Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 26 of 135
Found at i:6764299 original size:42 final size:42
Alignment explanation
Indices: 6764123--6764358 Score: 214
Period size: 42 Copynumber: 5.8 Consensus size: 42
6764113 GAATGACTGC
* * * *
6764123 AATCTACCCCATGATTGGGGTAAGAGATTAGATGATGACAGT
1 AATCTACCCCATGATCGGGGTAAGAGATTGGATGATGGCTGT
* * * * **
6764165 AATTTACCTCGTAATCGGGGTAAGAGATT-G--GATGGCTAC
1 AATCTACCCCATGATCGGGGTAAGAGATTGGATGATGGCTGT
* * * *
6764204 AATTTGCCCCATGATTGGGGTAAGAGATT--A-GATGGCTGC
1 AATCTACCCCATGATCGGGGTAAGAGATTGGATGATGGCTGT
* *
6764243 AATCTGCCCCATGATCGGTGTAAGAGATTGGATGATGGCTGT
1 AATCTACCCCATGATCGGGGTAAGAGATTGGATGATGGCTGT
* * * *
6764285 AATCTACCCTATGATCGAGGTAAGAGATTGGATGACGACTGT
1 AATCTACCCCATGATCGGGGTAAGAGATTGGATGATGGCTGT
* * * *
6764327 AATCTGCCCCATGGTCGAGGTAAAAGATTGGA
1 AATCTACCCCATGATCGGGGTAAGAGATTGGA
6764359 AATGTTTTCA
Statistics
Matches: 161, Mismatches: 29, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
39 63 0.39
41 2 0.01
42 96 0.60
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (42 bp):
AATCTACCCCATGATCGGGGTAAGAGATTGGATGATGGCTGT
Found at i:6764410 original size:41 final size:42
Alignment explanation
Indices: 6764345--6764446 Score: 134
Period size: 42 Copynumber: 2.4 Consensus size: 42
6764335 CCATGGTCGA
*
6764345 GGTAAAAGATTGGAAATGTTTTCAATCTACCCCTCTTGA-TTAGG
1 GGTAAAAGATTGG-AA--TCTTCAATCTACCCCTCTTGACTTAGG
* *
6764389 GGTAAAAGATTGGAATCTTCAATCTGCCCCTTTTGACTTAGG
1 GGTAAAAGATTGGAATCTTCAATCTACCCCTCTTGACTTAGG
*
6764431 GGTAAAAGATTAGAAT
1 GGTAAAAGATTGGAAT
6764447 GTGGCTTCGA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
41 18 0.34
42 20 0.38
43 2 0.04
44 13 0.25
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (42 bp):
GGTAAAAGATTGGAATCTTCAATCTACCCCTCTTGACTTAGG
Found at i:6764686 original size:49 final size:49
Alignment explanation
Indices: 6764486--6764918 Score: 200
Period size: 49 Copynumber: 8.8 Consensus size: 49
6764476 GGGTATAAGA
* * * * *
6764486 TTCGTCATTGTGGCCTCAATCTTT-CCTGTCATAT-TTCTAAGGTACCGGG
1 TTCGTCATTGCGGCATCAACCTTTCCCT-TCATATCTTC-ATGGTACCAGG
* * * * *
6764535 TTCGCCATTGCAGCATCAACCTTTCCTTTCATATCTTCATGGTAACGGG
1 TTCGTCATTGCGGCATCAACCTTTCCCTTCATATCTTCATGGTACCAGG
* * * * * *
6764584 TTCGCCGTTACGGTATCAACCTTTTCCTTCATATCTTCATGGTATC-GAG
1 TTCGTCATTGCGGCATCAACCTTTCCCTTCATATCTTCATGGTACCAG-G
* * *
6764633 TTCGTCATTGCGGCATCAATCTTTCCCTTCAAATCTTCATGGTACCAGT
1 TTCGTCATTGCGGCATCAACCTTTCCCTTCATATCTTCATGGTACCAGG
** * * * * * * *
6764682 TTCGTTGTTGCGACCTCATCCTTTCCCATCACATCTTTTAAGGTACC-GAG
1 TTCGTCATTGCGGCATCAACCTTTCCCTTCATATC-TTCATGGTACCAG-G
** * * * * * *
6764732 TTCACCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCAAG
1 TTCGTCATTGCGGCATCAACCTTTCCCTTCATATCTTC-ATGGTACCAGG
* ** * * * * * *
6764782 CTCACCGTTGTGGCCTCAATCTTTCCCTT--TTTCCT-ATGGTACCA-G
1 TTCGTCATTGCGGCATCAACCTTTCCCTTCATATCTTCATGGTACCAGG
* * * * * * * **
6764827 ATCTGTCGTTGCGGCCTCGATCC-TTCCCATCACATCTTCTAAGGTACTGGG
1 TTC-GTCATTGCGGCATC-AACCTTTCCCTTCATATCTTC-ATGGTACCAGG
* * * *
6764878 TTCGTCGTTACAGCCTCAACCTTTCCCTTCATATCTTCATG
1 TTCGTCATTGCGGCATCAACCTTTCCCTTCATATCTTCATG
6764919 TTTCCTTGGT
Statistics
Matches: 298, Mismatches: 70, Indels: 32
0.75 0.17 0.08
Matches are distributed among these distances:
45 3 0.01
46 25 0.08
47 2 0.01
48 7 0.02
49 147 0.49
50 111 0.37
51 3 0.01
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.36
Consensus pattern (49 bp):
TTCGTCATTGCGGCATCAACCTTTCCCTTCATATCTTCATGGTACCAGG
Found at i:6764705 original size:98 final size:98
Alignment explanation
Indices: 6764507--6764779 Score: 251
Period size: 98 Copynumber: 2.8 Consensus size: 98
6764497 GGCCTCAATC
* * * *
6764507 TTTCCTGTCATAT-TTCTAAGGTACCGGGTTCGCCATTGCAGCATCAACCTTTCCTTTCATATCT
1 TTTCCT-TCATATCTTC-AAGGTACCGAGTTCGCCATTGCGGCATCAACCTTTCCCTTCAAATCT
* * **
6764571 TCATGGTAACGGGTTCGCCGTTACGGTATCAACCT
64 TCATGGTACCAGGTTCGCCGTTACGACATCAACCT
* * * *
6764606 TTTCCTTCATATCTTCATGGTATCGAGTTCGTCATTGCGGCATCAATCTTTCCCTTCAAATCTTC
1 TTTCCTTCATATCTTCAAGGTACCGAGTTCGCCATTGCGGCATCAACCTTTCCCTTCAAATCTTC
* ** * * *
6764671 ATGGTACCAGTTTCGTTGTTGCGACCTCATCCT
66 ATGGTACCAGGTTCGCCGTTACGACATCAACCT
* * * * * * * * *
6764704 TTCCCATCACATCTTTTAAGGTACCGAGTTCACCGTTGCGGCCTCAACCTTTCCCATCACATCTT
1 TTTCCTTCATATC-TTCAAGGTACCGAGTTCGCCATTGCGGCATCAACCTTTCCCTTCAAATCTT
*
6764769 CTAAGGTACCA
65 C-ATGGTACCA
6764780 AGCTCACCGT
Statistics
Matches: 139, Mismatches: 32, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
98 80 0.58
99 51 0.37
100 8 0.06
ACGTcount: A:0.19, C:0.29, G:0.16, T:0.36
Consensus pattern (98 bp):
TTTCCTTCATATCTTCAAGGTACCGAGTTCGCCATTGCGGCATCAACCTTTCCCTTCAAATCTTC
ATGGTACCAGGTTCGCCGTTACGACATCAACCT
Found at i:6764743 original size:50 final size:50
Alignment explanation
Indices: 6764688--6764873 Score: 181
Period size: 50 Copynumber: 3.8 Consensus size: 50
6764678 CAGTTTCGTT
* * * *
6764688 GTTGCGACCTCATCCTTTCCCATCACATCTTTTAAGGTACCGAGTTCACC
1 GTTGCGGCCTCATCCTTTCCCATCACATCTTCTAAGGTACCAAGCTCACC
*
6764738 GTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCAAGCTCACC
1 GTTGCGGCCTCATCCTTTCCCATCACATCTTCTAAGGTACCAAGCTCACC
* * * * **
6764788 GTTGTGGCCTCAAT-CTTTCCC-T----TTTTCCTATGGTACC-AGATCTGTC
1 GTTGCGGCCTC-ATCCTTTCCCATCACATCTT-CTAAGGTACCAAGCTC-ACC
6764834 GTTGCGGCCTCGATCC-TTCCCATCACATCTTCTAAGGTAC
1 GTTGCGGCCTC-ATCCTTTCCCATCACATCTTCTAAGGTAC
6764874 TGGGTTCGTC
Statistics
Matches: 111, Mismatches: 16, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
45 7 0.06
46 27 0.24
47 2 0.02
49 1 0.01
50 70 0.63
51 4 0.04
ACGTcount: A:0.18, C:0.34, G:0.16, T:0.32
Consensus pattern (50 bp):
GTTGCGGCCTCATCCTTTCCCATCACATCTTCTAAGGTACCAAGCTCACC
Found at i:6764886 original size:50 final size:49
Alignment explanation
Indices: 6764631--6764915 Score: 172
Period size: 50 Copynumber: 5.8 Consensus size: 49
6764621 CATGGTATCG
* * * * * *
6764631 AGTTCGTCATTGCGGCATCAATCTTTCCCTTCAAATCTTC-ATGGTACC-
1 AGTTCGTCGTTGCGGCCTC-ATCCTTCCCATCACATCTTCTAAGGTACCA
* * * *
6764679 AGTTTCGTTGTTGCGACCTCATCCTTTCCCATCACATCTTTTAAGGTACCG
1 AG-TTCGTCGTTGCGGCCTCATCC-TTCCCATCACATCTTCTAAGGTACCA
** *
6764730 AGTTCACCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCA
1 AGTTCGTCGTTGCGGCCTCATCC-TTCCCATCACATCTTCTAAGGTACCA
* ** * * * *
6764780 AGCTCACCGTTGTGGCCTCAATCTTTCCC-T----TTTTCCTATGGTACC-
1 AGTTCGTCGTTGCGGCCTC-ATCCTTCCCATCACATCTT-CTAAGGTACCA
* **
6764825 AGATCTGTCGTTGCGGCCTCGATCCTTCCCATCACATCTTCTAAGGTACTG
1 AGTTC-GTCGTTGCGGCCTC-ATCCTTCCCATCACATCTTCTAAGGTACCA
* * * * * *
6764876 GGTTCGTCGTTACAGCCTCAACCTTTCCCTTCATATCTTC
1 AGTTCGTCGTTGCGGCCTCATCC-TTCCCATCACATCTTC
6764916 ATGTTTCCTT
Statistics
Matches: 185, Mismatches: 38, Indels: 26
0.74 0.15 0.10
Matches are distributed among these distances:
45 7 0.04
46 28 0.15
47 1 0.01
48 5 0.03
49 30 0.16
50 104 0.56
51 10 0.05
ACGTcount: A:0.18, C:0.32, G:0.15, T:0.34
Consensus pattern (49 bp):
AGTTCGTCGTTGCGGCCTCATCCTTCCCATCACATCTTCTAAGGTACCA
Found at i:6765846 original size:17 final size:16
Alignment explanation
Indices: 6765811--6765852 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
6765801 CAACCTCTCC
*
6765811 TTTTCTTTTTCCCTTT
1 TTTTCTTTTTCCCTGT
*
6765827 TTTTCCTTTTTTCCTG-
1 TTTT-CTTTTTCCCTGT
6765843 TTTTCTTTTT
1 TTTTCTTTTT
6765853 TTTTTAGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 6 0.26
16 8 0.35
17 9 0.39
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (16 bp):
TTTTCTTTTTCCCTGT
Found at i:6765854 original size:8 final size:8
Alignment explanation
Indices: 6765811--6765900 Score: 60
Period size: 8 Copynumber: 11.2 Consensus size: 8
6765801 CAACCTCTCC
6765811 TTTTCTTT
1 TTTTCTTT
**
6765819 TTCCCTTT
1 TTTTCTTT
*
6765827 TTTTCCTT
1 TTTTCTTT
* *
6765835 TTTTCCTG
1 TTTTCTTT
6765843 TTTTCTTT
1 TTTTCTTT
6765851 TTTT-TTT
1 TTTTCTTT
6765858 AGTTTT-TTT
1 --TTTTCTTT
*
6765867 TCTTCTTT
1 TTTTCTTT
6765875 TTTTCTTT
1 TTTTCTTT
6765883 CTTTT-TTT
1 -TTTTCTTT
* *
6765891 ATTTATTT
1 TTTTCTTT
6765899 TT
1 TT
6765901 CTTCATCGAA
Statistics
Matches: 65, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
7 9 0.14
8 45 0.69
9 11 0.17
ACGTcount: A:0.03, C:0.14, G:0.02, T:0.80
Consensus pattern (8 bp):
TTTTCTTT
Found at i:6765857 original size:11 final size:11
Alignment explanation
Indices: 6765843--6765900 Score: 62
Period size: 12 Copynumber: 4.9 Consensus size: 11
6765833 TTTTTTCCTG
6765843 TTTTCTTTTTT
1 TTTTCTTTTTT
*
6765854 TTTTAGTTTTTT
1 TTTT-CTTTTTT
6765866 TTCTTCTTTTTT
1 TT-TTCTTTTTT
6765878 TCTTTCTTTTTT
1 T-TTTCTTTTTT
*
6765890 TATTTATTTTT
1 T-TTTCTTTTT
6765901 CTTCATCGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
11 4 0.10
12 33 0.82
13 3 0.08
ACGTcount: A:0.05, C:0.09, G:0.02, T:0.84
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:6765864 original size:36 final size:36
Alignment explanation
Indices: 6765824--6765900 Score: 88
Period size: 36 Copynumber: 2.1 Consensus size: 36
6765814 TCTTTTTCCC
6765824 TTTTTTTCCTT-TTTTCCTGT-TTTCTTTTTTT-TTTA
1 TTTTTTTCCTTCTTTT--TGTCTTTCTTTTTTTATTTA
* *
6765859 GTTTTTTTTCTTCTTTTTTTCTTTCTTTTTTTATTTA
1 -TTTTTTTCCTTCTTTTTGTCTTTCTTTTTTTATTTA
6765896 TTTTT
1 TTTTT
6765901 CTTCATCGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
35 2 0.06
36 26 0.72
37 8 0.22
ACGTcount: A:0.04, C:0.12, G:0.03, T:0.82
Consensus pattern (36 bp):
TTTTTTTCCTTCTTTTTGTCTTTCTTTTTTTATTTA
Found at i:6765887 original size:21 final size:21
Alignment explanation
Indices: 6765843--6765888 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
6765833 TTTTTTCCTG
* *
6765843 TTTTCTTTTTTTTTTAGTTTT
1 TTTTCTTCTTTTTTTACTTTT
6765864 TTTTCTTCTTTTTTT-CTTTCT
1 TTTTCTTCTTTTTTTACTTT-T
6765885 TTTT
1 TTTT
6765889 TTATTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.02, C:0.11, G:0.02, T:0.85
Consensus pattern (21 bp):
TTTTCTTCTTTTTTTACTTTT
Found at i:6765900 original size:33 final size:32
Alignment explanation
Indices: 6765843--6765904 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 32
6765833 TTTTTTCCTG
6765843 TTTTCTTTTTTTTTTAGTTTTTTTTCTTCTTT
1 TTTTCTTTTTTTTTTAGTTTTTTTTCTTCTTT
6765875 TTTTCTTTCTTTTTTTA-TTTATTTTTCTTC
1 TTTTCTTT-TTTTTTTAGTTT-TTTTTCTTC
6765905 ATCGAATCCG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.05, C:0.11, G:0.02, T:0.82
Consensus pattern (32 bp):
TTTTCTTTTTTTTTTAGTTTTTTTTCTTCTTT
Found at i:6768560 original size:29 final size:29
Alignment explanation
Indices: 6768519--6768628 Score: 100
Period size: 29 Copynumber: 3.7 Consensus size: 29
6768509 AGAAAAAAAA
*
6768519 AGGGGTCAAAAATGAAGTTTTTGAGAA-TTT
1 AGGGGT-AAAAATGAACTTTTTG-GAAGTTT
* *
6768549 CGGGGTAAAAATGTACTTTTTGGAAGTTT
1 AGGGGTAAAAATGAACTTTTTGGAAGTTT
6768578 AGGGGTTAAAATATG-A-TTTTTAGGAAAGTTT
1 AGGGG-TAAAA-ATGAACTTTTT-GG-AAGTTT
* *
6768609 AGGGGTCAAAATGAAATTTT
1 AGGGGTAAAAATGAACTTTT
6768629 AAAAAAGTTT
Statistics
Matches: 68, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
28 3 0.04
29 29 0.43
30 18 0.26
31 18 0.26
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (29 bp):
AGGGGTAAAAATGAACTTTTTGGAAGTTT
Found at i:6768650 original size:90 final size:90
Alignment explanation
Indices: 6768572--6768742 Score: 218
Period size: 90 Copynumber: 1.9 Consensus size: 90
6768562 TACTTTTTGG
* * * * *
6768572 AAGTTTAGG-GGTTAAAATATGATTTTTAGGAAAGTTTAGGGGTCAAAATGAAATTTTAAAAAAG
1 AAGTTT-GGTGGTTAAAATAT-AATTTTAGAAAAGTTTAAGAGTCAAAATGAAATTTCAAAAAAG
* *
6768636 TTTGAGGGTTAAAATGCAATTTTAGAA
64 TTTAAGGGTTAAAATGTAATTTTAGAA
* * **
6768663 AAGTTTGGTGGTTAAAATGTAATTTTAGAAAAGTTTAAGAGTTAAAATGTGATTTCAAAAAAGTT
1 AAGTTTGGTGGTTAAAATATAATTTTAGAAAAGTTTAAGAGTCAAAATGAAATTTCAAAAAAGTT
6768728 TAAGGGTTAAAATGT
66 TAAGGGTTAAAATGT
6768743 GATACTAGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
90 52 0.76
91 16 0.24
ACGTcount: A:0.41, C:0.02, G:0.22, T:0.35
Consensus pattern (90 bp):
AAGTTTGGTGGTTAAAATATAATTTTAGAAAAGTTTAAGAGTCAAAATGAAATTTCAAAAAAGTT
TAAGGGTTAAAATGTAATTTTAGAA
Found at i:6768743 original size:30 final size:30
Alignment explanation
Indices: 6768572--6768778 Score: 184
Period size: 30 Copynumber: 6.9 Consensus size: 30
6768562 TACTTTTTGG
* * * *
6768572 AAGTTTAGGGGTTAAAATATGATTTTTAGGA
1 AAGTTTAAGGGTTAAAATGT-AATTTTAGAA
* * * *
6768603 AAGTTTAGGGGTCAAAATGAAATTTTAAAA
1 AAGTTTAAGGGTTAAAATGTAATTTTAGAA
* *
6768633 AAGTTTGAGGGTTAAAATGCAATTTTAGAA
1 AAGTTTAAGGGTTAAAATGTAATTTTAGAA
*
6768663 AAGTTT-GGTGGTTAAAATGTAATTTTAGAA
1 AAGTTTAAG-GGTTAAAATGTAATTTTAGAA
* * * *
6768693 AAGTTTAAGAGTTAAAATGTGATTTCAAAA
1 AAGTTTAAGGGTTAAAATGTAATTTTAGAA
* **
6768723 AAGTTTAAGGGTTAAAATGTGATACTAGAA
1 AAGTTTAAGGGTTAAAATGTAATTTTAGAA
* * *
6768753 AAATATGAA-GGTTAAAATGTGATTTT
1 AAGT-TTAAGGGTTAAAATGTAATTTT
6768779 TGGGAAAACA
Statistics
Matches: 146, Mismatches: 27, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
29 1 0.01
30 124 0.85
31 21 0.14
ACGTcount: A:0.42, C:0.02, G:0.22, T:0.35
Consensus pattern (30 bp):
AAGTTTAAGGGTTAAAATGTAATTTTAGAA
Found at i:6768752 original size:90 final size:89
Alignment explanation
Indices: 6768572--6768778 Score: 216
Period size: 90 Copynumber: 2.3 Consensus size: 89
6768562 TACTTTTTGG
* * * * * *
6768572 AAGTTTAGGGGTTAAAATATGATTTTTAGGAAAGTTTAGGGGTCAAAATGAAATTTTAAAAAAGT
1 AAGTTT-GGGGTTAAAATGT-AATTTTAGAAAAGTTTAAGAGTCAAAATGAAATTTCAAAAAAGT
* **
6768637 TTGAGGGTTAAAATGCAATTTTAGAA
64 TTAAGGGTTAAAATGCAATACTAGAA
* **
6768663 AAGTTTGGTGGTTAAAATGTAATTTTAGAAAAGTTTAAGAGTTAAAATGTGATTTCAAAAAAGTT
1 AAGTTTGG-GGTTAAAATGTAATTTTAGAAAAGTTTAAGAGTCAAAATGAAATTTCAAAAAAGTT
**
6768728 TAAGGGTTAAAATGTGATACTAGAA
65 TAAGGGTTAAAATGCAATACTAGAA
* * * *
6768753 AAATATGAAGGTTAAAATGTGATTTT
1 AAGTTTG-GGGTTAAAATGTAATTTT
6768779 TGGGAAAACA
Statistics
Matches: 96, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
90 80 0.83
91 16 0.17
ACGTcount: A:0.42, C:0.02, G:0.22, T:0.35
Consensus pattern (89 bp):
AAGTTTGGGGTTAAAATGTAATTTTAGAAAAGTTTAAGAGTCAAAATGAAATTTCAAAAAAGTTT
AAGGGTTAAAATGCAATACTAGAA
Found at i:6769734 original size:7 final size:8
Alignment explanation
Indices: 6769720--6769748 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
6769710 TTCAACTTTC
6769720 CTTTTTTT
1 CTTTTTTT
6769728 CTTTTTTT
1 CTTTTTTT
6769736 CTTTTTTT
1 CTTTTTTT
6769744 CTTTT
1 CTTTT
6769749 CCTAAAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (8 bp):
CTTTTTTT
Found at i:6770937 original size:85 final size:85
Alignment explanation
Indices: 6770780--6770946 Score: 212
Period size: 85 Copynumber: 2.0 Consensus size: 85
6770770 TGCGTCTTTG
* * * *
6770780 ATTTGGTCTACTTCTCTGTATCTCATTAGTAAGATGACCGCCTCATTGTTTCAATCCACTTCTCT
1 ATTTGGTCTACTTCTCTGTATCTCATAAGTAAGATGACCGCCTCATTCTTTCAACCCACTTATCT
* *
6770845 ATCTCTCATCAGGAAGACGA
66 ATATCTCATCAAGAAGACGA
* * *
6770865 ATTTTGTCTACTTCTCTGTATCTCATCAAG-AAGATGACCGCTTTATTACTTT-AACCCACTTAT
1 ATTTGGTCTACTTCTCTGTATCTCAT-AAGTAAGATGACCGCCTCATT-CTTTCAACCCACTTAT
*
6770928 CTGTATCTCATCAAGAAGA
64 CTATATCTCATCAAGAAGA
6770947 TGGGGTTTGA
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
85 65 0.93
86 5 0.07
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.37
Consensus pattern (85 bp):
ATTTGGTCTACTTCTCTGTATCTCATAAGTAAGATGACCGCCTCATTCTTTCAACCCACTTATCT
ATATCTCATCAAGAAGACGA
Found at i:6771068 original size:48 final size:48
Alignment explanation
Indices: 6770997--6771119 Score: 149
Period size: 48 Copynumber: 2.6 Consensus size: 48
6770987 GATTTGGTCT
* *
6770997 ACTTCTCTGT-TCTCATCAGGAAGATGGCCGCTTCATTGATTTAATCC
1 ACTTATCTGTATCTCATCAGGAAGATGGCCGCTTCATTGATTTAACCC
* ** * * *
6771044 ACTTATCTGTATCTCATTAGGAAGATGATCGCTTTATTGCTTTGACCC
1 ACTTATCTGTATCTCATCAGGAAGATGGCCGCTTCATTGATTTAACCC
* *
6771092 TCTTATCTGTATCTCATCAGAAAGATGG
1 ACTTATCTGTATCTCATCAGGAAGATGG
6771120 GGTTTGAAGT
Statistics
Matches: 63, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
47 9 0.14
48 54 0.86
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (48 bp):
ACTTATCTGTATCTCATCAGGAAGATGGCCGCTTCATTGATTTAACCC
Found at i:6771168 original size:170 final size:169
Alignment explanation
Indices: 6770874--6771237 Score: 475
Period size: 170 Copynumber: 2.1 Consensus size: 169
6770864 AATTTTGTCT
* *
6770874 ACTTCTCTGTATCTCATCAAGAAGATGACCGCTTTATTACTTTAACCCACTTATCTGTATCTCAT
1 ACTTCTCTGTATCTCATTAGGAAGATGACCGCTTTATTACTTTAACCCACTTATCTGTATCTCAT
* * * *
6770939 CAAGAAGATGGGGTTTGAAGTCTTATTCGTATTGAGATTTGCCTTATTGATTTGGTCTACTTCTC
66 CAAGAAGATGGGGTTTGAAGTCTCATTCATATTAAGATTTGCCTTATTGATTAGGTCTACTTCTC
* **
6771004 TGTTCTCATCAGGAAGATGGCCGCTTCATTGA-TTTAATCC
131 TGTTCTCATCAAGAAGATAACCGCTT-ATT-ATTTTAATCC
* * * * *
6771044 ACTTATCTGTATCTCATTAGGAAGATGATCGCTTTATTGCTTTGACCCTCTTATCTGTATCTCAT
1 ACTTCTCTGTATCTCATTAGGAAGATGACCGCTTTATTACTTTAACCCACTTATCTGTATCTCAT
*
6771109 C-AGAAAGATGGGGTTTGAAGTCTCATTCATATTAAG-TTT-CATTTCATTGATTAGGTCTACTT
66 CAAG-AAGATGGGGTTTGAAGTCTCATTCATATTAAGATTTGC-CTT-ATTGATTAGGTCTACTT
* * *
6771171 TTTTGTTCTCATCAAGAAGATAACTGCTTATTATTTTAATCC
128 CTCTGTTCTCATCAAGAAGATAACCGCTTATTATTTTAATCC
* *
6771213 CCTTCTTTGTATCTCATTAGGAAGA
1 ACTTCTCTGTATCTCATTAGGAAGA
6771238 CGAATTTTAT
Statistics
Matches: 169, Mismatches: 21, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
168 2 0.01
169 40 0.24
170 127 0.75
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.41
Consensus pattern (169 bp):
ACTTCTCTGTATCTCATTAGGAAGATGACCGCTTTATTACTTTAACCCACTTATCTGTATCTCAT
CAAGAAGATGGGGTTTGAAGTCTCATTCATATTAAGATTTGCCTTATTGATTAGGTCTACTTCTC
TGTTCTCATCAAGAAGATAACCGCTTATTATTTTAATCC
Found at i:6771380 original size:37 final size:37
Alignment explanation
Indices: 6771305--6771440 Score: 218
Period size: 37 Copynumber: 3.6 Consensus size: 37
6771295 TGACTACAAT
*
6771305 CTGCCTCATGATCGGGGTAAGAGATTAGATGGCTGTAAC
1 CTGCCCCATGATCGGGGTAAGAG--TAGATGGCTGTAAC
*
6771344 CTGCCTCATGATCGGGGTAAGAGTAGATGGCTGTAAC
1 CTGCCCCATGATCGGGGTAAGAGTAGATGGCTGTAAC
*
6771381 CTGCCCCATGATCGGGGTAAGAGTAGATGGCTGTAAT
1 CTGCCCCATGATCGGGGTAAGAGTAGATGGCTGTAAC
*
6771418 TTGCCCCATGATCGGGGTAAGAG
1 CTGCCCCATGATCGGGGTAAGAG
6771441 ATTTGATGAC
Statistics
Matches: 94, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
37 71 0.76
39 23 0.24
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.24
Consensus pattern (37 bp):
CTGCCCCATGATCGGGGTAAGAGTAGATGGCTGTAAC
Found at i:6771617 original size:46 final size:42
Alignment explanation
Indices: 6771475--6771617 Score: 137
Period size: 46 Copynumber: 3.3 Consensus size: 42
6771465 CCATGGCCGA
* *
6771475 GGTAAAAGATTGGAAAGGTTTTCAATCTACCCCTCTTGA-TTAGG
1 GGTAAAAGATTGG-AA--TCTTCAATCTAACCCTCTTGACTTAGG
* *
6771519 GGTAAAAGATTGGAATCTTCAATC-AACCCCTCTTGACATAAG
1 GGTAAAAGATTGGAATCTTCAATCTAA-CCCTCTTGACTTAGG
* *
6771561 GGTAAAAGATTGGAATGTGGCTTCCATCTAACCCACTTGACTTAGG
1 GGTAAAAGATTGGAA--T--CTTCAATCTAACCCTCTTGACTTAGG
*
6771607 GGTATAAGATT
1 GGTAAAAGATT
6771618 CGCCGTTGCG
Statistics
Matches: 83, Mismatches: 9, Indels: 12
0.80 0.09 0.12
Matches are distributed among these distances:
40 1 0.01
41 17 0.20
42 18 0.22
43 2 0.02
44 14 0.17
46 29 0.35
47 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (42 bp):
GGTAAAAGATTGGAATCTTCAATCTAACCCTCTTGACTTAGG
Found at i:6771743 original size:49 final size:48
Alignment explanation
Indices: 6771680--6771872 Score: 165
Period size: 50 Copynumber: 3.9 Consensus size: 48
6771670 CGTTACGGCC
* *
6771680 TCAACCCTTT-CCTTCATATCTTCACGGTACTGGGTTTACCGTTGTGACA
1 TCAA-CCTTTCCCTTCA-ATCTTCAAGGTACCGGGTTTACCGTTGTGACA
* * * *
6771729 TTAACCTTTCCCTTCAAGTCTTCATGGTACCGGGTTTGCCGTTGTGACC
1 TCAACCTTTCCCTTCAA-TCTTCAAGGTACCGGGTTTACCGTTGTGACA
* * * * * *
6771778 TCAACCTTTCCCATCACATCTTCTAAGGTACCGGGTTTGCCATTGCGGCC
1 TCAACCTTTCCCTTCA-ATCTTC-AAGGTACCGGGTTTACCGTTGTGACA
* * *
6771828 TCAACCTTTCCCATT-ACATCTTTAAAGGTACCGGGCTTGCCGTTG
1 TCAACCTTTCCC-TTCA-ATC-TTCAAGGTACCGGGTTTACCGTTG
6771873 CAGCCTCAAT
Statistics
Matches: 123, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
48 6 0.05
49 55 0.45
50 59 0.48
51 3 0.02
ACGTcount: A:0.18, C:0.30, G:0.18, T:0.34
Consensus pattern (48 bp):
TCAACCTTTCCCTTCAATCTTCAAGGTACCGGGTTTACCGTTGTGACA
Found at i:6771830 original size:50 final size:50
Alignment explanation
Indices: 6771619--6771889 Score: 221
Period size: 49 Copynumber: 5.5 Consensus size: 50
6771609 TATAAGATTC
* * * * * * * *
6771619 GCCGTTGCGGCCTCAACTTTTCCCTTTATATCTTC-ATGGTAACAGGTTC
1 GCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGGTTT
* * * * * *
6771668 GTCGTTACGGCCTCAACCCTTT-CCTTCATATCTTC-ACGGTACTGGGTTT
1 GCCGTTGCGGCCTCAA-CCTTTCCCATCACATCTTCTAAGGTACCGGGTTT
* * * * * * *
6771717 ACCGTTGTGACATTAACCTTTCCCTTCA-AGTCTTC-ATGGTACCGGGTTT
1 GCCGTTGCGGCCTCAACCTTTCCCATCACA-TCTTCTAAGGTACCGGGTTT
* *
6771766 GCCGTTGTGACCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGGTTT
1 GCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGGTTT
* * *
6771816 GCCATTGCGGCCTCAACCTTTCCCATTACATCTT-TAAAGGTACCGGGCTT
1 GCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCT-AAGGTACCGGGTTT
* *
6771866 GCCGTTGCAGCCTCAATCTTTCCC
1 GCCGTTGCGGCCTCAACCTTTCCC
6771890 TTTTTCCTAT
Statistics
Matches: 185, Mismatches: 31, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
48 6 0.03
49 97 0.52
50 82 0.44
ACGTcount: A:0.17, C:0.31, G:0.18, T:0.34
Consensus pattern (50 bp):
GCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGGTTT
Found at i:6772945 original size:5 final size:6
Alignment explanation
Indices: 6772928--6772986 Score: 52
Period size: 6 Copynumber: 9.8 Consensus size: 6
6772918 CCTCGACCTC
* *
6772928 TCTTTT TCTTTT TCTTTT TCCTTTT T-TATTT TAC-TTT TATTTT TCTTCT
1 TCTTTT TCTTTT TCTTTT T-CTTTT TCT-TTT T-CTTTT TCTTTT TCTTTT
6772977 T-TTTT TCTTT
1 TCTTTT TCTTT
6772987 CTTTTATTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
5 5 0.12
6 32 0.74
7 6 0.14
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (6 bp):
TCTTTT
Found at i:6772945 original size:12 final size:11
Alignment explanation
Indices: 6772930--6773005 Score: 62
Period size: 13 Copynumber: 6.3 Consensus size: 11
6772920 TCGACCTCTC
6772930 TTTTTCTTTTT
1 TTTTTCTTTTT
6772941 CTTTTTCCTTTTT
1 -TTTTT-CTTTTT
*
6772954 TATTTTACTTTTA
1 T-TTTT-CTTTTT
*
6772967 TTTTTCTTCTT
1 TTTTTCTTTTT
6772978 TTTTTCTTTCTT
1 TTTTTCTTT-TT
*
6772990 TTATTTATTTATT
1 TT-TTTCTTT-TT
6773003 TTT
1 TTT
6773006 CTTCATCGAA
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
11 12 0.23
12 15 0.28
13 26 0.49
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:6772971 original size:26 final size:26
Alignment explanation
Indices: 6772932--6772995 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
6772922 GACCTCTCTT
6772932 TTTCTTTT-TCTTTT-TCCTTTTTTAT-
1 TTTCTTTTAT-TTTTCTCCTTTTTT-TC
*
6772957 TTTACTTTTATTTTTCTTCTTTTTTTC
1 TTT-CTTTTATTTTTCTCCTTTTTTTC
6772984 TTTCTTTTATTT
1 TTTCTTTTATTT
6772996 ATTTATTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
25 3 0.09
26 19 0.56
27 12 0.35
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (26 bp):
TTTCTTTTATTTTTCTCCTTTTTTTC
Found at i:6772980 original size:34 final size:34
Alignment explanation
Indices: 6772942--6773009 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
6772932 TTTCTTTTTC
6772942 TTTTTCC-TT-TTTTATTTTACTTTTATTTTTCTTCT
1 TTTTTCCTTTCTTTTA-TTTA--TTTATTTTTCTTCT
*
6772977 TTTTTTCTTTCTTTTATTTATTTATTTTTCTTC
1 TTTTTCCTTTCTTTTATTTATTTATTTTTCTTC
6773010 ATCGAATTCG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 13 0.43
35 6 0.20
36 6 0.20
37 5 0.17
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (34 bp):
TTTTTCCTTTCTTTTATTTATTTATTTTTCTTCT
Found at i:6776912 original size:6 final size:6
Alignment explanation
Indices: 6776901--6776969 Score: 58
Period size: 6 Copynumber: 12.0 Consensus size: 6
6776891 ACCCAAACAG
* * *
6776901 AATTTA AATTTA AATTT- ATTTTA AGTTTA AA-TT- CATTTGA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTT-A AATTTA
6776947 AATTT- -ATTGTA AATTTA AATTTA
1 AATTTA AATT-TA AATTTA AATTTA
6776970 CTAATGTCCA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
4 4 0.08
5 9 0.18
6 31 0.61
7 7 0.14
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (6 bp):
AATTTA
Found at i:6776929 original size:17 final size:17
Alignment explanation
Indices: 6776903--6776969 Score: 98
Period size: 17 Copynumber: 3.9 Consensus size: 17
6776893 CCAAACAGAA
6776903 TTTAAATTTAAATTTAT
1 TTTAAATTTAAATTTAT
* *
6776920 TTTAAGTTTAAATTCAT
1 TTTAAATTTAAATTTAT
*
6776937 TTGAAATTTAAATTTAT
1 TTTAAATTTAAATTTAT
*
6776954 TGTAAATTTAAATTTA
1 TTTAAATTTAAATTTA
6776970 CTAATGTCCA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 43 1.00
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.54
Consensus pattern (17 bp):
TTTAAATTTAAATTTAT
Found at i:6778710 original size:29 final size:29
Alignment explanation
Indices: 6778606--6778806 Score: 178
Period size: 30 Copynumber: 6.9 Consensus size: 29
6778596 CACAATTAAT
* ** **
6778606 TTTTTACCCTTAAACTTTTTTAAAATTGCA
1 TTTTTACCCCTAAAC-TTTCAAAAATCACA
* * *
6778636 TTTTAACCCTTAAAATTTTCAAAAATCACA
1 TTTTTACCCCT-AAACTTTCAAAAATCACA
*
6778666 TTTTTACTCC-AAAC-TTCAAAAAATCACA
1 TTTTTACCCCTAAACTTTC-AAAAATCACA
* * *
6778694 TCTTTACCCCTGAACTTCTCAAAAATTACA
1 TTTTTACCCCTAAACTT-TCAAAAATCACA
*
6778724 -TTTTAGCCC-AAACTTTCAAAAATCACA
1 TTTTTACCCCTAAACTTTCAAAAATCACA
*
6778751 TTTTTA-CCCTAAACTTTTCCAAAATCACA
1 TTTTTACCCCTAAAC-TTTCAAAAATCACA
6778780 TTTTTACCCCTAAATCTTTCCAAAAAT
1 TTTTTACCCCTAAA-CTTT-CAAAAAT
6778807 TACGTTTAAC
Statistics
Matches: 140, Mismatches: 20, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
27 17 0.12
28 35 0.25
29 29 0.21
30 47 0.34
31 12 0.09
ACGTcount: A:0.37, C:0.24, G:0.01, T:0.37
Consensus pattern (29 bp):
TTTTTACCCCTAAACTTTCAAAAATCACA
Found at i:6778750 original size:57 final size:56
Alignment explanation
Indices: 6778654--6778806 Score: 175
Period size: 57 Copynumber: 2.6 Consensus size: 56
6778644 CTTAAAATTT
*
6778654 TCAAAAATCACATTTTTACTCCAAAC-TTCAAAAAATCACATCTTTACCCCTGAACTTC
1 TCAAAAATCACATTTTTAC-CCAAACTTTC-AAAAATCACATCTTTA-CCCTAAACTTC
* * *
6778712 TCAAAAATTACA-TTTTAGCCCAAACTTTCAAAAATCACATTTTTACCCTAAACTTT
1 TCAAAAATCACATTTTTA-CCCAAACTTTCAAAAATCACATCTTTACCCTAAACTTC
*
6778768 TCCAAAATCACATTTTTACCCCTAAATCTTTCCAAAAAT
1 TCAAAAATCACATTTTTA-CCC-AAA-CTTT-CAAAAAT
6778807 TACGTTTAAC
Statistics
Matches: 82, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
56 19 0.23
57 34 0.41
58 18 0.22
59 4 0.05
60 7 0.09
ACGTcount: A:0.39, C:0.27, G:0.01, T:0.33
Consensus pattern (56 bp):
TCAAAAATCACATTTTTACCCAAACTTTCAAAAATCACATCTTTACCCTAAACTTC
Found at i:6778974 original size:14 final size:14
Alignment explanation
Indices: 6778936--6778974 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
6778926 CGATTTATAA
6778936 TTCGTAT-TTTATT
1 TTCGTATATTTATT
*
6778949 TTCCTCATATTTATT
1 TTCGT-ATATTTATT
6778964 TTCGTATATTT
1 TTCGTATATTT
6778975 GCTCATTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 4 0.18
14 8 0.36
15 10 0.45
ACGTcount: A:0.18, C:0.13, G:0.05, T:0.64
Consensus pattern (14 bp):
TTCGTATATTTATT
Found at i:6789692 original size:41 final size:43
Alignment explanation
Indices: 6789616--6789720 Score: 108
Period size: 41 Copynumber: 2.5 Consensus size: 43
6789606 TCTGAAAATG
*
6789616 AGATGAAAACCCGCAAAGGG-CGTCTCAAAAAAAAGG-GTTCA
1 AGATGAAAACCCGCAAAGGGCCCTCTCAAAAAAAAGGAGTTCA
* ** * **
6789657 AGATGAAAACCCGCAAAGGGCCCT-TGAAACCAAAGGAATTTTG
1 AGATGAAAACCCGCAAAGGGCCCTCTCAAAAAAAAGG-AGTTCA
*
6789700 AGTTGAAAACCCGCAAAGGGC
1 AGATGAAAACCCGCAAAGGGC
6789721 GACTGAAATT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 29 0.55
42 2 0.04
43 22 0.42
ACGTcount: A:0.41, C:0.21, G:0.25, T:0.13
Consensus pattern (43 bp):
AGATGAAAACCCGCAAAGGGCCCTCTCAAAAAAAAGGAGTTCA
Found at i:6790682 original size:39 final size:39
Alignment explanation
Indices: 6790617--6790937 Score: 208
Period size: 39 Copynumber: 8.3 Consensus size: 39
6790607 AAGGGCAACA
* * *
6790617 AGTCGATCTTTTACCCCGAGCTTGGGGCAGATCATCATC
1 AGTCAATCTCTTACCCCGAGCCTGGGGCAGATCATCATC
* **
6790656 AGCCAATCTCTTACCCCGAGCCTGGGGCAGAT--TGCAGA
1 AGTCAATCTCTTACCCCGAGCCTGGGGCAGATCAT-CATC
* * * * * *
6790694 ATTCAATCTTTTACCCCGAGCTTGAGACAGAT--TGCAGTA
1 AGTCAATCTCTTACCCCGAGCCTGGGGCAGATCAT-CA-TC
* * *
6790733 ATTTC-ATCTCTTACCCCGAGCCTAGGGCAGATCACCATC
1 A-GTCAATCTCTTACCCCGAGCCTGGGGCAGATCATCATC
* * * *
6790772 ATTCAATCTCTTACCCCGAACCTGGGGCAGATTA-CAGC
1 AGTCAATCTCTTACCCCGAGCCTGGGGCAGATCATCATC
* * * * *
6790810 AATTCGATCTTTTACCCCGAGCCTGGGGAAGATCAGCATC
1 -AGTCAATCTCTTACCCCGAGCCTGGGGCAGATCATCATC
* * * * * * *
6790850 AGCCAATATTTTACCCTGAGCTTGGGGCAAAT--TGCAAC
1 AGTCAATCTCTTACCCCGAGCCTGGGGCAGATCAT-CATC
* * *
6790888 CGTTCGATCTCTTACCCCGAGCCTGGGCCAGATCATCATC
1 AG-TCAATCTCTTACCCCGAGCCTGGGGCAGATCATCATC
*
6790928 AGCCAATCTC
1 AGTCAATCTC
6790938 ACCTCGATCA
Statistics
Matches: 217, Mismatches: 53, Indels: 24
0.74 0.18 0.08
Matches are distributed among these distances:
37 1 0.00
38 42 0.19
39 161 0.74
40 12 0.06
41 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.25
Consensus pattern (39 bp):
AGTCAATCTCTTACCCCGAGCCTGGGGCAGATCATCATC
Found at i:6790825 original size:78 final size:78
Alignment explanation
Indices: 6790622--6790937 Score: 289
Period size: 78 Copynumber: 4.1 Consensus size: 78
6790612 CAACAAGTCG
* * ** *
6790622 ATCTTTTACCCCGAGCTTGGGGCAGA-T-CATCATCAGCCAATCTCTTACCCCGAGCCTGGGGCA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCA--ATTCGATCTCTTACCCCGAGCCTGGGGCA
* ** **
6790685 GAT-TGCAGAATTCA
64 GATCAGCATCAGCCA
* * * * *
6790699 ATCTTTTACCCCGAGCTTGAGACAGATTGCAGTAATTTC-ATCTCTTACCCCGAGCCTAGGGCAG
1 ATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCAA-TTCGATCTCTTACCCCGAGCCTGGGGCAG
* **
6790763 ATCACCATCATTCA
65 ATCAGCATCAGCCA
* * * * *
6790777 ATCTCTTACCCCGAACCTGGGGCAGATTACAGCAATTCGATCTTTTACCCCGAGCCTGGGGAAGA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCAATTCGATCTCTTACCCCGAGCCTGGGGCAGA
6790842 TCAGCATCAGCCA
66 TCAGCATCAGCCA
* * * * * ** *
6790855 ATATTTTACCCTGAGCTTGGGGCAAATTGCAACCGTTCGATCTCTTACCCCGAGCCTGGGCCAGA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCAATTCGATCTCTTACCCCGAGCCTGGGGCAGA
*
6790920 TCATCATCAGCCA
66 TCAGCATCAGCCA
6790933 ATCTC
1 ATCTC
6790938 ACCTCGATCA
Statistics
Matches: 194, Mismatches: 40, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
77 54 0.28
78 137 0.71
79 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.25
Consensus pattern (78 bp):
ATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCAATTCGATCTCTTACCCCGAGCCTGGGGCAGA
TCAGCATCAGCCA
Found at i:6791447 original size:6 final size:6
Alignment explanation
Indices: 6791436--6791526 Score: 88
Period size: 6 Copynumber: 16.0 Consensus size: 6
6791426 ACCCAAACAG
* *
6791436 AATTTA AATTTA AATTTA AATTT- ATTTTA AGTTTA AATTT- -ATTTGA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTT-A
*
6791482 AATTTA AATTT- -ATTATA AATTTA AGTTTA AATTT- -ATTTA AATTTA
1 AATTTA AATTTA AATT-TA AATTTA AATTTA AATTTA AATTTA AATTTA
6791527 CTAATGTCCA
Statistics
Matches: 71, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
4 11 0.15
5 5 0.07
6 48 0.68
7 7 0.10
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (6 bp):
AATTTA
Found at i:6791470 original size:11 final size:11
Alignment explanation
Indices: 6791438--6791526 Score: 58
Period size: 11 Copynumber: 7.9 Consensus size: 11
6791428 CCAAACAGAA
*
6791438 TTTAAATTTAAA
1 TTTAAATTT-AT
6791450 TTTAAATTTAT
1 TTTAAATTTAT
* *
6791461 TTTAAGTTTAAA
1 TTTAAATTT-AT
*
6791473 TTT--ATTTGAAA
1 TTTAAATTT--AT
6791484 TTTAAATTTAT
1 TTTAAATTTAT
* *
6791495 TATAAATTTAAG
1 TTTAAATTT-AT
6791507 TTTAAATTTA-
1 TTTAAATTTAT
6791517 TTTAAATTTA
1 TTTAAATTTA
6791527 CTAATGTCCA
Statistics
Matches: 64, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
10 13 0.20
11 25 0.39
12 22 0.34
13 4 0.06
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:6791470 original size:17 final size:17
Alignment explanation
Indices: 6791444--6791510 Score: 98
Period size: 17 Copynumber: 3.9 Consensus size: 17
6791434 AGAATTTAAA
6791444 TTTAAATTTAAATTTAT
1 TTTAAATTTAAATTTAT
*
6791461 TTTAAGTTTAAATTTAT
1 TTTAAATTTAAATTTAT
*
6791478 TTGAAATTTAAATTTAT
1 TTTAAATTTAAATTTAT
* *
6791495 TATAAATTTAAGTTTA
1 TTTAAATTTAAATTTA
6791511 AATTTATTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 44 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (17 bp):
TTTAAATTTAAATTTAT
Found at i:6791485 original size:34 final size:33
Alignment explanation
Indices: 6791443--6791526 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 33
6791433 CAGAATTTAA
* *
6791443 ATTTAAATTTAAATTTATTTTAAGTTTAAATTT
1 ATTTAAATTTAAATTTATTATAAATTTAAATTT
*
6791476 ATTTGAAATTTAAATTTATTATAAATTTAAGTTT
1 ATTT-AAATTTAAATTTATTATAAATTTAAATTT
6791510 AAATTT--ATTTAAATTTA
1 --ATTTAAATTTAAATTTA
6791527 CTAATGTCCA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
33 15 0.33
34 26 0.58
36 4 0.09
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (33 bp):
ATTTAAATTTAAATTTATTATAAATTTAAATTT
Found at i:6791485 original size:40 final size:39
Alignment explanation
Indices: 6791437--6791526 Score: 130
Period size: 40 Copynumber: 2.3 Consensus size: 39
6791427 CCCAAACAGA
*
6791437 ATTTAAATTTAAATTTAAATT-T-ATTTTAAGTTTAAATTT
1 ATTTAAATTTAAATTT--ATTATAAATTTAAGTTTAAATTT
6791476 ATTTGAAATTTAAATTTATTATAAATTTAAGTTTAAATTT
1 ATTT-AAATTTAAATTTATTATAAATTTAAGTTTAAATTT
6791516 ATTTAAATTTA
1 ATTTAAATTTA
6791527 CTAATGTCCA
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
38 3 0.06
39 12 0.26
40 32 0.68
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.54
Consensus pattern (39 bp):
ATTTAAATTTAAATTTATTATAAATTTAAGTTTAAATTT
Found at i:6792165 original size:22 final size:22
Alignment explanation
Indices: 6792132--6792181 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
6792122 AATAACTATG
6792132 TAATAAATATAATAAATAAATT
1 TAATAAATATAATAAATAAATT
*
6792154 TAAT-AATAATAATAAATAAA-A
1 TAATAAAT-ATAATAAATAAATT
6792175 TAATAAA
1 TAATAAA
6792182 AAGAAATTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
TAATAAATATAATAAATAAATT
Found at i:6792167 original size:18 final size:19
Alignment explanation
Indices: 6792136--6792180 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
6792126 ACTATGTAAT
*
6792136 AAAT-ATAATAAATAAATT
1 AAATAATAATAAATAAATA
*
6792154 TAATAATAAT-AATAAATA
1 AAATAATAATAAATAAATA
6792172 AAATAATAA
1 AAATAATAA
6792181 AAAGAAATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
AAATAATAATAAATAAATA
Found at i:6793225 original size:30 final size:29
Alignment explanation
Indices: 6793191--6793355 Score: 172
Period size: 30 Copynumber: 5.7 Consensus size: 29
6793181 CGAAAAAAAC
* *
6793191 CCCTAAACTTTTCCAAAATTACATTTTAA
1 CCCTAAACTTTTCCAAAATCACATTTTTA
** * *
6793220 TCCCTAAACTTTTTTAAAATTACATTTTAA
1 -CCCTAAACTTTTCCAAAATCACATTTTTA
* *
6793250 CCCCTAAAATTTTCAAAAATCACATTTTTA
1 -CCCTAAACTTTTCCAAAATCACATTTTTA
* *
6793280 CCTTGAAC-TTTCCAAAATCACATTTTTA
1 CCCTAAACTTTTCCAAAATCACATTTTTA
* *
6793308 CCTTGAAC-TTTCCAAAATCACATTTTTA
1 CCCTAAACTTTTCCAAAATCACATTTTTA
*
6793336 CCCCTAAATTTTTCCAAAAT
1 -CCCTAAACTTTTCCAAAAT
6793356 TACGTTTAAC
Statistics
Matches: 118, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
28 47 0.40
29 10 0.08
30 61 0.52
ACGTcount: A:0.36, C:0.24, G:0.01, T:0.39
Consensus pattern (29 bp):
CCCTAAACTTTTCCAAAATCACATTTTTA
Found at i:6793299 original size:28 final size:28
Alignment explanation
Indices: 6793260--6793337 Score: 147
Period size: 28 Copynumber: 2.8 Consensus size: 28
6793250 CCCCTAAAAT
*
6793260 TTTCAAAAATCACATTTTTACCTTGAAC
1 TTTCCAAAATCACATTTTTACCTTGAAC
6793288 TTTCCAAAATCACATTTTTACCTTGAAC
1 TTTCCAAAATCACATTTTTACCTTGAAC
6793316 TTTCCAAAATCACATTTTTACC
1 TTTCCAAAATCACATTTTTACC
6793338 CCTAAATTTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.33, C:0.24, G:0.03, T:0.40
Consensus pattern (28 bp):
TTTCCAAAATCACATTTTTACCTTGAAC
Found at i:6793350 original size:58 final size:57
Alignment explanation
Indices: 6793200--6793373 Score: 165
Period size: 58 Copynumber: 3.0 Consensus size: 57
6793190 CCCCTAAACT
* * * ** *
6793200 TTTCCAAAATTACATTTTAATCCCTAAACTTTTT-TAAAATTACATTTTAACCCCTAAAAT
1 TTTCCAAAATCACATTTTTA-CCCTAAA-TTTTTCCAAAATTACATTTTAA--CCTTGAAC
* * * * * *
6793260 TTTCAAAAATCACATTTTTACCTTGAA-CTTTCCAAAATCACATTTTTACCTTGAAC
1 TTTCCAAAATCACATTTTTACCCTAAATTTTTCCAAAATTACATTTTAACCTTGAAC
*
6793316 TTTCCAAAATCACATTTTTACCCCTAAATTTTTCCAAAATTAC-GTTTAACCTTGAAC
1 TTTCCAAAATCACATTTTTA-CCCTAAATTTTTCCAAAATTACATTTTAACCTTGAAC
6793373 T
1 T
6793374 CTCTAAAACT
Statistics
Matches: 92, Mismatches: 19, Indels: 9
0.77 0.16 0.08
Matches are distributed among these distances:
56 24 0.26
57 21 0.23
58 25 0.27
59 5 0.05
60 17 0.18
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.40
Consensus pattern (57 bp):
TTTCCAAAATCACATTTTTACCCTAAATTTTTCCAAAATTACATTTTAACCTTGAAC
Found at i:6796092 original size:29 final size:29
Alignment explanation
Indices: 6796005--6796170 Score: 190
Period size: 29 Copynumber: 5.6 Consensus size: 29
6795995 TTCGAGGTGG
* * *
6796005 AAATGTAATTTTGGGAAGTTTAAGAGGTCA
1 AAATGTGATTTTAGAAAGTTTAAG-GGTCA
*
6796035 AAATGTGATTTTTAGGAAAGTTTGAGGGTCA
1 AAATGTGA-TTTTA-GAAAGTTTAAGGGTCA
6796066 AAATGTGATTTTAGAAAGTTTAAGGGTCA
1 AAATGTGATTTTAGAAAGTTTAAGGGTCA
** * * *
6796095 AAATGCAATTTTGGAAAAAGTTTGAGGGCCA
1 AAATGTGATTTT--AGAAAGTTTAAGGGTCA
*
6796126 AAATGTGATTTTAGAAAGTTTAGGGGTCA
1 AAATGTGATTTTAGAAAGTTTAAGGGTCA
6796155 AAATGTGATTTT-GAAA
1 AAATGTGATTTTAGAAA
6796171 ATGAGCAATT
Statistics
Matches: 116, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
28 4 0.03
29 50 0.43
30 12 0.10
31 41 0.35
32 9 0.08
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.33
Consensus pattern (29 bp):
AAATGTGATTTTAGAAAGTTTAAGGGTCA
Found at i:6796166 original size:60 final size:60
Alignment explanation
Indices: 6796005--6796171 Score: 214
Period size: 60 Copynumber: 2.8 Consensus size: 60
6795995 TTCGAGGTGG
* * * * *
6796005 AAATGTAATTTTGGGAAGTTTAAGAGGTCAAAATGTGATTTTTAGG--AAAGTTTGAGGGTCA
1 AAATGTGATTTTAGAAAGTTT-AGGGGTCAAAATGTGA-TTTT-GGAAAAAGTTTGAGGGCCA
* **
6796066 AAATGTGATTTTAGAAAGTTTAAGGGTCAAAATGCAATTTTGGAAAAAGTTTGAGGGCCA
1 AAATGTGATTTTAGAAAGTTTAGGGGTCAAAATGTGATTTTGGAAAAAGTTTGAGGGCCA
6796126 AAATGTGATTTTAGAAAGTTTAGGGGTCAAAATGTGATTTT-GAAAA
1 AAATGTGATTTTAGAAAGTTTAGGGGTCAAAATGTGATTTTGGAAAA
6796172 TGAGCAATTG
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
58 2 0.02
59 9 0.10
60 64 0.69
61 18 0.19
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.33
Consensus pattern (60 bp):
AAATGTGATTTTAGAAAGTTTAGGGGTCAAAATGTGATTTTGGAAAAAGTTTGAGGGCCA
Found at i:6796307 original size:21 final size:21
Alignment explanation
Indices: 6796208--6796309 Score: 70
Period size: 20 Copynumber: 4.9 Consensus size: 21
6796198 AAATTACAAA
*
6796208 AAAAATC-AAAATAA-TTTTC
1 AAAAATCTAAAATAATTTTTT
6796227 AAAAAT-TGAAAATAA-TTTTT
1 AAAAATCT-AAAATAATTTTTT
* *
6796247 AAAATTCTAAAATTTGATTTTTT
1 AAAAATCTAAAA--TAATTTTTT
* *
6796270 AAAAA-ATATATATAAATTTTTT
1 AAAAATCTA-AAAT-AATTTTTT
*
6796292 AAAAATCTAAAAAAATTT
1 AAAAATCTAAAATAATTT
6796310 AAAAAAAATT
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
19 6 0.09
20 20 0.31
21 7 0.11
22 18 0.28
23 13 0.20
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (21 bp):
AAAAATCTAAAATAATTTTTT
Found at i:6796785 original size:28 final size:27
Alignment explanation
Indices: 6796727--6796785 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 27
6796717 TTTTAAAAAT
*
6796727 TTTATTTTAATAAAAATAAAATTATAC
1 TTTATTTTAATAAAAATAAAATTATAA
6796754 TTTATCTTTAA-AAATAATAATAATT-TAA
1 TTTAT-TTTAATAAA-AATAA-AATTATAA
6796782 TTTA
1 TTTA
6796786 ATTCTTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 8 0.29
28 16 0.57
29 4 0.14
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.47
Consensus pattern (27 bp):
TTTATTTTAATAAAAATAAAATTATAA
Found at i:6800141 original size:27 final size:27
Alignment explanation
Indices: 6800103--6800158 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
6800093 AGGGAGGAGG
6800103 AGGCGATGGTGGGTTCTTCTCAAGAGT
1 AGGCGATGGTGGGTTCTTCTCAAGAGT
6800130 AGGCGATGGTGGGTTCTTCTCAAGAGT
1 AGGCGATGGTGGGTTCTTCTCAAGAGT
6800157 AG
1 AG
6800159 ATAAATAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.20, C:0.14, G:0.38, T:0.29
Consensus pattern (27 bp):
AGGCGATGGTGGGTTCTTCTCAAGAGT
Found at i:6800552 original size:14 final size:14
Alignment explanation
Indices: 6800533--6800568 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
6800523 ATTATCATTT
**
6800533 AATTAATTTTTTAA
1 AATTAATTTTAAAA
6800547 AATTAATTTTAAAA
1 AATTAATTTTAAAA
6800561 AATTAATT
1 AATTAATT
6800569 AAATGCTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATTAATTTTAAAA
Found at i:6802505 original size:12 final size:12
Alignment explanation
Indices: 6802488--6802513 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6802478 ATTCCTTCTT
6802488 TTTATATATATA
1 TTTATATATATA
6802500 TTTATATATATA
1 TTTATATATATA
6802512 TT
1 TT
6802514 GCCAAAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTATATATATA
Found at i:6810558 original size:114 final size:115
Alignment explanation
Indices: 6810361--6810595 Score: 454
Period size: 114 Copynumber: 2.1 Consensus size: 115
6810351 TATGGTCATC
6810361 AAATCAGTCCTGTGAGCATCTGCTGCATGATCCATGATCTCTCTTCTCCCTCAAAAACACAAAAC
1 AAATCAGTCCTGTGAGCATCTGCTGCATGATCCATGATCTCTCTTCTCCCTCAAAAACACAAAAC
6810426 AAAAGCAAAT-AAAAAAAAAAGTGACCCAACAGAGCAATGACTCTAACCA
66 AAAAGCAAATAAAAAAAAAAAGTGACCCAACAGAGCAATGACTCTAACCA
6810475 AAATCAGTCCTGTGAGCATCTGCTGCATGATCCATGATCTCTCTTCTCCCTCAAAAACACAAAAC
1 AAATCAGTCCTGTGAGCATCTGCTGCATGATCCATGATCTCTCTTCTCCCTCAAAAACACAAAAC
*
6810540 AAGAGCAAATAAAAAAAAAAAGTGACCCAACAGAGCAATGACTCTAACCA
66 AAAAGCAAATAAAAAAAAAAAGTGACCCAACAGAGCAATGACTCTAACCA
6810590 AAATCA
1 AAATCA
6810596 CTCTAAACGA
Statistics
Matches: 119, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
114 74 0.62
115 45 0.38
ACGTcount: A:0.43, C:0.26, G:0.12, T:0.19
Consensus pattern (115 bp):
AAATCAGTCCTGTGAGCATCTGCTGCATGATCCATGATCTCTCTTCTCCCTCAAAAACACAAAAC
AAAAGCAAATAAAAAAAAAAAGTGACCCAACAGAGCAATGACTCTAACCA
Found at i:6813691 original size:23 final size:23
Alignment explanation
Indices: 6813648--6813692 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6813638 TATATGTTCA
*
6813648 TGAACATGTTCGATTAAATTAAT
1 TGAACATGTTCGATGAAATTAAT
6813671 TGAACATGTTCG-TGAACATTAA
1 TGAACATGTTCGATGAA-ATTAA
6813693 ACAAACGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (23 bp):
TGAACATGTTCGATGAAATTAAT
Found at i:6815337 original size:24 final size:24
Alignment explanation
Indices: 6815300--6815356 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
6815290 TTTCTAGAAG
* *
6815300 ATTTAGTAGTATAATATATTTAGC
1 ATTTATTAGCATAATATATTTAGC
*
6815324 ATTTATTAGCATAATATATTTTGC
1 ATTTATTAGCATAATATATTTAGC
*
6815348 ATTAATTAG
1 ATTTATTAG
6815357 AATTAGGCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (24 bp):
ATTTATTAGCATAATATATTTAGC
Found at i:6822020 original size:31 final size:30
Alignment explanation
Indices: 6821984--6822055 Score: 90
Period size: 31 Copynumber: 2.4 Consensus size: 30
6821974 GATTAAATCA
*
6821984 AAATTAAAGTTTCAAGTATACATTTGAACC
1 AAATTAAAGTTTCAAGTATACAATTGAACC
* * * *
6822014 ACAATTAGAGTTTCATGTATATAATTGCACC
1 A-AATTAAAGTTTCAAGTATACAATTGAACC
6822045 AAATTAAAGTT
1 AAATTAAAGTT
6822056 CATATGTACA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 10 0.29
31 25 0.71
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATACAATTGAACC
Found at i:6828756 original size:29 final size:29
Alignment explanation
Indices: 6828697--6828756 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
6828687 TATCTATGCT
* *
6828697 ATATTTAACATTTTGATCGACTTTATATC
1 ATATTTAACATTTTGATCGAATTGATATC
* *
6828726 ATATTTATA-ATTTTGATTGAATTGATGTC
1 ATATTTA-ACATTTTGATCGAATTGATATC
6828755 AT
1 AT
6828757 CCATTAACCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 25 0.96
30 1 0.04
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.50
Consensus pattern (29 bp):
ATATTTAACATTTTGATCGAATTGATATC
Found at i:6829777 original size:14 final size:15
Alignment explanation
Indices: 6829742--6829777 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
6829732 CTTCCCTTTA
6829742 ATTTTT-ATTTATTT
1 ATTTTTAATTTATTT
6829756 ATTTTTAATTTATTT
1 ATTTTTAATTTATTT
6829771 -TTTTTAA
1 ATTTTTAA
6829778 AAGCAAAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (15 bp):
ATTTTTAATTTATTT
Found at i:6850102 original size:60 final size:59
Alignment explanation
Indices: 6849921--6850426 Score: 434
Period size: 60 Copynumber: 8.4 Consensus size: 59
6849911 AAAAATTTGG
*** * * *
6849921 GGTGTTGGCCATTGCATGGTCGACACCCCCTGTTT---TAAAAAAATTTTAAA-ATTTTT
1 GGTGTTGGCCATCAAATGGTCGACACCCCCT-TTTCCGAAAAAAAAATTTAAATTTTTTT
* * * * * *
6849977 GGTGTTGGCCATTAAACGGTTGACACCCCCTTTTCTCGAGAAACAAAA-TTACA-TTTTTG
1 GGTGTTGGCCATCAAATGGTCGACACCCCCTTTTC-CGA-AAAAAAAATTTAAATTTTTTT
* * * *
6850036 GGTGTTGGGCATCAAATGGCCGACACCTCCTGTTTCAGAAAAAAAAATTTAAATTTTTTT
1 GGTGTTGGCCATCAAATGGTCGACACCCCCT-TTTCCGAAAAAAAAATTTAAATTTTTTT
** * *
6850096 GGTGTTGGCCATCAAATGGTCGACACCCCCTATTTTTGAGAAAAAAATTTTAATTTTTTT
1 GGTGTTGGCCATCAAATGGTCGACACCCCCT-TTTCCGAAAAAAAAATTTAAATTTTTTT
* * * * * * * *
6850156 TGTGTTGGCCATCAAATGGCCGACACCCTCTATGCTCGAGAAAATAATTTCAATTTTTTT
1 GGTGTTGGCCATCAAATGGTCGACACCCCCTTTTC-CGAAAAAAAAATTTAAATTTTTTT
* * * *
6850216 -TTGTTGGCCATCAAATGGCTGATCGATACCCCCTTTTCTCG-AGAAAAAATTTCAAACTTTTTT
1 GGTGTTGGCCATCAAAT-G--G-TCGACACCCCCTTTTC-CGAAAAAAAAATTT-AAATTTTTTT
* * * * *
6850279 CGTGTTGGCCATCAAATGGGCGACAGCCCCTGTTTCAGAAAAAAAAATTCAAATTTTTTT
1 GGTGTTGGCCATCAAATGGTCGACACCCCCT-TTTCCGAAAAAAAAATTTAAATTTTTTT
** * *
6850339 GGTGTTGGCCATCAAATTATCGACACCTCCTTTTCTCGAATAAAAAATTTTTAAATTTTTTT
1 GGTGTTGGCCATCAAATGGTCGACACCCCCTTTTC-CGAA-AAAAAA-ATTTAAATTTTTTT
*
6850401 AGTGTTGGCCATCAAATGGTCGACAC
1 GGTGTTGGCCATCAAATGGTCGACAC
6850427 AACTTCTCCT
Statistics
Matches: 362, Mismatches: 68, Indels: 34
0.78 0.15 0.07
Matches are distributed among these distances:
55 3 0.01
56 27 0.07
58 7 0.02
59 59 0.16
60 164 0.45
61 20 0.06
62 44 0.12
63 23 0.06
64 15 0.04
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (59 bp):
GGTGTTGGCCATCAAATGGTCGACACCCCCTTTTCCGAAAAAAAAATTTAAATTTTTTT
Found at i:6850365 original size:183 final size:184
Alignment explanation
Indices: 6850077--6850419 Score: 451
Period size: 183 Copynumber: 1.9 Consensus size: 184
6850067 GTTTCAGAAA
* * * ** *
6850077 AAAAAATTTAAATTTTTTTGGTGTTGGCCATCAAATGGTCGACACCCCCTATTTTTGAGAAAAAA
1 AAAAAATTTAAACTTTTTTCGTGTTGGCCATCAAATGGGCGACACCCCCTATTTCAGAAAAAAAA
** * * *
6850142 ATTTTAATTTTTTTTGTGTTGGCCATCAAATGGCCGACACC-CTCTATGCTCGAGA-AAATAA-T
66 ATTCAAATTTTTTTGGTGTTGGCCATCAAATGACCGACACCTC-CTATGCTCGA-ATAAAAAATT
* *
6850204 TTCAATTTTTTT-TTGTTGGCCATCAAATGGCTGATCGATACCCCCTTTTCTCGAG
129 TTAAATTTTTTTAGTGTTGGCCATCAAATGGCTGATCGATACCCCCTTTTCTCGAG
* *
6850259 AAAAAATTTCAAACTTTTTTCGTGTTGGCCATCAAATGGGCGACAGCCCCTGTTTCAGAAAAAAA
1 AAAAAATTT-AAACTTTTTTCGTGTTGGCCATCAAATGGGCGACACCCCCTATTTCAGAAAAAAA
* * * *
6850324 AATTCAAATTTTTTTGGTGTTGGCCATCAAATTATCGACACCTCCTTTTCTCGAATAAAAAATTT
65 AATTCAAATTTTTTTGGTGTTGGCCATCAAATGACCGACACCTCCTATGCTCGAATAAAAAA-TT
6850389 TTAAATTTTTTTAGTGTTGGCCATCAAATGG
129 TTAAATTTTTTTAGTGTTGGCCATCAAATGG
6850420 TCGACACAAC
Statistics
Matches: 136, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
182 10 0.07
183 96 0.71
184 1 0.01
185 12 0.09
186 17 0.12
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.37
Consensus pattern (184 bp):
AAAAAATTTAAACTTTTTTCGTGTTGGCCATCAAATGGGCGACACCCCCTATTTCAGAAAAAAAA
ATTCAAATTTTTTTGGTGTTGGCCATCAAATGACCGACACCTCCTATGCTCGAATAAAAAATTTT
AAATTTTTTTAGTGTTGGCCATCAAATGGCTGATCGATACCCCCTTTTCTCGAG
Found at i:6851282 original size:30 final size:30
Alignment explanation
Indices: 6851239--6851298 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
6851229 TAAATTTTTA
* * * *
6851239 AAAAATAATAATTAGAATATACATGAAATT
1 AAAAAGAAAAATTAAAATATACAAGAAATT
6851269 AAAAAGAAAAATTAAAATATACAAGAAATT
1 AAAAAGAAAAATTAAAATATACAAGAAATT
6851299 CGAAATTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (30 bp):
AAAAAGAAAAATTAAAATATACAAGAAATT
Found at i:6851314 original size:30 final size:31
Alignment explanation
Indices: 6851280--6851351 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 31
6851270 AAAAGAAAAA
*
6851280 TTAAAATATACAA-GAAATT-CGAAATTAAA-T
1 TTAAAATA-AAAACGAAATTAC-AAATTAAATT
6851310 TTAAAATAAAAACGAAATTACAAATTAAATT
1 TTAAAATAAAAACGAAATTACAAATTAAATT
*
6851341 TTAAAAGAAAA
1 TTAAAATAAAA
6851352 GGGAATCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
29 3 0.08
30 22 0.59
31 12 0.32
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.28
Consensus pattern (31 bp):
TTAAAATAAAAACGAAATTACAAATTAAATT
Found at i:6853593 original size:17 final size:17
Alignment explanation
Indices: 6853571--6853607 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
6853561 TTTAATGGGT
*
6853571 TTTAAATTTATTTTAAA
1 TTTAAATTTACTTTAAA
6853588 TTTAAATTTACTTTAAA
1 TTTAAATTTACTTTAAA
6853605 TTT
1 TTT
6853608 GGGGTTTAAT
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:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTAAATTTACTTTAAA
Found at i:6855290 original size:162 final size:162
Alignment explanation
Indices: 6855073--6855411 Score: 588
Period size: 162 Copynumber: 2.1 Consensus size: 162
6855063 CTTTTTCAAT
*
6855073 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTA
1 TTAGTCCTTTGACTGTTTGACTGCACCAAAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTA
*
6855138 TCTAATCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATAAACTTTTATTTAATTACAT
66 TCTAATCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATAAACTTTTATTTAATTACAA
* *
6855203 AATTGGCCCAAGAATTTTTCAAGATTTATATA
131 AATTGGCCCAAGAATTTTTCAAAATTTATAAA
6855235 TTAGTCCTTTGACTGTTTGACTGCACCAAAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTA
1 TTAGTCCTTTGACTGTTTGACTGCACCAAAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTA
* * *
6855300 TCTAGTCCTTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATTAACTTTTATTTAATTACAA
66 TCTAATCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATAAACTTTTATTTAATTACAA
* *
6855365 AATTGGCGCAAGAATTTTTTAAAATTTATAAA
131 AATTGGCCCAAGAATTTTTCAAAATTTATAAA
6855397 TTAGTCCTTTTGACT
1 TTAGTCC-TTTGACT
6855412 TCTGGGTACC
Statistics
Matches: 167, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
162 160 0.96
163 7 0.04
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (162 bp):
TTAGTCCTTTGACTGTTTGACTGCACCAAAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTA
TCTAATCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATAAACTTTTATTTAATTACAA
AATTGGCCCAAGAATTTTTCAAAATTTATAAA
Found at i:6855517 original size:29 final size:28
Alignment explanation
Indices: 6855484--6855701 Score: 151
Period size: 29 Copynumber: 7.5 Consensus size: 28
6855474 GGACTGTCTG
* *
6855484 AAAATTACCATTTTGCCCCTAAACTTTCC
1 AAAATT-CCATTTTACCCCTGAACTTTCC
*
6855513 AAAATTCCATTTTTA-ACCTCG-A-TTTCATC
1 AAAATTCCA-TTTTACCCCT-GAACTTTC--C
*
6855542 AAAAATTACCATTTTACCCCTGAATTTTCC
1 -AAAATT-CCATTTTACCCCTGAACTTTCC
*
6855572 AAAATTCCATTTTAACCCC--AATTTTACC
1 AAAATTCCATTTT-ACCCCTGAACTTT-CC
* *
6855600 AAAATTACCATTTTACCCCTAAACTCTT-T
1 AAAATT-CCATTTTACCCCTGAACT-TTCC
* ** *
6855629 AAAATTCCATTTTTAACCCTGATTTTATCA
1 AAAATTCCA-TTTTACCCCTGAACTT-TCC
*
6855659 AAAATTACCATTTTACCCCCCGAACTTTCC
1 AAAATT-CCATTTTA-CCCCTGAACTTTCC
6855689 AAAATTCCATTTT
1 AAAATTCCATTTT
6855702 TAACTCCGGT
Statistics
Matches: 153, Mismatches: 16, Indels: 40
0.73 0.08 0.19
Matches are distributed among these distances:
27 10 0.07
28 31 0.20
29 54 0.35
30 35 0.23
31 19 0.12
32 4 0.03
ACGTcount: A:0.33, C:0.27, G:0.02, T:0.38
Consensus pattern (28 bp):
AAAATTCCATTTTACCCCTGAACTTTCC
Found at i:6855547 original size:59 final size:59
Alignment explanation
Indices: 6855484--6855791 Score: 358
Period size: 59 Copynumber: 5.2 Consensus size: 59
6855474 GGACTGTCTG
* * *
6855484 AAAATTACCATTTTGCCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCATCA
1 AAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCA
* * * *
6855543 AAAATTACCATTTTACCCCTGAATTTTCCAAAATTCCA-TTTTAACCCCAATTTTACC-
1 AAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCA
* * * *
6855600 AAAATTACCATTTTACCCCTAAACTCTT-TAAAATTCCATTTTTAACC-CTGATTTTATCA
1 AAAATTACCATTTTACCCCTGAACT-TTCCAAAATTCCATTTTTAACCTC-GATTTCACCA
* *
6855659 AAAATTACCATTTTACCCCCCGAACTTTCCAAAATTCCATTTTTAA-CTCCGGTTTCACCA
1 AAAATTACCATTTTA-CCCCTGAACTTTCCAAAATTCCATTTTTAACCT-CGATTTCACCA
* * * *
6855719 AAAATCACCA-TTTACCCCCTGAATTTTCCAAAATTCTATTTTTAACCTCGGTTTCACCA
1 AAAATTACCATTTTA-CCCCTGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCA
* *
6855778 AAAATCACTATTTT
1 AAAATTACCATTTT
6855792 GCCCTCGGGT
Statistics
Matches: 216, Mismatches: 23, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
57 33 0.15
58 32 0.15
59 105 0.49
60 45 0.21
61 1 0.00
ACGTcount: A:0.32, C:0.27, G:0.03, T:0.37
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCA
Found at i:6857356 original size:83 final size:83
Alignment explanation
Indices: 6857212--6857735 Score: 847
Period size: 83 Copynumber: 6.3 Consensus size: 83
6857202 TAAATTTAAA
6857212 ATATGATAAAAATTGTAATATAATAAAAA-TTTTATTTAAAGATATAAAATTAATAAATAATGTA
1 ATATGATAAAAATTGTAATATAATAAAAATTTTTATTTAAAGATATAAAATTAATAAATAATGTA
6857276 TTGTCAAATCAACACATT
66 TTGTCAAATCAACACATT
6857294 ATATGATAAAAATTGTAATATAATAAAAATTTTTATTTAAAGATATAAAATTAATAAATAATGTA
1 ATATGATAAAAATTGTAATATAATAAAAATTTTTATTTAAAGATATAAAATTAATAAATAATGTA
6857359 TTGTCAAATCAACACATT
66 TTGTCAAATCAACACATT
* *
6857377 ATATGATAAAAATTGTAATATAATAAAAAATTTTATTTAAAGATATAAAATTAATAAATAATGTT
1 ATATGATAAAAATTGTAATATAATAAAAATTTTTATTTAAAGATATAAAATTAATAAATAATGTA
6857442 TTGTCAAATCAACACATT
66 TTGTCAAATCAACACATT
* * *
6857460 ATATGATAAAAATTGTAATAAAATAAAATTTTTTATTTAAAGATATAAAATTAATAAATAATATA
1 ATATGATAAAAATTGTAATATAATAAAAATTTTTATTTAAAGATATAAAATTAATAAATAATGTA
6857525 TTGTCAAATCAACACATT
66 TTGTCAAATCAACACATT
* *
6857543 ATATGATAAAAATTATAATATAATAAAAATTTTTATTTAAAGATATAAAATTAATAAATAATATA
1 ATATGATAAAAATTGTAATATAATAAAAATTTTTATTTAAAGATATAAAATTAATAAATAATGTA
* *
6857608 TTATCAAATCAATACATT
66 TTGTCAAATCAACACATT
* * *
6857626 ATATGATAAAAATTATAATATAATAATAATTTTTACTTT-AA-ATATGAAAATTTGATAAATAAT
1 ATATGATAAAAATTGTAATATAATAAAAATTTTTA-TTTAAAGATAT-AAAA-TTAATAAATAAT
* * *
6857689 GTATTGTCAAATTAATACAAT
63 GTATTGTCAAATCAACACATT
* *
6857710 ATTTGATATAAATTGTAATATAATAA
1 ATATGATAAAAATTGTAATATAATAA
6857736 CTATCTTTTT
Statistics
Matches: 417, Mismatches: 21, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
82 33 0.08
83 330 0.79
84 54 0.13
ACGTcount: A:0.52, C:0.04, G:0.05, T:0.38
Consensus pattern (83 bp):
ATATGATAAAAATTGTAATATAATAAAAATTTTTATTTAAAGATATAAAATTAATAAATAATGTA
TTGTCAAATCAACACATT
Found at i:6857567 original size:45 final size:45
Alignment explanation
Indices: 6857501--6857650 Score: 133
Period size: 45 Copynumber: 3.5 Consensus size: 45
6857491 TTTATTTAAA
*
6857501 GATATAAAATTAATAAATAATATATTGTCAAATCAACACATTATAT
1 GATATAAAATTAATAAATAATATATT-TCAAATCAATACATTATAT
*** * *
6857547 GATA-AAAATT-ATAATATAATA-A----AAATTTTTA-TTTA-AA
1 GATATAAAATTAATAA-ATAATATATTTCAAATCAATACATTATAT
6857584 GATATAAAATTAATAAATAATATATTATCAAATCAATACATTATAT
1 GATATAAAATTAATAAATAATATATT-TCAAATCAATACATTATAT
6857630 GATA-AAAATT-ATAATATAATA
1 GATATAAAATTAATAA-ATAATA
6857651 ATAATTTTTA
Statistics
Matches: 81, Mismatches: 11, Indels: 25
0.69 0.09 0.21
Matches are distributed among these distances:
37 5 0.06
38 15 0.19
39 10 0.12
44 15 0.19
45 27 0.33
46 9 0.11
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (45 bp):
GATATAAAATTAATAAATAATATATTTCAAATCAATACATTATAT
Found at i:6857882 original size:12 final size:12
Alignment explanation
Indices: 6857865--6857912 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 12
6857855 AAACATGTTC
6857865 ATTAATTTCCAA
1 ATTAATTTCCAA
6857877 ATTAATTTCAACTTAA
1 ATTAATTTC--C--AA
*
6857893 ATTAATTTTCAA
1 ATTAATTTCCAA
6857905 ATTAATTT
1 ATTAATTT
6857913 TTACACAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
12 19 0.61
14 2 0.06
16 10 0.32
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTAATTTCCAA
Found at i:6857911 original size:16 final size:16
Alignment explanation
Indices: 6857875--6857909 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
6857865 ATTAATTTCC
*
6857875 AAATTAATTTCAACTT
1 AAATTAATTTCAAATT
6857891 AAATTAATTTTCAAATT
1 AAATTAA-TTTCAAATT
6857908 AA
1 AA
6857910 TTTTTACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (16 bp):
AAATTAATTTCAAATT
Found at i:6857922 original size:28 final size:28
Alignment explanation
Indices: 6857865--6857922 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
6857855 AAACATGTTC
**
6857865 ATTAATTTCCAAATTAATTTCAACTTAA
1 ATTAATTTCCAAATTAATTTCAACACAA
* **
6857893 ATTAATTTTCAAATTAATTTTTACACAA
1 ATTAATTTCCAAATTAATTTCAACACAA
6857921 AT
1 AT
6857923 ATACTTCGTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (28 bp):
ATTAATTTCCAAATTAATTTCAACACAA
Found at i:6860728 original size:2 final size:2
Alignment explanation
Indices: 6860721--6860745 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6860711 TACTGACGGT
6860721 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6860746 CTGGTGCTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6861650 original size:61 final size:61
Alignment explanation
Indices: 6861577--6861767 Score: 239
Period size: 61 Copynumber: 3.2 Consensus size: 61
6861567 AGGAGAAGTT
*
6861577 GGTGTCGACCATTTGATGGCCAACACCAAAAAAAATTGAAATTTTTTTCTCGAGAATAGGG
1 GGTGTCGACCATTTGATGGCCAACACCAAAAAAAATTGAAATTTTTTTCTCGAGAAAAGGG
* * * *
6861638 GGTGTCGGCCATTTGATGACCAACACC--CAAAAA-TGCAA-TTTTTT-TCGAGAAAAGGG
1 GGTGTCGACCATTTGATGGCCAACACCAAAAAAAATTGAAATTTTTTTCTCGAGAAAAGGG
* * * * **
6861694 AGTGTCGGCCATTTTATGGCCAACACGAAAAAATTTTGAAATTTTTTTCTCGAGAAAAGGG
1 GGTGTCGACCATTTGATGGCCAACACCAAAAAAAATTGAAATTTTTTTCTCGAGAAAAGGG
6861755 GGCTGTCGACCAT
1 GG-TGTCGACCAT
6861768 GCAATGGCTA
Statistics
Matches: 109, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
56 34 0.31
57 6 0.06
58 7 0.06
59 9 0.08
60 6 0.06
61 38 0.35
62 9 0.08
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (61 bp):
GGTGTCGACCATTTGATGGCCAACACCAAAAAAAATTGAAATTTTTTTCTCGAGAAAAGGG
Found at i:6862801 original size:14 final size:15
Alignment explanation
Indices: 6862767--6862802 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
6862757 TAAAACTAAT
6862767 ATTTTTACAACATCA
1 ATTTTTACAACATCA
* *
6862782 ATTTTTACAATATTA
1 ATTTTTACAACATCA
6862797 ATTTTT
1 ATTTTT
6862803 CTTTAAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTTTACAACATCA
Found at i:6863035 original size:22 final size:22
Alignment explanation
Indices: 6863010--6863056 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
6863000 AAAAAAACCT
6863010 AATAGAATTAATTCCAAAATTA
1 AATAGAATTAATTCCAAAATTA
* *
6863032 AATAGAATTGATTCCAAATTTA
1 AATAGAATTAATTCCAAAATTA
6863054 AAT
1 AAT
6863057 TAATCCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (22 bp):
AATAGAATTAATTCCAAAATTA
Found at i:6864317 original size:62 final size:62
Alignment explanation
Indices: 6864233--6864360 Score: 256
Period size: 62 Copynumber: 2.1 Consensus size: 62
6864223 ATTTTCGGGT
6864233 CTTTATATGAAAACTAATGAAAATTAAAGTGAAGTTTAAAATGCGATGTTTATTTTAGAAAG
1 CTTTATATGAAAACTAATGAAAATTAAAGTGAAGTTTAAAATGCGATGTTTATTTTAGAAAG
6864295 CTTTATATGAAAACTAATGAAAATTAAAGTGAAGTTTAAAATGCGATGTTTATTTTAGAAAG
1 CTTTATATGAAAACTAATGAAAATTAAAGTGAAGTTTAAAATGCGATGTTTATTTTAGAAAG
6864357 CTTT
1 CTTT
6864361 GTATAACTTC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 66 1.00
ACGTcount: A:0.42, C:0.05, G:0.16, T:0.37
Consensus pattern (62 bp):
CTTTATATGAAAACTAATGAAAATTAAAGTGAAGTTTAAAATGCGATGTTTATTTTAGAAAG
Found at i:6865111 original size:28 final size:29
Alignment explanation
Indices: 6865080--6865140 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
6865070 AAATGGGACC
6865080 TTTGGA-TACCCGGGGGAAAAATGGTAAT
1 TTTGGACTACCCGGGGGAAAAATGGTAAT
*** *
6865108 TTTGGACTTTTCGGGGGCAAAATGGTAAT
1 TTTGGACTACCCGGGGGAAAAATGGTAAT
6865137 TTTG
1 TTTG
6865141 TGAAATCAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.26, C:0.10, G:0.31, T:0.33
Consensus pattern (29 bp):
TTTGGACTACCCGGGGGAAAAATGGTAAT
Found at i:6865158 original size:29 final size:27
Alignment explanation
Indices: 6865126--6865407 Score: 103
Period size: 29 Copynumber: 9.7 Consensus size: 27
6865116 TTTCGGGGGC
*
6865126 AAAATGGTAATTTTGTGAAATCAGGGCTA
1 AAAATGGTAATTTTG-GAAATCAGGG-TT
** *
6865155 AAAATGG-AATTTTGGAAAGTTTGGGGGGT
1 AAAATGGTAATTTTGGAAA---TCAGGGTT
* * *
6865184 AAAATGGTAAATTTGGAAAAACTAAGGTT
1 AAAATGGTAATTTTGG-AAATC-AGGGTT
*
6865213 AAAAATGG-AATTTTGGGAAGTTCGAGGG-T
1 -AAAATGGTAATTTT-GGAA-ATC-AGGGTT
*
6865242 AAAACGGTAAATTTTGGTGAAATC-GAGGTT
1 AAAATGGT-AATTTT-G-GAAATCAG-GGTT
* *
6865272 AAAAATAG-AATTTTGGAAGGTTCGAGGG-T
1 -AAAATGGTAATTTTGGAA--ATC-AGGGTT
*
6865301 AAAATGGTAATTTTTGGTGAAATTAGGGTT
1 AAAATGGTAA-TTTT-G-GAAATCAGGGTT
* *
6865331 AAAAATGG-AATTTTGGAAAGTTTAGGGGT
1 -AAAATGGTAATTTTGGAAA--TCAGGGTT
* **
6865360 AAAATGGTAATTTTTGAAAGTTTTGAGGTT
1 AAAATGGTAATTTTGGAAA--TCAG-GGTT
6865390 AAAAT-GTAATTTTGGAAA
1 AAAATGGTAATTTTGGAAA
6865408 AGTTTTAGGG
Statistics
Matches: 196, Mismatches: 28, Indels: 58
0.70 0.10 0.21
Matches are distributed among these distances:
27 11 0.06
28 29 0.15
29 80 0.41
30 53 0.27
31 20 0.10
32 3 0.02
ACGTcount: A:0.38, C:0.02, G:0.28, T:0.32
Consensus pattern (27 bp):
AAAATGGTAATTTTGGAAATCAGGGTT
Found at i:6865221 original size:59 final size:59
Alignment explanation
Indices: 6865096--6865438 Score: 283
Period size: 59 Copynumber: 5.8 Consensus size: 59
6865086 TACCCGGGGG
** * * * * *
6865096 AAAAATGGTAATTTTGG-ACTTTTCGGGGGCAAAATGGTAATTTTGTG-AAATC-AGGGCT
1 AAAAATGG-AATTTTGGAAAGTTTCGAGGGTAAAATGGTAATTTTG-GAAAAACTAAGGTT
* * *
6865154 AAAAATGGAATTTTGGAAAGTTTGGGGGGTAAAATGGTAAATTTGGAAAAACTAAGGTT
1 AAAAATGGAATTTTGGAAAGTTTCGAGGGTAAAATGGTAATTTTGGAAAAACTAAGGTT
* * ** *
6865213 AAAAATGGAATTTTGGGAAG-TTCGAGGGTAAAACGGTAAATTTTGGTGAAA-TCGAGGTT
1 AAAAATGGAATTTTGGAAAGTTTCGAGGGTAAAATGGT-AATTTTGGAAAAACT-AAGGTT
* * ** * *
6865272 AAAAATAGAATTTTGG-AAGGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATTAGGGTT
1 AAAAATGGAATTTTGGAAAGTTTCGAGGGTAAAATGGTAA-TTTTGGAAAAACTAAGGTT
* * *** *
6865331 AAAAATGGAATTTTGGAAAGTTTAG-GGGTAAAATGGTAATTTTTGAAAGTTTTGAGGTT
1 AAAAATGGAATTTTGGAAAGTTTCGAGGGTAAAATGGTAATTTTGGAAA-AACTAAGGTT
* *
6865390 -AAAATGTAATTTTGGAAAAGTTT-TAGGGTCAAAAT-GTAATTTTGGAAAA
1 AAAAATGGAATTTTGG-AAAGTTTCGAGGGT-AAAATGGTAATTTTGGAAAA
6865439 GTTTTGGGGT
Statistics
Matches: 238, Mismatches: 34, Indels: 26
0.80 0.11 0.09
Matches are distributed among these distances:
57 9 0.04
58 75 0.32
59 142 0.60
60 12 0.05
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.33
Consensus pattern (59 bp):
AAAAATGGAATTTTGGAAAGTTTCGAGGGTAAAATGGTAATTTTGGAAAAACTAAGGTT
Found at i:6865257 original size:30 final size:29
Alignment explanation
Indices: 6865221--6865317 Score: 92
Period size: 30 Copynumber: 3.3 Consensus size: 29
6865211 TTAAAAATGG
6865221 AATTTTGGGAAGTTCGAGGGTAAAACGGTA
1 AATTTTGGGAAGTTCGAGGGTAAAA-GGTA
* * *
6865251 AATTTTGGTGAA-ATCGAGGTTAAAA-ATA
1 AATTTTGG-GAAGTTCGAGGGTAAAAGGTA
6865279 GAATTTT-GGAAGGTTCGAGGGTAAAATGGTA
1 -AATTTTGGGAA-GTTCGAGGGTAAAA-GGTA
*
6865310 ATTTTTGG
1 AATTTTGG
6865318 TGAAATTAGG
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
27 3 0.06
28 3 0.06
29 17 0.32
30 24 0.45
31 6 0.11
ACGTcount: A:0.34, C:0.04, G:0.30, T:0.32
Consensus pattern (29 bp):
AATTTTGGGAAGTTCGAGGGTAAAAGGTA
Found at i:6865334 original size:30 final size:29
Alignment explanation
Indices: 6865296--6865441 Score: 96
Period size: 30 Copynumber: 5.0 Consensus size: 29
6865286 GGAAGGTTCG
6865296 AGGGTAAAATGGTAATTTTTGGTGAAA-TT
1 AGGGTAAAATGGTAATTTTTGG-GAAAGTT
6865325 AGGGTTAAAAATGG-AA-TTTT-GGAAAGTTT
1 AGGG-T-AAAATGGTAATTTTTGGGAAAG-TT
6865354 AGGGGTAAAATGGTAATTTTT--GAAAGTTTT
1 A-GGGTAAAATGGTAATTTTTGGGAAAG--TT
* *
6865384 GAGGTTAAAAT-GTAA-TTTTGGAAAAGTTTT
1 -AGGGTAAAATGGTAATTTTTGGGAAAG--TT
*
6865414 AGGGTCAAAAT-GTAA-TTTTGGAAAAGTT
1 AGGGT-AAAATGGTAATTTTTGGGAAAGTT
6865442 TTGGGGTCAA
Statistics
Matches: 102, Mismatches: 3, Indels: 25
0.78 0.02 0.19
Matches are distributed among these distances:
27 4 0.04
28 14 0.14
29 27 0.26
30 49 0.48
31 8 0.08
ACGTcount: A:0.36, C:0.01, G:0.26, T:0.37
Consensus pattern (29 bp):
AGGGTAAAATGGTAATTTTTGGGAAAGTT
Found at i:6865442 original size:30 final size:30
Alignment explanation
Indices: 6865323--6865522 Score: 219
Period size: 30 Copynumber: 6.7 Consensus size: 30
6865313 TTTGGTGAAA
*
6865323 TTAGGGTTAAAAATGGAATTTTGG-AAAG-T
1 TTAGGGTT-AAAATGTAATTTTGGAAAAGTT
* *
6865352 TTAGGGGTAAAATGGTAATTTTTG-AAAGTT
1 TTAGGGTTAAAAT-GTAATTTTGGAAAAGTT
6865382 TT-GAGGTTAAAATGTAATTTTGGAAAAGTT
1 TTAG-GGTTAAAATGTAATTTTGGAAAAGTT
*
6865412 TTAGGGTCAAAATGTAATTTTGGAAAAGTT
1 TTAGGGTTAAAATGTAATTTTGGAAAAGTT
* * ** *
6865442 TTGGGGTCAAAACATAATTTTGTAAAAGTT
1 TTAGGGTTAAAATGTAATTTTGGAAAAGTT
* **
6865472 TAAGGGTTAAAATGTAATTTTCAAAAAGTT
1 TTAGGGTTAAAATGTAATTTTGGAAAAGTT
* *
6865502 TTGGGGTTAAAATATAATTTT
1 TTAGGGTTAAAATGTAATTTT
6865523 TGGATAGTTT
Statistics
Matches: 146, Mismatches: 20, Indels: 9
0.83 0.11 0.05
Matches are distributed among these distances:
28 5 0.03
29 29 0.20
30 111 0.76
31 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.39
Consensus pattern (30 bp):
TTAGGGTTAAAATGTAATTTTGGAAAAGTT
Found at i:6867359 original size:17 final size:17
Alignment explanation
Indices: 6867339--6867371 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6867329 AAATTTAATT
*
6867339 AAATTTAAATTCAAAAC
1 AAATATAAATTCAAAAC
6867356 AAATATAAATTCAAAA
1 AAATATAAATTCAAAA
6867372 ATCTCAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATATAAATTCAAAAC
Found at i:6874283 original size:18 final size:18
Alignment explanation
Indices: 6874257--6874291 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6874247 CTATGGATGA
*
6874257 GATAACTTTTATATTTAT
1 GATAACTTTTACATTTAT
*
6874275 GATATCTTTTACATTTA
1 GATAACTTTTACATTTA
6874292 GGATTTAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.54
Consensus pattern (18 bp):
GATAACTTTTACATTTAT
Found at i:6876728 original size:31 final size:32
Alignment explanation
Indices: 6876667--6876741 Score: 125
Period size: 32 Copynumber: 2.4 Consensus size: 32
6876657 TTTGGGACTC
6876667 AATTTGGTACCTGAACTTGACATTTTTTTCCT
1 AATTTGGTACCTGAACTTGACATTTTTTTCCT
*
6876699 AATTTGGTACCTGAACTTGATA-TTTTTTCCT
1 AATTTGGTACCTGAACTTGACATTTTTTTCCT
*
6876730 AATTTGGAACCT
1 AATTTGGTACCT
6876742 AAGCATTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 20 0.49
32 21 0.51
ACGTcount: A:0.24, C:0.17, G:0.13, T:0.45
Consensus pattern (32 bp):
AATTTGGTACCTGAACTTGACATTTTTTTCCT
Found at i:6877018 original size:32 final size:33
Alignment explanation
Indices: 6876982--6877048 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 33
6876972 AAAAAGTGTC
*
6876982 AAGTTT-AGATACCAAATTAGA-AAAAAAATTTT
1 AAGTTTGAG-TACCAAATTAGATAAAAAAAATTT
* *
6877014 AAGTTTGAGTACTAAATTGGATAAAAAAAATTT
1 AAGTTTGAGTACCAAATTAGATAAAAAAAATTT
6877047 AA
1 AA
6877049 ATACCAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.31
Consensus pattern (33 bp):
AAGTTTGAGTACCAAATTAGATAAAAAAAATTT
Found at i:6878033 original size:19 final size:19
Alignment explanation
Indices: 6878009--6878052 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
6877999 AAGTTATAAA
6878009 AAAATATTTAAAA-TTATAT
1 AAAATATTTAAAATTTAT-T
6878028 AAAATATTTAAAATTTATT
1 AAAATATTTAAAATTTATT
6878047 AAAATA
1 AAAATA
6878053 AAAAATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATATTTAAAATTTATT
Found at i:6878039 original size:9 final size:9
Alignment explanation
Indices: 6878009--6878052 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 9
6877999 AAGTTATAAA
6878009 AAAATATTT
1 AAAATATTT
*
6878018 AAAATTATAT
1 AAAA-TATTT
6878028 AAAATATTT
1 AAAATATTT
*
6878037 AAAATTTATT
1 AAAATAT-TT
6878047 AAAATA
1 AAAATA
6878053 AAAAATTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 14 0.48
10 15 0.52
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
AAAATATTT
Found at i:6878589 original size:19 final size:19
Alignment explanation
Indices: 6878556--6878627 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 19
6878546 TTATAATTTT
** *
6878556 TTTTTTACAAATTTTATAC
1 TTTTTTACATTTTTTATAA
6878575 TTTTTTACATTTTTTATAA
1 TTTTTTACATTTTTTATAA
* * *
6878594 TTTCTTATCATTTTATAGAA
1 TTTTTTA-CATTTTTTATAA
*
6878614 TTTTATA-ATTTTTT
1 TTTTTTACATTTTTT
6878628 TTTCTATATT
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
18 6 0.14
19 22 0.51
20 15 0.35
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.64
Consensus pattern (19 bp):
TTTTTTACATTTTTTATAA
Found at i:6878630 original size:42 final size:41
Alignment explanation
Indices: 6878584--6878679 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 41
6878574 CTTTTTTACA
6878584 TTTTTTATAATTTCT-TATCATTTTATAGAATTTTATAA-TTTT
1 TTTTTTATAATTTCTATAT-ATTTTAT--AATTTTATAAGTTTT
*
6878626 TTTTTCTAT-ATTTCTATATATTTTATAATTTTTTAAGTTTT
1 TTTTT-TATAATTTCTATATATTTTATAATTTTATAAGTTTT
6878667 TTTTATTA-AATTT
1 TTTT-TTATAATTT
6878680 ACATTTTTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
40 9 0.19
41 14 0.29
42 19 0.40
43 6 0.12
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (41 bp):
TTTTTTATAATTTCTATATATTTTATAATTTTATAAGTTTT
Found at i:6878726 original size:28 final size:30
Alignment explanation
Indices: 6878682--6878757 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 30
6878672 TTAAATTTAC
*
6878682 ATTTTTATATATATTTTAA-GA-TTCTTATAAT
1 ATTTTTTTATAT-TTTTAATGACTT-TTA-AAT
6878713 -TTTTTTTA-ATTTTTAATGACTTTTAAAT
1 ATTTTTTTATATTTTTAATGACTTTTAAAT
6878741 ATTTTTTTATATTTTTA
1 ATTTTTTTATATTTTTA
6878758 TTAAAATTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
28 9 0.22
29 15 0.38
30 16 0.40
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (30 bp):
ATTTTTTTATATTTTTAATGACTTTTAAAT
Found at i:6878755 original size:29 final size:29
Alignment explanation
Indices: 6878682--6878755 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 29
6878672 TTAAATTTAC
6878682 ATTTTTATATATATTTTAAGATTCTTATAAT
1 ATTTTT-T-TATATTTTAAGATTCTTATAAT
6878713 -TTTTTTTA-ATTTTTAATGACTT-TTA-AAT
1 ATTTTTTTATA-TTTTAA-GA-TTCTTATAAT
6878741 ATTTTTTTATATTTT
1 ATTTTTTTATATTTT
6878756 TATTAAAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
27 1 0.03
28 11 0.29
29 18 0.47
30 8 0.21
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (29 bp):
ATTTTTTTATATTTTAAGATTCTTATAAT
Found at i:6880231 original size:28 final size:28
Alignment explanation
Indices: 6880200--6880310 Score: 84
Period size: 28 Copynumber: 3.9 Consensus size: 28
6880190 TGCTTCGGAG
*
6880200 AGTTTGGGGTTAAAATGT-AATTTTGGAA
1 AGTTCGGGG-TAAAATGTCAATTTTGGAA
** *
6880228 AGTTTTAAGGGTAAAAGTGTCATTTTTGGAA
1 AG--TTCGGGGTAAAA-TGTCAATTTTGGAA
* * *
6880259 AGTTCGAGGTAAAATGTGATTTTTGG-A
1 AGTTCGGGGTAAAATGTCAATTTTGGAA
6880286 AGTTCGAGGGTAAAAATGT-AATTTT
1 AGTTCG-GGGT-AAAATGTCAATTTT
6880311 TAGAAGTTTA
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
27 7 0.10
28 21 0.31
29 21 0.31
30 8 0.12
31 11 0.16
ACGTcount: A:0.32, C:0.03, G:0.27, T:0.38
Consensus pattern (28 bp):
AGTTCGGGGTAAAATGTCAATTTTGGAA
Found at i:6880324 original size:29 final size:29
Alignment explanation
Indices: 6880206--6880339 Score: 121
Period size: 29 Copynumber: 4.6 Consensus size: 29
6880196 GGAGAGTTTG
* *
6880206 GGGTTAAAATGTAA-TTTTGGAAAGTTTTAA
1 GGGTAAAAATGTAATTTTTGG-AAG-TTCAA
* * *
6880236 GGGTAAAAGTGTCATTTTTGGAAAGTTCGA
1 GGGTAAAAATGTAATTTTTGG-AAGTTCAA
* *
6880266 -GGT-AAAATGTGATTTTTGGAAGTTCGA
1 GGGTAAAAATGTAATTTTTGGAAGTTCAA
* *
6880293 GGGTAAAAATGTAATTTTTAGAAGTTTAA
1 GGGTAAAAATGTAATTTTTGGAAGTTCAA
* *
6880322 GGGCAAAAATGTGATTTT
1 GGGTAAAAATGTAATTTT
6880340 AGAAAAGTTT
Statistics
Matches: 88, Mismatches: 13, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
27 8 0.09
28 17 0.19
29 39 0.44
30 14 0.16
31 10 0.11
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (29 bp):
GGGTAAAAATGTAATTTTTGGAAGTTCAA
Found at i:6888501 original size:21 final size:20
Alignment explanation
Indices: 6888477--6888518 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
6888467 TCAAAGAAAT
6888477 AAAAAAATTAAAAATTAAAAA
1 AAAAAAATT-AAAATTAAAAA
*
6888498 AAAAACATTAAAATTCAAAAA
1 AAAAAAATTAAAATT-AAAAA
6888519 TATTAGCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (20 bp):
AAAAAAATTAAAATTAAAAA
Found at i:6888511 original size:20 final size:21
Alignment explanation
Indices: 6888477--6888518 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
6888467 TCAAAGAAAT
6888477 AAAAAAATTAAAAATT-AAAA
1 AAAAAAATTAAAAATTCAAAA
6888497 AAAAAACATT-AAAATTCAAAA
1 AAAAAA-ATTAAAAATTCAAAA
6888518 A
1 A
6888519 TATTAGCATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (21 bp):
AAAAAAATTAAAAATTCAAAA
Found at i:6901465 original size:19 final size:20
Alignment explanation
Indices: 6901443--6901480 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
6901433 CTTAAATATT
*
6901443 TAAATTTAA-AAATTAAAAC
1 TAAATTTAATAAAATAAAAC
6901462 TAAATTTAATAAAATAAAA
1 TAAATTTAATAAAATAAAA
6901481 AGACTCTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAATTTAATAAAATAAAAC
Found at i:6901634 original size:1 final size:1
Alignment explanation
Indices: 6901628--6901662 Score: 70
Period size: 1 Copynumber: 35.0 Consensus size: 1
6901618 TATATATATA
6901628 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6901663 GTTCCATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:6916450 original size:19 final size:19
Alignment explanation
Indices: 6916426--6916464 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6916416 GTAAATAGTT
6916426 AATTAAATTAT-TTAATTTA
1 AATTAAATTATATT-ATTTA
*
6916445 AATTAATTTATATTATTTA
1 AATTAAATTATATTATTTA
6916464 A
1 A
6916465 TTATATTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
AATTAAATTATATTATTTA
Found at i:6925101 original size:63 final size:67
Alignment explanation
Indices: 6924971--6925101 Score: 164
Period size: 67 Copynumber: 2.0 Consensus size: 67
6924961 ATTTTTTTCA
* *
6924971 AAATAATATATAATTTATTAAGAAACTAAAAAATAGATTATATATATATATATATATGAAAATTA
1 AAATAATATATAATTTATCAAGAAACTAAAAAATAGA-TATATATATATATATATATGAAAAATA
6925036 TTT
65 TTT
* * *
6925039 AAAT-ATATATAATTTATCAAGAAA-TTAAAAATGAGA-CTATA-A-ATATATATGTGAAAAATA
1 AAATAATATATAATTTATCAAGAAACTAAAAAAT-AGATATATATATATATATATATGAAAAATA
6925099 TTT
65 TTT
6925102 CAAAACATCG
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
63 19 0.33
64 1 0.02
65 4 0.07
66 7 0.12
67 22 0.39
68 4 0.07
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.37
Consensus pattern (67 bp):
AAATAATATATAATTTATCAAGAAACTAAAAAATAGATATATATATATATATATATGAAAAATAT
TT
Found at i:6925604 original size:6 final size:6
Alignment explanation
Indices: 6925593--6925619 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
6925583 AATCATCCCA
6925593 CCCTCC CCCTCC CCCTCC CCCTCC CCC
1 CCCTCC CCCTCC CCCTCC CCCTCC CCC
6925620 CATTATTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.85, G:0.00, T:0.15
Consensus pattern (6 bp):
CCCTCC
Found at i:6926800 original size:2 final size:2
Alignment explanation
Indices: 6926793--6926825 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
6926783 ACTTCTATCC
*
6926793 AT AT AT AT AT AT -T CT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6926826 TTATCTTATG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:6927186 original size:30 final size:30
Alignment explanation
Indices: 6927152--6927233 Score: 137
Period size: 30 Copynumber: 2.7 Consensus size: 30
6927142 CATCCAACCT
* *
6927152 CACCACCACCCCACAATCCAGTTTCTCCAC
1 CACCACCACCCCACCATCCAATTTCTCCAC
6927182 CACCACCACCCCACCATCCAATTTCTCCAC
1 CACCACCACCCCACCATCCAATTTCTCCAC
*
6927212 CACCACCACCCTACCATCCAAT
1 CACCACCACCCCACCATCCAAT
6927234 CACCCCACCG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.28, C:0.55, G:0.01, T:0.16
Consensus pattern (30 bp):
CACCACCACCCCACCATCCAATTTCTCCAC
Found at i:6927241 original size:27 final size:29
Alignment explanation
Indices: 6927152--6927248 Score: 108
Period size: 30 Copynumber: 3.3 Consensus size: 29
6927142 CATCCAACCT
* * *
6927152 CACCACCACCCCACAATCCAGTTTCTCCAC
1 CACCACCACCCCACCATCCA-ATTCACCAC
*
6927182 CACCACCACCCCACCATCCAATTTCTCCAC
1 CACCACCACCCCACCATCCAA-TTCACCAC
*
6927212 CACCACCACCCTACCATCCAA-TCACC-C
1 CACCACCACCCCACCATCCAATTCACCAC
*
6927239 CACCGCCACC
1 CACCACCACC
6927249 TCATGTACAT
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 10 0.16
28 4 0.07
30 47 0.77
ACGTcount: A:0.27, C:0.58, G:0.02, T:0.13
Consensus pattern (29 bp):
CACCACCACCCCACCATCCAATTCACCAC
Found at i:6939251 original size:16 final size:16
Alignment explanation
Indices: 6939225--6939271 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
6939215 ATAATTATAT
*
6939225 TATTATTAATTTAAAA
1 TATTATAAATTTAAAA
*
6939241 TTTTATAAATTATAAAA
1 TATTATAAATT-TAAAA
6939258 TATT-TAAA-TTAAAA
1 TATTATAAATTTAAAA
6939272 AATATATCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 5 0.19
15 1 0.04
16 13 0.48
17 8 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTATAAATTTAAAA
Found at i:6939273 original size:16 final size:16
Alignment explanation
Indices: 6939246--6939276 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6939236 TAAAATTTTA
*
6939246 TAAATTATAAAATATT
1 TAAATTAAAAAATATT
6939262 TAAATTAAAAAATAT
1 TAAATTAAAAAATAT
6939277 ATCATTTTTG
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAATTAAAAAATATT
Found at i:6940331 original size:4 final size:4
Alignment explanation
Indices: 6940316--6940352 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
6940306 CATTATTTTC
6940316 AATT AA-T AATT AATT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AATT AATT AATT AA
6940353 AATTAAAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.09
4 29 0.91
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (4 bp):
AATT
Found at i:6940946 original size:20 final size:21
Alignment explanation
Indices: 6940909--6940949 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
6940899 ATTGACGGTT
6940909 TAATCTATTATTAATTTTTTA
1 TAATCTATTATTAATTTTTTA
* *
6940930 TAAT-TATTTTTATTTTTTTA
1 TAATCTATTATTAATTTTTTA
6940950 AAAAATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (21 bp):
TAATCTATTATTAATTTTTTA
Found at i:6941133 original size:17 final size:18
Alignment explanation
Indices: 6941101--6941134 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6941091 AAAACAATAA
6941101 TGATGTTGAAAAAAATTG
1 TGATGTTGAAAAAAATTG
*
6941119 TGATGTT-ACAAAAATT
1 TGATGTTGAAAAAAATT
6941135 CCATCAGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.35
Consensus pattern (18 bp):
TGATGTTGAAAAAAATTG
Found at i:6946362 original size:2 final size:2
Alignment explanation
Indices: 6946355--6946387 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6946345 TTTAAAAATA
6946355 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6946388 ATTGCACAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6946683 original size:24 final size:23
Alignment explanation
Indices: 6946638--6946691 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
6946628 AAATGTAAAA
* *
6946638 TTTTTTAAAACTAATAATTTTTAAT
1 TTTTTTTAAACTAATAACTTTT--T
*
6946663 TTTTTTTAAA-TAATACCTTTTT
1 TTTTTTTAAACTAATAACTTTTT
6946685 TTTTTTT
1 TTTTTTT
6946692 GTGATTCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 8 0.31
24 9 0.35
25 9 0.35
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTTTTTAAACTAATAACTTTTT
Found at i:6947265 original size:16 final size:15
Alignment explanation
Indices: 6947244--6947282 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
6947234 TGTATTTTGT
6947244 ATAATATTGTTAAAAG
1 ATAATATT-TTAAAAG
**
6947260 ATAATATTTTGTAAG
1 ATAATATTTTAAAAG
6947275 ATAATATT
1 ATAATATT
6947283 ACAATCTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (15 bp):
ATAATATTTTAAAAG
Found at i:6947800 original size:29 final size:26
Alignment explanation
Indices: 6947768--6947840 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
6947758 TGTTCGCAAT
*
6947768 AAATAATATATAAAATTTTAAAGGTATA
1 AAATAA-ATATAAAATTTTAAA-ATATA
*
6947796 GAAATAAATA-AATATTTTTAAAATATA
1 -AAATAAATATAA-AATTTTAAAATATA
6947823 ATAATAAATATAAAATTT
1 A-AATAAATATAAAATTT
6947841 ATATTTATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
26 1 0.03
27 18 0.47
28 13 0.34
29 6 0.16
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (26 bp):
AAATAAATATAAAATTTTAAAATATA
Found at i:6947879 original size:25 final size:27
Alignment explanation
Indices: 6947820--6947893 Score: 91
Period size: 25 Copynumber: 2.8 Consensus size: 27
6947810 TTTTTAAAAT
*
6947820 ATAAT-AATAAATATAAAATTTATATTT
1 ATAATAAATAAA-ATAAAATTTATATTA
6947847 ATAATAAAT-AAATAAAA-TTATATTA
1 ATAATAAATAAAATAAAATTTATATTA
*
6947872 ATAGTAAATAAAATAAATATTT
1 ATAATAAATAAAATAAA-ATTT
6947894 TCTCTCTCCT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
25 15 0.37
26 13 0.32
27 8 0.20
28 5 0.12
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (27 bp):
ATAATAAATAAAATAAAATTTATATTA
Found at i:6948219 original size:27 final size:27
Alignment explanation
Indices: 6948177--6948228 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
6948167 CTAAATATTA
6948177 TATAAAAAAATAAATA-TAATAAAAACC
1 TATAAAAAAATAAATATTAA-AAAAACC
* *
6948204 TATAATAAAATTAATATTAAAAAAA
1 TATAAAAAAATAAATATTAAAAAAA
6948229 TTGTACTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 19 0.86
28 3 0.14
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (27 bp):
TATAAAAAAATAAATATTAAAAAAACC
Found at i:6949577 original size:107 final size:107
Alignment explanation
Indices: 6949389--6949606 Score: 346
Period size: 107 Copynumber: 2.0 Consensus size: 107
6949379 ACACAACTTT
* * * * * *
6949389 TTACTTCTTTTTGAGATTATTAATAATGGTCAAATTTTAATTTTTGTTCCTCTGTTATGTTCAAA
1 TTACTTCTTTTTGAGATTATTAATAATGGCCAAATTTTAATTTTGGTTCCTATATTAAGCTCAAA
* *
6949454 TTTAAAATTTAGTCTTTATATTTTAATTTTTTACATAATCAG
66 TTTAAAATTTAATCTTTATATTTTAATTTTTTACATAATCAA
* *
6949496 TTACTTCTTTTTGAGATTATTCATAATGGCCAAATTTTAGTTTTGGTTCCTATATTAAGCTCAAA
1 TTACTTCTTTTTGAGATTATTAATAATGGCCAAATTTTAATTTTGGTTCCTATATTAAGCTCAAA
6949561 TTTAAAATTTAATCTTTATATTTTAATTTTTTACATAATCAA
66 TTTAAAATTTAATCTTTATATTTTAATTTTTTACATAATCAA
6949603 TTAC
1 TTAC
6949607 CTCAACTTTT
Statistics
Matches: 101, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
107 101 1.00
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (107 bp):
TTACTTCTTTTTGAGATTATTAATAATGGCCAAATTTTAATTTTGGTTCCTATATTAAGCTCAAA
TTTAAAATTTAATCTTTATATTTTAATTTTTTACATAATCAA
Found at i:6961889 original size:2 final size:2
Alignment explanation
Indices: 6961882--6961909 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6961872 TCAATAATAA
6961882 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6961910 TTTTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6962414 original size:22 final size:20
Alignment explanation
Indices: 6962375--6962414 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
6962365 ATTATTGATA
*
6962375 AATTGATGAATTATGCTTGG
1 AATTGATGAATTAAGCTTGG
6962395 AATTGATAGATATTAAGCTT
1 AATTGAT-GA-ATTAAGCTT
6962415 AGATCATGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 2 0.12
22 8 0.47
ACGTcount: A:0.35, C:0.05, G:0.20, T:0.40
Consensus pattern (20 bp):
AATTGATGAATTAAGCTTGG
Found at i:6978762 original size:58 final size:58
Alignment explanation
Indices: 6978666--6978811 Score: 183
Period size: 58 Copynumber: 2.5 Consensus size: 58
6978656 TATATATATA
* *
6978666 ATTTTTACT-AATTCATATTTTAATAATAATTATATTAAAA-AT-ATT-ATTAAATTACAT
1 ATTTTTATTAAATT-ATA-TTTAATAATAATTATATTAAAATATAATTAAATAAATTA-AT
* *
6978723 ATTATTTTATTAAATTGTATTTAATAATAATTATGTTAAAATATAATTAAATAAATTAAT
1 A-T-TTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAATAAATTAAT
6978783 ATTTTTATTAAATTATATTTAATAATAAT
1 ATTTTTATTAAATTATATTTAATAATAAT
6978812 CATTAAAATT
Statistics
Matches: 78, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
57 1 0.01
58 48 0.62
59 11 0.14
60 10 0.13
61 8 0.10
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (58 bp):
ATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAATAAATTAAT
Done.