAAGGGGAA-ACTCA
*
3671696 AACTCCATTTTTATTTT
64 AAC-CC-TTTTTAATTT
3671713 CAAAATATTAAATTTTT
1 CAAAATATTAAATTTTT
3671730 TTTACTTCGA
Statistics
Matches: 145, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 22 0.15
79 99 0.68
80 22 0.15
81 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.39
Consensus pattern (78 bp):
CAAAATATTAAATTTTTCATCATCGGGGATACTCCAACCTCGTTATTTTTAAGGGGAAACTCAAA
CCCTTTTTAATTT
Found at i:3671760 original size:79 final size:79
Alignment explanation
Indices: 3671460--3671762 Score: 260
Period size: 79 Copynumber: 3.8 Consensus size: 79
3671450 TTTAAAGGAT
* ** * * * * *
3671460 ACTCTATTTTTATTACCAAAATA-TCAATTTTTTACCATCGGGGATATTCCAACCTCGTTATTTT
1 ACTCCATTTTTATTTTCAAAATATTAAATTTTTCATCTTCGGGGATACTCCAACC-CGTTA-TTT
* *
3671524 TTAGGGGAA-ACT-CA
64 TCAAGGGAATACTCCA
* * * *
3671538 AATCCCGTTTTTAATTTCAAAATATTAAAATTTTCATC-TCGGGGATACTCCAACCCCGTTATTT
1 ACT-CCATTTTTATTTTCAAAATATTAAATTTTTCATCTTCGGGGATACTCCAA-CCCGTTATTT
* * *
3671602 TTAAGGGGATACTCTA
64 TCAAGGGAATACTCCA
* * * *
3671618 ACTCTATCTTTATTTCCAAAATA-TAGATTTTTCATCATT-GGGGATACTCCAACCTCGTTATTT
1 ACTCCATTTTTATTTTCAAAATATTAAATTTTTCATC-TTCGGGGATACTCCAACC-CGTTATTT
3671681 TCAAGGGAATACTCCA
64 TCAAGGGAATACTCCA
** * * *
3671697 ACTCCATTTTTATTTTCAAAATATTAAATTTTTTTTACTTCGAGGATACTCTAACCC-TGATTTT
1 ACTCCATTTTTATTTTCAAAATATTAAATTTTTCAT-CTTCGGGGATACTCCAACCCGTTATTTT
3671761 CA
65 CA
3671763 CCAAAAATTG
Statistics
Matches: 180, Mismatches: 34, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
78 25 0.14
79 114 0.63
80 27 0.15
81 14 0.08
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (79 bp):
ACTCCATTTTTATTTTCAAAATATTAAATTTTTCATCTTCGGGGATACTCCAACCCGTTATTTTC
AAGGGAATACTCCA
Found at i:3671760 original size:158 final size:158
Alignment explanation
Indices: 3671460--3671760 Score: 369
Period size: 158 Copynumber: 1.9 Consensus size: 158
3671450 TTTAAAGGAT
* * *
3671460 ACTCTATTTTTATTACCAAAATATCAATTTTTTACCATCGGGGATATTCCAACCTCGTTATTTTT
1 ACTCTATCTTTATTACCAAAATATCAATTTTTCACCATCGGGGATACTCCAACCTCGTTATTTTT
* * * *
3671525 TAGGGGAAACTCAAATCCCGTTTTTAATTTCAAAATATTAAAATTTTCATCTCGGGGATACTCCA
66 CAAGGGAAACTCAAATCCCATTTTTAATTTCAAAATATTAAAATTTTCATCTCGAGGATACTCCA
*
3671590 ACCCCGTTATTTTTAAGGGGATACTCTA
131 ACCCCGTGATTTTTAAGGGGATACTCTA
* * *
3671618 ACTCTATCTTTATTTCCAAAATAT-AGATTTTTCATCATTGGGGATACTCCAACCTCGTTA-TTT
1 ACTCTATCTTTATTACCAAAATATCA-ATTTTTCACCATCGGGGATACTCCAACCTCGTTATTTT
* * * **
3671681 TCAAGGGAATACTCCAA-CTCCATTTTTATTTTCAAAATATTAAATTTTTTTTACTTCGAGGATA
65 TCAAGGGAA-ACTCAAATC-CCATTTTTAATTTCAAAATATTAAAATTTTCAT-C-TCGAGGATA
*
3671745 CTCTAA-CCC-TGATTTT
126 CTCCAACCCCGTGATTTT
3671761 CACCAAAAAT
Statistics
Matches: 121, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
157 12 0.10
158 92 0.76
159 4 0.03
160 13 0.11
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.41
Consensus pattern (158 bp):
ACTCTATCTTTATTACCAAAATATCAATTTTTCACCATCGGGGATACTCCAACCTCGTTATTTTT
CAAGGGAAACTCAAATCCCATTTTTAATTTCAAAATATTAAAATTTTCATCTCGAGGATACTCCA
ACCCCGTGATTTTTAAGGGGATACTCTA
Found at i:3678350 original size:14 final size:15
Alignment explanation
Indices: 3678316--3678345 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3678306 TTATTTTTTT
*
3678316 AATAATTTTTAATAA
1 AATAATTTTAAATAA
3678331 AATAATTTTAAATAA
1 AATAATTTTAAATAA
3678346 TTAATACAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AATAATTTTAAATAA
Found at i:3680486 original size:19 final size:19
Alignment explanation
Indices: 3680462--3680505 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
3680452 AAATACAAAT
3680462 TAAAATTTTTGTAAATTAA
1 TAAAATTTTTGTAAATTAA
3680481 TAAAATTTTTGTAAATTAA
1 TAAAATTTTTGTAAATTAA
3680500 TAAAAT
1 TAAAAT
3680506 AGCAAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
TAAAATTTTTGTAAATTAA
Found at i:3682783 original size:13 final size:13
Alignment explanation
Indices: 3682765--3682790 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3682755 CAATTTTTTG
3682765 TGTATCGATACAT
1 TGTATCGATACAT
3682778 TGTATCGATACAT
1 TGTATCGATACAT
3682791 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3682805 original size:32 final size:33
Alignment explanation
Indices: 3682745--3682808 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
3682735 TACAAGCCAA
** *
3682745 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
3682778 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
3682809 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:3685528 original size:166 final size:164
Alignment explanation
Indices: 3685317--3685745 Score: 513
Period size: 156 Copynumber: 2.6 Consensus size: 164
3685307 TTGTTTGGGA
** * * *
3685317 GGATTTTTCTTAATTTTTAATTTTTAAAATTCGTCAAATATCATTATTTATTTCATATTAATTTA
1 GGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAACATCATTATTTATTTCATATTAATTCA
3685382 GTTTTCAAAAATTCATTCATTTTCATGAGTTTCTGATTTTTTTCCTTGAAACTTCCC-TTTTT-C
66 GTTTTCAAAAATT-ATTCATTTTCATGAGTTT-TGATTTTTTTCCTTGAAAC-TCCCATTTTTCC
* * *
3685445 TGAAATACGATTTTTTCTACTATGTAAAGTTTTT-GAGG
128 T-AAATACGATGTTTTCTACTACGTAAA-TTTTTCAAGG
* * * *
3685483 GGATTTTTCTTGGTTTTTAATTTTTTAAATTCATCAAACATCATTATTTATTTTACAATAATTCA
1 GGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAACATCATTATTTATTTCATATTAATTCA
*
3685548 GTTTTC-AAAA--ATTCA--TTCAT---TTTTGATTTTTTTCTTTGAAACTCCCATTTTTCCTAA
66 GTTTTCAAAAATTATTCATTTTCATGAGTTTTGATTTTTTTCCTTGAAACTCCCATTTTTCCTAA
* *
3685605 ATACGGTGTTTTCTACTCCGTAAATTTTTCAAGG
131 ATACGATGTTTTCTACTACGTAAATTTTTCAAGG
* * * * *
3685639 TGATTTTTCTCGGTTTTCAATTTTTAAAATTCATAAAACATCATCATTTGA-TTCATATTAATTC
1 GGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAACATCATTATTT-ATTTCATATTAATTC
*
3685703 AGTTTTAAAAAATTAATTCATTTTCATGAGTTTTGGATTTTTT
65 AGTTTTCAAAAATT-ATTCATTTTCATGAGTTTT-GATTTTTT
3685746 GTTTAAATTT
Statistics
Matches: 224, Mismatches: 25, Indels: 28
0.81 0.09 0.10
Matches are distributed among these distances:
155 9 0.04
156 107 0.48
157 10 0.04
160 10 0.04
162 10 0.04
165 8 0.04
166 70 0.31
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.51
Consensus pattern (164 bp):
GGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAACATCATTATTTATTTCATATTAATTCA
GTTTTCAAAAATTATTCATTTTCATGAGTTTTGATTTTTTTCCTTGAAACTCCCATTTTTCCTAA
ATACGATGTTTTCTACTACGTAAATTTTTCAAGG
Found at i:3693630 original size:13 final size:13
Alignment explanation
Indices: 3693612--3693639 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3693602 ACAATGTTCT
3693612 TTGTATCGATACA
1 TTGTATCGATACA
3693625 TTGTATCGATACA
1 TTGTATCGATACA
3693638 TT
1 TT
3693640 AGTTACTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3696211 original size:13 final size:13
Alignment explanation
Indices: 3696193--3696219 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3696183 ACATCATGCT
3696193 TTGTATCGATACA
1 TTGTATCGATACA
3696206 TTGTATCGATACA
1 TTGTATCGATACA
3696219 T
1 T
3696220 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3696249 original size:20 final size:19
Alignment explanation
Indices: 3696203--3696258 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
3696193 TTGTATCGAT
**
3696203 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATAC
*
3696222 TCATTGTATCGATACATAC
1 ACATTGTATCGATACATAC
*
3696241 ACAATTGTATCAATACAT
1 AC-ATTGTATCGATACAT
3696259 GAAACTGGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (19 bp):
ACATTGTATCGATACATAC
Found at i:3699202 original size:158 final size:154
Alignment explanation
Indices: 3698883--3699397 Score: 572
Period size: 154 Copynumber: 3.3 Consensus size: 154
3698873 AGGATCGCTA
* * * * *
3698883 AGTACTTTCACGTCGAAGGTATCCCTTAAGGGTATTTTCATAATTTTTTAGAATCGAGTCTTAGG
1 AGTACTTTTACGTCGAAGGTATCCTTTAAGGGTATTTTCGTAATTTTTTAGAAACGAGTCCTAGG
** * * *
3698948 TTGTCACCGAGTCTATTTTTATGCTGAAGGTGGGCATTTAGGATAGGTTAATCCCTTTTCTAGTC
66 TTGTCACCGAGTCGCTTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTAGTC
* *
3699013 TTTTTAGGTCCTTTAGGGTTGCCGG
131 TTTTTAGGTCCTTTAGGGGTACC-G
* ** * *
3699038 GGTACTTTTACGTCGAAGGTATACCTATTGGGGGTATTTTCGTAATTTCTTAAAAACGAGTCCTA
1 AGTACTTTTACGTCGAAGGTAT-CCT-TTAAGGGTATTTTCGTAATTTTTTAGAAACGAGTCCTA
3699103 GGTTGTCACCGAGTCCGCTTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCACCATTTCT
64 GGTTGTCACCGAGT-CGCTTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATC-CCATTTCT
* * *
3699168 AGTCTTTTTAAGTCATTTAGGGGTATCG
127 AGTCTTTTTAGGTCCTTTAGGGGTACCG
* * * * *
3699196 AGTACTTTTACGTCGAAGGTATCCTTTATA-AGCATTTTCGTAATTTTTTAGAACCAACTCCTAG
1 AGTACTTTTACGTCGAAGGTATCCTTTA-AGGGTATTTTCGTAATTTTTTAGAAACGAGTCCTAG
* * *
3699260 GTCGTCATC-AGGTACGC-TTTTATGCCGAAGGTGGGCATTTAGGATAAGTTCATCCCATTTCTA
65 GTTGTCACCGA-GT-CGCTTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTA
** *
3699323 G-CATTTTTAGGTCCTTTAAAGGTAGC-
128 GTC-TTTTTAGGTCCTTTAGGGGTACCG
* * * * * *
3699349 AGGTACTTTTATGTCAAAGGTATCCCTTAGGGGCATTTTCATAATTTTT
1 A-GTACTTTTACGTCGAAGGTATCCTTTAAGGGTATTTTCGTAATTTTT
3699398 CTTGAACTTA
Statistics
Matches: 306, Mismatches: 45, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
153 2 0.01
154 68 0.22
155 57 0.19
156 43 0.14
157 48 0.16
158 59 0.19
159 29 0.09
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (154 bp):
AGTACTTTTACGTCGAAGGTATCCTTTAAGGGTATTTTCGTAATTTTTTAGAAACGAGTCCTAGG
TTGTCACCGAGTCGCTTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTAGTC
TTTTTAGGTCCTTTAGGGGTACCG
Found at i:3701034 original size:39 final size:39
Alignment explanation
Indices: 3700991--3701065 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
3700981 CTTTGAGACT
*
3700991 TGATCCTAAATAAGACTTACTTCAAGGGCCTTTAAAACG
1 TGATCCTAAATAAGACTTACTTCAAGGACCTTTAAAACG
* * * * *
3701030 TGATCTTGAATGAGATTTACTTCAAGGACTTTTAAA
1 TGATCCTAAATAAGACTTACTTCAAGGACCTTTAAA
3701066 TTTGATCTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (39 bp):
TGATCCTAAATAAGACTTACTTCAAGGACCTTTAAAACG
Found at i:3702671 original size:21 final size:21
Alignment explanation
Indices: 3702614--3702671 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
3702604 TGCTAGCAAT
* * *
3702614 ATGTATCGATACATTCACATG
1 ATGTATTGATACATTTACATA
3702635 ATGTATTGATACATTTACATA
1 ATGTATTGATACATTTACATA
*
3702656 ATGTATTGATAAATTT
1 ATGTATTGATACATTT
3702672 TCACTTGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATTGATACATTTACATA
Found at i:3704991 original size:13 final size:13
Alignment explanation
Indices: 3704973--3704998 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3704963 CATTTTTCAG
3704973 TGTATCGATACAT
1 TGTATCGATACAT
3704986 TGTATCGATACAT
1 TGTATCGATACAT
3704999 CTAGGAAGTT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3707429 original size:28 final size:28
Alignment explanation
Indices: 3707396--3707496 Score: 141
Period size: 28 Copynumber: 3.6 Consensus size: 28
3707386 ATTTTTCATC
* *
3707396 GGGGATACTCCAACCTCGTTATTTTCAA
1 GGGGATACTCCAACCCCGTTATTTTCGA
3707424 GGGGATACTCCAAACCCCGTTATTTTCGA
1 GGGGATACTCC-AACCCCGTTATTTTCGA
*
3707453 GGGGATACTCCAACCCCATT-TTTCTCGA
1 GGGGATACTCCAACCCCGTTATTT-TCGA
*
3707481 GGGGATACCCCAACCC
1 GGGGATACTCCAACCC
3707497 TGGCTTTATT
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
27 3 0.04
28 38 0.57
29 26 0.39
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.26
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTTCGA
Found at i:3707545 original size:79 final size:79
Alignment explanation
Indices: 3707453--3707733 Score: 325
Period size: 79 Copynumber: 3.6 Consensus size: 79
3707443 TTATTTTCGA
*
3707453 GGGGATACTCCAACCCCATT-TTTCTCGAGGGGATACCCCAACCCTGGCTTTATTTCTAAAATAT
1 GGGGATACTCCAACCCCATTATTT-TCGAGGGGATACCCCAACCCTGGTTTTATTTCTAAAATAT
* *
3707517 TAATTTCTCATAATC
65 CAATTTTTCATAATC
* ** * *
3707532 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATAATCCAACCCCGGTTTTATTTCTAAAACATC
1 GGGGATACTCCAACCCCATTATTTTCGAGGGGATACCCCAACCCTGGTTTTATTTCTAAAATATC
* *
3707597 AATTTTTTATAGTC
66 AATTTTTCATAATC
* * * * * *
3707611 GGGGATACTTCAACCCCGTTATTTTCGAGGGGATGCCCCAATCCTGATTTTATTT-TCAAATCAT
1 GGGGATACTCCAACCCCATTATTTTCGAGGGGATACCCCAACCCTGGTTTTATTTCTAAAAT-AT
* *
3707675 CGATTTTTCACAA-C
65 CAATTTTTCATAATC
* * *
3707689 TGAGGATACTCCAACCCCATTATTTTCAAGGGGATACTCCAACCC
1 -GGGGATACTCCAACCCCATTATTTTCGAGGGGATACCCCAACCC
3707734 CATTATTATC
Statistics
Matches: 169, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
78 5 0.03
79 161 0.95
80 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCCCATTATTTTCGAGGGGATACCCCAACCCTGGTTTTATTTCTAAAATATC
AATTTTTCATAATC
Found at i:3707748 original size:158 final size:158
Alignment explanation
Indices: 3707453--3707750 Score: 379
Period size: 158 Copynumber: 1.9 Consensus size: 158
3707443 TTATTTTCGA
* *
3707453 GGGGATACTCCAACCCCATTTTTCTCGAGGGGATACCCCAACCCTGGCTTTATTTCTAAAATATT
1 GGGGATACTCCAACCCCATTTTTCTCGAGGGGATACCCCAACCCTGACTTTATTTCTAAAATATC
* * * * *
3707518 AATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATAATCCAACCCCGGTTTT
66 AATTTCTCACAATCGAGGATACTCCAACCCCATTATTTTCAAGGGGATAATCCAACCCCGATTTT
*
3707583 ATTTCTAAAACATCAATTTTTTATAGTC
131 ATCTCTAAAACATCAATTTTTTATAGTC
* * * * * *
3707611 GGGGATACTTCAACCCCGTTATTT-TCGAGGGGATGCCCCAATCCTGATTTTATTT-TCAAATCA
1 GGGGATACTCCAACCCCATT-TTTCTCGAGGGGATACCCCAACCCTGACTTTATTTCTAAAAT-A
* * *
3707674 TCGATTTTTCACAA-CTGAGGATACTCCAACCCCATTATTTTCAAGGGGATACTCCAACCCC-AT
64 TCAATTTCTCACAATC-GAGGATACTCCAACCCCATTATTTTCAAGGGGATAATCCAACCCCGAT
3707737 TATTATCTCTAAAA
128 T-TTATCTCTAAAA
3707751 TATTAAATTT
Statistics
Matches: 119, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
157 8 0.07
158 108 0.91
159 3 0.03
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (158 bp):
GGGGATACTCCAACCCCATTTTTCTCGAGGGGATACCCCAACCCTGACTTTATTTCTAAAATATC
AATTTCTCACAATCGAGGATACTCCAACCCCATTATTTTCAAGGGGATAATCCAACCCCGATTTT
ATCTCTAAAACATCAATTTTTTATAGTC
Found at i:3709936 original size:13 final size:13
Alignment explanation
Indices: 3709918--3709942 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3709908 CATAAAATGT
3709918 TGTATCGATACAA
1 TGTATCGATACAA
3709931 TGTATCGATACA
1 TGTATCGATACA
3709943 TATTTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3709958 original size:32 final size:33
Alignment explanation
Indices: 3709898--3709963 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
3709888 TTCAACGATT
3709898 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
** *
3709931 TGTATCGATACAT-ATTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
3709963 T
1 T
3709964 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:3710022 original size:13 final size:13
Alignment explanation
Indices: 3710004--3710028 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3709994 ATTACTCAAA
3710004 TGTATCGATACAT
1 TGTATCGATACAT
3710017 TGTATCGATACA
1 TGTATCGATACA
3710029 CTAATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3710093 original size:52 final size:52
Alignment explanation
Indices: 3710037--3710161 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
3710027 CACTAATCTT
*
3710037 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
3710089 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
3710141 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
3710162 CTTTTCATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:3723808 original size:11 final size:10
Alignment explanation
Indices: 3723788--3723839 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
3723778 CCTTCTTTTC
3723788 TAAAAAAAAA
1 TAAAAAAAAA
*
3723798 TTAAAATAAAA
1 -TAAAAAAAAA
3723809 TAAAAAAACAA
1 TAAAAAAA-AA
3723820 -AAACAAAAAA
1 TAAA-AAAAAA
*
3723830 CAAAAAAAAA
1 TAAAAAAAAA
3723840 AACAAAACAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
10 18 0.50
11 18 0.50
ACGTcount: A:0.85, C:0.06, G:0.00, T:0.10
Consensus pattern (10 bp):
TAAAAAAAAA
Found at i:3723816 original size:13 final size:12
Alignment explanation
Indices: 3723800--3723846 Score: 67
Period size: 13 Copynumber: 3.8 Consensus size: 12
3723790 AAAAAAAATT
*
3723800 AAAATAAAATAAA
1 AAAACAAAA-AAA
3723813 AAAACAAAAACAA
1 AAAACAAAAA-AA
3723826 AAAACAAAAAAA
1 AAAACAAAAAAA
3723838 AAAACAAAA
1 AAAACAAAA
3723847 CAAAGAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
12 12 0.38
13 20 0.62
ACGTcount: A:0.87, C:0.09, G:0.00, T:0.04
Consensus pattern (12 bp):
AAAACAAAAAAA
Found at i:3723821 original size:6 final size:6
Alignment explanation
Indices: 3723812--3723850 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
3723802 AATAAAATAA
*
3723812 AAAAAC AAAAAC AAAAAAC AAAAAA AAAAAC -AAAAC AAA
1 AAAAAC AAAAAC -AAAAAC AAAAAC AAAAAC AAAAAC AAA
3723851 GAAAAAGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 5 0.17
6 18 0.62
7 6 0.21
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:3723827 original size:12 final size:12
Alignment explanation
Indices: 3723812--3723850 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
3723802 AATAAAATAA
3723812 AAAAACAAAAAC
1 AAAAACAAAAAC
*
3723824 AAAAAACAAAAAA
1 -AAAAACAAAAAC
3723837 AAAAAC-AAAAC
1 AAAAACAAAAAC
3723848 AAA
1 AAA
3723851 GAAAAAGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 7 0.29
12 6 0.25
13 11 0.46
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAACAAAAAC
Found at i:3723828 original size:25 final size:24
Alignment explanation
Indices: 3723800--3723850 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 24
3723790 AAAAAAAATT
*
3723800 AAAATAAAATAAAAAAACAAAAACAA
1 AAAACAAAA-AAAAAAAC-AAAACAA
3723826 AAAACAAAAAAAAAAACAAAACAA
1 AAAACAAAAAAAAAAACAAAACAA
3723850 A
1 A
3723851 GAAAAAGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 8 0.33
25 8 0.33
26 8 0.33
ACGTcount: A:0.86, C:0.10, G:0.00, T:0.04
Consensus pattern (24 bp):
AAAACAAAAAAAAAAACAAAACAA
Found at i:3723855 original size:19 final size:17
Alignment explanation
Indices: 3723789--3723856 Score: 55
Period size: 19 Copynumber: 3.6 Consensus size: 17
3723779 CTTCTTTTCT
** *
3723789 AAAAAAAAATTAAAATA
1 AAAAAAAAAAAAAAACA
3723806 AAATAAAAAAACAAAAACAA
1 AAA-AAAAAAA-AAAAAC-A
3723826 AAAACAAAAAAAAAAACA
1 AAAA-AAAAAAAAAAACA
3723844 AAACAAAGAAAAA
1 AAA-AAA-AAAAA
3723857 GAGAGAAAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
17 3 0.07
18 12 0.29
19 17 0.40
20 10 0.24
ACGTcount: A:0.85, C:0.07, G:0.01, T:0.06
Consensus pattern (17 bp):
AAAAAAAAAAAAAAACA
Found at i:3724899 original size:55 final size:56
Alignment explanation
Indices: 3724803--3725123 Score: 359
Period size: 55 Copynumber: 5.6 Consensus size: 56
3724793 CTCCTTTCAC
*
3724803 TTTTCAGTCCTCAAAGAGCAGGATGCCTTTGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGATG-C--T-CTTTTCAAAGCCCACACGAGTTGGTGGCA
*
3724863 TTTTCCAGTCCTCAAAGAGCAGGATGC-CTTTT-AAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGATGCTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* *
3724918 TTTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAACCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGATGC----TCTTTTCAAAGCCCACACGAGTTGGTGGCA
* *
3724979 TTTTCCAG---TCGAAGAGCAGGATGCCTTTTCTTTTCAAAGCCCACATGAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGATG-C---TCTTTTCAAAGCCCACACGAGTTGGTGGCA
*
3725037 CCTTTCAGTCCTCAAAGAGCAGGATGC-C-TTTCAAAGCCCACACGAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGATGCTCTTTTCAAAGCCCACACGAGTTGGTGGCA
* *
3725092 CTTTTTAGTCCTCAAAGAGCAGGATGCACTTT
1 -TTTTCAGTCCTCAAAGAGCAGGATGCTCTTT
3725124 ATTTTCCTCT
Statistics
Matches: 235, Mismatches: 12, Indels: 31
0.85 0.04 0.11
Matches are distributed among these distances:
55 100 0.43
56 6 0.03
57 2 0.01
58 47 0.20
59 4 0.02
60 11 0.05
61 65 0.28
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (56 bp):
TTTTCAGTCCTCAAAGAGCAGGATGCTCTTTTCAAAGCCCACACGAGTTGGTGGCA
Found at i:3726042 original size:13 final size:13
Alignment explanation
Indices: 3726024--3726051 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3726014 CATTTTCCTG
3726024 TGTATCGATACAT
1 TGTATCGATACAT
3726037 TGTATCGATACAT
1 TGTATCGATACAT
3726050 TG
1 TG
3726052 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3726047 original size:33 final size:33
Alignment explanation
Indices: 3726004--3726069 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
3725994 GCCAAGGAAA
* *
3726004 TGTATTGATACATT-TTCCTGTGTATCGATACAT
1 TGTATCGATACATTGAT-CTGTGTATCGATACAT
*
3726037 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCTGTGTATCGATACAT
3726070 ATAGGAAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (33 bp):
TGTATCGATACATTGATCTGTGTATCGATACAT
Found at i:3728575 original size:79 final size:79
Alignment explanation
Indices: 3728419--3728748 Score: 353
Period size: 79 Copynumber: 4.2 Consensus size: 79
3728409 TTTCATCTCA
* * *
3728419 GGGATACTCAAACCCCGGCTTTATTTCTAAAACATAAATTTTTC---ATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGACTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACC
*
3728481 CCGTTATTTTTGAG
66 CCGTTATTTTCGAG
* * * * * * *
3728495 GGGATACCCCAACCCCGGCTTTATTTTTGAAATATTAATTTCTCATAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGACTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACC
*
3728560 CTGTTATTTTCGAG
66 CCGTTATTTTCGAG
* * * * * * * *
3728574 GGCATACTCCAAACCCTATTTTATTTCTAAAACATCAATTTTTTATAGTTGGGGATACTTCAACC
1 GGGATACTCCAACCCCGACTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACC
*
3728639 CCGTTATTTCCGAG
66 CCGTTATTTTCGAG
* * * * * *
3728653 GGGATGCTCCAATCCCGATTTTATTT-TCAAATCATCAATTTTTCACAACCGGGGATACTCCAAC
1 GGGATACTCCAACCCCGACTTTATTTCT-AAAACATCAATTTTTCATAATCGGGGATACTCCAAC
* *
3728717 CCTGTTATTTTCAAG
65 CCCGTTATTTTCGAG
*
3728732 GAGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
3728749 TTATTATCTC
Statistics
Matches: 207, Mismatches: 43, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
76 37 0.18
78 1 0.00
79 169 0.82
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (79 bp):
GGGATACTCCAACCCCGACTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACC
CCGTTATTTTCGAG
Found at i:3728654 original size:158 final size:155
Alignment explanation
Indices: 3728438--3728743 Score: 400
Period size: 158 Copynumber: 2.0 Consensus size: 155
3728428 AAACCCCGGC
**
3728438 TTTATTTCTAAAACATAAATTTTTCATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACC
1 TTTATTTCTAAAACATAAATTTTTCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACC
* * * * *
3728503 CCAACCCCGGCTTTATTTTTGAAAT-ATTAATTTCTCATAATCGGGGATACTCCAACCCTGTTAT
66 CCAACCCCGACTTTA-TTTTCAAATCATCAATTTCTCACAACCGGGGATACTCCAACCCTGTTAT
*
3728567 TTTCGAGG-GCATACTCCAAACCCTAT
130 TTTCAAGGAG-ATACTCCAAACCCTAT
* * * *
3728593 TTTATTTCTAAAACATCAATTTTTTATAGTTGGGGATACTTCAACCCCGTTATTTCCGAGGGGAT
1 TTTATTTCTAAAACAT-AAATTTTT-CA-TCGGGGATACTCCAACCCCGTTATTTCCGAGGGGAT
* * * * *
3728658 GCTCCAATCCCGATTTTATTTTCAAATCATCAATTTTTCACAACCGGGGATACTCCAACCCTGTT
63 ACCCCAACCCCGACTTTATTTTCAAATCATCAATTTCTCACAACCGGGGATACTCCAACCCTGTT
3728723 ATTTTCAAGGAGATACTCCAA
128 ATTTTCAAGGAGATACTCCAA
3728744 CCCCGTTATT
Statistics
Matches: 129, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
155 16 0.12
156 7 0.05
157 9 0.07
158 96 0.74
159 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.35
Consensus pattern (155 bp):
TTTATTTCTAAAACATAAATTTTTCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACC
CCAACCCCGACTTTATTTTCAAATCATCAATTTCTCACAACCGGGGATACTCCAACCCTGTTATT
TTCAAGGAGATACTCCAAACCCTAT
Found at i:3736275 original size:6 final size:6
Alignment explanation
Indices: 3736266--3736309 Score: 72
Period size: 6 Copynumber: 7.3 Consensus size: 6
3736256 TTTATGATTA
3736266 TTAATT TTAATT TTAATT TTAATT TT-ATT TTAATT TTAGATT TT
1 TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT TTA-ATT TT
3736310 TTATTTATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.14
6 26 0.72
7 5 0.14
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (6 bp):
TTAATT
Found at i:3736289 original size:18 final size:17
Alignment explanation
Indices: 3736249--3736309 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 17
3736239 CATTTTTAAA
*
3736249 AATTTTATTTATGATTATT
1 AATTTTATTT-TAATT-TT
3736268 AATTTTAATTTTAATTTT
1 AATTTT-ATTTTAATTTT
3736286 AATTTTATTTTAATTTT
1 AATTTTATTTTAATTTT
3736303 AGATTTT
1 A-ATTTT
3736310 TTATTTATTC
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
17 12 0.31
18 13 0.33
19 10 0.26
20 4 0.10
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
AATTTTATTTTAATTTT
Found at i:3737293 original size:154 final size:156
Alignment explanation
Indices: 3736976--3737318 Score: 430
Period size: 154 Copynumber: 2.2 Consensus size: 156
3736966 GCTATTTTGT
* *
3736976 AATTTTAAAAAGTTTAGGGACTAAATTGTAAAAAGTTTAAGATCTTTTCTTTGAGTATACTTGCT
1 AATTTTAGAAAGTTTAGGGACTAAATTGTAAAAAGTTCAAGATCTTTTCTTTGAGTATACTTGCT
* *
3737041 TGGCCGAAAGTCCTTAATACCATAGGAGGATTTTTTTTCATGCATTTCTAAACATATTTTAGGCT
66 TGGCCGAAAGTCCTTAATACCATAAGAGGA-TTTGTTTCATGCATTTCTAAACATATTTTAGGCT
* *
3737106 TTTTAACATGATAGAGACCCTTTTGTA
130 TTTTAACATGATAGAGACCATTATGTA
* * * * *
3737133 AATTTTAGAAAGTTTAGGGATTAAATTGTAAAAGGTTCAA-ATTTTTTTTCTTT-AGGTGTCCTT
1 AATTTTAGAAAGTTTAGGGACTAAATTGTAAAAAGTTCAAGA--TCTTTTCTTTGA-GTATACTT
** * * *
3737196 GCTTGGTTGAGAGTTCC-TAATGCCATAAG-GGA-TTGTTTCATGCATTT-TAAATATATTTTAG
63 GCTTGGCCGAAAG-TCCTTAATACCATAAGAGGATTTGTTTCATGCATTTCTAAACATATTTTAG
3737257 GCTTTTTAACATGATA-AGGACCATTATGTA
127 GCTTTTTAACATGATAGA-GACCATTATGTA
*
3737287 AATTTTAGAAAGTTTAGGGACTAATTTGTAAA
1 AATTTTAGAAAGTTTAGGGACTAAATTGTAAA
3737319 TTTTAAATAT
Statistics
Matches: 163, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
153 1 0.01
154 69 0.42
155 14 0.09
156 1 0.01
157 40 0.25
158 35 0.21
159 3 0.02
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.41
Consensus pattern (156 bp):
AATTTTAGAAAGTTTAGGGACTAAATTGTAAAAAGTTCAAGATCTTTTCTTTGAGTATACTTGCT
TGGCCGAAAGTCCTTAATACCATAAGAGGATTTGTTTCATGCATTTCTAAACATATTTTAGGCTT
TTTAACATGATAGAGACCATTATGTA
Found at i:3738264 original size:29 final size:28
Alignment explanation
Indices: 3738228--3738285 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 28
3738218 GGCCATTTTA
*
3738228 GGTCAAAGTGTAATTTTGAAAAGTTTAGG
1 GGTCAAAGTGTAATTTT-AAAAGTTCAGG
*
3738257 GGTCAAAGTTTAATTTTAAAAGTTCAGG
1 GGTCAAAGTGTAATTTTAAAAGTTCAGG
3738285 G
1 G
3738286 ATTTAATAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.34
Consensus pattern (28 bp):
GGTCAAAGTGTAATTTTAAAAGTTCAGG
Found at i:3738817 original size:154 final size:151
Alignment explanation
Indices: 3738373--3739048 Score: 543
Period size: 154 Copynumber: 4.4 Consensus size: 151
3738363 ATATTGTTGA
* ** * * *
3738373 GTCCTTTAAGCTTACATG-GATACTTTCATGTCGAAGGTATACCCTATGGGTATTTTGGTAATTT
1 GTCCTTTAAGGTTACA-GAGATACTTTCACATC-AAGGTATA-CCTAGGGGCATTTTAGTAATTT
** ** ** * *
3738437 TTTTAGAACTGAGTCCTAGGTTGTCACCGGGTCACTTTTATGCCAAAAGTGTGCATTTAGGATAG
63 CATTAGAACTGA-TTTTAGGTCATCATCGGGTCACTTTTATGCCAAAGGTGTGCATTTAGGATAG
* ** * *
3738502 GTCCATTTTTTTATCATTTTTTTGT
127 GTTCATCCTTTTATCATCTTTTCGT
* * * * ** * *
3738527 GTCTTTTAGGGTTACTA-AGACACATTCACATCAAAAATATACCTA-GAGCATTTTGGTAATTTC
1 GTCCTTTAAGGTTAC-AGAGATACTTTCACATC-AAGGTATACCTAGGGGCATTTTAGTAATTTC
** * * ** ***
3738590 CCTAG-ACTGGAGTCTTAGGTCGTCATCGGGTTGCTTTTATGTTGAAGGTGTGCATTTAGGATAG
64 ATTAGAACT-GA-TTTTAGGTCATCATCGGGTCACTTTTATGCCAAAGGTGTGCATTTAGGATAG
*
3738654 GTTCATCCTTTTATCATCTTTTTGT
127 GTTCATCCTTTTATCATCTTTTCGT
* * *
3738679 GTCCTTTAAGGTTACCGAGATGCTTTCACATCAATGGTATACCTTAGGGGCATTTTAATAATTTC
1 GTCCTTTAAGGTTACAGAGATACTTTCACATCAA-GGTATACC-TAGGGGCATTTTAGTAATTTC
*
3738744 ATTAGAACTGTATTTTAGGTCATCA-CTGGGTCACTTTTATGCCAAAGGTGTGCATTTAGGATAA
64 ATTAGAACTG-ATTTTAGGTCATCATC-GGGTCACTTTTATGCCAAAGGTGTGCATTTAGGATAG
** *
3738808 GTTTGTCCTTTTATCATCTTTTCGC
127 GTTCATCCTTTTATCATCTTTTCGT
* * ** * *
3738833 GTCCTTTAAGGTTATAGGGATACTTTCATGTCGAAGGTATACATAGGGGCATTTTAGTAATTTTA
1 GTCCTTTAAGGTTACAGAGATACTTTCACATC-AAGGTATACCTAGGGGCATTTTAGTAATTTCA
* * * * * * **
3738898 TAAGAAATGAGTCTAGGTCCTCATCGGGTCACATTTTATGTCAAAGGTGTGCATTTAGGATTTGT
65 TTAGAACTGATTTTAGGTCATCATCGGGTCAC-TTTTATGCCAAAGGTGTGCATTTAGGATAGGT
* * *
3738963 TAATCCTTTTATGATCTTTTCAT
129 TCATCCTTTTATCATCTTTTCGT
* * * * * * * ** *
3738986 GTCCTTTAAGTTTGCCGGGACACTTTCACGTTAAAGGTATACCTAAAGGCATTTTGGTAATTT
1 GTCCTTTAAGGTTACAGAGATACTTTCAC-ATCAAGGTATACCTAGGGGCATTTTAGTAATTT
3739049 TTCTAAAACC
Statistics
Matches: 421, Mismatches: 87, Indels: 29
0.78 0.16 0.05
Matches are distributed among these distances:
151 5 0.01
152 134 0.32
153 131 0.31
154 144 0.34
155 7 0.02
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (151 bp):
GTCCTTTAAGGTTACAGAGATACTTTCACATCAAGGTATACCTAGGGGCATTTTAGTAATTTCAT
TAGAACTGATTTTAGGTCATCATCGGGTCACTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTC
ATCCTTTTATCATCTTTTCGT
Found at i:3743066 original size:112 final size:112
Alignment explanation
Indices: 3742869--3743086 Score: 285
Period size: 112 Copynumber: 1.9 Consensus size: 112
3742859 AAAGAAAATA
* ** *
3742869 AAATTTGTCTAATTTTGAAAGAAATTCATGTTTCATACAACCTGATCCATTTGTGCTTAGGAAAG
1 AAATTTGTCTAATTTTGAAAGAAATTCATATTTCATACAACCTGATCCATTCATACTTAGGAAAG
* *
3742934 TGGAGCATGTATCTTATCAGTTTTGAAATTTTTAAGCCAACAACATT
66 TGGAGCATATATCTTATCAGTTCTGAAATTTTTAAGCCAACAACATT
* * * * * **
3742981 AAATTTGTTTGATTTTTAAAGAAATTCATATTTTATACGATTTGATCCATTCATACTTAGGAACA
1 AAATTTGTCTAATTTTGAAAGAAATTCATATTTCATACAACCTGATCCATTCATACTTAGGAA-A
* *
3743046 -TGGGGCATATATCTTATCAGTTCTGAAATTTTTGAGCCAAC
65 GTGGAGCATATATCTTATCAGTTCTGAAATTTTTAAGCCAAC
3743087 CAAAGTTTTT
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
112 89 0.99
113 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.39
Consensus pattern (112 bp):
AAATTTGTCTAATTTTGAAAGAAATTCATATTTCATACAACCTGATCCATTCATACTTAGGAAAG
TGGAGCATATATCTTATCAGTTCTGAAATTTTTAAGCCAACAACATT
Found at i:3743703 original size:88 final size:87
Alignment explanation
Indices: 3743564--3743787 Score: 234
Period size: 88 Copynumber: 2.5 Consensus size: 87
3743554 TGTCATTGGC
* * * * ** * *
3743564 ATTTGCATCATTTCATATGCATTTGCCATTTTATTGATGCTTACAGCTGCATTATTTCACATATA
1 ATTTGCATTATTTCATATGCA-TTGTCACTTTATTGATGCTTGCATTTGCATTATTTCACACACA
*
3743629 TCTATACT-TTAGATAACATTAGT
65 TCTATA-TGTTAAATAACATTAGT
* * * **
3743652 ATTTGCATTATTTTATACGCACTTGTCACTTTATTGATGCTTGCATTTGCATTGTTTCATGCACA
1 ATTTGCATTATTTCATATGCA-TTGTCACTTTATTGATGCTTGCATTTGCATTATTTCACACACA
* * *
3743717 TGTATATGTTAAATGACATTGGT
65 TCTATATGTTAAATAACATTAGT
* *
3743740 ATTTGCATTATTTCATATGCATTTTCCACTTTGTTGATGCTTGCATTT
1 ATTTGCATTATTTCATATGCATTGT-CACTTTATTGATGCTTGCATTT
3743788 ACACCATTTC
Statistics
Matches: 112, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
87 4 0.04
88 108 0.96
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.46
Consensus pattern (87 bp):
ATTTGCATTATTTCATATGCATTGTCACTTTATTGATGCTTGCATTTGCATTATTTCACACACAT
CTATATGTTAAATAACATTAGT
Found at i:3744293 original size:30 final size:28
Alignment explanation
Indices: 3744259--3744351 Score: 91
Period size: 28 Copynumber: 3.2 Consensus size: 28
3744249 TAGGTTTCAA
3744259 GTTTTATCCAAGTCATTTTTTCTAGTCTTG
1 GTTTTA-CCAAGTCATTTTTTC-AGTCTTG
* *
3744289 GTTTTACCAAGT-ATTATTTCAGTTTCTG
1 GTTTTACCAAGTCATTTTTTCAGTCT-TG
*
3744317 GTTTTACTCAAG-CTATTTCTTTGAGTCTTG
1 GTTTTAC-CAAGTC-ATTT-TTTCAGTCTTG
3744347 GTTTT
1 GTTTT
3744352 GCCTAAATCA
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
27 4 0.08
28 16 0.30
29 10 0.19
30 16 0.30
31 7 0.13
ACGTcount: A:0.17, C:0.15, G:0.15, T:0.53
Consensus pattern (28 bp):
GTTTTACCAAGTCATTTTTTCAGTCTTG
Found at i:3744318 original size:28 final size:28
Alignment explanation
Indices: 3744259--3744351 Score: 84
Period size: 30 Copynumber: 3.2 Consensus size: 28
3744249 TAGGTTTCAA
*
3744259 GTTTTATCCAAGTCATTTTTTCTAGTCTTG
1 GTTTTA-CCAAGT-ATTATTTCTAGTCTTG
*
3744289 GTTTTACCAAGTATTATTTC-AGTTTCTG
1 GTTTTACCAAGTATTATTTCTAGTCT-TG
3744317 GTTTTACTCAAGCTATT-TCTT-TGAGTCTTG
1 GTTTTAC-CAAG-TATTAT-TTCT-AGTCTTG
3744347 GTTTT
1 GTTTT
3744352 GCCTAAATCA
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
27 4 0.07
28 16 0.30
29 11 0.20
30 19 0.35
31 4 0.07
ACGTcount: A:0.17, C:0.15, G:0.15, T:0.53
Consensus pattern (28 bp):
GTTTTACCAAGTATTATTTCTAGTCTTG
Found at i:3744389 original size:60 final size:59
Alignment explanation
Indices: 3744247--3744691 Score: 305
Period size: 60 Copynumber: 7.4 Consensus size: 59
3744237 ATAGTCATGG
* * * *
3744247 TTTAGGTTTCAAGTTTTATCCAAGTCATTTT-TTCTAGTCTTGGTTTTACC-AAGT-ATTA
1 TTTAGGTTT-TAGTTTTATCCAAGCCATTTTGTT-GAGTCTTGGTTTTGCCTAAGTCATTA
* * *
3744305 TTTCA-GTTTCTGGTTTTA-CTCAAGCTATTTCT-TTGAGTCTTGGTTTTGCCTAAATCATTA
1 TTT-AGGTTT-TAGTTTTATC-CAAGCCATTT-TGTTGAGTCTTGGTTTTGCCTAAGTCATTA
* * * ** * *
3744365 TTTAGGGTTTTGGTCTTATCCAAGCCATTTTGTTGAATCTTGGTTTCACTTGAA-TCTTTA
1 TTTA-GGTTTTAGTTTTATCCAAGCCATTTTGTTGAGTCTTGGTTTTGCCT-AAGTCATTA
* * ** ** * * *
3744425 TATAGGTTTCTAATTTTATCCAAATCATTTCATTGAATCTTGGTTTTGCCTAAGTTATTG
1 TTTAGGTTT-TAGTTTTATCCAAGCCATTTTGTTGAGTCTTGGTTTTGCCTAAGTCATTA
* * ** * * *
3744485 TTTAGGTTATTGGTTTCATCCGGGCCATTTTGTTGAGTTTTGGTTTCGCCTGAGTCATTA
1 TTTAGGTT-TTAGTTTTATCCAAGCCATTTTGTTGAGTCTTGGTTTTGCCTAAGTCATTA
* * * *
3744545 TTTAGGTTTTTAGTTTTATTCAAGGCATTTTATTGAGTTTTGGTTTTGCCTCAAGTCATTA
1 TTTAGG-TTTTAGTTTTATCCAAGCCATTTTGTTGAGTCTTGGTTTTGCCT-AAGTCATTA
* * * * * * *
3744606 -TTAGGTTTCTAGTTTTATCTAAGTCATTTTGTTAAGTCTTGGTTATGCCCACA-TTATTG
1 TTTAGGTTT-TAGTTTTATCCAAGCCATTTTGTTGAGTCTTGGTTTTGCCTA-AGTCATTA
* *
3744665 TTTAAGTTTTTAGTTTTATCTAAGCCA
1 TTT-AGGTTTTAGTTTTATCCAAGCCA
3744692 CTTCCTTGAC
Statistics
Matches: 303, Mismatches: 65, Indels: 36
0.75 0.16 0.09
Matches are distributed among these distances:
57 1 0.00
58 36 0.12
59 24 0.08
60 219 0.72
61 23 0.08
ACGTcount: A:0.20, C:0.14, G:0.17, T:0.49
Consensus pattern (59 bp):
TTTAGGTTTTAGTTTTATCCAAGCCATTTTGTTGAGTCTTGGTTTTGCCTAAGTCATTA
Found at i:3744475 original size:120 final size:118
Alignment explanation
Indices: 3744326--3744649 Score: 337
Period size: 120 Copynumber: 2.7 Consensus size: 118
3744316 GGTTTTACTC
* *
3744326 AAGCTATTTCTTTGAGTCTTGGTTTTGCCTAAATCATTATTTAGGGTTTTGGTCTTATCCAAGCC
1 AAGC-ATTTCATTGAGTCTTGGTTTTGCCTAAGTCATTATTTA-GGTTTTGGT-TTATCCAAGCC
* *
3744391 ATTTTGTTGAATCTTGGTTTCACTTGAATCTTTATATAGGTTTCTAATTTTATCCA
63 ATTTTGTTGAATCTTGGTTTCACCTGAATCATTATATAGGTTTCTAATTTTATCCA
* * * * **
3744447 AATCATTTCATTGAATCTTGGTTTTGCCTAAGTTATTGTTTAGGTTATTGGTTTCATCCGGGCCA
1 AAGCATTTCATTGAGTCTTGGTTTTGCCTAAGTCATTATTTAGGTT-TTGGTTT-ATCCAAGCCA
* * * * * * * *
3744512 TTTTGTTGAGTTTTGGTTTCGCCTGAGTCATTATTTAGGTTTTTAGTTTTATTCA
64 TTTTGTTGAATCTTGGTTTCACCTGAATCATTATATAGGTTTCTAATTTTATCCA
* * * * * *
3744567 AGGCATTTTATTGAGTTTTGGTTTTGCCTCAAGTCATTA-TTAGGTTTCTAGTTTTATCTAAGTC
1 AAGCATTTCATTGAGTCTTGGTTTTGCCT-AAGTCATTATTTAGGTTT-T-GGTTTATCCAAGCC
3744631 ATTTTGTT-AAGTCTTGGTT
63 ATTTTGTTGAA-TCTTGGTT
3744650 ATGCCCACAT
Statistics
Matches: 165, Mismatches: 32, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
119 8 0.05
120 143 0.87
121 14 0.08
ACGTcount: A:0.19, C:0.13, G:0.18, T:0.49
Consensus pattern (118 bp):
AAGCATTTCATTGAGTCTTGGTTTTGCCTAAGTCATTATTTAGGTTTTGGTTTATCCAAGCCATT
TTGTTGAATCTTGGTTTCACCTGAATCATTATATAGGTTTCTAATTTTATCCA
Found at i:3744613 original size:180 final size:180
Alignment explanation
Indices: 3744337--3744668 Score: 400
Period size: 180 Copynumber: 1.8 Consensus size: 180
3744327 AGCTATTTCT
* * *
3744337 TTGAGTCTTGGTTTTGCCTAAATCATTATTTAGGGTTTTGGTCTTATCCAAGCCATTTTGTTGAA
1 TTGAGTCTTGGTTTCGCCTAAATCATTATTTAGGGTTTTAGTCTTATCCAAGCCATTTTATTGAA
* * *
3744402 TCTTGGTTTCACTTGAATCTTTATATAGGTTTCTAATTTTATCCAAATCATTTCATTGAA-TCTT
66 TCTTGGTTTCACCTCAATCATTATATAGGTTTCTAATTTTATCCAAATCATTTCATT-AAGTCTT
* *
3744466 GGTTTTGCCTA-AGTTATTGTTTAGGTTATTGGTTTCATCCGGGCCATTTTG
130 GGTTATGCCCACA-TTATTGTTTAGGTTATTGGTTTCATCCGGGCCATTTTG
* * * * * * * *
3744517 TTGAGTTTTGGTTTCGCCTGAGTCATTATTTAGGTTTTTAGTTTTATTCAAGGCATTTTATTGAG
1 TTGAGTCTTGGTTTCGCCTAAATCATTATTTAGGGTTTTAGTCTTATCCAAGCCATTTTATTGAA
* ** * * * **
3744582 TTTTGGTTTTGCCTCAAGTCATTAT-TAGGTTTCTAGTTTTATCTAAGTCATTTTGTTAAGTCTT
66 TCTTGGTTTCACCTCAA-TCATTATATAGGTTTCTAATTTTATCCAAATCATTTCATTAAGTCTT
3744646 GGTTATGCCCACATTATTGTTTA
130 GGTTATGCCCACATTATTGTTTA
3744669 AGTTTTTAGT
Statistics
Matches: 125, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
179 2 0.02
180 116 0.93
181 7 0.06
ACGTcount: A:0.20, C:0.13, G:0.18, T:0.49
Consensus pattern (180 bp):
TTGAGTCTTGGTTTCGCCTAAATCATTATTTAGGGTTTTAGTCTTATCCAAGCCATTTTATTGAA
TCTTGGTTTCACCTCAATCATTATATAGGTTTCTAATTTTATCCAAATCATTTCATTAAGTCTTG
GTTATGCCCACATTATTGTTTAGGTTATTGGTTTCATCCGGGCCATTTTG
Found at i:3744629 original size:29 final size:29
Alignment explanation
Indices: 3744537--3744633 Score: 83
Period size: 30 Copynumber: 3.2 Consensus size: 29
3744527 GTTTCGCCTG
3744537 AGTCATTATTTAGGTTTTTAGTTTTAT-TCA
1 AGTCATTA-TTAGG-TTTTAGTTTTATCTCA
* * **
3744567 AGGCATT-TTATTGAGTTTTGGTTTTGCCTCA
1 AGTCATTATTA--G-GTTTTAGTTTTATCTCA
3744598 AGTCATTATTAGGTTTCTAGTTTTATCT-A
1 AGTCATTATTAGGTTT-TAGTTTTATCTCA
3744627 AGTCATT
1 AGTCATT
3744634 TTGTTAAGTC
Statistics
Matches: 53, Mismatches: 8, Indels: 13
0.72 0.11 0.18
Matches are distributed among these distances:
28 3 0.06
29 12 0.23
30 25 0.47
31 10 0.19
32 3 0.06
ACGTcount: A:0.22, C:0.10, G:0.16, T:0.52
Consensus pattern (29 bp):
AGTCATTATTAGGTTTTAGTTTTATCTCA
Found at i:3744918 original size:76 final size:76
Alignment explanation
Indices: 3744825--3745001 Score: 243
Period size: 76 Copynumber: 2.3 Consensus size: 76
3744815 GATCCTTCTT
* * *
3744825 CTTTAGGCCATTATCAGTTTGTTT-GATTGTTGATAAAAAATTTTAGAAACCACATA-TTCCTTA
1 CTTTA-GCCATTATCAGTTTGTTTCGACTGTTGAT-AAAAATTTTAGAAACAACATATTTCC-CA
3744888 TCATGTT-TTTTTC
63 TCATGTTCTTTTTC
*
3744901 CTTTAGCCTATTATCAGTTTGTTTCGACTGTTGATAAAAATTTTAGAAATAACATATTTCCCATC
1 CTTTAGCC-ATTATCAGTTTGTTTCGACTGTTGATAAAAATTTTAGAAACAACATATTTCCCATC
*
3744966 ATGTTCTTTTTT
65 ATGTTCTTTTTC
*
3744978 CTTTAGCCGTTATCAGTTTGTTTC
1 CTTTAGCCATTATCAGTTTGTTTC
3745002 AGTTGTTAAT
Statistics
Matches: 91, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
75 3 0.03
76 62 0.68
77 26 0.29
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.47
Consensus pattern (76 bp):
CTTTAGCCATTATCAGTTTGTTTCGACTGTTGATAAAAATTTTAGAAACAACATATTTCCCATCA
TGTTCTTTTTC
Found at i:3745075 original size:67 final size:67
Alignment explanation
Indices: 3744986--3745150 Score: 199
Period size: 67 Copynumber: 2.5 Consensus size: 67
3744976 TTCTTTAGCC
* * *
3744986 GTTATCAGTTTG-TTTCAGTTGTTAATGGAAGCCACATGTTCCCCATCATGATTTTATATTCCAG
1 GTTATCAGTTTGTTTTGA-TTGTTAATGGAAGCCACATATTCCCCATCATGATTTTATATTCCAA
3745050 CTT
65 CTT
* * * * *
3745053 GTTATCAATTTGTTTTGATTGTTCATGGGAA-CCACATATTCCCTATCATGATTTTCTATTTCAA
1 GTTATCAGTTTGTTTTGATTGTTAAT-GGAAGCCACATATTCCCCATCATGATTTTATATTCCAA
3745117 CTT
65 CTT
** *
3745120 GTTATCAGTTTGTTTTGGCTGTTGATGGAAG
1 GTTATCAGTTTGTTTTGATTGTTAATGGAAG
3745151 TGAAGAAACC
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
66 4 0.05
67 71 0.86
68 8 0.10
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (67 bp):
GTTATCAGTTTGTTTTGATTGTTAATGGAAGCCACATATTCCCCATCATGATTTTATATTCCAAC
TT
Found at i:3745657 original size:40 final size:40
Alignment explanation
Indices: 3745598--3745678 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
3745588 CAAATGTTAC
* *
3745598 TCAACCCTTCTCATATGTTGACTTGTCAGTTTCATCTCGA
1 TCAACCCTTCTCATATGTTGACTTATCAATTTCATCTCGA
* *
3745638 TCAACCCTTTTCATTTGTTGACTTATCAATTTCATCTCGA
1 TCAACCCTTCTCATATGTTGACTTATCAATTTCATCTCGA
3745678 T
1 T
3745679 TGATCTTTAC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.21, C:0.26, G:0.10, T:0.43
Consensus pattern (40 bp):
TCAACCCTTCTCATATGTTGACTTATCAATTTCATCTCGA
Found at i:3745695 original size:40 final size:40
Alignment explanation
Indices: 3745613--3745741 Score: 118
Period size: 40 Copynumber: 3.2 Consensus size: 40
3745603 CCTTCTCATA
* * *
3745613 TGTTGACTTGTCAGTTTCATCTCGATCAACCCTTT--TCATT
1 TGTTGACTTATCAATTTCATCTCGATTAA-CCTTTACTC-TT
* *
3745653 TGTTGACTTATCAATTTCATCTCGATTGATCTTTACTCTT
1 TGTTGACTTATCAATTTCATCTCGATTAACCTTTACTCTT
* * ** ** *
3745693 TGTTCACTTTTTGATTTTGTCTCGGTTAACCTTTACTCTT
1 TGTTGACTTATCAATTTCATCTCGATTAACCTTTACTCTT
3745733 TGTTGACTT
1 TGTTGACTT
3745742 GTCAGGTTCA
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
39 4 0.06
40 66 0.92
41 2 0.03
ACGTcount: A:0.16, C:0.21, G:0.12, T:0.50
Consensus pattern (40 bp):
TGTTGACTTATCAATTTCATCTCGATTAACCTTTACTCTT
Found at i:3746270 original size:66 final size:65
Alignment explanation
Indices: 3746149--3746276 Score: 161
Period size: 67 Copynumber: 1.9 Consensus size: 65
3746139 GATTTCACCT
* *
3746149 TAGTCTTTTTAGTTGACTTTATTGGTTTTATCCTAGTCACCATCCTTTTCCACTTAGGTTTCGCC
1 TAGTCTTTTTAGTTGACTTTATTGATTTTAGCCTAGTCACCA-CCTTTTCCACTTAGGTTTCGCC
3746214 C
65 C
* **
3746215 TAGTCTTTTTTAGTTGACTTTATTGATTTT-GCCTTGGTCAACC-CCTTTTTGACTTAGGTTTC
1 TAGTC-TTTTTAGTTGACTTTATTGATTTTAGCC-TAGTC-ACCACCTTTTCCACTTAGGTTTC
3746277 ATCCTGGTCA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
66 24 0.44
67 27 0.50
68 3 0.06
ACGTcount: A:0.15, C:0.21, G:0.15, T:0.49
Consensus pattern (65 bp):
TAGTCTTTTTAGTTGACTTTATTGATTTTAGCCTAGTCACCACCTTTTCCACTTAGGTTTCGCCC
Found at i:3747287 original size:19 final size:21
Alignment explanation
Indices: 3747252--3747292 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
3747242 CATTTTCATT
3747252 AAATTCAAATTAGTTTT-TGA
1 AAATTCAAATTAGTTTTATGA
*
3747272 AAATTCAATTTA-TTTTATGA
1 AAATTCAAATTAGTTTTATGA
3747292 A
1 A
3747293 TTTTGCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.46
Consensus pattern (21 bp):
AAATTCAAATTAGTTTTATGA
Found at i:3747411 original size:5 final size:5
Alignment explanation
Indices: 3747403--3747483 Score: 60
Period size: 5 Copynumber: 15.8 Consensus size: 5
3747393 ATTTCTAATA
* * **
3747403 ATTTT ATTTAT GATTATT AATTTT AATCTT ATTTT -TTTA ATTTT AGATT
1 ATTTT ATTT-T -ATT-TT -ATTTT -ATTTT ATTTT ATTTT ATTTT ATTTT
3747452 -TTTT A-TTT ATTTT ATTTT ATTTT ATTTT ATTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTT
3747484 ATAAACTAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
4 9 0.15
5 36 0.59
6 8 0.13
7 7 0.11
8 1 0.02
ACGTcount: A:0.25, C:0.01, G:0.02, T:0.72
Consensus pattern (5 bp):
ATTTT
Found at i:3748440 original size:155 final size:155
Alignment explanation
Indices: 3748152--3748455 Score: 364
Period size: 155 Copynumber: 2.0 Consensus size: 155
3748142 AACGTTCAGG
** * * *
3748152 GACTAAATTGTAAATGGTTTTAAATTTTTTCTTTAAGTATCCTTGCTTGGTCGAAAGTCTTTAGT
1 GACTAAATTGTAAAAAGTTTAAAATTTTTTCTTTAAGTATCCTTGCTTGGTCGAAAGTCTCTAAT
* * ** * * * *
3748217 GCCATAGGAGGATTGTTTCATGCATTTCTAAACATATTTTAGGCTTTTTAAAATGATCGGGAGCT
66 GCCACAGGAGAACCGTTTCATGCATTTCTAAACATATTTTAGGCTTTTCAAAATGATAGGAACCT
* *
3748282 TTTTGCAAATTTTAGAAAGTTTAAA
131 TTTTACAAATTTTAAAAAGTTTAAA
** * *
3748307 GACTAAATTGTAAAAAGTTTAAAATTTTTTCTTTGGGTGTCCTTGCTTGG-CTAAGAGT-TCCTA
1 GACTAAATTGTAAAAAGTTTAAAATTTTTTCTTTAAGTATCCTTGCTTGGTCGAA-AGTCT-CTA
*
3748370 ATGCCACAGG-GAACCGTTTCATGCATTT-TAAACATATTTTAGGCTTTTCAACATGATAGGAAC
64 ATGCCACAGGAGAACCGTTTCATGCATTTCTAAACATATTTTAGGCTTTTCAAAATGATAGGAAC
3748433 CTTTTTTTACAAATTTTAAAAAG
129 C--TTTTTACAAATTTTAAAAAG
3748456 CTTAGGGATT
Statistics
Matches: 125, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
153 31 0.25
154 19 0.15
155 75 0.60
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (155 bp):
GACTAAATTGTAAAAAGTTTAAAATTTTTTCTTTAAGTATCCTTGCTTGGTCGAAAGTCTCTAAT
GCCACAGGAGAACCGTTTCATGCATTTCTAAACATATTTTAGGCTTTTCAAAATGATAGGAACCT
TTTTACAAATTTTAAAAAGTTTAAA
Found at i:3750075 original size:153 final size:154
Alignment explanation
Indices: 3749795--3750200 Score: 412
Period size: 153 Copynumber: 2.6 Consensus size: 154
3749785 TGCTTTTATG
* ** * *
3749795 CATTTAGGATAAGTTTGTCCTTTTATCATTTTTTTCATGTCCTTCAA-GGTTACCAAGATACTTT
1 CATTTAGGATAGGTTCATCCTTTTATCATTTTTTTCATGT-CTTTAAGGGTTACCGAGATACTTT
* * ** ** *
3749859 CACGTC-AAAGGTATACTTAGGGGCATTTTGGTAATATCTTTAAAACTGAGTCTTAGATCGTCAC
65 CACGTCGAAAGGT-TACTTAAGGGCATTTTGGTAATATCTCTAAAACAAAGTCCAAGATAGTCAC
*
3749923 CAACTTGCCTTTATGCCAAAGGTGTA
129 CAACTCGCCTTTATGCCAAAGGTGTA
* * *
3749949 CATTTAGGATAGGTTCATCCTTTTATCA-TCTTTTCGTGTCTTTTAGGGTTACCG-GAATACTTT
1 CATTTAGGATAGGTTCATCCTTTTATCATTTTTTTCATGTCTTTAAGGGTTACCGAG-ATACTTT
* * *
3750012 CACGTCGAAAGGTTACCTAAGGGCATTTTGGTAGTTTC-CTAAGAACAAAGTCCAATG-TAGTCA
65 CACGTCGAAAGGTTACTTAAGGGCATTTTGGTAATATCTCTAA-AACAAAGTCCAA-GATAGTCA
*** ** * *
3750075 CCGGGTCGTTTTTATGTCAAAGGTGTG
128 CCAACTCGCCTTTATGCCAAAGGTGTA
* * * *
3750102 CATTTTGGATAGGTTCATCCCTTTATTATTTTTTTCATGTCTTTAAGGGTTATCGAGATACTTTC
1 CATTTAGGATAGGTTCATCCTTTTATCATTTTTTTCATGTCTTTAAGGGTTACCGAGATACTTTC
* * *
3750167 AGGTCG-AAGGTTTATTTAAGGGCATTTCGGTAAT
66 ACGTCGAAAGG-TTACTTAAGGGCATTTTGGTAAT
3750201 TTTTTAGAAC
Statistics
Matches: 206, Mismatches: 38, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
152 8 0.04
153 111 0.54
154 86 0.42
155 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (154 bp):
CATTTAGGATAGGTTCATCCTTTTATCATTTTTTTCATGTCTTTAAGGGTTACCGAGATACTTTC
ACGTCGAAAGGTTACTTAAGGGCATTTTGGTAATATCTCTAAAACAAAGTCCAAGATAGTCACCA
ACTCGCCTTTATGCCAAAGGTGTA
Found at i:3755449 original size:19 final size:20
Alignment explanation
Indices: 3755427--3755469 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
3755417 ATTCCTTTTA
3755427 TTTCATT-AAATTTTTATT-T
1 TTTCATTGAAA-TTTTATTAT
*
3755446 TTTCTTTGAAATTTTATTAT
1 TTTCATTGAAATTTTATTAT
3755466 TTTC
1 TTTC
3755470 GAAAAACCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTCATTGAAATTTTATTAT
Found at i:3757480 original size:142 final size:143
Alignment explanation
Indices: 3757233--3757607 Score: 445
Period size: 142 Copynumber: 2.6 Consensus size: 143
3757223 ATTTTTATAT
* * **
3757233 ATTTCTAATATTCCTATAGCTTTTC-GTAGGATTATAGAAATTTTTAAAACTTTTCATATCTTTT
1 ATTTCTAATATTCCTATAG-TTTTCTGTAGGAGTATAGAAATCTTTAAAACTTTTTGTAT-TTTT
* * * * * * *
3757297 T-GGTTCTCTATTAAGATGCGAAATGATTTCTTTTTAGAAATTAAAAATTAAA-AAAAATTTATT
64 TCGGTTCTCCATTAAGGTACGAAATGAATTCTTTCTAAAAATTAAAAATTAAATAAAAA-TGATT
3757360 ATCTTAATTTTTCAAG
128 ATCTTAATTTTTCAAG
* * *
3757376 ATTTCTAATATTCTTATAGTTTTCTGTAGG-GTATAGAAATGTTCAAAACTTTTTGTATTTTTTC
1 ATTTCTAATATTCCTATAGTTTTCTGTAGGAGTATAGAAATCTTTAAAACTTTTTGTATTTTTTC
** * *
3757440 AATTCTCCATTAAGGTACGAAGTGAAATT-TTTCTAAAAATTAAAAATTAAATATAAATGATTAT
66 GGTTCTCCATTAAGGTACGAAATG-AATTCTTTCTAAAAATTAAAAATTAAATAAAAATGATTAT
*
3757504 CTTAATTTTTCTAG
130 CTTAATTTTTCAAG
* * * * * *
3757518 ATTTATAATATTCCGATGGTTTTCTGTAGGAGTATAGAAACCTTTGAAACTTTTTGTATCTTTTC
1 ATTTCTAATATTCCTATAGTTTTCTGTAGGAGTATAGAAATCTTTAAAACTTTTTGTATTTTTTC
*
3757583 GGTTCTCCATTAAGGTACAAAATGA
66 GGTTCTCCATTAAGGTACGAAATGA
3757608 GATTTTCAAA
Statistics
Matches: 196, Mismatches: 31, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
141 5 0.03
142 112 0.57
143 79 0.40
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.45
Consensus pattern (143 bp):
ATTTCTAATATTCCTATAGTTTTCTGTAGGAGTATAGAAATCTTTAAAACTTTTTGTATTTTTTC
GGTTCTCCATTAAGGTACGAAATGAATTCTTTCTAAAAATTAAAAATTAAATAAAAATGATTATC
TTAATTTTTCAAG
Found at i:3758566 original size:24 final size:24
Alignment explanation
Indices: 3758538--3758588 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
3758528 ATGAGATACC
3758538 TTTCTCAAATGAAAATAAATTTTT
1 TTTCTCAAATGAAAATAAATTTTT
3758562 TTTCTCAAATGAAAATAAATTTTT
1 TTTCTCAAATGAAAATAAATTTTT
3758586 TTT
1 TTT
3758589 ATAATTTTCA
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:0.39, C:0.08, G:0.04, T:0.49
Consensus pattern (24 bp):
TTTCTCAAATGAAAATAAATTTTT
Found at i:3763571 original size:192 final size:192
Alignment explanation
Indices: 3763239--3763620 Score: 624
Period size: 192 Copynumber: 2.0 Consensus size: 192
3763229 GGGGTAGATT
**
3763239 CTTTTCAATTCAATACTTGATAAATTAGATATGAGAGTTAAAGTAATTCCCTATGACTTTTTCGA
1 CTTTTCAATTCAATACTTGATAAATTAGATATGAGAGTTAAAGTAATTCCCTATGACTTTCACGA
* * *
3763304 AAATTCCCTTTGTCAACAGAAAAGGATTAGGTCCTTAACATTTTCTAAAAATGCCTTCAACTTTA
66 AAATTCCCTTTGTAAACAGAAAAGGATTAGGTCCATAACATTTTCTAAAAATGCCCTCAACTTTA
*
3763369 ACTATAGATGAGAAATAAGTTTTGAGTTTTTTTTCATCCAACCAGAACAACAATCTCGTGAC
131 ACTATAGATGAGAAATAAGATTTGAGTTTTTTTTCATCCAACCAGAACAACAATCTCGTGAC
3763431 CTTTTCAATTCAATACTTGGA-AAATTAGATATGAGAGTTAAAGTAATTCCCTATGACTTTCACG
1 CTTTTCAATTCAATACTT-GATAAATTAGATATGAGAGTTAAAGTAATTCCCTATGACTTTCACG
* *
3763495 AAAATTCTCTTTGTAAACA-AAAAGGGATTAGGTCCATAATATTTTCTAAAAATGCCCTCAACTT
65 AAAATTCCCTTTGTAAACAGAAAA-GGATTAGGTCCATAACATTTTCTAAAAATGCCCTCAACTT
* * * *
3763559 TAACTTTAGATGAGAAATAAGATTTGAGTTTTTTTTCATCTATCCAGAACAAGAATCTCGTG
129 TAACTATAGATGAGAAATAAGATTTGAGTTTTTTTTCATCCAACCAGAACAACAATCTCGTG
3763621 GTGGCTATAG
Statistics
Matches: 176, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
191 4 0.02
192 170 0.97
193 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (192 bp):
CTTTTCAATTCAATACTTGATAAATTAGATATGAGAGTTAAAGTAATTCCCTATGACTTTCACGA
AAATTCCCTTTGTAAACAGAAAAGGATTAGGTCCATAACATTTTCTAAAAATGCCCTCAACTTTA
ACTATAGATGAGAAATAAGATTTGAGTTTTTTTTCATCCAACCAGAACAACAATCTCGTGAC
Found at i:3766448 original size:78 final size:79
Alignment explanation
Indices: 3766318--3766468 Score: 191
Period size: 78 Copynumber: 1.9 Consensus size: 79
3766308 TCCCGAGACG
**** *
3766318 TTATTTTCGAGGGGATACTCCAACCCTGATTTTATTTTCAAAACGTTGATTTTCTATAATCAGGG
1 TTATTTTCGAGGGGATACTCCAACCCTGATTTTATTTTCAAAACACCAATTTTCCATAATCAGGG
3766383 ATACTCCAACCCTA
66 ATACTCCAACCCTA
* * *
3766397 TTATTTTTGA-GGGATACTCCAA-CCTCGATTTTA-TTTCTAGAACACCAATTTTCCATAATCGG
1 TTATTTTCGAGGGGATACTCCAACCCT-GATTTTATTTTC-AAAACACCAATTTTCCATAATCAG
3766459 GGATACTCCA
64 GGATACTCCA
3766469 GCCCCGTTGT
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
77 7 0.11
78 46 0.74
79 9 0.15
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (79 bp):
TTATTTTCGAGGGGATACTCCAACCCTGATTTTATTTTCAAAACACCAATTTTCCATAATCAGGG
ATACTCCAACCCTA
Found at i:3768562 original size:13 final size:13
Alignment explanation
Indices: 3768546--3768582 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
3768536 TTTTAAGGTG
3768546 TTTATTTATTTAT
1 TTTATTTATTTAT
3768559 TTTATTTATTTAT
1 TTTATTTATTTAT
3768572 TTGT-TTTATTT
1 TT-TATTTATTT
3768583 TGTACAGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 22 0.96
14 1 0.04
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (13 bp):
TTTATTTATTTAT
Found at i:3768566 original size:17 final size:17
Alignment explanation
Indices: 3768546--3768582 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
3768536 TTTTAAGGTG
3768546 TTTATTTATTTATTTTA
1 TTTATTTATTTATTTTA
*
3768563 TTTATTTATTTGTTTTA
1 TTTATTTATTTATTTTA
3768580 TTT
1 TTT
3768583 TGTACAGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTATTTATTTATTTTA
Found at i:3773779 original size:20 final size:20
Alignment explanation
Indices: 3773754--3773842 Score: 77
Period size: 20 Copynumber: 4.8 Consensus size: 20
3773744 CTGCCAAGGA
3773754 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
3773774 AATGTATCGATAC---A-T-
1 AATGTATCGATACATTATTC
***
3773789 --TGTATCGATACATTGCCC
1 AATGTATCGATACATTATTC
*
3773807 ATTGTATCGATACATT-TTAC
1 AATGTATCGATACATTATT-C
3773827 AATGTATCGATACATT
1 AATGTATCGATACATT
3773843 CAGGCATTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
13 11 0.20
16 1 0.02
17 1 0.02
20 43 0.77
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:3773798 original size:33 final size:33
Alignment explanation
Indices: 3773756--3773822 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3773746 GCCAAGGAAA
**
3773756 TGTATCGATACATTATTCAATGTATCGATACAT
1 TGTATCGATACATTACCCAATGTATCGATACAT
* *
3773789 TGTATCGATACATTGCCCATTGTATCGATACAT
1 TGTATCGATACATTACCCAATGTATCGATACAT
3773822 T
1 T
3773823 TTACAATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATTACCCAATGTATCGATACAT
Found at i:3773822 original size:13 final size:13
Alignment explanation
Indices: 3773776--3773803 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3773766 CATTATTCAA
3773776 TGTATCGATACAT
1 TGTATCGATACAT
3773789 TGTATCGATACAT
1 TGTATCGATACAT
3773802 TG
1 TG
3773804 CCCATTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3776331 original size:28 final size:26
Alignment explanation
Indices: 3776298--3776367 Score: 90
Period size: 26 Copynumber: 2.6 Consensus size: 26
3776288 TTTCACAATT
3776298 GGGGATACTCCAACCCTGTTA-TTTCA
1 GGGGATACTCCAACCC-GTTATTTTCA
3776324 TCGGGGATACTCCAA-CCGTTATTTTCGA
1 --GGGGATACTCCAACCCGTTATTTTC-A
3776352 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
3776368 CAGCTTTATA
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
26 17 0.44
27 8 0.21
28 14 0.36
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (26 bp):
GGGGATACTCCAACCCGTTATTTTCA
Found at i:3776492 original size:108 final size:106
Alignment explanation
Indices: 3776248--3776524 Score: 346
Period size: 106 Copynumber: 2.6 Consensus size: 106
3776238 ACCACAATCA
* * *
3776248 GGGATACTCCGACTCCGATTTTATTT-TCAAAATACTAATTTTTCACAATTGGGGATACTCCAAC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAAATACTAATTTTTCACAATTGGGGATACTCCAAC
* * * *
3776312 CCTGTTATTTCATCGGGGATACTCCAACCGTTATTTTCGAG
66 CCCGTTATTTCATCCGGGATACTACAACCGTTATTTCCGAG
* * * * *
3776353 GGGATACTCCAACCCC-AGCTTTATATCTAAAAATATTATTTTTTTCATAATTGGGG-TACTCCA
1 GGGATACTCCAACCCCGA-TTTTATTTCTAAAAATACTA-ATTTTTCACAATTGGGGATACTCCA
3776416 ACCCCGTTATTTCATCCGGGATACTACAATCCCGTTATTTCCGAG
64 ACCCCGTTATTTCATCCGGGATACTACAA--CCGTTATTTCCGAG
* ** *
3776461 GGGATACTCCAACCCCGATTTTATTTCT-AAAATACCAATTTTTCACAATCAGGGATACTTCAAC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAAATACTAATTTTTCACAATTGGGGATACTCCAAC
3776525 TCTGATTTTA
Statistics
Matches: 144, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
104 1 0.01
105 20 0.14
106 55 0.38
107 30 0.21
108 37 0.26
109 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (106 bp):
GGGATACTCCAACCCCGATTTTATTTCTAAAAATACTAATTTTTCACAATTGGGGATACTCCAAC
CCCGTTATTTCATCCGGGATACTACAACCGTTATTTCCGAG
Found at i:3776532 original size:51 final size:51
Alignment explanation
Indices: 3776461--3776579 Score: 157
Period size: 51 Copynumber: 2.3 Consensus size: 51
3776451 TATTTCCGAG
* * *
3776461 GGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATCA
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATCA
* * * * **
3776512 GGGATACTTCAACTCTGATTTTATTTCCGAAACACCAATTTCTCACAATTG
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATCA
3776563 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
3776580 TTATTTTCGC
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (51 bp):
GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATCA
Found at i:3776595 original size:79 final size:79
Alignment explanation
Indices: 3776512--3776730 Score: 217
Period size: 79 Copynumber: 2.8 Consensus size: 79
3776502 TTCACAATCA
* * * * **
3776512 GGGATACTTCAACTCTGATTTTATTTCCGAAACACCAA-TTTCTCACAATTGGGGATACTCCAAC
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCT-ACAATCAGGGATACTCCAAC
* *
3776576 CCCGTTATTTTCGCG
65 CCCATTATTTTCGAG
* * * * *
3776591 GGGATACTCCAACCCCGATTTTATTTTCAAAATACCGATTTTCTATAATCAGGGATACTCTAACC
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCTACAATCAGGGATACTCCAACC
*
3776656 CTATTATTTTCGAG
66 CCATTATTTTCGAG
* * * * * *
3776670 GGGATACTCCAACCCCAATTTTTATTTCTAGAACACCGATTTT-TCATAATCGGGGATACTC
1 GGGATACTCCAACCCCGA-TTTTATTTCCAAAACACCAATTTTCT-ACAATCAGGGATACTC
3776731 TAGCCAGTTG
Statistics
Matches: 117, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 77 0.66
80 40 0.34
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (79 bp):
GGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCTACAATCAGGGATACTCCAACC
CCATTATTTTCGAG
Found at i:3778804 original size:4 final size:4
Alignment explanation
Indices: 3778795--3778821 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
3778785 TTTTGAGGTG
3778795 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
3778822 GTTTGTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:3789155 original size:8 final size:8
Alignment explanation
Indices: 3789144--3789182 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
3789134 TCTAAAAAAC
3789144 AAAAACAA
1 AAAAACAA
*
3789152 AAAACAAAA
1 AAAA-ACAA
3789161 AAAAACAA
1 AAAAACAA
3789169 AAAAACAA
1 AAAAACAA
3789177 AGAAAA
1 A-AAAA
3789183 AAAGAAAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 16 0.59
9 11 0.41
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (8 bp):
AAAAACAA
Found at i:3789155 original size:13 final size:13
Alignment explanation
Indices: 3789137--3789177 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
3789127 CTTTTTTTCT
3789137 AAAAAACAAAAAC
1 AAAAAACAAAAAC
3789150 AAAAAACAAAAA-
1 AAAAAACAAAAAC
3789162 AAAACAA-AAAAAC
1 AAAA-AACAAAAAC
3789175 AAA
1 AAA
3789178 GAAAAAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 9 0.35
13 17 0.65
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAACAAAAAC
Found at i:3789165 original size:23 final size:22
Alignment explanation
Indices: 3789137--3789185 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
3789127 CTTTTTTTCT
3789137 AAAAAACAAAAACAAAAAACAAA
1 AAAAAACAAAAA-AAAAAACAAA
* *
3789160 AAAAAACAAAAAAACAAAGAAA
1 AAAAAACAAAAAAAAAAACAAA
3789182 AAAA
1 AAAA
3789186 GAAAGGAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (22 bp):
AAAAAACAAAAAAAAAAACAAA
Done.