Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003915.1 Hibiscus syriacus cultivar Beakdansim tig00008466_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: 104029
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:35 original size:20 final size:17
Alignment explanation
Indices: 10--54 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 17
1 TAAATCCTT
*
10 TTTCAAAATTTCATTTTGG
1 TTTCAAAATCT-ATTTT-G
29 CTTTCAAAATCTATTTTG
1 -TTTCAAAATCTATTTTG
47 TTTCAAAA
1 TTTCAAAA
55 GAAAATTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 8 0.33
18 1 0.04
19 5 0.21
20 10 0.42
ACGTcount: A:0.31, C:0.13, G:0.07, T:0.49
Consensus pattern (17 bp):
TTTCAAAATCTATTTTG
Found at i:1385 original size:20 final size:19
Alignment explanation
Indices: 1360--1419 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 19
1350 AAAAACCTGG
1360 GGGGGAATCGGTACCCCCT
1 GGGGGAATCGGTACCCCCT
* *
1379 AGGGGGAATCTGT--TCCC-
1 -GGGGGAATCGGTACCCCCT
1396 -GGGGAATCGGTACCCCCT
1 GGGGGAATCGGTACCCCCT
1414 GGGGGA
1 GGGGGA
1420 GAATCTGTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
15 10 0.31
17 3 0.09
18 3 0.09
19 5 0.16
20 11 0.34
ACGTcount: A:0.17, C:0.27, G:0.40, T:0.17
Consensus pattern (19 bp):
GGGGGAATCGGTACCCCCT
Found at i:1407 original size:35 final size:36
Alignment explanation
Indices: 1361--1431 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 36
1351 AAAACCTGGG
1361 GGGGAATCGGTACCCCCTAGGGG-GAATCTGTTCCC
1 GGGGAATCGGTACCCCCTAGGGGAGAATCTGTTCCC
*
1396 GGGGAATCGGTACCCCCTGGGGGAGAATCTGTTCCC
1 GGGGAATCGGTACCCCCTAGGGGAGAATCTGTTCCC
1432 TCTGGGCAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 22 0.65
36 12 0.35
ACGTcount: A:0.17, C:0.28, G:0.35, T:0.20
Consensus pattern (36 bp):
GGGGAATCGGTACCCCCTAGGGGAGAATCTGTTCCC
Found at i:1649 original size:19 final size:19
Alignment explanation
Indices: 1625--1663 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
1615 AATTTAATCG
1625 AATATATAAT-TTAAAATTC
1 AATATA-AATCTTAAAATTC
1644 AATATAAATCTTAAAATTC
1 AATATAAATCTTAAAATTC
1663 A
1 A
1664 TTAACACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (19 bp):
AATATAAATCTTAAAATTC
Found at i:6550 original size:17 final size:16
Alignment explanation
Indices: 6521--6554 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
6511 TTTCACTAAT
*
6521 AGAGGAAATATTACAA
1 AGAGGAAAGATTACAA
6537 AGAGAGAAAGATTACAA
1 AGAG-GAAAGATTACAA
6554 A
1 A
6555 TAGCCTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.59, C:0.06, G:0.21, T:0.15
Consensus pattern (16 bp):
AGAGGAAAGATTACAA
Found at i:13084 original size:26 final size:27
Alignment explanation
Indices: 13036--13092 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
13026 TAAGAGAAAA
*
13036 AAATTATATTATCAATAAAAAATATTT
1 AAATTATATGATCAATAAAAAATATTT
** *
13063 AAATTATATGA-CAATTTAAAATTTTT
1 AAATTATATGATCAATAAAAAATATTT
13089 AAAT
1 AAAT
13093 AGACGATCGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 16 0.62
27 10 0.38
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (27 bp):
AAATTATATGATCAATAAAAAATATTT
Found at i:15216 original size:14 final size:15
Alignment explanation
Indices: 15191--15229 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
15181 AGAAAATGTG
*
15191 TAAAATTATTTTTTA
1 TAAAATTATTTTTAA
15206 TAAAA-TATTTTTAA
1 TAAAATTATTTTTAA
15220 TAATAATTAT
1 TAA-AATTAT
15230 AGATACAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 11 0.52
15 7 0.33
16 3 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAAAATTATTTTTAA
Found at i:23720 original size:15 final size:16
Alignment explanation
Indices: 23700--23729 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
23690 GATTGGGGAA
23700 TAATTTGGGG-TTTTC
1 TAATTTGGGGATTTTC
23715 TAATTTGGGGATTTT
1 TAATTTGGGGATTTT
23730 GGGGGTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.03, G:0.27, T:0.53
Consensus pattern (16 bp):
TAATTTGGGGATTTTC
Found at i:28094 original size:24 final size:24
Alignment explanation
Indices: 28062--28131 Score: 140
Period size: 24 Copynumber: 2.9 Consensus size: 24
28052 ATTTAGTCTT
28062 TTCTCTTTTCATTCATGAAGAATG
1 TTCTCTTTTCATTCATGAAGAATG
28086 TTCTCTTTTCATTCATGAAGAATG
1 TTCTCTTTTCATTCATGAAGAATG
28110 TTCTCTTTTCATTCATGAAGAA
1 TTCTCTTTTCATTCATGAAGAA
28132 CTTGTGATTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.46
Consensus pattern (24 bp):
TTCTCTTTTCATTCATGAAGAATG
Found at i:30675 original size:2 final size:2
Alignment explanation
Indices: 30670--30714 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
30660 TTTGAAAAAC
30670 AT AT AT AT 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 AT AT AT AT
30712 AT A
1 AT A
30715 GTTTTGAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:30727 original size:20 final size:19
Alignment explanation
Indices: 30626--30732 Score: 51
Period size: 20 Copynumber: 5.5 Consensus size: 19
30616 TATTTTGGTT
30626 ATATATAGTATAGTTTTGAAA
1 ATATATA-TATA-TTTTGAAA
* *
30647 GTAAATATATAATTTTGAAA
1 ATATATATAT-ATTTTGAAA
* * *
30667 A-ACATATATA-TAT-ATAT
1 ATATATATATATTTTGA-AA
* *
30684 ATATATATATATATAT-ATAT
1 ATATATATATAT-TTTGA-AA
30704 ATATATATATAGTTTTGAAA
1 ATATATATATA-TTTTGAAA
*
30724 ATATGTATA
1 ATATATATA
30733 CAAGCTAAAG
Statistics
Matches: 69, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
16 1 0.01
17 4 0.06
18 9 0.13
19 7 0.10
20 40 0.58
21 8 0.12
ACGTcount: A:0.48, C:0.01, G:0.07, T:0.44
Consensus pattern (19 bp):
ATATATATATATTTTGAAA
Found at i:31081 original size:57 final size:57
Alignment explanation
Indices: 30993--31108 Score: 223
Period size: 57 Copynumber: 2.0 Consensus size: 57
30983 CATCTTCAAA
30993 TTCTCATGTTTGAATTCAGTACACAGTAGATGAAAATGAAAACCTAGTCACAAGTTC
1 TTCTCATGTTTGAATTCAGTACACAGTAGATGAAAATGAAAACCTAGTCACAAGTTC
*
31050 TTCTCATGTTTGAATTCAGTTCACAGTAGATGAAAATGAAAACCTAGTCACAAGTTC
1 TTCTCATGTTTGAATTCAGTACACAGTAGATGAAAATGAAAACCTAGTCACAAGTTC
31107 TT
1 TT
31109 ACTTGTATTT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (57 bp):
TTCTCATGTTTGAATTCAGTACACAGTAGATGAAAATGAAAACCTAGTCACAAGTTC
Found at i:31604 original size:33 final size:33
Alignment explanation
Indices: 31566--31628 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
31556 TTGTAGTGTC
*
31566 AGAGTAAC-AGGACATGATTCGAGCAACTTAATT
1 AGAGTAACAAGG-CATGATTCAAGCAACTTAATT
*
31599 AGAGTAACAAGGTATGATTCAAGCAACTTA
1 AGAGTAACAAGGCATGATTCAAGCAACTTA
31629 CAATGTCCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 24 0.89
34 3 0.11
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (33 bp):
AGAGTAACAAGGCATGATTCAAGCAACTTAATT
Found at i:36224 original size:15 final size:15
Alignment explanation
Indices: 36204--36232 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
36194 CAATTCCTCT
36204 CAAATCCTCTTAAAC
1 CAAATCCTCTTAAAC
36219 CAAATCCTCTTAAA
1 CAAATCCTCTTAAA
36233 GCTAAAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.31, G:0.00, T:0.28
Consensus pattern (15 bp):
CAAATCCTCTTAAAC
Found at i:38341 original size:18 final size:18
Alignment explanation
Indices: 38318--38355 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
38308 ACGATGATAA
38318 TGATGAGGATGGTGGTGG
1 TGATGAGGATGGTGGTGG
*
38336 TGATGATGATGGTGGTGG
1 TGATGAGGATGGTGGTGG
38354 TG
1 TG
38356 GTAGTGGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.53, T:0.32
Consensus pattern (18 bp):
TGATGAGGATGGTGGTGG
Found at i:44511 original size:20 final size:20
Alignment explanation
Indices: 44486--44531 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
44476 TCCAAGAAGT
44486 AGAAAACTGCTACAGTTTAC
1 AGAAAACTGCTACAGTTTAC
44506 AGAAAACTGCTACAGTTTAC
1 AGAAAACTGCTACAGTTTAC
44526 AGAAAA
1 AGAAAA
44532 TAATAAACAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.22
Consensus pattern (20 bp):
AGAAAACTGCTACAGTTTAC
Found at i:48650 original size:60 final size:62
Alignment explanation
Indices: 48544--48659 Score: 164
Period size: 60 Copynumber: 1.9 Consensus size: 62
48534 TTAAATGCAT
* *
48544 AAGTATACTATGTAGAAAAAGTAACATAATCATTAGCAAATCTTCTTCTTCGATGTCCCTTA
1 AAGTATACTATGTAGAAAAAGCAACATAATCATTAACAAATCTTCTTCTTCGATGTCCCTTA
* * * *
48606 AAGTATA-T-TGTAGAAAAAGCAACATAGTCATTAACAATTTTTCTTCTTTGATGT
1 AAGTATACTATGTAGAAAAAGCAACATAATCATTAACAAATCTTCTTCTTCGATGT
48660 GACCTAACAT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
60 40 0.83
61 1 0.02
62 7 0.15
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (62 bp):
AAGTATACTATGTAGAAAAAGCAACATAATCATTAACAAATCTTCTTCTTCGATGTCCCTTA
Found at i:50502 original size:3 final size:3
Alignment explanation
Indices: 50496--50540 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
50486 TAATTAAAAA
50496 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT -AT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
50541 TTTTTTGTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 6 0.15
3 33 0.85
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:63681 original size:21 final size:20
Alignment explanation
Indices: 63614--63752 Score: 82
Period size: 21 Copynumber: 6.8 Consensus size: 20
63604 AAATGACCAA
***
63614 CAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
63634 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
63654 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
63675 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
63696 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
63716 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
63737 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
63753 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:63768 original size:40 final size:40
Alignment explanation
Indices: 63719--63873 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
63709 CGATTTTCCA
* ** *
63719 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
* * *
63759 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATC-CGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACAT
* ** *
63799 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
63839 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
63874 TATTTAAAGC
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 62 0.65
41 33 0.34
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.18
Consensus pattern (40 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
Found at i:63781 original size:20 final size:20
Alignment explanation
Indices: 63719--63872 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
63709 CGATTTTCCA
* ** *
63719 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
63739 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
63759 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
63779 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
63799 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
63819 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
63839 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
63860 AAATCGCAACGCG
1 AAATCGCAACGCG
63873 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 92 0.82
21 17 0.15
22 1 0.01
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:64290 original size:33 final size:33
Alignment explanation
Indices: 64251--64321 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
64241 TTCACTTAGA
*
64251 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
64284 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
64317 TTTCA
1 TTTCA
64322 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:64458 original size:41 final size:41
Alignment explanation
Indices: 64400--64477 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
64390 TTGCAGAAGA
*
64400 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
64441 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
64478 CGCACGCGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.45, C:0.17, G:0.26, T:0.13
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
Found at i:64474 original size:21 final size:21
Alignment explanation
Indices: 64401--64476 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
64391 TGCAGAAGAG
*
64401 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
***
64422 TCGCAACGAGAG-AATGACTG
1 TCGCAACGAGAGAAATGAAAA
64442 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
64463 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
64477 TCGCACGCGA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.46, C:0.17, G:0.25, T:0.12
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:64536 original size:14 final size:14
Alignment explanation
Indices: 64517--64605 Score: 70
Period size: 14 Copynumber: 5.7 Consensus size: 14
64507 TTTCATTTCG
64517 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
64531 CGTTGCGATTTCATTTCG
1 CGTTGCGA-TTC---TCT
64549 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
64563 AGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
64582 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
64596 CGTTGCGATT
1 CGTTGCGATT
64606 TTCATTTCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 18
0.71 0.07 0.21
Matches are distributed among these distances:
14 29 0.48
15 3 0.05
16 3 0.05
17 6 0.10
18 10 0.17
19 9 0.15
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:64581 original size:33 final size:33
Alignment explanation
Indices: 64500--64613 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
64490 CAAAATCGCA
64500 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
64533 TTGCGA-TTTCATTTCGCGTTGCGATTCTCTAG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
64565 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
64598 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
64614 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
32 31 0.40
33 47 0.60
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:66547 original size:93 final size:93
Alignment explanation
Indices: 66309--66962 Score: 1276
Period size: 93 Copynumber: 7.1 Consensus size: 93
66299 TAGATTGCTT
*
66309 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
66374 TTTGTCTTTG-TTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66401 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
66466 TTTGTCTTTGTTTTATCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66494 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
66559 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66587 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
66652 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66680 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
66745 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66773 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
66838 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66866 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
66931 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66958 AGTAA
1 AGTAA
66963 TGCAATCCAT
Statistics
Matches: 558, Mismatches: 3, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
92 80 0.14
93 478 0.86
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:67049 original size:19 final size:19
Alignment explanation
Indices: 67009--67137 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
66999 TAGTTTACTT
* *
67009 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
67029 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
67048 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
67067 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
67081 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
67100 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
67114 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
67133 TCGCA
1 TCGCA
67138 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:67088 original size:33 final size:32
Alignment explanation
Indices: 67045--67137 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
67035 CGCGAAACCA
**
67045 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
67077 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
67110 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
67138 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:67135 original size:52 final size:52
Alignment explanation
Indices: 67009--67137 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
66999 TAGTTTACTT
**
67009 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
67061 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
67114 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
67138 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:67155 original size:19 final size:19
Alignment explanation
Indices: 67133--67267 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
67123 GAAACCAAAA
*
67133 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
67152 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
67168 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
67185 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
67201 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
67218 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
67237 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
67257 TCGTGTTGCGA
1 TCGCGTTGCGA
67268 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:67174 original size:14 final size:14
Alignment explanation
Indices: 67155--67211 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
67145 TTTCATTTCG
67155 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
67169 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
67186 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
67202 CGTTGCGATT
1 CGTTGCGATT
67212 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:67180 original size:33 final size:33
Alignment explanation
Indices: 67138--67230 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
67128 CAAAATCGCA
*
67138 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
67171 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
67204 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
67231 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:69207 original size:14 final size:14
Alignment explanation
Indices: 69188--69223 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
69178 ATTGTTTAAT
69188 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
69202 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
69216 TGATTTGT
1 TGATTTGT
69224 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:69354 original size:19 final size:19
Alignment explanation
Indices: 69330--69427 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
69320 AAAATTGACT
69330 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
69349 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
69368 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
69382 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
69401 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
69421 ATCGCAA
1 ATCGCAA
69428 CGGGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:69459 original size:53 final size:53
Alignment explanation
Indices: 69330--69446 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
69320 AAAATTGACT
69330 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
*
69382 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGGGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
69435 ATCGCAATGCGA
1 ATCGCAATGCGA
69447 TTTTAATTTC
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 29 0.46
53 34 0.54
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:69464 original size:19 final size:19
Alignment explanation
Indices: 69436--69586 Score: 143
Period size: 19 Copynumber: 8.7 Consensus size: 19
69426 AACGGGAGAA
* *
69436 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
69455 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
69471 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
69488 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
69507 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
69523 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
69540 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
69558 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
69574 TCGCATTGCGATT
1 TCGCATTGCGATT
69587 CTCTCGTTGC
Statistics
Matches: 108, Mismatches: 8, Indels: 32
0.73 0.05 0.22
Matches are distributed among these distances:
14 23 0.21
16 16 0.15
17 12 0.11
18 3 0.03
19 42 0.39
20 12 0.11
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:69499 original size:52 final size:52
Alignment explanation
Indices: 69436--69555 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
69426 AACGGGAGAA
*
69436 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
*
69488 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
69540 TCCGCATTGCGATTTT
1 T-CGCATTGCGATTTT
69556 CATGTTGGGA
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
52 51 0.78
53 14 0.22
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:69608 original size:33 final size:33
Alignment explanation
Indices: 69493--69600 Score: 173
Period size: 33 Copynumber: 3.2 Consensus size: 33
69483 TCATTTCGCA
69493 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
69526 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
69560 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
69593 TTGCGATT
1 TTGCGATT
69601 GTAATTTCCG
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
32 1 0.01
33 37 0.54
34 29 0.43
35 1 0.01
ACGTcount: A:0.13, C:0.21, G:0.19, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:71846 original size:12 final size:12
Alignment explanation
Indices: 71829--71853 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
71819 TCTTCGGGGA
71829 CTTTTTCTTCTT
1 CTTTTTCTTCTT
71841 CTTTTTCTTCTT
1 CTTTTTCTTCTT
71853 C
1 C
71854 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:72062 original size:24 final size:24
Alignment explanation
Indices: 72028--72074 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
72018 CTGAAACATC
72028 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
72052 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
72075 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:72784 original size:20 final size:20
Alignment explanation
Indices: 72756--73025 Score: 290
Period size: 20 Copynumber: 13.5 Consensus size: 20
72746 AAATTTCAGT
* * *
72756 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
72776 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
72796 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
72816 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
72836 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
72856 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
72876 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
72896 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
72916 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
72936 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
72956 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
72976 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
72996 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
73016 GTTGCGATTT
1 GTTGCGATTT
73026 TTGAAAATCG
Statistics
Matches: 220, Mismatches: 28, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
20 219 1.00
21 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:73036 original size:21 final size:20
Alignment explanation
Indices: 72992--73090 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
72982 ATTTATGTGT
* * *
72992 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTGAAAA
73012 TCGCGTTGCGATTTTTGAAAA
1 TCGCGTTGCGA-TTTTGAAAA
** * **
73033 TCGCAATGCGAATTTGTACTA
1 TCGCGTTGCGATTTTG-AAAA
* *
73054 TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTTGAA-AA
73075 TCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTG
73091 GAAACTGATT
Statistics
Matches: 61, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
20 16 0.26
21 45 0.74
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTGAAAA
Found at i:73085 original size:42 final size:43
Alignment explanation
Indices: 72992--73090 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
72982 ATTTATGTGT
* *
72992 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTTGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTTCAAAA
**
73033 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGA-TTTTCAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTTCAA-AA
*
73075 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
73091 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 14 0.30
42 30 0.64
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.38
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTTCAAAA
Found at i:74018 original size:14 final size:14
Alignment explanation
Indices: 73999--74025 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
73989 ATATTTTCAT
73999 GCAACCTAAAATGC
1 GCAACCTAAAATGC
74013 GCAACCTAAAATG
1 GCAACCTAAAATG
74026 TTAAAAGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.26, G:0.15, T:0.15
Consensus pattern (14 bp):
GCAACCTAAAATGC
Found at i:74676 original size:188 final size:187
Alignment explanation
Indices: 74323--74684 Score: 422
Period size: 188 Copynumber: 1.9 Consensus size: 187
74313 TTCTTACGCA
* * *
74323 CAACTTATTTTATTAATAAAATATTAACATTACAAATCGCAACCTATTTCTTAGCAAACCATGAT
1 CAACCTATTTTATTAATAAAATATTAACATTACAAATCACAACCTATTTCTTAGCAAACCATGAC
**
74388 ATTATTGGGCGCAAACGTACTTATTATACATATTCATAACATTTTCAGCTTTTAACTTATTTTCT
66 ATTATTGGGCGCAAACGTACTTATTATACATATTCATAACATTTTCAAATTTTAACTTATTTTCT
** * *
74453 TATTGTGGAAAAATCTAATGCTCCATCAGCTTAAACTCTAATAAAACATTTTAGGCG
131 TATCATGGAAAAATCTAAGGCTCCATCAACTTAAACTCTAATAAAACATTTTAGGCG
* * * **
74510 CAACCTATTTTATTATTAAAAATATTAAGATTACAAATTACAACCTCATTTCTTAGTGAACCATG
1 CAACCTATTTTATTAAT-AAAATATTAACATTACAAATCACAACCT-ATTTCTTAGCAAACCATG
* * * * * * * ** *
74575 ACATTATTGTGTG-AACCGTATTTTTTATATATGTTCATAATGTTTTCAAATTTTAATTTATTTT
64 ACATTATTGGGCGCAAACGTACTTATTATACATATTCATAACATTTTCAAATTTTAACTTATTTT
* * * * *
74639 CTTATCATGAGAAAATTC-AAGGTTTCATTAACTTAAACTCTGATAA
129 CTTATCATG-GAAAAATCTAAGGCTCCATCAACTTAAACTCTAATAA
74685 CATTTTCGTG
Statistics
Matches: 143, Mismatches: 29, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
187 15 0.10
188 95 0.66
189 33 0.23
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (187 bp):
CAACCTATTTTATTAATAAAATATTAACATTACAAATCACAACCTATTTCTTAGCAAACCATGAC
ATTATTGGGCGCAAACGTACTTATTATACATATTCATAACATTTTCAAATTTTAACTTATTTTCT
TATCATGGAAAAATCTAAGGCTCCATCAACTTAAACTCTAATAAAACATTTTAGGCG
Found at i:75781 original size:231 final size:230
Alignment explanation
Indices: 75315--75984 Score: 767
Period size: 231 Copynumber: 2.9 Consensus size: 230
75305 GTTTTATAAT
** * * * * * ** *
75315 AAAATATTAACAATCAAAATCACAATTTATTTCTTAGTGAGTCATGACATTCTTACACACAACCC
1 AAAATATTAACGTTCAAGATCGCAACTTATTTCTTAGTGAATCATGACATTTTTTGACGCAACCC
* * * * * * *
75380 ATTTTATTAATAAATATATTAGCATCTCAT-ATCGCAACCTATTTCTTAATAAATCATGACAATC
66 ATTTTATTAATAAAAATATTAACAT-TCCTGATCGCAACCTATTTCTTAGTGAACCATGACATTC
* * * * *
75444 TTGGACGTAACTCA-TTTATTAATAAAAATATTAACATTGCATATCACAACCTATTTTTTAGTGA
130 TTGGACGCAACCCATTTTATTAATAAAAATATTAACATTCCATATCGCAACCTATTTCTTAGTGA
* *
75508 ATCATAATTTTTTTGGCGCAACCCATTTTATTATTA
195 ATCATAATTTTTTTGGCACAACCCATTTTATTAGTA
* * *
75544 AAAATATTAGCATTTC-ATATCGCAACTTATTTCTTAGTGAATCATGACATTTTTTGACGCAACC
1 AAAATATTAAC-GTTCAAGATCGCAACTTATTTCTTAGTGAATCATGACATTTTTTGACGCAACC
*** * *
75608 CATTTTATTAATAAAAATATTAACATTCCTGATTATAACTTATTTATTAGTGAACCATGACATTC
65 CATTTTATTAATAAAAATATTAACATTCCTGATCGCAACCTATTTCTTAGTGAACCATGACATTC
* * * * * *
75673 TTGGGCGCAACCCATTTTTATCAATAAAAATATTAACATCCCATATTGTAACTTATTTCTTAGTG
130 TTGGACGCAACCCA-TTTTATTAATAAAAATATTAACATTCCATATCGCAACCTATTTCTTAGTG
*
75738 AATCATGACA-TTTTTT-GCACAACCCATTTTATTGGTA
194 AATCAT-A-ATTTTTTTGGCACAACCCATTTTATTAGTA
* * * * * *
75775 AAAATATTAACGTTCAAGATCGTAACTTATTTTTTAGTGAACCATGACA-TTCTTGAGAGCAACT
1 AAAATATTAACGTTCAAGATCGCAACTTATTTCTTAGTGAATCATGACATTTTTTGA-CGCAACC
* * *
75839 CATTTTATCAATATAAATATTAACATTCCAGATCGCAACCTATTTCTTAGTGAACCATGACATTC
65 CATTTTATTAATAAAAATATTAACATTCCTGATCGCAACCTATTTCTTAGTGAACCATGACATTC
* *
75904 TTGGACGCAACCCATTTTATTAATAAAAATATTAACATTTCATATCGCAACCTATTTCTTAATGA
130 TTGGACGCAACCCATTTTATTAATAAAAATATTAACATTCCATATCGCAACCTATTTCTTAGTGA
* **
75969 ACCATAAAATTTTTGG
195 ATCATAATTTTTTTGG
75985 GCGCAATCGT
Statistics
Matches: 367, Mismatches: 64, Indels: 19
0.82 0.14 0.04
Matches are distributed among these distances:
228 4 0.01
229 116 0.32
230 60 0.16
231 179 0.49
232 7 0.02
233 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.38
Consensus pattern (230 bp):
AAAATATTAACGTTCAAGATCGCAACTTATTTCTTAGTGAATCATGACATTTTTTGACGCAACCC
ATTTTATTAATAAAAATATTAACATTCCTGATCGCAACCTATTTCTTAGTGAACCATGACATTCT
TGGACGCAACCCATTTTATTAATAAAAATATTAACATTCCATATCGCAACCTATTTCTTAGTGAA
TCATAATTTTTTTGGCACAACCCATTTTATTAGTA
Found at i:75973 original size:77 final size:77
Alignment explanation
Indices: 75342--75969 Score: 674
Period size: 77 Copynumber: 8.2 Consensus size: 77
75332 AATCACAATT
* ** * * * *
75342 TATTTCTTAGTGAGTCATGACATTCTTACACACAACCCATTTTATTAATAAATATATTAGCATCT
1 TATTTCTTAGTGAATCATGACATTCTTGGACGCAACCCATTTTATTAATAAAAATATTAACATTT
75407 CATATCGCAACC
66 CATATCGCAACC
* * * * * *
75419 TATTTCTTAATAAATCATGACAATCTTGGACGTAACTCA-TTTATTAATAAAAATATTAACATTG
1 TATTTCTTAGTGAATCATGACATTCTTGGACGCAACCCATTTTATTAATAAAAATATTAACATTT
*
75483 CATATCACAACC
66 CATATCGCAACC
* * ** * * *
75495 TATTTTTTAGTGAATCATAATTTTTTTGG-CGCAACCCATTTTATTATTAAAAATATTAGCATTT
1 TATTTCTTAGTGAATCATGACATTCTTGGACGCAACCCATTTTATTAATAAAAATATTAACATTT
*
75559 CATATCGCAACT
66 CATATCGCAACC
* *
75571 TATTTCTTAGTGAATCATGACATTTTTTGACGCAACCCATTTTATTAATAAAAATATTAACA-TT
1 TATTTCTTAGTGAATCATGACATTCTTGGACGCAACCCATTTTATTAATAAAAATATTAACATTT
* *** *
75635 CCTGATTATAACT
66 CAT-ATCGCAACC
* * * * *
75648 TATTTATTAGTGAACCATGACATTCTTGGGCGCAACCCATTTTTATCAATAAAAATATTAACATC
1 TATTTCTTAGTGAATCATGACATTCTTGGACGCAACCCA-TTTTATTAATAAAAATATTAACATT
* * * *
75713 CCATATTGTAACT
65 TCATATCGCAACC
* * * ** *
75726 TATTTCTTAGTGAATCATGACATTTTTTG-CACAACCCATTTTATTGGTAAAAATATTAAC-GTT
1 TATTTCTTAGTGAATCATGACATTCTTGGACGCAACCCATTTTATTAATAAAAATATTAACATTT
* * *
75789 CAAGATCGTAACT
66 C-ATATCGCAACC
* * * * *
75802 TATTTTTTAGTGAACCATGACATTCTTGAGA-GCAACTCATTTTATCAATATAAATATTAACATT
1 TATTTCTTAGTGAATCATGACATTCTTG-GACGCAACCCATTTTATTAATAAAAATATTAACATT
* *
75866 CCAGATCGCAACC
65 TCATATCGCAACC
*
75879 TATTTCTTAGTGAACCATGACATTCTTGGACGCAACCCATTTTATTAATAAAAATATTAACATTT
1 TATTTCTTAGTGAATCATGACATTCTTGGACGCAACCCATTTTATTAATAAAAATATTAACATTT
75944 CATATCGCAACC
66 CATATCGCAACC
*
75956 TATTTCTTAATGAA
1 TATTTCTTAGTGAA
75970 CCATAAAATT
Statistics
Matches: 457, Mismatches: 84, Indels: 20
0.81 0.15 0.04
Matches are distributed among these distances:
75 8 0.02
76 167 0.37
77 223 0.49
78 57 0.12
79 2 0.00
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (77 bp):
TATTTCTTAGTGAATCATGACATTCTTGGACGCAACCCATTTTATTAATAAAAATATTAACATTT
CATATCGCAACC
Found at i:77373 original size:20 final size:20
Alignment explanation
Indices: 77344--77457 Score: 158
Period size: 20 Copynumber: 5.7 Consensus size: 20
77334 GCAGCCTTCG
*
77344 TGCATGGATGCACA-ATAGGA
1 TGCATCGATGCACAGA-AGGA
***
77364 TGCATCGATGCACAGCCTTGA
1 TGCATCGATGCACAG-AAGGA
77385 TGCATCGATGCACAGAAGGA
1 TGCATCGATGCACAGAAGGA
77405 TGCATCGATGCACAGAAGGA
1 TGCATCGATGCACAGAAGGA
*
77425 TGCATCGATGCACAGAAAGA
1 TGCATCGATGCACAGAAGGA
77445 TGCATCGATGCAC
1 TGCATCGATGCAC
77458 TAATTGCATT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
20 67 0.80
21 17 0.20
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.18
Consensus pattern (20 bp):
TGCATCGATGCACAGAAGGA
Found at i:77380 original size:41 final size:41
Alignment explanation
Indices: 77335--77457 Score: 162
Period size: 41 Copynumber: 3.0 Consensus size: 41
77325 CTAGCCGTTG
*
77335 CAGCCTTCG-TGCATGGATGCACA-ATAGGATGCATCGATGCA
1 CAGCCTT-GATGCATCGATGCACAGA-AGGATGCATCGATGCA
77376 CAGCCTTGATGCATCGATGCACAGAAGGATGCATCGATGCA
1 CAGCCTTGATGCATCGATGCACAGAAGGATGCATCGATGCA
*** *
77417 CAG-AAGGATGCATCGATGCACAGAAAGATGCATCGATGCA
1 CAGCCTTGATGCATCGATGCACAGAAGGATGCATCGATGCA
77457 C
1 C
77458 TAATTGCATT
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
40 35 0.47
41 39 0.52
42 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.19
Consensus pattern (41 bp):
CAGCCTTGATGCATCGATGCACAGAAGGATGCATCGATGCA
Found at i:77524 original size:42 final size:43
Alignment explanation
Indices: 77478--77598 Score: 151
Period size: 42 Copynumber: 2.9 Consensus size: 43
77468 CGGTGTTTGA
* *
77478 GTGCATGGATGCACTGCATGG-TGCATCGATGCACTAGTGCA-G
1 GTGCATGGATGCACTACAGGGATGCATCGATGCACTA-TGCAGG
* * *
77520 GTGCATGGATGCACCACAGGGATACATGGATGCAC--TGCAGGG
1 GTGCATGGATGCACTACAGGGATGCATCGATGCACTATGCA-GG
77562 GTGCATGGATGCACTACAGGGATGCATCGATGCACTA
1 GTGCATGGATGCACTACAGGGATGCATCGATGCACTA
77599 ATGAGAACCT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
40 4 0.06
42 51 0.77
43 11 0.17
ACGTcount: A:0.25, C:0.21, G:0.33, T:0.21
Consensus pattern (43 bp):
GTGCATGGATGCACTACAGGGATGCATCGATGCACTATGCAGG
Found at i:77549 original size:21 final size:21
Alignment explanation
Indices: 77479--77598 Score: 120
Period size: 21 Copynumber: 5.7 Consensus size: 21
77469 GGTGTTTGAG
* *
77479 TGCATGGATGCACTGCATGG-
1 TGCATGGATGCACTACAGGGA
*
77499 TGCATCGATGCACTAGTGCA-GG-
1 TGCATGGATGCACTA---CAGGGA
*
77521 TGCATGGATGCACCACAGGGA
1 TGCATGGATGCACTACAGGGA
* * *
77542 TACATGGATGCACTGCAGGGG
1 TGCATGGATGCACTACAGGGA
77563 TGCATGGATGCACTACAGGGA
1 TGCATGGATGCACTACAGGGA
*
77584 TGCATCGATGCACTA
1 TGCATGGATGCACTA
77599 ATGAGAACCT
Statistics
Matches: 83, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
19 2 0.02
20 15 0.18
21 49 0.59
22 15 0.18
23 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.33, T:0.21
Consensus pattern (21 bp):
TGCATGGATGCACTACAGGGA
Found at i:77783 original size:80 final size:83
Alignment explanation
Indices: 77604--77796 Score: 286
Period size: 80 Copynumber: 2.3 Consensus size: 83
77594 CACTAATGAG
*
77604 AACCTTCGAGTTCGATTACATTCAGCTCAAGAGCATATCAAATCTACATCATAGCTCAAGGCGAG
1 AACCTTCGAGTTCGATTACATTCAGCTCAAGAGCATATCAAATCT--ATCACAGCTCAAGGCGAG
*
77669 AAGGGTTATCTGTCAACAAA
64 AAGGGCTATCTGTCAACAAA
*
77689 AACCTTCGAGTTCGATTACATTCAGCTCAA-AGGCATATCAAAT-T-T-ACAGCTCAAGGTGAGA
1 AACCTTCGAGTTCGATTACATTCAGCTCAAGA-GCATATCAAATCTATCACAGCTCAAGGCGAGA
77750 AGGGCTATCTGTCAACAAA
65 AGGGCTATCTGTCAACAAA
* *
77769 AACCTTCGATTTCGATTCCATTCAGCTC
1 AACCTTCGAGTTCGATTACATTCAGCTC
77797 GATGACAGCA
Statistics
Matches: 102, Mismatches: 5, Indels: 7
0.89 0.04 0.06
Matches are distributed among these distances:
80 58 0.57
81 1 0.01
84 2 0.02
85 41 0.40
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.26
Consensus pattern (83 bp):
AACCTTCGAGTTCGATTACATTCAGCTCAAGAGCATATCAAATCTATCACAGCTCAAGGCGAGAA
GGGCTATCTGTCAACAAA
Found at i:78586 original size:37 final size:37
Alignment explanation
Indices: 78540--78776 Score: 244
Period size: 36 Copynumber: 6.5 Consensus size: 37
78530 TAGAAAAAAC
* *
78540 ATATA-ATA-TATACATTTTTAAAAATCAGTTTTTGAAA
1 ATATATATATTATATATTTTTGAAAA-CA-TTTTTGAAA
*
78577 ATATA-ATA-TATA-GTTTTTGAAAACATTTTTGAAAA
1 ATATATATATTATATATTTTTGAAAACATTTTTG-AAA
**
78612 ATATATATATTATATATTTTTGAAAACA-TTTCAAAA
1 ATATATATATTATATATTTTTGAAAACATTTTTGAAA
*
78648 ATATATATATTATATAGTTTTGAAAACATTTTTGAAA
1 ATATATATATTATATATTTTTGAAAACATTTTTGAAA
*
78685 ATATATATATTATATAGTTTT-AAAA-ATATTTTGAAAA
1 ATATATATATTATATATTTTTGAAAACAT-TTTTG-AAA
*
78722 CATATATATAATATATAGTTTTTGAAAACA--TTT-AAA
1 -ATATATATATTATATA-TTTTTGAAAACATTTTTGAAA
78758 TATATATATATATATATAT
1 -ATATATATAT-TATATAT
78777 ATATATATAA
Statistics
Matches: 176, Mismatches: 12, Indels: 25
0.83 0.06 0.12
Matches are distributed among these distances:
34 6 0.03
35 12 0.07
36 64 0.36
37 55 0.31
38 30 0.17
39 4 0.02
40 4 0.02
41 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.45
Consensus pattern (37 bp):
ATATATATATTATATATTTTTGAAAACATTTTTGAAA
Found at i:78655 original size:36 final size:37
Alignment explanation
Indices: 78577--78776 Score: 246
Period size: 36 Copynumber: 5.4 Consensus size: 37
78567 GTTTTTGAAA
*
78577 ATATAATATATAGTTTTTGAAAACATTTTTGAAAAATAT
1 ATATATTATATA-TTTTTGAAAACA-TTTTGAAAAATAT
*
78616 ATATATTATATATTTTTGAAAACA-TTTCAAAAATAT
1 ATATATTATATATTTTTGAAAACATTTTGAAAAATAT
*
78652 ATATATTATATAGTTTTGAAAACATTTTTG-AAAATAT
1 ATATATTATATATTTTTGAAAACA-TTTTGAAAAATAT
* * *
78689 ATATATTATATAGTTTTAAAAATATTTTGAAAACATAT
1 ATATATTATATATTTTTGAAAACATTTTGAAAA-ATAT
* *
78727 ATATAATATATAGTTTTTGAAAACA-TTT-AAATATAT
1 ATATATTATATA-TTTTTGAAAACATTTTGAAAAATAT
78763 ATATATATATATAT
1 ATATAT-TATATAT
78777 ATATATATAA
Statistics
Matches: 143, Mismatches: 12, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
36 49 0.34
37 41 0.29
38 33 0.23
39 20 0.14
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.45
Consensus pattern (37 bp):
ATATATTATATATTTTTGAAAACATTTTGAAAAATAT
Found at i:78749 original size:28 final size:29
Alignment explanation
Indices: 78713--78767 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
78703 TTTAAAAATA
*
78713 TTTTGAAAACATATATATA-ATATATAGT
1 TTTTGAAAACATATAAATATATATATAGT
*
78741 TTTTGAAAACATTTAAATATATATATA
1 TTTTGAAAACATATAAATATATATATA
78768 TATATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (29 bp):
TTTTGAAAACATATAAATATATATATAGT
Found at i:78764 original size:2 final size:2
Alignment explanation
Indices: 78757--78831 Score: 68
Period size: 2 Copynumber: 38.5 Consensus size: 2
78747 AAACATTTAA
* * *
78757 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AGT TT TT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
*
78799 AA AT AT AT -T GA- AT AT AT AT AT AT AT A- AT AT AT A
1 AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT A
78832 GTTTTTGAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
1 4 0.06
2 58 0.92
3 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:78841 original size:93 final size:90
Alignment explanation
Indices: 78685--78868 Score: 305
Period size: 93 Copynumber: 2.0 Consensus size: 90
78675 ATTTTTGAAA
* *
78685 ATATATATATTATATAGTTTTAAAAATATTTTGAAAACATATATATAATATATAGTTTTTGAAAA
1 ATATATATATAATATAGTTTTAAAAATATATTGAAAACATATATATAATATATAGTTTTTGAAAA
78750 CATTTAAATATATATATATATATAT
66 CATTTAAATATATATATATATATAT
*
78775 ATATATATATAATATAGTTTTTAAAAATATATTGAATATATATATATATAATATATAGTTTTTGA
1 ATATATATATAATATAG-TTTTAAAAATATATTGAA-A-ACATATATATAATATATAGTTTTTGA
*
78840 AAACATTTTAATATATATATATATATAT
63 AAACATTTAAATATATATATATATATAT
78868 A
1 A
78869 GTTTTTTAAA
Statistics
Matches: 87, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
90 16 0.18
91 17 0.20
92 1 0.01
93 53 0.61
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (90 bp):
ATATATATATAATATAGTTTTAAAAATATATTGAAAACATATATATAATATATAGTTTTTGAAAA
CATTTAAATATATATATATATATAT
Found at i:78904 original size:39 final size:40
Alignment explanation
Indices: 78771--78966 Score: 194
Period size: 39 Copynumber: 5.0 Consensus size: 40
78761 ATATATATAT
*
78771 ATATATATATATATAATATAG-TTTTTAAAAATATATTGA
1 ATATATATATATATAATATAGTTTTTTAAAAATATTTTGA
* *
78810 ATATATATATATATAATATA-TAGTTTTTGAAAACATTTT-A
1 ATATATATATATATAATATAGT--TTTTTAAAAATATTTTGA
78850 ATATATATATATAT-ATATAGTTTTTTAAAAATATTTTGA
1 ATATATATATATATAATATAGTTTTTTAAAAATATTTTGA
* * *
78889 ATATATATATATATATATTATATGGTTTTGAAAACA-ATTTTTA
1 ATATATATATATATA-A-TATA-GTTTTTTAAAA-ATATTTTGA
* *
78932 AAAGCATATATA-AT-ATATAG--TTTTAAAAATATTTT
1 ATA-TATATATATATAATATAGTTTTTTAAAAATATTTT
78967 TTTAATATAT
Statistics
Matches: 134, Mismatches: 11, Indels: 26
0.78 0.06 0.15
Matches are distributed among these distances:
36 1 0.01
37 12 0.09
38 14 0.10
39 41 0.31
40 20 0.15
41 15 0.11
42 4 0.03
43 19 0.14
44 8 0.06
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (40 bp):
ATATATATATATATAATATAGTTTTTTAAAAATATTTTGA
Found at i:78904 original size:81 final size:79
Alignment explanation
Indices: 78771--78966 Score: 274
Period size: 79 Copynumber: 2.5 Consensus size: 79
78761 ATATATATAT
* *
78771 ATATATATATATATAATATAGTTTTTAAAAATATATTGAATATATATATATATAATATATAGTTT
1 ATATATATATATAT-ATATAGTTTTTAAAAATATTTTGAATATATATATATATAATATAT-GGTT
78836 TTGAAAAC-A-TTTTA
64 TTGAAAACAATTTTTA
78850 ATATATATATATATATATAGTTTTTTAAAAATATTTTGAATATATATATATATATATTATATGGT
1 ATATATATATATATATATAG-TTTTTAAAAATATTTTGAATATATATATATATA-A-TATATGGT
78915 TTTGAAAACAATTTTTA
63 TTTGAAAACAATTTTTA
* *
78932 AAAGCATATATA-ATATATAG-TTTTAAAAATATTTT
1 ATA-TATATATATATATATAGTTTTTAAAAATATTTT
78967 TTTAATATAT
Statistics
Matches: 107, Mismatches: 4, Indels: 11
0.88 0.03 0.09
Matches are distributed among these distances:
78 6 0.06
79 46 0.43
80 27 0.25
81 6 0.06
82 15 0.14
83 7 0.07
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (79 bp):
ATATATATATATATATATAGTTTTTAAAAATATTTTGAATATATATATATATAATATATGGTTTT
GAAAACAATTTTTA
Found at i:78988 original size:39 final size:38
Alignment explanation
Indices: 78773--78989 Score: 145
Period size: 38 Copynumber: 5.5 Consensus size: 38
78763 ATATATATAT
* ***
78773 ATATATATATATAATATAGTTTTTAAAAATATATTGAATA
1 ATATATATATATTATATAG-TTTTAAAAATAT-TTTTTTA
* * *
78813 TATATATATATAATATATAGTTTTTGAAAACA---TTTTA
1 -ATATATATATATTATATAG-TTTTAAAAATATTTTTTTA
*
78850 ATATATATATATATATATAGTTTTTTAAAAATATTTTGAATATA
1 ATATATATATAT-TATATAG--TTTTAAAAATATTTT---TTTA
* * * *
78894 TATATATATATATTATATGGTTTTGAAAACA-ATTTTTA
1 -ATATATATATATTATATAGTTTTAAAAATATTTTTTTA
* * *
78932 AAAGCATATATAATATATAGTTTTAAAAATATTTTTTTA
1 ATA-TATATATATTATATAGTTTTAAAAATATTTTTTTA
*
78971 ATATATATTGTATTATATA
1 ATATATA-TATATTATATA
78990 TTGTATTATT
Statistics
Matches: 137, Mismatches: 27, Indels: 26
0.72 0.14 0.14
Matches are distributed among these distances:
36 11 0.08
37 11 0.08
38 38 0.28
39 17 0.12
41 30 0.22
42 9 0.07
44 9 0.07
45 12 0.09
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (38 bp):
ATATATATATATTATATAGTTTTAAAAATATTTTTTTA
Found at i:78989 original size:12 final size:12
Alignment explanation
Indices: 78972--79003 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
78962 ATTTTTTTAA
78972 TATATATTGTAT
1 TATATATTGTAT
78984 TATATATTGTAT
1 TATATATTGTAT
*
78996 TATTTATT
1 TATATATT
79004 ATTTTATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (12 bp):
TATATATTGTAT
Found at i:79010 original size:12 final size:12
Alignment explanation
Indices: 78995--79044 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
78985 ATATATTGTA
78995 TTATTTATTATT
1 TTATTTATTATT
*
79007 TTATTAATTATT
1 TTATTTATTATT
*
79019 TTA-TTATTGTT
1 TTATTTATTATT
79030 TTATATT-TTATT
1 TTAT-TTATTATT
79042 TTA
1 TTA
79045 GTTTCAGGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 9 0.28
12 21 0.66
13 2 0.06
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (12 bp):
TTATTTATTATT
Found at i:81717 original size:12 final size:12
Alignment explanation
Indices: 81700--81727 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
81690 GGAATCGGGT
81700 ATTTAAATTTCA
1 ATTTAAATTTCA
81712 ATTTAAATTTCA
1 ATTTAAATTTCA
81724 ATTT
1 ATTT
81728 TTGCAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (12 bp):
ATTTAAATTTCA
Found at i:91962 original size:9 final size:9
Alignment explanation
Indices: 91950--92052 Score: 61
Period size: 9 Copynumber: 11.2 Consensus size: 9
91940 TTGAAACAAT
91950 TATAATATA
1 TATAATATA
91959 TAT-ATATA
1 TATAATATA
91967 TATAACTATA
1 TATAA-TATA
* *
91977 TAGTTTATATT
1 TA--TAATATA
*
91988 TATATTATTA
1 TATAATA-TA
*
91998 TATACTATA
1 TATAATATA
92007 TATAA-ACTA
1 TATAATA-TA
*
92016 TATAATTTA
1 TATAATATA
92025 T-TAATATA
1 TATAATATA
* *
92033 AATTATATA
1 TATAATATA
92042 GT-TAATATA
1 -TATAATATA
92051 TA
1 TA
92053 GATTATATTG
Statistics
Matches: 71, Mismatches: 13, Indels: 20
0.68 0.12 0.19
Matches are distributed among these distances:
8 16 0.23
9 35 0.49
10 13 0.18
11 5 0.07
12 2 0.03
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.49
Consensus pattern (9 bp):
TATAATATA
Found at i:92051 original size:20 final size:21
Alignment explanation
Indices: 92006--92080 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 21
91996 TATATACTAT
* *
92006 ATATAAACTATATAATTTATTA
1 ATATAAACTATAT-AGTTAATA
*
92028 ATATAAATTATATAGTTAAT-
1 ATATAAACTATATAGTTAATA
* * * *
92048 ATATAGATTATATTGTTATTA
1 ATATAAACTATATAGTTAATA
92069 ATATAAACTATA
1 ATATAAACTATA
92081 AATTATATAT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
20 17 0.39
21 15 0.34
22 12 0.27
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (21 bp):
ATATAAACTATATAGTTAATA
Found at i:92220 original size:13 final size:13
Alignment explanation
Indices: 92204--92237 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
92194 AATATAAGTT
92204 TATATATAAACTA
1 TATATATAAACTA
*
92217 TATATAAAAACTA
1 TATATATAAACTA
*
92230 TATTTATA
1 TATATATA
92238 TTATAAACTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:92247 original size:18 final size:18
Alignment explanation
Indices: 92202--92277 Score: 67
Period size: 18 Copynumber: 4.6 Consensus size: 18
92192 ATAATATAAG
92202 TTTATA-TATAAACTATA
1 TTTATATTATAAACTATA
92219 --TATA--A-AAACTATA
1 TTTATATTATAAACTATA
92232 TTTATATTATAAACTATA
1 TTTATATTATAAACTATA
* *
92250 -TAATTATTATAAGCTATA
1 TTTA-TATTATAAACTATA
*
92268 TGTATATTAT
1 TTTATATTAT
92278 GTTATGAACT
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
13 8 0.17
14 1 0.02
15 8 0.17
17 3 0.06
18 27 0.56
19 1 0.02
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (18 bp):
TTTATATTATAAACTATA
Found at i:92312 original size:15 final size:15
Alignment explanation
Indices: 92270--92318 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 15
92260 AAGCTATATG
*
92270 TATATTATGTTATGAAC
1 TATA-TATG-TATAAAC
92287 TATATA-G-ATAAAC
1 TATATATGTATAAAC
92300 TATATATGTATAAAC
1 TATATATGTATAAAC
92315 TATA
1 TATA
92319 AAAAGTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
13 11 0.38
14 1 0.03
15 11 0.38
16 2 0.07
17 4 0.14
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (15 bp):
TATATATGTATAAAC
Found at i:92385 original size:77 final size:81
Alignment explanation
Indices: 92287--92455 Score: 240
Period size: 77 Copynumber: 2.1 Consensus size: 81
92277 TGTTATGAAC
* *
92287 TATATAGATAAACTATATATGTATAAACTATA-AAAA-GTATAGTTTATAGAA-TATAA-TTATA
1 TATATATATAAACTATATATGTATAAACTATATAAAATATATAGTTTATA-AATTATAATTTATA
92348 TTAATATAGTATAT-TA
65 TTAATATAGTATATGTA
* *
92364 TATATATATAAATTATTTATGTATAAACTATATAAAATATATAGTTTATAAATTATAATTTATAT
1 TATATATATAAACTATATATGTATAAACTATATAAAATATATAGTTTATAAATTATAATTTATAT
92429 TAATATAGTATATGTA
66 TAATATAGTATATGTA
* *
92445 TGTATGTATAA
1 TATATATATAA
92456 CTAACATAAG
Statistics
Matches: 81, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
77 29 0.36
78 6 0.07
79 16 0.20
80 19 0.23
81 11 0.14
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (81 bp):
TATATATATAAACTATATATGTATAAACTATATAAAATATATAGTTTATAAATTATAATTTATAT
TAATATAGTATATGTA
Found at i:92388 original size:15 final size:15
Alignment explanation
Indices: 92287--92397 Score: 55
Period size: 15 Copynumber: 7.3 Consensus size: 15
92277 TGTTATGAAC
* *
92287 TATATAGATAAACTA
1 TATATATATAAATTA
* *
92302 TATATGTATAAACTA
1 TATATATATAAATTA
* * **
92317 TAAAAAGTATAGTTTA
1 TATATA-TATAAATTA
*
92333 TAGA-ATAT-AATTA
1 TATATATATAAATTA
*
92346 TATTAATATAGTATATTA
1 TA-T-ATATA-TAAATTA
92364 TATATATATAAATTA
1 TATATATATAAATTA
* * *
92379 TTTATGTATAAACTA
1 TATATATATAAATTA
92394 TATA
1 TATA
92398 AAATATATAG
Statistics
Matches: 72, Mismatches: 18, Indels: 12
0.71 0.18 0.12
Matches are distributed among these distances:
13 5 0.07
14 3 0.04
15 39 0.54
16 17 0.24
17 2 0.03
18 6 0.08
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.42
Consensus pattern (15 bp):
TATATATATAAATTA
Found at i:92474 original size:79 final size:78
Alignment explanation
Indices: 92309--92485 Score: 191
Period size: 79 Copynumber: 2.3 Consensus size: 78
92299 CTATATATGT
*
92309 ATAAACTATA-AAAA-GTATAGTTTATAGAATATAATTATATTAATATAGTATATTATATATATA
1 ATAAACTATATAAAATATATAGTTTATAGAATATAATTATATTAATATAGTATATTATATATATA
* ** *
92372 TAAATTATTTATG
66 TAAATAACATAAG
*
92385 TATAAACTATATAAAATATATAGTTTATA-AATTATAATTTATATTAATATAGTATATGTATGTA
1 -ATAAACTATATAAAATATATAGTTTATAGAA-TATAA-TTATATTAATATAGTATAT-TATATA
* *
92449 TGTATAACTAACATAAG
62 TATATAAATAACATAAG
* * *
92466 -TAATCTATAGAATATATATA
1 ATAAACTATATAAAATATATA
92486 TATATATAGT
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
77 10 0.12
78 6 0.07
79 33 0.39
80 19 0.23
81 16 0.19
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.42
Consensus pattern (78 bp):
ATAAACTATATAAAATATATAGTTTATAGAATATAATTATATTAATATAGTATATTATATATATA
TAAATAACATAAG
Found at i:92573 original size:7 final size:7
Alignment explanation
Indices: 92563--92632 Score: 52
Period size: 7 Copynumber: 10.0 Consensus size: 7
92553 CTGCAAACAC
*
92563 TAAATCT
1 TAAACCT
*
92570 TAAACTT
1 TAAACCT
* *
92577 TAAATCG
1 TAAACCT
92584 TAAACCT
1 TAAACCT
92591 TAAACCT
1 TAAACCT
*
92598 TAAACCA
1 TAAACCT
* *
92605 TACACTT
1 TAAACCT
*
92612 TAAACCC
1 TAAACCT
92619 TAAA-CT
1 TAAACCT
92625 CTAAACCT
1 -TAAACCT
92633 ATACATAAAC
Statistics
Matches: 46, Mismatches: 15, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
6 1 0.02
7 43 0.93
8 2 0.04
ACGTcount: A:0.43, C:0.26, G:0.01, T:0.30
Consensus pattern (7 bp):
TAAACCT
Found at i:92826 original size:22 final size:21
Alignment explanation
Indices: 92801--92900 Score: 73
Period size: 22 Copynumber: 4.7 Consensus size: 21
92791 TATAAACAAT
92801 AGTTTATATTAATGTACTATA
1 AGTTTATATTAATGTACTATA
* *
92822 GAGTTT-TACTTTAT-AACCTAT-
1 -AGTTTATA-TTAATGTA-CTATA
* * **
92843 AGTATATAATTTATAAACTAT-
1 AGTTTAT-ATTAATGTACTATA
92864 AGTTTATATTAATGTACTATA
1 AGTTTATATTAATGTACTATA
92885 TAGTTTATATTAATGT
1 -AGTTTATATTAATGT
92901 TAATTATATT
Statistics
Matches: 64, Mismatches: 7, Indels: 14
0.75 0.08 0.16
Matches are distributed among these distances:
20 14 0.22
21 19 0.30
22 31 0.48
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.48
Consensus pattern (21 bp):
AGTTTATATTAATGTACTATA
Found at i:92908 original size:22 final size:22
Alignment explanation
Indices: 92861--92909 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 22
92851 ATTTATAAAC
*
92861 TATAGTTTATATTAATGTACTA
1 TATAGTTTATATTAATGTAATA
92883 TATAGTTTATATTAATGTTAATTA
1 TATAGTTTATATTAATG-TAA-TA
92907 TAT
1 TAT
92910 TAACTATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 17 0.71
23 2 0.08
24 5 0.21
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (22 bp):
TATAGTTTATATTAATGTAATA
Found at i:92919 original size:15 final size:15
Alignment explanation
Indices: 92882--93093 Score: 82
Period size: 15 Copynumber: 13.9 Consensus size: 15
92872 TTAATGTACT
*
92882 ATATAGTTTATATTA
1 ATATAATTTATATTA
*
92897 ATGTTAA-TTATATTA
1 AT-ATAATTTATATTA
92912 ACTATAATTTATATTA
1 A-TATAATTTATATTA
* *
92928 ATAT-A-GTATATTGT
1 ATATAATTTATATT-A
* ** *
92942 TTATAAACTATACT-
1 ATATAATTTATATTA
*
92956 ATACAATTTATA--A
1 ATATAATTTATATTA
*
92969 CATATAGTTTATATTA
1 -ATATAATTTATATTA
*
92985 ATATTAACTTTATA-GA
1 ATA-TAA-TTTATATTA
* *
93001 CTATATTTTATATTA
1 ATATAATTTATATTA
* *
93016 ATATTAATTACAAATT-
1 ATA-TAATT-TATATTA
* *
93032 ATAATTATATATATTA
1 AT-ATAATTTATATTA
*
93048 ATATAAGTTAATATTA
1 ATATAA-TTTATATTA
93064 ATATTAA-TTATATTA
1 ATA-TAATTTATATTA
93079 ATATTAATTATATAT
1 ATA-TAATT-TATAT
93094 ATTATTTTAA
Statistics
Matches: 145, Mismatches: 31, Indels: 40
0.67 0.14 0.19
Matches are distributed among these distances:
13 6 0.04
14 28 0.19
15 47 0.32
16 45 0.31
17 19 0.13
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (15 bp):
ATATAATTTATATTA
Found at i:92923 original size:88 final size:87
Alignment explanation
Indices: 92840--93019 Score: 204
Period size: 88 Copynumber: 2.0 Consensus size: 87
92830 CTTTATAACC
* * * * *
92840 TATAGTATATAATTTATAAACTATAGTTTA-TATTAATGTACTATATAGTTTATATTAATGTTAA
1 TATAGTATATAATTTATAAACTATACTATACAATTAAT-AAC-ATATAGTTTATATTAATATTAA
92904 -TTATATTA-ACTATAATTTATATTAA
64 CTT-TA-TAGACTATAATTTATA-TAA
** *
92929 TATAGTATATTGTTTATAAACTATACTATACAATTTATAACATATAGTTTATATTAATATTAACT
1 TATAGTATATAATTTATAAACTATACTATACAATTAATAACATATAGTTTATATTAATATTAACT
*
92994 TTATAGACTATATTTTATATTAA
66 TTATAGACTATAATTTATA-TAA
93017 TAT
1 TAT
93020 TAATTACAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
87 2 0.03
88 42 0.53
89 30 0.38
90 5 0.06
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (87 bp):
TATAGTATATAATTTATAAACTATACTATACAATTAATAACATATAGTTTATATTAATATTAACT
TTATAGACTATAATTTATATAA
Found at i:93011 original size:31 final size:31
Alignment explanation
Indices: 92962--93022 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
92952 TACTATACAA
92962 TTTATAACATATAGTTTATATTAATATTAAC
1 TTTATAACATATAGTTTATATTAATATTAAC
*
92993 TTTATAGAC-TATATTTTATATTAATATTAA
1 TTTATA-ACATATAGTTTATATTAATATTAA
93023 TTACAAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 26 0.93
32 2 0.07
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (31 bp):
TTTATAACATATAGTTTATATTAATATTAAC
Found at i:93051 original size:6 final size:6
Alignment explanation
Indices: 93042--93110 Score: 53
Period size: 6 Copynumber: 12.3 Consensus size: 6
93032 ATAATTATAT
*
93042 ATATTA ATA-TA A-GTTA ATATTA ATATT- A-ATT- ATATTA ATATTA
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA
*
93085 AT-TATA TATATT- ATTTTA ATATTA AT
1 ATAT-TA -ATATTA ATATTA ATATTA AT
93111 TATAAATAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
4 4 0.08
5 15 0.29
6 28 0.55
7 3 0.06
8 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (6 bp):
ATATTA
Found at i:93079 original size:31 final size:30
Alignment explanation
Indices: 93008--93088 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 30
92998 AGACTATATT
93008 TTATATTAATATTAATTACAAATTATAATTA
1 TTATATTAATA-TAATTACAAATTATAATTA
*
93039 TATATATTAATATAAGTTA-ATATTA-ATATTAA
1 T-TATATTAATATAA-TTACAAATTATA-ATT-A
93071 TTATATTAATATTAATTA
1 TTATATTAATA-TAATTA
93089 TATATATTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
30 1 0.02
31 25 0.57
32 18 0.41
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (30 bp):
TTATATTAATATAATTACAAATTATAATTA
Found at i:93112 original size:15 final size:14
Alignment explanation
Indices: 93061--93113 Score: 60
Period size: 15 Copynumber: 4.0 Consensus size: 14
93051 TAAGTTAATA
93061 TTAATATTAATTAT
1 TTAATATTAATTAT
93075 ATTAATATTAATTAT
1 -TTAATATTAATTAT
*
93090 AT-ATATT-A-T-T
1 TTAATATTAATTAT
93100 TTAATATTAATTAT
1 TTAATATTAATTAT
93114 AAATAATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
10 2 0.06
11 6 0.19
12 2 0.06
13 6 0.19
14 2 0.06
15 14 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTAATATTAATTAT
Found at i:93126 original size:63 final size:63
Alignment explanation
Indices: 93008--93135 Score: 154
Period size: 63 Copynumber: 2.0 Consensus size: 63
92998 AGACTATATT
* *
93008 TTATATTAATATTAATTACAAATTATAATTATATATATTAATATAAGTTAATATTAATATTAA
1 TTATATTAATATTAATTACAAATTATAATTATATATATTAATATAAGATAATATTAATATAAA
* * * *
93071 TTATATTAATATTAATTATATA-TATTATTTTA-ATATTAATTATAA-ATAATTTATTAATATAA
1 TTATATTAATATTAATTACAAATTATAATTATATATATTAA-TATAAGATAA--TATTAATATAA
93133 A
63 A
93134 TT
1 TT
93136 TTATAGGGAT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
61 10 0.18
62 13 0.23
63 33 0.59
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.51
Consensus pattern (63 bp):
TTATATTAATATTAATTACAAATTATAATTATATATATTAATATAAGATAATATTAATATAAA
Found at i:93127 original size:24 final size:25
Alignment explanation
Indices: 93068--93135 Score: 95
Period size: 24 Copynumber: 2.8 Consensus size: 25
93058 ATATTAATAT
*
93068 TAATTATATTAATATTAATTATATA
1 TAATTATATTAATATTAATTATAAA
*
93093 T-ATTATTTTAATATTAATTATAAA
1 TAATTATATTAATATTAATTATAAA
*
93117 TAATT-TATTAATATAAATT
1 TAATTATATTAATATTAATT
93136 TTATAGGGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 34 0.89
25 4 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
TAATTATATTAATATTAATTATAAA
Found at i:93767 original size:18 final size:16
Alignment explanation
Indices: 93744--93778 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
93734 ATCAAATTTA
93744 TAATATACAAATTATAAT
1 TAATATA-AAATTA-AAT
93762 TAATATAAAATTAAAT
1 TAATATAAAATTAAAT
93778 T
1 T
93779 TCAAAAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 6 0.35
18 7 0.41
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATATAAAATTAAAT
Found at i:93845 original size:48 final size:49
Alignment explanation
Indices: 93773--93899 Score: 159
Period size: 48 Copynumber: 2.6 Consensus size: 49
93763 AATATAAAAT
* * *
93773 TAAATTTCAAAAAAGTAATTATATTAATTTGATTATCATAATTTTATGA
1 TAAATTTCAAAAAAGTAATCATATTAATTTAATTATCATAAGTTTATGA
* *
93822 TAAATTTC-AAAGAGTAATCATATTAATTTAATTATCATAAGTTTATTA
1 TAAATTTCAAAAAAGTAATCATATTAATTTAATTATCATAAGTTTATGA
* *
93870 TAAATTT-AAAATAACATAATTATATTAATT
1 TAAATTTCAAAA-AA-GTAATCATATTAATT
93900 GTAACTTTAC
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
48 45 0.67
49 9 0.13
50 13 0.19
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (49 bp):
TAAATTTCAAAAAAGTAATCATATTAATTTAATTATCATAAGTTTATGA
Found at i:94369 original size:46 final size:46
Alignment explanation
Indices: 94294--94386 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 46
94284 CCTATTTTTA
* **
94294 GCATTATACACACAATTGAATATTTGGGGAATTCACCAACGGAATT
1 GCATTATACACACAATTGAAGATGCGGGGAATTCACCAACGGAATT
*
94340 GCATTATACACACAATTGAGGATGCGGGGAATTCACCAACGGAATT
1 GCATTATACACACAATTGAAGATGCGGGGAATTCACCAACGGAATT
94386 G
1 G
94387 ATTCAAGTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (46 bp):
GCATTATACACACAATTGAAGATGCGGGGAATTCACCAACGGAATT
Found at i:98400 original size:19 final size:19
Alignment explanation
Indices: 98376--98426 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
98366 GAAAATATTC
98376 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
98395 AGAGTGCATCGCTGCATGG
1 AGAGTGCATCGATGCATGG
98414 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
98427 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:98476 original size:64 final size:64
Alignment explanation
Indices: 98270--98476 Score: 230
Period size: 65 Copynumber: 3.2 Consensus size: 64
98260 TGCACCAGTG
* *
98270 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTGATGCATCGATGCATGG-CTTG
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAAT-TCATGATGCATCGATGCATGGAC-TG
98334 -
64 A
*
98334 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA-GAGTGCATCGATGCATGGA--
1 TGCATCGATGCATGAAATGCATTCGATG-TTTGAAAA-ATTCATGA-TGCATCGATGCATGGACT
98396 GA
63 GA
* * * *
98398 GTGCATCGCTGCATGGAATGCATTCGATG-TTCAATTAATTCATCGATGCATCGATGCATGGACT
1 -TGCATCGATGCATGAAATGCATTCGATGTTTGAA-AAATTCAT-GATGCATCGATGCATGGACT
98462 GA
63 GA
98464 TGCATCG-TGCATG
1 TGCATCGATGCATG
98477 CCTTTGAATA
Statistics
Matches: 124, Mismatches: 8, Indels: 22
0.81 0.05 0.14
Matches are distributed among these distances:
63 10 0.08
64 52 0.42
65 58 0.47
66 4 0.03
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (64 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATTCATGATGCATCGATGCATGGACTGA
Found at i:101302 original size:29 final size:29
Alignment explanation
Indices: 101270--101330 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
101260 TATACGCATT
101270 TTTCAGTATTTATTAAAAGTGCTAAATTA
1 TTTCAGTATTTATTAAAAGTGCTAAATTA
101299 TTTCAGTATTTATTAAAAGTGCTAAATTA
1 TTTCAGTATTTATTAAAAGTGCTAAATTA
101328 TTT
1 TTT
101331 AAACACTAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.48
Consensus pattern (29 bp):
TTTCAGTATTTATTAAAAGTGCTAAATTA
Done.