Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002461.1 Hibiscus syriacus cultivar Beakdansim tig00005037_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 244757
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:2526 original size:4 final size:4
Alignment explanation
Indices: 2517--2565 Score: 55
Period size: 4 Copynumber: 12.2 Consensus size: 4
2507 ATACAAGGAC
* * *
2517 ACAT ACAT ACAT ACAT ACAT GCA- AGCTT ACAA ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT A-CAT ACAT ACAT ACAT ACAT ACAT
2565 A
1 A
2566 TGAATCATTG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
4 36 0.97
5 1 0.03
ACGTcount: A:0.49, C:0.24, G:0.04, T:0.22
Consensus pattern (4 bp):
ACAT
Found at i:3357 original size:44 final size:44
Alignment explanation
Indices: 3289--3376 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 44
3279 GATTCAGCGT
* *
3289 CTGTTTCTTAATCTATTGACAATATATACATTTTGCACATGCAA
1 CTGTTTCTTAATCTATTGACAATATATACATTTTACACACGCAA
* * *
3333 CTGTTTCTTAGTCTATTGAGAATATATACGTTTTACACACGCAA
1 CTGTTTCTTAATCTATTGACAATATATACATTTTACACACGCAA
3377 TTGATCAAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (44 bp):
CTGTTTCTTAATCTATTGACAATATATACATTTTACACACGCAA
Found at i:4451 original size:17 final size:17
Alignment explanation
Indices: 4413--4453 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
4403 TAATTTTAAT
4413 TAATAAAATTAAAGTTA
1 TAATAAAATTAAAGTTA
*
4430 T-ATAAATATTATA-TTA
1 TAATAAA-ATTAAAGTTA
4446 TAATAAAA
1 TAATAAAA
4454 ATATATATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
TAATAAAATTAAAGTTA
Found at i:4621 original size:18 final size:19
Alignment explanation
Indices: 4598--4640 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
4588 AACTTAAAAA
*
4598 TTAAATTAACTC-GATAAT
1 TTAAATTAACTCAAATAAT
4616 TTAAATTAACTCAAATAAT
1 TTAAATTAACTCAAATAAT
4635 TTAAAT
1 TTAAAT
4641 AAGTAGAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (19 bp):
TTAAATTAACTCAAATAAT
Found at i:6562 original size:2 final size:2
Alignment explanation
Indices: 6462--6551 Score: 164
Period size: 2 Copynumber: 45.0 Consensus size: 2
6452 ATAAAAAAGT
6462 TA TA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6504 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6546 TA TA TA
1 TA TA TA
6552 ATTGAATATA
Statistics
Matches: 86, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.01
2 83 0.97
3 2 0.02
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10642 original size:31 final size:31
Alignment explanation
Indices: 10604--10673 Score: 140
Period size: 31 Copynumber: 2.3 Consensus size: 31
10594 CAGAGTTAAT
10604 GTAACAAATCCGACATGCATGGATGTTTTGG
1 GTAACAAATCCGACATGCATGGATGTTTTGG
10635 GTAACAAATCCGACATGCATGGATGTTTTGG
1 GTAACAAATCCGACATGCATGGATGTTTTGG
10666 GTAACAAA
1 GTAACAAA
10674 AGGGAAAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (31 bp):
GTAACAAATCCGACATGCATGGATGTTTTGG
Found at i:12080 original size:35 final size:37
Alignment explanation
Indices: 12009--12081 Score: 89
Period size: 35 Copynumber: 2.0 Consensus size: 37
11999 GTTGAAAAAT
* *
12009 ATTTATATATTTTCTTTAAAAAAATTAAATTCATAAA
1 ATTTATATAATTTCTTTAAAAAAATTAAAATCATAAA
*
12046 ATTTATATAATTT-TTT-ACAAAATTGAAAAT-ATAAA
1 ATTTATATAATTTCTTTAAAAAAATT-AAAATCATAAA
12081 A
1 A
12082 ATATTTAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 13 0.41
36 7 0.22
37 12 0.38
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (37 bp):
ATTTATATAATTTCTTTAAAAAAATTAAAATCATAAA
Found at i:30194 original size:23 final size:23
Alignment explanation
Indices: 30168--30219 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
30158 GGAATCGATA
*
30168 CCCCCCTTGAAGGGGAACTAATT
1 CCCCCCTTGAAGGGGAACCAATT
* *
30191 CCCCCTTTGAAGGGGAACCGATT
1 CCCCCCTTGAAGGGGAACCAATT
30214 CCCCCC
1 CCCCCC
30220 ACAGGGGAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.21, C:0.38, G:0.21, T:0.19
Consensus pattern (23 bp):
CCCCCCTTGAAGGGGAACCAATT
Found at i:31846 original size:18 final size:18
Alignment explanation
Indices: 31811--31848 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
31801 AGAATAGCAC
*
31811 GAGGAACAAACTCCACCA
1 GAGGAACAAACACCACCA
*
31829 GAGGAACAAACACGACCA
1 GAGGAACAAACACCACCA
31847 GA
1 GA
31849 TGATCAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.47, C:0.29, G:0.21, T:0.03
Consensus pattern (18 bp):
GAGGAACAAACACCACCA
Found at i:36431 original size:4 final size:4
Alignment explanation
Indices: 36422--36464 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
36412 TTCAACTATG
36422 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TAT
36465 ACATGCATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:44772 original size:17 final size:17
Alignment explanation
Indices: 44750--44783 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
44740 TCTGATGCTA
*
44750 TAAATAAATATTATTTT
1 TAAATAAACATTATTTT
44767 TAAATAAACATTATTTT
1 TAAATAAACATTATTTT
44784 CTTTTGTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAATAAACATTATTTT
Found at i:45815 original size:29 final size:29
Alignment explanation
Indices: 45772--45854 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
45762 CTCACCTAAC
45772 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
45802 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
45831 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
45855 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:50572 original size:29 final size:29
Alignment explanation
Indices: 50529--50611 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
50519 CTCACCTAAC
50529 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
50559 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
50588 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
50612 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:59673 original size:66 final size:66
Alignment explanation
Indices: 59590--59723 Score: 241
Period size: 66 Copynumber: 2.0 Consensus size: 66
59580 TCGGCCTCGC
*
59590 GGGGAAACACTTTGAGGACTTGGAGACCGTCCACCGCGGCTCCGTCTATCAGGACTTTCACCCCT
1 GGGGAAACACTTCGAGGACTTGGAGACCGTCCACCGCGGCTCCGTCTATCAGGACTTTCACCCCT
59655 A
66 A
* *
59656 GGGGAAACACTTCGAGGACTTGGAGACCTTCCACCGCGGCTCCGTCTATCAGGACTTTCACCCTT
1 GGGGAAACACTTCGAGGACTTGGAGACCGTCCACCGCGGCTCCGTCTATCAGGACTTTCACCCCT
59721 A
66 A
59722 GG
1 GG
59724 TGGAGATGCC
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.21, C:0.31, G:0.26, T:0.22
Consensus pattern (66 bp):
GGGGAAACACTTCGAGGACTTGGAGACCGTCCACCGCGGCTCCGTCTATCAGGACTTTCACCCCT
A
Found at i:60780 original size:9 final size:9
Alignment explanation
Indices: 60768--60809 Score: 57
Period size: 9 Copynumber: 4.3 Consensus size: 9
60758 CCAAACAAGC
60768 TTTTCTTTT
1 TTTTCTTTT
60777 TTTTCTTTTTT
1 TTTTC--TTTT
60788 TTTTCTTTT
1 TTTTCTTTT
60797 TTTTCTTCTT
1 TTTTCTT-TT
60807 TTT
1 TTT
60810 GAAAATAGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
9 16 0.53
10 5 0.17
11 9 0.30
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:60789 original size:11 final size:11
Alignment explanation
Indices: 60773--60809 Score: 65
Period size: 11 Copynumber: 3.3 Consensus size: 11
60763 CAAGCTTTTC
60773 TTTTTTTTCTT
1 TTTTTTTTCTT
60784 TTTTTTTTCTT
1 TTTTTTTTCTT
60795 TTTTTTCTTCTT
1 TTTTTT-TTCTT
60807 TTT
1 TTT
60810 GAAAATAGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 17 0.68
12 8 0.32
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:60790 original size:12 final size:12
Alignment explanation
Indices: 60773--60809 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
60763 CAAGCTTTTC
60773 TTTTTTTTC-TT
1 TTTTTTTTCTTT
60784 TTTTTTTTCTTT
1 TTTTTTTTCTTT
*
60796 TTTTTCTTCTTT
1 TTTTTTTTCTTT
60808 TT
1 TT
60810 GAAAATAGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:60793 original size:20 final size:21
Alignment explanation
Indices: 60768--60809 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
60758 CCAAACAAGC
60768 TTTTCTTTTTTTTCTT-TTTT
1 TTTTCTTTTTTTTCTTCTTTT
60788 TTTTCTTTTTTTTCTTCTTTT
1 TTTTCTTTTTTTTCTTCTTTT
60809 T
1 T
60810 GAAAATAGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (21 bp):
TTTTCTTTTTTTTCTTCTTTT
Found at i:62709 original size:36 final size:36
Alignment explanation
Indices: 62669--62745 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
62659 ACGGAATTAA
*
62669 ACGGGAACGGAGAAAAACCGTTTATGCTAAACTAGG
1 ACGGGAACGGAGAAAAACCGTTTATGCTAAACGAGG
* * * * *
62705 ACGGGGATGGGGAAAAACCGTTTATGTTAAACGGGG
1 ACGGGAACGGAGAAAAACCGTTTATGCTAAACGAGG
62741 ACGGG
1 ACGGG
62746 GATAGGGTCG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.34, C:0.14, G:0.35, T:0.17
Consensus pattern (36 bp):
ACGGGAACGGAGAAAAACCGTTTATGCTAAACGAGG
Found at i:62746 original size:36 final size:36
Alignment explanation
Indices: 62680--62748 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
62670 CGGGAACGGA
*
62680 GAAAAACCGTTTATGCTAAACTAGGACGGGGATGGG
1 GAAAAACCGTTTATGCTAAACGAGGACGGGGATGGG
* *
62716 GAAAAACCGTTTATGTTAAACGGGGACGGGGAT
1 GAAAAACCGTTTATGCTAAACGAGGACGGGGAT
62749 AGGGTCGGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.20
Consensus pattern (36 bp):
GAAAAACCGTTTATGCTAAACGAGGACGGGGATGGG
Found at i:62892 original size:15 final size:15
Alignment explanation
Indices: 62826--62900 Score: 55
Period size: 15 Copynumber: 5.1 Consensus size: 15
62816 TAATAATTAT
62826 TATTTATATATATAA
1 TATTTATATATATAA
* * *
62841 TATTAATAAAT-TTA
1 TATTTATATATATAA
* * *
62855 -ATTTAAATTTAAAAA
1 TATTTATATAT-ATAA
*
62870 TATATATATATATAA
1 TATTTATATATATAA
*
62885 TATTTATATATTTAA
1 TATTTATATATATAA
62900 T
1 T
62901 TTAAATATAT
Statistics
Matches: 42, Mismatches: 15, Indels: 6
0.67 0.24 0.10
Matches are distributed among these distances:
13 6 0.14
14 2 0.05
15 27 0.64
16 7 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TATTTATATATATAA
Found at i:62902 original size:38 final size:37
Alignment explanation
Indices: 62831--62910 Score: 92
Period size: 38 Copynumber: 2.1 Consensus size: 37
62821 ATTATTATTT
62831 ATATATATAATATTAATAAATTTAATTTAAATTTAAAA
1 ATATATATAATATTAAT-AATTTAATTTAAATTTAAAA
* *
62869 ATATATAT-ATATATAAT-ATTTATATATTTAATTTAAAT
1 ATATATATAATAT-TAATAATTTA-AT-TTAAATTTAAAA
62907 ATAT
1 ATAT
62911 GTATCCGGCC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
36 5 0.14
37 6 0.16
38 26 0.70
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (37 bp):
ATATATATAATATTAATAATTTAATTTAAATTTAAAA
Found at i:63315 original size:15 final size:15
Alignment explanation
Indices: 63243--63318 Score: 75
Period size: 15 Copynumber: 5.1 Consensus size: 15
63233 ATATTCAATC
63243 ATTTAATAAATAT-AT
1 ATTTAA-AAATATAAT
*
63258 ATTTAAAATTA-AAT
1 ATTTAAAAATATAAT
* **
63272 CTTTAAAAAGCTAAT
1 ATTTAAAAATATAAT
*
63287 ATTTAAATAATATAAG
1 ATTTAAA-AATATAAT
63303 ATTTAAAAATATAAT
1 ATTTAAAAATATAAT
63318 A
1 A
63319 ACCGATCCAG
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
14 13 0.27
15 23 0.48
16 12 0.25
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (15 bp):
ATTTAAAAATATAAT
Found at i:63318 original size:31 final size:29
Alignment explanation
Indices: 63243--63318 Score: 73
Period size: 31 Copynumber: 2.6 Consensus size: 29
63233 ATATTCAATC
* *
63243 ATTTAATAAATAT-ATATTTAAAATTAAAT
1 ATTTAA-AAATATAATATTTAAAAATAAAG
* **
63272 CTTTAAAAAGCTAATATTTAAATAATATAAG
1 ATTTAAAAATATAATATTTAAA-AATA-AAG
63303 ATTTAAAAATATAATA
1 ATTTAAAAATATAATA
63319 ACCGATCCAG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
28 4 0.11
29 14 0.39
30 3 0.08
31 15 0.42
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (29 bp):
ATTTAAAAATATAATATTTAAAAATAAAG
Found at i:64080 original size:21 final size:21
Alignment explanation
Indices: 64029--64081 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
64019 ATTATGACTA
64029 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
64050 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
64071 TCGCAATGCGA
1 TCGCAATGCGA
64082 ATAAGTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:64095 original size:21 final size:21
Alignment explanation
Indices: 64071--64123 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
64061 TTTTCCCAAT
*
64071 TCGCAATGCGAATAAGTAAAA
1 TCGCAATGCGAATAAGGAAAA
* **
64092 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGGAAAA
64113 TCGCAATGCGA
1 TCGCAATGCGA
64124 TACTGACTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATAAGGAAAA
Found at i:64137 original size:20 final size:20
Alignment explanation
Indices: 64112--64226 Score: 106
Period size: 20 Copynumber: 5.7 Consensus size: 20
64102 AATTGGGAAA
*
64112 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
64132 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
64153 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
64173 TTCGTAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* **
64193 TTCGCAACGCGATTTTGACT
1 ATCGCAACGCGATACTGACT
* *
64213 TTCGCAACGAGATA
1 ATCGCAACGCGATA
64227 ATACAGAATC
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.03
20 61 0.76
21 15 0.19
22 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:64249 original size:41 final size:41
Alignment explanation
Indices: 64111--64246 Score: 143
Period size: 41 Copynumber: 3.3 Consensus size: 41
64101 GAATTGGGAA
* * *
64111 AATCGCAATGCGATACTGACTATCGCAACGCGATAATACAA
1 AATCGCAACGCGATACTGACTTTCGCAACGCGATAATACAG
* *
64152 AATCGCAACGCGATACTGACTTTCGTAACGCGAT--T-CTG
1 AATCGCAACGCGATACTGACTTTCGCAACGCGATAATACAG
* ** *
64190 ACTTTCGCAACGCGATTTTGACTTTCGCAACGAGATAATACAG
1 A--ATCGCAACGCGATACTGACTTTCGCAACGCGATAATACAG
*
64233 AATCGCAATGCGAT
1 AATCGCAACGCGAT
64247 TTTCAAAGTT
Statistics
Matches: 77, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
38 2 0.03
39 1 0.01
40 28 0.36
41 42 0.55
42 1 0.01
43 3 0.04
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (41 bp):
AATCGCAACGCGATACTGACTTTCGCAACGCGATAATACAG
Found at i:64996 original size:24 final size:24
Alignment explanation
Indices: 64969--65022 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
64959 GTATTCGAAA
*
64969 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
64993 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
65017 TTTGAT
1 TTTGAT
65023 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:65214 original size:12 final size:12
Alignment explanation
Indices: 65197--65221 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65187 ATATAATCCT
65197 GAAGAAGAAAAA
1 GAAGAAGAAAAA
65209 GAAGAAGAAAAA
1 GAAGAAGAAAAA
65221 G
1 G
65222 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:67513 original size:20 final size:20
Alignment explanation
Indices: 67488--67548 Score: 122
Period size: 20 Copynumber: 3.0 Consensus size: 20
67478 ATTCATTTGA
67488 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
67508 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
67528 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
67548 C
1 C
67549 AATGCGAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.34, C:0.26, G:0.25, T:0.15
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:67605 original size:19 final size:19
Alignment explanation
Indices: 67564--67628 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
67554 GAAATGAAAA
67564 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
67580 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
67597 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
67616 TTGCATTGCGATT
1 TCGCATTGCGATT
67629 CTCTCGTTGC
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
14 11 0.26
16 3 0.07
17 3 0.07
19 26 0.60
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.48
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:67787 original size:14 final size:14
Alignment explanation
Indices: 67768--67804 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
67758 CATCAATTAA
67768 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
67782 ACAAATCATCTTTT
1 ACAAATCAACATTT
67796 ACAAATCAA
1 ACAAATCAA
67805 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:69685 original size:19 final size:19
Alignment explanation
Indices: 69661--69721 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
69651 GCGGAAATAA
69661 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
69680 TGCGA-TTT--TGT--CGT
1 TGCGATTTTCATTTCGCGT
*
69694 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCGT
*
69713 TGGGATTTT
1 TGCGATTTT
69722 GTCGTTGCGA
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
14 8 0.24
15 3 0.09
16 2 0.06
17 2 0.06
18 3 0.09
19 15 0.45
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.49
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:69696 original size:14 final size:14
Alignment explanation
Indices: 69677--69782 Score: 86
Period size: 14 Copynumber: 6.9 Consensus size: 14
69667 TTTCATTTCG
69677 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
69691 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
*
69708 CGCATTGGGATTTTGT
1 CG--TTGCGATTTTGT
69724 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
69738 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
69755 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
69771 CGTTGCAATTTT
1 CGTTGCGATTTT
69783 CATTTCGCAT
Statistics
Matches: 75, Mismatches: 7, Indels: 20
0.74 0.07 0.20
Matches are distributed among these distances:
14 36 0.48
15 6 0.08
16 8 0.11
17 8 0.11
18 6 0.08
19 11 0.15
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:69703 original size:33 final size:33
Alignment explanation
Indices: 69661--69735 Score: 132
Period size: 33 Copynumber: 2.3 Consensus size: 33
69651 GCGGAAATAA
*
69661 TGCGATTTTCATTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTGTCGT
*
69694 TGCGATTTTCATTTCGCATTGGGATTTTGTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTGTCGT
69727 TGCGATTTT
1 TGCGATTTT
69736 GTCGTTGCGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTTTGTCGT
Found at i:69746 original size:47 final size:47
Alignment explanation
Indices: 69677--69782 Score: 194
Period size: 47 Copynumber: 2.3 Consensus size: 47
69667 TTTCATTTCG
*
69677 CGTTGCGATTTTGTCGTTGCGATTTTCATTTCGCATTGGGATTTTGT
1 CGTTGCGATTTTGTCGTTGCGATTTTCATTTCGCATTGCGATTTTGT
69724 CGTTGCGATTTTGTCGTTGCGATTTTCATTTCGCATTGCGATTTTGT
1 CGTTGCGATTTTGTCGTTGCGATTTTCATTTCGCATTGCGATTTTGT
*
69771 CGTTGCAATTTT
1 CGTTGCGATTTT
69783 CATTTCGCAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (47 bp):
CGTTGCGATTTTGTCGTTGCGATTTTCATTTCGCATTGCGATTTTGT
Found at i:69763 original size:33 final size:33
Alignment explanation
Indices: 69726--69798 Score: 137
Period size: 33 Copynumber: 2.2 Consensus size: 33
69716 GATTTTGTCG
*
69726 TTGCGATTTTGTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTGTCGTTGCAATTTTCATTTCGCA
69759 TTGCGATTTTGTCGTTGCAATTTTCATTTCGCA
1 TTGCGATTTTGTCGTTGCAATTTTCATTTCGCA
69792 TTGCGAT
1 TTGCGAT
69799 AGCCATTTCC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.14, C:0.18, G:0.21, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTGTCGTTGCAATTTTCATTTCGCA
Found at i:69805 original size:19 final size:20
Alignment explanation
Indices: 69783--69826 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
69773 TTGCAATTTT
*
69783 CATTT-CGCATTGCGATAGC
1 CATTTCCGCATTGCAATAGC
* *
69802 CATTTCCGCGTTGCAATAGT
1 CATTTCCGCATTGCAATAGC
69822 CATTT
1 CATTT
69827 TCGTGTTACG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (20 bp):
CATTTCCGCATTGCAATAGC
Found at i:70395 original size:18 final size:18
Alignment explanation
Indices: 70372--70437 Score: 123
Period size: 18 Copynumber: 3.7 Consensus size: 18
70362 CGGGTCGATC
70372 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
70390 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
70408 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
70426 AGGTGATGGCTC
1 AGGTGATGGCTC
70438 CCAAAGTGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.14, C:0.12, G:0.47, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:71809 original size:20 final size:20
Alignment explanation
Indices: 71784--71821 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
71774 ACACGGAAAA
71784 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATT
71804 TGACTATCGCAACGCGAA
1 TGACTATCGCAACGCGAA
71822 GCTAAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (20 bp):
TGACTATCGCAACGCGAATT
Found at i:72098 original size:20 final size:21
Alignment explanation
Indices: 72073--72112 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
72063 TCTGAGAGAT
72073 GGAGA-TAGACGGATTTCGCC
1 GGAGAGTAGACGGATTTCGCC
*
72093 GGAGATGTGGACGGATTTCG
1 GGAGA-GTAGACGGATTTCG
72113 TTGGAGATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
22 12 0.71
ACGTcount: A:0.23, C:0.15, G:0.40, T:0.23
Consensus pattern (21 bp):
GGAGAGTAGACGGATTTCGCC
Found at i:72107 original size:22 final size:22
Alignment explanation
Indices: 72080--72121 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
72070 GATGGAGATA
72080 GACGGATTTCGCCGGAGATGTG
1 GACGGATTTCGCCGGAGATGTG
**
72102 GACGGATTTCGTTGGAGATG
1 GACGGATTTCGCCGGAGATG
72122 GGTGAGAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.14, G:0.40, T:0.26
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGTG
Found at i:72337 original size:20 final size:20
Alignment explanation
Indices: 72312--72380 Score: 102
Period size: 20 Copynumber: 3.5 Consensus size: 20
72302 ATTATGTATT
*
72312 ATCGCGTTGCGAAAGTTAGA
1 ATCGCGTTGCGAAAGTCAGA
*
72332 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGAAAGTCAGA
*
72352 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGAAAGTCAGA
*
72372 ATCTCGTTG
1 ATCGCGTTG
72381 TAATTTTGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.28
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTCAGA
Found at i:72417 original size:20 final size:20
Alignment explanation
Indices: 72311--72425 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
72301 GATTATGTAT
* *
72311 TATCGCGTTGCGAAAGTTAG
1 TATCGCGTTGCGATAGTCAG
* *
72331 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
72351 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* ** * *
72371 TATCTCGTTGTAATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
*
72392 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
72412 TATCGCATTGCGAT
1 TATCGCGTTGCGAT
72426 TTTCCCAATT
Statistics
Matches: 77, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
19 3 0.04
20 62 0.81
21 10 0.13
22 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:90994 original size:20 final size:20
Alignment explanation
Indices: 90971--91022 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
90961 AACGCGATCC
90971 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
90991 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
91011 CCAAAATCGCAA
1 CCAGAATCGCAA
91023 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:91039 original size:21 final size:20
Alignment explanation
Indices: 91012--91110 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
91002 AATCAGTTTC
91012 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
91033 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
91054 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
91074 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
91095 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
91111 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.27
21 43 0.73
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:91139 original size:20 final size:20
Alignment explanation
Indices: 91077--91270 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
91067 CGATTTTCCA
* ** *
91077 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
91097 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
91117 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
91137 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
91157 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
91177 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
91197 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
91217 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
91237 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
91258 AAATCGCAACGCG
1 AAATCGCAACGCG
91271 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:91161 original size:60 final size:60
Alignment explanation
Indices: 91077--91270 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
91067 CGATTTTCCA
* ** * *
91077 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
91137 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
91197 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
91258 AAATCGCAACGCG
1 AAATCGCAACGCG
91271 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:91442 original size:21 final size:21
Alignment explanation
Indices: 91416--91458 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
91406 CTCTCTACGG
91416 CGAAGAAATCCGTCCCCATCT
1 CGAAGAAATCCGTCCCCATCT
**
91437 CGAAGATTTCCGTCCCCATCT
1 CGAAGAAATCCGTCCCCATCT
91458 C
1 C
91459 CGGCGAAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.40, G:0.14, T:0.23
Consensus pattern (21 bp):
CGAAGAAATCCGTCCCCATCT
Found at i:91690 original size:33 final size:33
Alignment explanation
Indices: 91651--91721 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
91641 TTCACTTAGA
*
91651 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
91684 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
91717 TTTCA
1 TTTCA
91722 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:91861 original size:14 final size:14
Alignment explanation
Indices: 91842--91895 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 14
91832 AGAATGACTG
91842 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
91856 TCGCAACGCGAAATGAAA
1 TCGCAA--CGAGA-G-AA
91874 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
91888 TCGCAACG
1 TCGCAACG
91896 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
14 16 0.47
15 1 0.03
16 8 0.24
17 1 0.03
18 8 0.24
ACGTcount: A:0.41, C:0.24, G:0.26, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:91877 original size:18 final size:16
Alignment explanation
Indices: 91852--91900 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
91842 TCGCAACGAG
91852 AGAATCGCAACGCGAA
1 AGAATCGCAACGCGAA
*
91868 ATGAAATCGCAA--CGAG
1 A-G-AATCGCAACGCGAA
91884 AGAATCGCAACGCGAA
1 AGAATCGCAACGCGAA
91900 A
1 A
91901 CCAAAATCGC
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
14 8 0.30
15 1 0.04
16 9 0.33
17 1 0.04
18 8 0.30
ACGTcount: A:0.45, C:0.22, G:0.24, T:0.08
Consensus pattern (16 bp):
AGAATCGCAACGCGAA
Found at i:91929 original size:19 final size:19
Alignment explanation
Indices: 91907--92004 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
91897 GAAACCAAAA
*
91907 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
91926 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
91940 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
91959 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
91973 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
91992 TCGCGTTGCGATT
1 TCGCGTTGCGATT
92005 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:91948 original size:14 final size:14
Alignment explanation
Indices: 91929--92018 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
91919 TTTCATTTCG
91929 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
91943 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
91962 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
91976 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
91993 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
92009 CGTTGCGATT
1 CGTTGCGATT
92019 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:91954 original size:33 final size:33
Alignment explanation
Indices: 91912--92026 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
91902 CAAAATCGCA
91912 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
91945 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
91978 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
92011 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
92027 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:93952 original size:185 final size:183
Alignment explanation
Indices: 93722--94100 Score: 715
Period size: 185 Copynumber: 2.1 Consensus size: 183
93712 TAGATTGCTT
93722 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
93787 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
93852 GTGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTC---AACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
93907 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
93972 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
94037 GTGTATTCAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
94090 AGTAAATTTAT
1 AGTAAATTTAT
94101 CCATTCAAGT
Statistics
Matches: 191, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
182 14 0.07
183 40 0.21
185 137 0.72
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (183 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:94036 original size:93 final size:93
Alignment explanation
Indices: 93722--94098 Score: 717
Period size: 93 Copynumber: 4.1 Consensus size: 93
93712 TAGATTGCTT
*
93722 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
93787 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
93815 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
93879 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
93907 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
93972 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
94000 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTC---AACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
94062 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
94090 AGTAAATTT
1 AGTAAATTT
94099 ATCCATTCAA
Statistics
Matches: 282, Mismatches: 1, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
90 54 0.19
92 92 0.33
93 136 0.48
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:94182 original size:19 final size:19
Alignment explanation
Indices: 94142--94270 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
94132 TAGTTTACTT
* *
94142 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
94162 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
94181 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
94200 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
94214 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
94233 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
94247 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
94266 TCGCA
1 TCGCA
94271 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:94221 original size:33 final size:32
Alignment explanation
Indices: 94178--94270 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
94168 CGCGAAACCA
**
94178 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
94210 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
94243 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
94271 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:94268 original size:52 final size:52
Alignment explanation
Indices: 94142--94270 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
94132 TAGTTTACTT
**
94142 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
94194 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
94247 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
94271 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:94288 original size:19 final size:19
Alignment explanation
Indices: 94266--94399 Score: 137
Period size: 19 Copynumber: 7.6 Consensus size: 19
94256 GAAACCAAAA
*
94266 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
94285 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
94301 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
94318 TCGCGTTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
94334 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
94351 TCGCGTTGCGATTTT-GTT
1 TCGCGTTGCGATTTTCATT
*
94369 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
94389 TCGTGTTGCGA
1 TCGCGTTGCGA
94400 AAGTAAACTA
Statistics
Matches: 97, Mismatches: 6, Indels: 23
0.77 0.05 0.18
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
18 17 0.18
19 30 0.31
20 12 0.12
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:94307 original size:14 final size:14
Alignment explanation
Indices: 94288--94344 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
94278 TTTCATTTCG
94288 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
94302 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
94319 CGCGTTGCGATTCTGT
1 --CGTTGCGATTCTTT
94335 CGTTGCGATT
1 CGTTGCGATT
94345 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.09, C:0.21, G:0.25, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:94313 original size:33 final size:33
Alignment explanation
Indices: 94271--94399 Score: 177
Period size: 33 Copynumber: 3.8 Consensus size: 33
94261 CAAAATCGCA
94271 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
*
94304 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
*
94337 TTGCGATTTTCATTTCGCGTTGCGATTTTGTTTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGA--TTCTTT--CG
* *
94374 TTGCGATTTTAAGTTTCGTGTTGCGA
1 TTGCGATTTTCA-TTTCGCGTTGCGA
94400 AAGTAAACTA
Statistics
Matches: 86, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
33 57 0.66
35 4 0.05
37 13 0.15
38 12 0.14
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
Found at i:96254 original size:38 final size:38
Alignment explanation
Indices: 96211--96283 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
96201 AATTGATTGT
*
96211 TTTTTGATTGTTTAATTGATTTGTAAAAGTTGATTCAA
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
96249 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
96284 TGTAAAAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.01, G:0.16, T:0.53
Consensus pattern (38 bp):
TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
Found at i:96270 original size:19 final size:19
Alignment explanation
Indices: 96206--96270 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
96196 AGTTTAATTG
*
96206 ATTGTTTTTTGATTGTTTA
1 ATTGATTTTTGATTGTTTA
* * ** *
96225 ATTGATTTGTAAAAG-TTG
1 ATTGATTTTTGATTGTTTA
*
96243 ATTCAATTTTTGATTGTTTA
1 ATT-GATTTTTGATTGTTTA
96263 ATTGATTT
1 ATTGATTT
96271 GTAAAAGATG
Statistics
Matches: 31, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
18 5 0.16
19 21 0.68
20 5 0.16
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (19 bp):
ATTGATTTTTGATTGTTTA
Found at i:96284 original size:14 final size:14
Alignment explanation
Indices: 96265--96300 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
96255 ATTGTTTAAT
96265 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
96279 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
96293 TGATTTGT
1 TGATTTGT
96301 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:96423 original size:19 final size:19
Alignment explanation
Indices: 96407--96508 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
96397 AAAAATGACT
96407 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
96426 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
96445 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
96459 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
96478 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
96498 ATCGCAATGCG
1 ATCGCAATGCG
96509 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:96561 original size:19 final size:19
Alignment explanation
Indices: 96537--96861 Score: 396
Period size: 19 Copynumber: 18.4 Consensus size: 19
96527 GATTATCTCG
96537 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
96556 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
96575 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
96589 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
96607 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
96626 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
*
96645 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
96664 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
96683 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
96697 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
96716 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
96735 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
96749 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
96768 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
96787 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
96801 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
96821 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
96835 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
96854 TTGCGATT
1 TTGCGATT
96862 GTATTTTCCG
Statistics
Matches: 268, Mismatches: 12, Indels: 52
0.81 0.04 0.16
Matches are distributed among these distances:
14 35 0.13
15 3 0.01
16 33 0.12
17 23 0.09
18 9 0.03
19 153 0.57
20 12 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:96577 original size:52 final size:52
Alignment explanation
Indices: 96515--96833 Score: 541
Period size: 52 Copynumber: 6.0 Consensus size: 52
96505 TGCGTTTATA
*
96515 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
96567 ATTTCGCATTGCGATTCTTTCGTTGCGA-TTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* *
96618 ATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
96675 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
96727 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
96779 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
96832 AT
1 AT
96834 GTTGGGATTT
Statistics
Matches: 255, Mismatches: 5, Indels: 13
0.93 0.02 0.05
Matches are distributed among these distances:
51 37 0.15
52 144 0.56
53 20 0.08
54 9 0.04
55 3 0.01
56 6 0.02
57 36 0.14
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.47
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:96805 original size:33 final size:33
Alignment explanation
Indices: 96556--96861 Score: 271
Period size: 33 Copynumber: 8.8 Consensus size: 33
96546 TCATTTCGCA
*
96556 TTGCGATTTTCATTTCGCATTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
96589 TTGCGA-TTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * *
96624 CATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCG
1 --TTGCGATTTTCATTTCGCATTGCGA--TT-CTCTCG
96662 CATTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 --TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
96697 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * * * *
96733 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
96768 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
96801 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
* *
96835 TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
96862 GTATTTTCCG
Statistics
Matches: 233, Mismatches: 20, Indels: 40
0.80 0.07 0.14
Matches are distributed among these distances:
31 9 0.04
32 23 0.10
33 68 0.29
34 32 0.14
35 15 0.06
36 6 0.03
37 8 0.03
38 60 0.26
39 3 0.01
40 9 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:98211 original size:12 final size:12
Alignment explanation
Indices: 98194--98218 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
98184 TCTTCGGGGA
98194 CTTTTTCTTCTT
1 CTTTTTCTTCTT
98206 CTTTTTCTTCTT
1 CTTTTTCTTCTT
98218 C
1 C
98219 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:98427 original size:24 final size:24
Alignment explanation
Indices: 98393--98439 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
98383 CTGAAACATC
98393 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
98417 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
98440 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:99140 original size:20 final size:20
Alignment explanation
Indices: 99131--99480 Score: 456
Period size: 20 Copynumber: 17.5 Consensus size: 20
99121 TACATATTCT
*
99131 CGTTGCGATTTACGGATTA-T
1 CGTTGCGATTTACGGA-TACG
* * *
99151 CGTTGCGATTTACAGATTCT
1 CGTTGCGATTTACGGATACG
*
99171 CGTTGCGATTTACGGATTA-T
1 CGTTGCGATTTACGGA-TACG
99191 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
*
99211 CGTTGCGATTTACGGATTA-T
1 CGTTGCGATTTACGGA-TACG
99231 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
99251 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
*
99271 CATTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
*
99291 CGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACG
*
99311 CGTTGCGGTTTACGGATACG
1 CGTTGCGATTTACGGATACG
99331 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
*
99351 CGTTGCGATATACGGATACG
1 CGTTGCGATTTACGGATACG
* **
99371 CATTGCGATTTACCCATACG
1 CGTTGCGATTTACGGATACG
*
99391 CGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACG
99411 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
* *
99431 CGTTGCGATTTATGTG-TTCG
1 CGTTGCGATTTACG-GATACG
* ** *
99451 CGTTGCGATTTTCATATTCG
1 CGTTGCGATTTACGGATACG
99471 CGTTGCGATT
1 CGTTGCGATT
99481 ATGGAAAATC
Statistics
Matches: 294, Mismatches: 29, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.02
20 285 0.97
21 4 0.01
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (20 bp):
CGTTGCGATTTACGGATACG
Found at i:100511 original size:26 final size:26
Alignment explanation
Indices: 100482--100533 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
100472 TGTGACAGAT
* *
100482 GGGCGACGGCCCAGGGCAGCATGTAG
1 GGGCGACAGCCCAGGACAGCATGTAG
100508 GGGCGACAGCCCAGGACAGCATGTAG
1 GGGCGACAGCCCAGGACAGCATGTAG
100534 AGGCATACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.23, C:0.27, G:0.42, T:0.08
Consensus pattern (26 bp):
GGGCGACAGCCCAGGACAGCATGTAG
Found at i:102804 original size:22 final size:22
Alignment explanation
Indices: 102763--102830 Score: 127
Period size: 22 Copynumber: 3.0 Consensus size: 22
102753 CTCGTATAAA
102763 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
102786 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
102808 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
102830 T
1 T
102831 ATGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
22 33 0.73
23 12 0.27
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:103157 original size:29 final size:29
Alignment explanation
Indices: 103124--103195 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
103114 TTTTCTGCAT
**
103124 ATTCATGTCATGTAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATACAA
*
103153 ATTCATGTCATGTAATACATTTAATACAA
1 ATTCATGTCATGTAATACATATAATACAA
*
103182 ATTCCTGTCATGTA
1 ATTCATGTCATGTA
103196 TCATAATATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATACAA
Found at i:103495 original size:13 final size:13
Alignment explanation
Indices: 103463--103489 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
103453 TATAGCTTAG
103463 TCTTTCTTTCTTT
1 TCTTTCTTTCTTT
103476 TCTTTCTTTCTTT
1 TCTTTCTTTCTTT
103489 T
1 T
103490 TATTCTCATG
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:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (13 bp):
TCTTTCTTTCTTT
Found at i:103647 original size:66 final size:67
Alignment explanation
Indices: 103499--103672 Score: 217
Period size: 67 Copynumber: 2.6 Consensus size: 67
103489 TTATTCTCAT
* * *
103499 GGGGGAATCGGTTCCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACG
1 GGGGGTATCGGTT--CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACG
103564 ATGA
64 ATGA
* * * *
103568 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTCGTT
1 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
103632 GA
66 GA
* *
103634 GGGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGGTATCGGTTCCCCCCTG--GGGGTACCGATTCCCCT
103673 AACCCAGAAA
Statistics
Matches: 94, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
65 6 0.06
66 19 0.20
67 57 0.61
69 12 0.13
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.28
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
GA
Found at i:109887 original size:21 final size:21
Alignment explanation
Indices: 109845--109887 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
109835 TTTCTGGGCT
* *
109845 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
109866 AGGGGAATCGATTCCCCCTCA
1 AGGGGAATCGATACCCACTCA
109887 A
1 A
109888 ACGAATATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:111192 original size:30 final size:30
Alignment explanation
Indices: 110856--111189 Score: 605
Period size: 30 Copynumber: 11.1 Consensus size: 30
110846 AAGGAACATA
*
110856 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
110886 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
*
110916 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
*
110946 TGGACAGTTACCAAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
110976 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
111006 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
111036 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
*
111066 TTGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* *
111096 TGGATAGTTACCGAGGATTTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
111126 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
*
111156 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
111186 TGGA
1 TGGA
111190 TAGGTCCTTC
Statistics
Matches: 292, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 292 1.00
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.32
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:114526 original size:21 final size:21
Alignment explanation
Indices: 114484--114526 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
114474 TTTCTGGGCT
* *
114484 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
114505 AGGGGAATCGATTCCCCCTCA
1 AGGGGAATCGATACCCACTCA
114526 A
1 A
114527 ACGAATATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:114578 original size:20 final size:20
Alignment explanation
Indices: 114553--114590 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
114543 GAATGCTAGA
*
114553 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
114573 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
114591 TAATAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:115531 original size:29 final size:30
Alignment explanation
Indices: 115480--115806 Score: 535
Period size: 29 Copynumber: 11.1 Consensus size: 30
115470 AAGGAACATA
*
115480 TGGATAGTTA-CGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
115509 TGGACAGTTACCGAGGATC-TTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
*
115538 TGGATAGTTACCGAGGATCTTTATGGACCTC
1 TGGACAGTTACCGAGGATCTTTAT-GACCTC
115569 TGGACAGTTA-CGAGGATCTTTATGA-CTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
115597 TGGACAGTTA-CGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
115626 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
115656 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
*
115686 TTGACAGTTA-CGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* *
115715 TGGATAGTTA-CGAGGATTTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
115744 TGGACAGTTACCGAGGATCTTTA-GACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
*
115773 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
115803 TGGA
1 TGGA
115807 TAGGTCCTTC
Statistics
Matches: 281, Mismatches: 10, Indels: 13
0.92 0.03 0.04
Matches are distributed among these distances:
28 28 0.10
29 134 0.48
30 104 0.37
31 15 0.05
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:115635 original size:88 final size:90
Alignment explanation
Indices: 115480--115809 Score: 550
Period size: 88 Copynumber: 3.7 Consensus size: 90
115470 AAGGAACATA
*
115480 TGGATAGTTA-CGAGGATCTTTATGACCTCTGGACAGTTACCGAGGATC-TTATGACCTCTGGAT
1 TGGACAGTTACCGAGGATCTTTATGACCTCTGGACAGTTACCGAGGATCTTTATGACCTCTGGAT
115543 AGTTACCGAGGATCTTTATGGACCTC
66 AGTTACCGAGGATCTTTAT-GACCTC
*
115569 TGGACAGTTA-CGAGGATCTTTATGA-CTCTGGACAGTTA-CGAGGATCTTTATGACCTCTGGAC
1 TGGACAGTTACCGAGGATCTTTATGACCTCTGGACAGTTACCGAGGATCTTTATGACCTCTGGAT
115631 AGTTACCGAGGATCTTTATGACCTC
66 AGTTACCGAGGATCTTTATGACCTC
*
115656 TGGACAGTTACCGAGGATCTTTATGACCTCTTGACAGTTA-CGAGGATCTTTATGACCTCTGGAT
1 TGGACAGTTACCGAGGATCTTTATGACCTCTGGACAGTTACCGAGGATCTTTATGACCTCTGGAT
*
115720 AGTTA-CGAGGATTTTTATGACCTC
66 AGTTACCGAGGATCTTTATGACCTC
*
115744 TGGACAGTTACCGAGGATCTTTA-GACCTCTGGATAGTTACCGAGGATCTTTATGACCTCTGGAT
1 TGGACAGTTACCGAGGATCTTTATGACCTCTGGACAGTTACCGAGGATCTTTATGACCTCTGGAT
115808 AG
66 AG
115810 GTCCTTCGGA
Statistics
Matches: 230, Mismatches: 7, Indels: 9
0.93 0.03 0.04
Matches are distributed among these distances:
87 38 0.17
88 128 0.56
89 64 0.28
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (90 bp):
TGGACAGTTACCGAGGATCTTTATGACCTCTGGACAGTTACCGAGGATCTTTATGACCTCTGGAT
AGTTACCGAGGATCTTTATGACCTC
Found at i:115692 original size:117 final size:118
Alignment explanation
Indices: 115480--115806 Score: 588
Period size: 117 Copynumber: 2.8 Consensus size: 118
115470 AAGGAACATA
115480 TGGATAGTTACGAGGATCTTTATGACCTCTGGACAGTTACCGAGGATC-TTATGACCTCTGGATA
1 TGGATAGTTACGAGGATCTTTATGACCTCTGGACAGTTACCGAGGATCTTTATGACCTCTGGATA
115544 GTTACCGAGGATCTTTATGGACCTCTGGACAGTTACGAGGATCTTTATGA-CTC
66 GTTACCGAGGATCTTTAT-GACCTCTGGACAGTTACGAGGATCTTTATGACCTC
* *
115597 TGGACAGTTACGAGGATCTTTATGACCTCTGGACAGTTACCGAGGATCTTTATGACCTCTGGACA
1 TGGATAGTTACGAGGATCTTTATGACCTCTGGACAGTTACCGAGGATCTTTATGACCTCTGGATA
*
115662 GTTACCGAGGATCTTTATGACCTCTTGACAGTTACGAGGATCTTTATGACCTC
66 GTTACCGAGGATCTTTATGACCTCTGGACAGTTACGAGGATCTTTATGACCTC
*
115715 TGGATAGTTACGAGGATTTTTATGACCTCTGGACAGTTACCGAGGATCTTTA-GACCTCTGGATA
1 TGGATAGTTACGAGGATCTTTATGACCTCTGGACAGTTACCGAGGATCTTTATGACCTCTGGATA
115779 GTTACCGAGGATCTTTATGACCTCTGGA
66 GTTACCGAGGATCTTTATGACCTCTGGA
115807 TAGGTCCTTC
Statistics
Matches: 201, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
117 115 0.57
118 86 0.43
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (118 bp):
TGGATAGTTACGAGGATCTTTATGACCTCTGGACAGTTACCGAGGATCTTTATGACCTCTGGATA
GTTACCGAGGATCTTTATGACCTCTGGACAGTTACGAGGATCTTTATGACCTC
Found at i:117015 original size:22 final size:22
Alignment explanation
Indices: 116974--117041 Score: 127
Period size: 22 Copynumber: 3.0 Consensus size: 22
116964 CTCGTATAAA
116974 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
116997 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
117019 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
117041 T
1 T
117042 ATGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
22 33 0.73
23 12 0.27
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:117354 original size:29 final size:29
Alignment explanation
Indices: 117321--117392 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
117311 TTTTCTGCAT
**
117321 ATTCATGTCATGTAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATACAA
*
117350 ATTCATGTCATGTAATACATTTAATACAA
1 ATTCATGTCATGTAATACATATAATACAA
*
117379 ATTCCTGTCATGTA
1 ATTCATGTCATGTA
117393 TCATAATATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATACAA
Found at i:117674 original size:13 final size:13
Alignment explanation
Indices: 117656--117682 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
117646 TATAGCTTAG
117656 TCTTTCTTTCTTT
1 TCTTTCTTTCTTT
117669 TCTTTCTTTCTTT
1 TCTTTCTTTCTTT
117682 T
1 T
117683 TTATTCTCAT
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:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (13 bp):
TCTTTCTTTCTTT
Found at i:117858 original size:13 final size:13
Alignment explanation
Indices: 117826--117852 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
117816 TATAGCTTAG
117826 TCTTTCTTTCTTT
1 TCTTTCTTTCTTT
117839 TCTTTCTTTCTTT
1 TCTTTCTTTCTTT
117852 T
1 T
117853 TATTCTCATG
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:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (13 bp):
TCTTTCTTTCTTT
Found at i:117882 original size:171 final size:171
Alignment explanation
Indices: 117540--117880 Score: 659
Period size: 171 Copynumber: 2.0 Consensus size: 171
117530 TGTAGATTGT
117540 TCCGAACTCGAGTAGGCTCGGTATCTACATAAACATAATTTTTAAGATGATCATCAGATGTCTAT
1 TCCGAACTCGAGTAGGCTCGGTATCTACATAAACATAATTTTTAAGATGATCATCAGATGTCTAT
117605 GTCTTGCAATTAAGCTTTAATAGCTACTAATTTAAGAAATTTATAGCTTAGTCTTTCTTTCTTTT
66 GTCTTGCAATTAAGCTTTAATAGCTACTAATTTAAGAAATTTATAGCTTAGTCTTTCTTTCTTTT
117670 CTTTCTTTCTTTTTTATTCTCATGGGGAATCGGTTCCCCCC
131 CTTTCTTTCTTTTTTATTCTCATGGGGAATCGGTTCCCCCC
117711 TCCGAACTCGAGTAGGCTCGGTATCTACATAAACATAATTTTTAAGATGATCATCAGATGTCTAT
1 TCCGAACTCGAGTAGGCTCGGTATCTACATAAACATAATTTTTAAGATGATCATCAGATGTCTAT
117776 GTCTTGCAATTAAGCTTTAATAGCTACTAATTTAAG-AATTTATAGCTTAGTCTTTCTTTCTTTT
66 GTCTTGCAATTAAGCTTTAATAGCTACTAATTTAAGAAATTTATAGCTTAGTCTTTCTTTCTTTT
117840 CTTTCTTTC-TTTTTATTCTCATGGGGGAATCGGTTCCCCCC
131 CTTTCTTTCTTTTTTATTCTCAT-GGGGAATCGGTTCCCCCC
117881 CTGGGGGTAT
Statistics
Matches: 169, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
169 13 0.08
170 55 0.33
171 101 0.60
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.41
Consensus pattern (171 bp):
TCCGAACTCGAGTAGGCTCGGTATCTACATAAACATAATTTTTAAGATGATCATCAGATGTCTAT
GTCTTGCAATTAAGCTTTAATAGCTACTAATTTAAGAAATTTATAGCTTAGTCTTTCTTTCTTTT
CTTTCTTTCTTTTTTATTCTCATGGGGAATCGGTTCCCCCC
Found at i:117977 original size:65 final size:65
Alignment explanation
Indices: 117862--118030 Score: 205
Period size: 65 Copynumber: 2.5 Consensus size: 65
117852 TTATTCTCAT
* * *
117862 GGGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCA-TACGAT
1 GGGGGTATCGGTT--CCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATTACGAT
117926 GA
64 GA
* * * *
117928 GGGGGGTATCGGTTCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCATTTCGTTG
1 -GGGGGTATCGGTTCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATTACGATG
117993 A
65 A
* *
117994 GGGGGTATCGGTTCCCCTTGAATGGGTACCGATTCCC
1 GGGGGTATCGGTTCCCCCTG--GGGGTACCGATTCCC
118031 TAACCAGAAA
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
65 58 0.64
66 6 0.07
67 26 0.29
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (65 bp):
GGGGGTATCGGTTCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATTACGATGA
Found at i:122100 original size:24 final size:24
Alignment explanation
Indices: 122068--122123 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
122058 CTATTCTTTC
122068 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
122092 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
122116 GCTTCAAT
1 GCTTCAAT
122124 CGAACTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (24 bp):
GCTTCAATTGAGCTCAAATTTTAG
Found at i:123215 original size:22 final size:22
Alignment explanation
Indices: 123157--123215 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
123147 CTTTCTGTTC
123157 AAACACTCATAAAAAATCAACCA
1 AAACA-TCATAAAAAATCAACCA
* *
123180 AAA-ATAATTCAAAAATCCAACCA
1 AAACATCA-TAAAAAAT-CAACCA
123203 AAACATCATAAAA
1 AAACATCATAAAA
123216 CGATCGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
21 2 0.07
22 8 0.28
23 16 0.55
24 3 0.10
ACGTcount: A:0.63, C:0.22, G:0.00, T:0.15
Consensus pattern (22 bp):
AAACATCATAAAAAATCAACCA
Found at i:124174 original size:39 final size:41
Alignment explanation
Indices: 124131--124226 Score: 96
Period size: 39 Copynumber: 2.5 Consensus size: 41
124121 CATAATCCTC
* *
124131 AAATTATTTGAC-TC-TAACATTTTAAAACTC-TAATTTCTT
1 AAATTATTTAACATCATAACATTCT-AAACTCTTAATTTCTT
* *
124170 AAA-T-TTTAACATCATAACGTTCTAAATTCTTAATTTCTT
1 AAATTATTTAACATCATAACATTCTAAACTCTTAATTTCTT
*
124209 AAATTATTTCACAT-ATAA
1 AAATTATTTAACATCATAA
124227 ATTATTTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
37 5 0.11
38 8 0.17
39 22 0.47
40 5 0.11
41 7 0.15
ACGTcount: A:0.39, C:0.15, G:0.02, T:0.45
Consensus pattern (41 bp):
AAATTATTTAACATCATAACATTCTAAACTCTTAATTTCTT
Found at i:124501 original size:21 final size:21
Alignment explanation
Indices: 124477--124543 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 21
124467 ATAATATACT
*
124477 AATATATATATATTAACTTAA
1 AATATATTTATATTAACTTAA
* *
124498 AATATTTTTATATTAACTTGTTA
1 AATATATTTATATTAAC-T-TAA
124521 AATATATTTTACTATTAACTTAA
1 AATATA-TTTA-TATTAACTTAA
124544 TTTAAAAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
21 15 0.41
22 1 0.03
23 9 0.24
24 5 0.14
25 7 0.19
ACGTcount: A:0.43, C:0.06, G:0.01, T:0.49
Consensus pattern (21 bp):
AATATATTTATATTAACTTAA
Found at i:124527 original size:25 final size:24
Alignment explanation
Indices: 124494--124541 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
124484 ATATATTAAC
124494 TTAAAATATTTTTA-TATTAACTTG
1 TTAAAATA-TTTTACTATTAACTTG
124518 TTAAATATATTTTACTATTAACTT
1 TTAAA-ATATTTTACTATTAACTT
124542 AATTTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (24 bp):
TTAAAATATTTTACTATTAACTTG
Found at i:125589 original size:16 final size:16
Alignment explanation
Indices: 125556--125596 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
125546 GTTTATTTCA
125556 GAATGATT-AAACGCT
1 GAATGATTCAAACGCT
*
125571 GAATGATTCAAATGCT
1 GAATGATTCAAACGCT
125587 GAATGATTCA
1 GAATGATTCA
125597 TAGGAACTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (16 bp):
GAATGATTCAAACGCT
Found at i:125733 original size:23 final size:23
Alignment explanation
Indices: 125673--125735 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
125663 TGTACTTTGA
* *
125673 TGTTGAATCATTCAACATTGTTT
1 TGTTGAATCAGTCAGCATTGTTT
*
125696 TGCTGAATCAGTCAGCATTGTTT
1 TGTTGAATCAGTCAGCATTGTTT
125719 TGTTGAATCAGTCAGCA
1 TGTTGAATCAGTCAGCA
125736 CTGAATCATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (23 bp):
TGTTGAATCAGTCAGCATTGTTT
Found at i:126695 original size:2 final size:2
Alignment explanation
Indices: 126688--126719 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
126678 TGGAAAGCTC
126688 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
126720 CCGAAAAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:138979 original size:2 final size:2
Alignment explanation
Indices: 138972--139005 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
138962 TGCTTTTGTA
138972 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
139006 TATTTTAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:139815 original size:13 final size:13
Alignment explanation
Indices: 139797--139828 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
139787 TTCAGTTTAG
139797 ATTGTTTCATCAT
1 ATTGTTTCATCAT
139810 ATTGTTTCATCAT
1 ATTGTTTCATCAT
139823 A-TGTTT
1 ATTGTTT
139829 ATATAGATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.22, C:0.12, G:0.09, T:0.56
Consensus pattern (13 bp):
ATTGTTTCATCAT
Found at i:141226 original size:11 final size:11
Alignment explanation
Indices: 141210--141238 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
141200 ATAATTTCTA
141210 ATTTGTTGCTT
1 ATTTGTTGCTT
141221 ATTTGTTGCTT
1 ATTTGTTGCTT
141232 ATTTGTT
1 ATTTGTT
141239 CTCATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.10, C:0.07, G:0.17, T:0.66
Consensus pattern (11 bp):
ATTTGTTGCTT
Found at i:141975 original size:2 final size:2
Alignment explanation
Indices: 141968--141995 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
141958 GACAAGAACA
141968 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
141996 CTTAGTTTTT
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:142170 original size:20 final size:20
Alignment explanation
Indices: 142145--142182 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
142135 AACCTCATTT
*
142145 CTCTTAAGAATCTAATTTTC
1 CTCTTAAGAATATAATTTTC
142165 CTCTTAAGAATATAATTT
1 CTCTTAAGAATATAATTT
142183 GATATATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.45
Consensus pattern (20 bp):
CTCTTAAGAATATAATTTTC
Found at i:142660 original size:13 final size:14
Alignment explanation
Indices: 142642--142673 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
142632 TCTCGGTCGA
142642 CGGGTCAA-CGGGT
1 CGGGTCAACCGGGT
142655 CGGGTCAACCGGGT
1 CGGGTCAACCGGGT
142669 CGGGT
1 CGGGT
142674 AATTTTGCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.12, C:0.25, G:0.47, T:0.16
Consensus pattern (14 bp):
CGGGTCAACCGGGT
Found at i:143384 original size:38 final size:39
Alignment explanation
Indices: 143338--143416 Score: 92
Period size: 39 Copynumber: 2.1 Consensus size: 39
143328 AACTTAACGT
* *
143338 TAAA-TTTTAAACGG-GATACT-AAAATAAAATAAAATC
1 TAAAGTTTTTAACGGTGATACTAAAAATAAAATAAAAAC
* * *
143374 TAAAGTTTTTAACGGTGGTGCTAAAAATGAAATAAAAAC
1 TAAAGTTTTTAACGGTGATACTAAAAATAAAATAAAAAC
143413 TAAA
1 TAAA
143417 CTCTAGGTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
36 4 0.11
37 9 0.26
38 4 0.11
39 18 0.51
ACGTcount: A:0.52, C:0.08, G:0.13, T:0.28
Consensus pattern (39 bp):
TAAAGTTTTTAACGGTGATACTAAAAATAAAATAAAAAC
Found at i:151686 original size:44 final size:45
Alignment explanation
Indices: 151605--151693 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
151595 AAATATTACA
151605 ATGAGACACTGATTACGGATATGATGTCAATTGATAGTGTTGTTG
1 ATGAGACACTGATTACGGATATGATGTCAATTGATAGTGTTGTTG
151650 ATGAGACA-TGATTTACGGATATGATGTCAA-TGATAGTGTTGTTG
1 ATGAGACACTGA-TTACGGATATGATGTCAATTGATAGTGTTGTTG
151694 GAATGCTTGT
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
44 17 0.40
45 26 0.60
ACGTcount: A:0.29, C:0.08, G:0.27, T:0.36
Consensus pattern (45 bp):
ATGAGACACTGATTACGGATATGATGTCAATTGATAGTGTTGTTG
Found at i:151723 original size:58 final size:58
Alignment explanation
Indices: 151650--151764 Score: 214
Period size: 59 Copynumber: 2.0 Consensus size: 58
151640 AGTGTTGTTG
151650 ATGAGACATGATTTACGGATATGATGTCAA-TGATAGTGTTGTTGGAATGCTTGTACA
1 ATGAGACATGATTTACGGATATGATGTCAATTGATAGTGTTGTTGGAATGCTTGTACA
151707 ATGAGACACTGATTTACGGATATGATGTCAATTGATAGTGTTGTTGGAATGCTTGTAC
1 ATGAGACA-TGATTTACGGATATGATGTCAATTGATAGTGTTGTTGGAATGCTTGTAC
151765 TAAATTGTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
57 8 0.14
58 22 0.39
59 26 0.46
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.36
Consensus pattern (58 bp):
ATGAGACATGATTTACGGATATGATGTCAATTGATAGTGTTGTTGGAATGCTTGTACA
Found at i:157108 original size:122 final size:120
Alignment explanation
Indices: 156887--157108 Score: 356
Period size: 120 Copynumber: 1.8 Consensus size: 120
156877 TAAGAGATTC
*
156887 TACCTCTCTAAGTAAATATATGAGGTAAAATTCACTCTCACCTATAAAAAATTAATTTTGTATTT
1 TACCTCTCTAAATAAATATATGAGGTAAAATTCACTCTCACCTATAAAAAATTAATTTTGTATTT
*
156952 TTTTAATTATTGAACAAGTGAGAATGAATGATTGAGATTAACAGTAAATTTTTTT
66 TTTTAATGATTGAACAAGTGAGAATGAATGATTGAGATTAACAGTAAATTTTTTT
* * *
157007 TACCTCTCTAAATAAATATATGAGGTAAAATTTAC-CATCATCTATAAAAATTTTAAATTTTGTA
1 TACCTCTCTAAATAAATATATGAGGTAAAATTCACTC-TCACCTATAAAAA-ATT-AATTTTGTA
*
157071 TTTTTTTAATGATTGAACAAGTGAGGATGAATGATTGA
63 TTTTTTTAATGATTGAACAAGTGAGAATGAATGATTGA
157109 AACTAACGGT
Statistics
Matches: 93, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
119 1 0.01
120 45 0.48
121 2 0.02
122 45 0.48
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (120 bp):
TACCTCTCTAAATAAATATATGAGGTAAAATTCACTCTCACCTATAAAAAATTAATTTTGTATTT
TTTTAATGATTGAACAAGTGAGAATGAATGATTGAGATTAACAGTAAATTTTTTT
Found at i:157121 original size:122 final size:120
Alignment explanation
Indices: 156887--157121 Score: 355
Period size: 122 Copynumber: 1.9 Consensus size: 120
156877 TAAGAGATTC
*
156887 TACCTCTCTAAGTAAATATATGAGGTAAAATTCACTCTCACCTATAAAAAATTAATTTTGTATTT
1 TACCTCTCTAAATAAATATATGAGGTAAAATTCACTCTCACCTATAAAAAATTAATTTTGTATTT
* * *
156952 TTTTAATTATTGAACAAGTGAGAATGAATGATTGAGATTAACAGTAAATTTTTTT
66 TTTTAATGATTGAACAAGTGAGAATGAATGATTGAAACTAACAGTAAATTTTTTT
* * *
157007 TACCTCTCTAAATAAATATATGAGGTAAAATTTAC-CATCATCTATAAAAATTTTAAATTTTGTA
1 TACCTCTCTAAATAAATATATGAGGTAAAATTCACTC-TCACCTATAAAAA-ATT-AATTTTGTA
* *
157071 TTTTTTTAATGATTGAACAAGTGAGGATGAATGATTGAAACTAACGGTAAA
63 TTTTTTTAATGATTGAACAAGTGAGAATGAATGATTGAAACTAACAGTAAA
157122 AATAAAAATA
Statistics
Matches: 103, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
119 1 0.01
120 45 0.44
121 2 0.02
122 55 0.53
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (120 bp):
TACCTCTCTAAATAAATATATGAGGTAAAATTCACTCTCACCTATAAAAAATTAATTTTGTATTT
TTTTAATGATTGAACAAGTGAGAATGAATGATTGAAACTAACAGTAAATTTTTTT
Found at i:165299 original size:34 final size:34
Alignment explanation
Indices: 165259--165336 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
165249 CGTTCGGTAA
165259 TATGTTCGTTTATATTCATTCATTTATGCTCGTT
1 TATGTTCGTTTATATTCATTCATTTATGCTCGTT
* * * *
165293 TATGTTCGCTTATTTTCATTCGTTTATGTTCGTT
1 TATGTTCGTTTATATTCATTCATTTATGCTCGTT
*
165327 TATGTGCGTT
1 TATGTTCGTT
165337 CATTTATGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.14, C:0.14, G:0.15, T:0.56
Consensus pattern (34 bp):
TATGTTCGTTTATATTCATTCATTTATGCTCGTT
Found at i:165342 original size:24 final size:24
Alignment explanation
Indices: 165291--165346 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
165281 TTTATGCTCG
* * *
165291 TTTATGTTCGCTTATTTTCATTCG
1 TTTATGTTCGCTTATGTGCATTCA
* *
165315 TTTATGTTCGTTTATGTGCGTTCA
1 TTTATGTTCGCTTATGTGCATTCA
165339 TTTATGTT
1 TTTATGTT
165347 TAACACAGTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.12, C:0.12, G:0.16, T:0.59
Consensus pattern (24 bp):
TTTATGTTCGCTTATGTGCATTCA
Found at i:165669 original size:21 final size:20
Alignment explanation
Indices: 165602--165740 Score: 82
Period size: 21 Copynumber: 6.8 Consensus size: 20
165592 AAATGACCAA
***
165602 CAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
165622 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
165642 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
165663 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
165684 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
165704 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
165725 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
165741 ACACATAAAT
Statistics
Matches: 90, Mismatches: 24, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
19 1 0.01
20 42 0.47
21 47 0.52
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:165769 original size:20 final size:20
Alignment explanation
Indices: 165707--165900 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
165697 CGATTTTCCA
* ** *
165707 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
165727 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
165747 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
165767 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
165787 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
165807 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
165827 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
165847 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
165867 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
165888 AAATCGCAACGCG
1 AAATCGCAACGCG
165901 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:165791 original size:60 final size:60
Alignment explanation
Indices: 165707--165900 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
165697 CGATTTTCCA
* ** * *
165707 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
165767 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
165827 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
165888 AAATCGCAACGCG
1 AAATCGCAACGCG
165901 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:166322 original size:33 final size:33
Alignment explanation
Indices: 166283--166353 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
166273 TTCACTTAGA
*
166283 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
166316 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
166349 TTTCA
1 TTTCA
166354 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:166477 original size:20 final size:20
Alignment explanation
Indices: 166433--166542 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
166423 TGCAGAAGAG
*
166433 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
166454 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
166474 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
166495 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
166509 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
166528 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
166543 CGCAACGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.21
20 20 0.27
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:166490 original size:41 final size:38
Alignment explanation
Indices: 166426--166542 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 38
166416 TTCAATTTGC
* *
166426 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
166464 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
166505 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
166538 AGAAT
1 AGAAT
166543 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
33 23 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 33 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:166512 original size:14 final size:14
Alignment explanation
Indices: 166493--166549 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
166483 GAGAAATGAA
166493 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
166507 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
166526 AATCGCAACGAGAG
1 AATCGCAACGAGAG
166540 AATCGCAACG
1 AATCGCAACG
166550 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Done.