Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008106.1 Hibiscus syriacus cultivar Beakdansim tig00110641_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: 540947
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:4615 original size:21 final size:21
Alignment explanation
Indices: 4589--4639 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
4579 ATTTACCGTG
*
4589 ATTGCGGCCGTCGCGGGCGCT
1 ATTGCGGCCGTCGCGGACGCT
*
4610 ATTGCGGTCGTCGCGGACGCT
1 ATTGCGGCCGTCGCGGACGCT
4631 ATTGCGGCC
1 ATTGCGGCC
4640 TCGTGGGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.08, C:0.31, G:0.39, T:0.22
Consensus pattern (21 bp):
ATTGCGGCCGTCGCGGACGCT
Found at i:12701 original size:21 final size:21
Alignment explanation
Indices: 12671--12715 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
12661 ATATTTTAAA
*
12671 AAAATTTATT-TTTATATTATT
1 AAAATATATTATTTA-ATTATT
12692 AAAATATATTATTTAATTATT
1 AAAATATATTATTTAATTATT
12713 AAA
1 AAA
12716 TATTATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AAAATATATTATTTAATTATT
Found at i:15855 original size:3 final size:3
Alignment explanation
Indices: 15847--15878 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
15837 AATTACAAGA
15847 AAT AAT AAT AAT AAT AAT AAT AATT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT A
15879 TTTTTTAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:16521 original size:37 final size:37
Alignment explanation
Indices: 16464--16655 Score: 141
Period size: 37 Copynumber: 5.6 Consensus size: 37
16454 CAAAGATTAT
*
16464 TTTCAAGAAAAAC-TATCTCAAGAGAGACAAATCTTTG
1 TTTCAAGAGAAACATA-CTCAAGAGAGACAAATCTTTG
16501 TTTCAAGAGAAACATACTC-A-A-AGAC---T-TTTG
1 TTTCAAGAGAAACATACTCAAGAGAGACAAATCTTTG
* *
16531 TTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAACTTTG
1 TTTCAAGAGAAACAT-ACTCAAGAGAGACAAATCTTTG
*
16568 TTTCAA-AGGAAACAGACTCAA-A-A-AC---T-TTTG
1 TTTCAAGA-GAAACATACTCAAGAGAGACAAATCTTTG
* * * *
16598 TTTCAATAGAAA-TTGTCTCAAGAGAGACAAAACTTTG
1 TTTCAAGAGAAACAT-ACTCAAGAGAGACAAATCTTTG
*
16635 TTTCAAGAGAAACAAACTCAA
1 TTTCAAGAGAAACATACTCAA
16656 AGATTTTTAT
Statistics
Matches: 120, Mismatches: 14, Indels: 42
0.68 0.08 0.24
Matches are distributed among these distances:
29 1 0.01
30 39 0.32
31 4 0.03
32 2 0.02
33 6 0.05
34 6 0.05
35 2 0.02
36 3 0.03
37 55 0.46
38 2 0.02
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.27
Consensus pattern (37 bp):
TTTCAAGAGAAACATACTCAAGAGAGACAAATCTTTG
Found at i:16551 original size:30 final size:30
Alignment explanation
Indices: 16497--16618 Score: 86
Period size: 30 Copynumber: 3.8 Consensus size: 30
16487 GAGACAAATC
16497 TTTGTTTCAAGAGAAACAT-ACTCAAAGACT
1 TTTGTTTCAAGAGAAAC-TGACTCAAAGACT
* *
16527 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
1 TTTGTTTCAAGAGAAACTGACTC-A-A-AGAC----T
* *
16564 TTTGTTTCAA-AGGAAACAGACTCAAAAACT
1 TTTGTTTCAAGA-GAAACTGACTCAAAGACT
* * *
16594 TTTGTTTCAATAGAAATTGTCTCAA
1 TTTGTTTCAAGAGAAACTGACTCAA
16619 GAGAGACAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 20
0.72 0.09 0.20
Matches are distributed among these distances:
29 1 0.01
30 40 0.55
31 2 0.03
32 1 0.01
33 4 0.05
34 3 0.04
35 1 0.01
36 2 0.03
37 19 0.26
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (30 bp):
TTTGTTTCAAGAGAAACTGACTCAAAGACT
Found at i:16712 original size:65 final size:67
Alignment explanation
Indices: 16270--16831 Score: 672
Period size: 65 Copynumber: 8.6 Consensus size: 67
16260 GGGATAATGG
* * * *
16270 TTTCAAGACAAACCGTCTCAAGAGAGATC-AAAC-TTGTTTCAAGGGAAACAACCTCAATG-TTT
1 TTTCAAGAGAAACTGTCTCAAGAGAGA-CAAAACTTTGTTTCAAGGGAAACAAACTCAAAGATTT
*
16332 GTA
65 TTA
* * * * *
16335 TTTAAAGGGAAACTGTCTCAAGAGAGACAAAAC-TTGTTTAAAGGGAAACAAACTAAAAGATTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACAAACTCAAAGATTTT
*
16399 TG
66 TA
* * *
16401 TTTCAAGAGAAACTGTCTTAAGGGAGACAAAAC-TTGTTTCAAGGGAAAC-AACTCAAAGA-TTA
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACAAACTCAAAGATTTT
16463 T-
66 TA
* * * * * *
16464 TTTCAAGAAAAACTATCTCAAGAGAGACAAATCTTTGTTTCAAGAGAAACATACTCAAAGACTTT
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACAAACTCAAAGATTTT
*
16529 TG
66 TA
* * * *
16531 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAAGGAAACAGACTCAAAAACTTT
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACAAACTCAAAGATTTT
*
16596 TG
66 TA
* * *
16598 TTTCAATAGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACAAACTCAAAGATTTT
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACAAACTCAAAGATTTT
16663 TA
66 TA
* *
16665 TTTCAA-A-ATAA-TGTCTCAAGAGAGATAAAACTTTGTTTCAAGGGAAACATACTCAAAGATTT
1 TTTCAAGAGA-AACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACAAACTCAAAGATTT
16727 TTA
65 TTA
*
16730 TTTCAA-A-ATAA-TGTCTCAAAAGAGACAAAACTTTGTTTCAAGGGAAACAAACTCAAAGA-TT
1 TTTCAAGAGA-AACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACAAACTCAAAGATTT
16791 TT-
65 TTA
* *
16793 TTTCAAGAGAAATTGTCTCAAGAGAGATAAAA-TTTGTTT
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTT
16832 TGAGTAAAAA
Statistics
Matches: 440, Mismatches: 47, Indels: 21
0.87 0.09 0.04
Matches are distributed among these distances:
63 34 0.08
64 33 0.08
65 193 0.44
66 55 0.12
67 125 0.28
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (67 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACAAACTCAAAGATTTT
TA
Found at i:18327 original size:13 final size:13
Alignment explanation
Indices: 18297--18388 Score: 50
Period size: 13 Copynumber: 7.1 Consensus size: 13
18287 CTTTTCTTTG
18297 TTTTTCTTTGCTTAT
1 TTTTTCTTTG-TT-T
18312 TTTTTCTTTGTTT
1 TTTTTCTTTGTTT
**
18325 TTTTAT-TTCCTTT
1 TTTT-TCTTTGTTT
18338 TTTTAT-TTTCG-TT
1 TTTT-TCTTT-GTTT
*
18351 TTTTT-GTT-TTT
1 TTTTTCTTTGTTT
* *
18362 TCTTTCTTTATTT
1 TTTTTCTTTGTTT
*
18375 TTTTTCTTTCTTT
1 TTTTTCTTTGTTT
18388 T
1 T
18389 CTCTTCGCTT
Statistics
Matches: 63, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
11 6 0.10
12 5 0.08
13 39 0.62
14 3 0.05
15 10 0.16
ACGTcount: A:0.04, C:0.11, G:0.04, T:0.80
Consensus pattern (13 bp):
TTTTTCTTTGTTT
Found at i:18339 original size:25 final size:23
Alignment explanation
Indices: 18288--18388 Score: 69
Period size: 25 Copynumber: 4.0 Consensus size: 23
18278 TCTTGTCCCC
* *
18288 TTTTCTTTGTTTTTCTTTGCTTATT
1 TTTTCTTTGTTTTTTTTTTC-T-TT
18313 TTTTCTTTGTTTTTTTATTTCCTTT
1 TTTTCTTTGTTTTTTT-TTT-CTTT
*
18338 TTTTATTTTCGTTTTTTTGTTT-TTT
1 TTTT-CTTT-GTTTTTTT-TTTCTTT
* *
18363 CTTTCTTTATTTTTTTTCTTTCTTT
1 TTTTCTTT-GTTTTTTT-TTTCTTT
18388 T
1 T
18389 CTCTTCGCTT
Statistics
Matches: 61, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
24 13 0.21
25 30 0.49
26 6 0.10
27 12 0.20
ACGTcount: A:0.04, C:0.11, G:0.05, T:0.80
Consensus pattern (23 bp):
TTTTCTTTGTTTTTTTTTTCTTT
Found at i:18347 original size:14 final size:14
Alignment explanation
Indices: 18322--18375 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
18312 TTTTTCTTTG
18322 TTTTTTTA-TTTCC
1 TTTTTTTATTTTCC
*
18335 TTTTTTTATTTTCG
1 TTTTTTTATTTTCC
* *
18349 TTTTTTTGTTTTTTC
1 TTTTTTT-ATTTTCC
*
18364 TTTCTTTATTTT
1 TTTTTTTATTTT
18376 TTTTCTTTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
13 8 0.24
14 15 0.45
15 10 0.30
ACGTcount: A:0.06, C:0.09, G:0.04, T:0.81
Consensus pattern (14 bp):
TTTTTTTATTTTCC
Found at i:20945 original size:21 final size:22
Alignment explanation
Indices: 20899--20946 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
20889 ATAACTATTT
* *
20899 TTTTTAAAACAATTAAATATTA
1 TTTTTAAAACAATCAAATATGA
*
20921 -TTTTAAAA-AATCAATTATGA
1 TTTTTAAAACAATCAAATATGA
20941 TTTTTA
1 TTTTTA
20947 TTTGAAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (22 bp):
TTTTTAAAACAATCAAATATGA
Found at i:23798 original size:131 final size:131
Alignment explanation
Indices: 23586--23850 Score: 338
Period size: 131 Copynumber: 2.0 Consensus size: 131
23576 CTTTGGGGAT
* *
23586 GATGATAACATGATTCCTACTCAATGAGGACGACTGGTTATCTAGAGGTGAAGCAGCTCCTACGT
1 GATGATAACACGATTCCTACTCAATGAGGACGACTGATTATCTAGAGGTGAAGCAGCTCCTACGT
* * *
23651 GATAAAGAGAAATGGTCGGGGGATGACACGGTTCCTATG-TGATGAGGATGACT-GGCCATCTTT
66 GATAAAGAGAAATGGTCGGGGGATGACACGGTTCCTACGAT-ATGAAGATGA-TAGACCATCTTT
23714 AGG
129 AGG
* * * * * *
23717 GATGATAACACGATTCTTACAT-GATGAGGATGACTGATTATCTAGGGGTGACGCGGCTCCTACG
1 GATGATAACACGATTCCTAC-TCAATGAGGACGACTGATTATCTAGAGGTGAAGCAGCTCCTACG
* * ** *
23781 TGATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGATATGAAGATGATAGACCATCTTTA
65 TGATAAAGAGAAATGGTCGGGGGATGACACGGTTCCTACGATATGAAGATGATAGACCATCTTTA
23846 GG
130 GG
23848 GAT
1 GAT
23851 AATGGTTTCA
Statistics
Matches: 115, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
130 1 0.01
131 112 0.97
132 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (131 bp):
GATGATAACACGATTCCTACTCAATGAGGACGACTGATTATCTAGAGGTGAAGCAGCTCCTACGT
GATAAAGAGAAATGGTCGGGGGATGACACGGTTCCTACGATATGAAGATGATAGACCATCTTTAG
G
Found at i:24429 original size:3 final size:3
Alignment explanation
Indices: 24421--24473 Score: 88
Period size: 3 Copynumber: 17.3 Consensus size: 3
24411 AATTATAAGA
*
24421 AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
24467 AAT AAT A
1 AAT AAT A
24474 TTTTTAAGAC
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:26907 original size:2 final size:2
Alignment explanation
Indices: 26900--26930 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
26890 ATAAGAATAC
26900 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
26931 GCACCAATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:28619 original size:3 final size:3
Alignment explanation
Indices: 28611--28637 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
28601 TGTAAAAATG
28611 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
28638 GCGTAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:29215 original size:138 final size:137
Alignment explanation
Indices: 28963--29340 Score: 553
Period size: 138 Copynumber: 2.7 Consensus size: 137
28953 TAGACAACAC
* * * *
28963 AGTTCCTACGTGATGAGGAAATCTGGTTATCTAAGGGTGACACTGTTCCTACGTGATGAGGAGAT
1 AGTTCCTACGTGATGAGGAAGTCTGGTTATCTAAGGATGACACTGCTCCTACATGATGAGGAGAT
* * * * *
29028 CTGGTCGGTGGATGACATTGTTCTTACGTAATGAGGACGTCTAGTCATCTTTAGGGATAAATGGA
66 CTGGTCGGTGGATGACATTGTTCCTACGTGATGAGGACATCTAGACATCTTTAAGGATAAATGGA
29093 GATAGCACG
131 GATA--ACG
* * *
29102 -GTTCCTACGTGATGAGGAAGTATGGTTATCTAAGGATGACACTACTCCTACATGATGAAGAGAT
1 AGTTCCTACGTGATGAGGAAGTCTGGTTATCTAAGGATGACACTGCTCCTACATGATGAGGAGAT
*
29166 CTGGTCGGTGGATGACATTATTCCTACGTGATGAGGACATCTAGACATCTTTAAGGATAAATGGA
66 CTGGTCGGTGGATGACATTGTTCCTACGTGATGAGGACATCTAGACATCTTTAAGGATAAATGGA
29231 GATAACG
131 GATAACG
* *
29238 TAGTTCCTACGTGATGAGGAAGTCTGGTTATCTAAGGATGACGCTGCTGCTA-AGTGATGAGGAG
1 -AGTTCCTACGTGATGAGGAAGTCTGGTTATCTAAGGATGACACTGCTCCTACA-TGATGAGGAG
* *
29302 ATCTGGTCGGGGGATGATATTGTTCCTACGTGATGAGGA
64 ATCTGGTCGGTGGATGACATTGTTCCTACGTGATGAGGA
29341 GATTTGGTCG
Statistics
Matches: 215, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
136 3 0.01
137 1 0.00
138 211 0.98
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (137 bp):
AGTTCCTACGTGATGAGGAAGTCTGGTTATCTAAGGATGACACTGCTCCTACATGATGAGGAGAT
CTGGTCGGTGGATGACATTGTTCCTACGTGATGAGGACATCTAGACATCTTTAAGGATAAATGGA
GATAACG
Found at i:29335 original size:40 final size:40
Alignment explanation
Indices: 29291--29380 Score: 162
Period size: 40 Copynumber: 2.2 Consensus size: 40
29281 CTGCTGCTAA
*
29291 GTGATGAGGAGATCTGGTCGGGGGATGATATTGTTCCTAC
1 GTGATGAGGAGATCTGGTCGGGGGATGACATTGTTCCTAC
*
29331 GTGATGAGGAGATTTGGTCGGGGGATGACATTGTTCCTAC
1 GTGATGAGGAGATCTGGTCGGGGGATGACATTGTTCCTAC
29371 GTGATGAGGA
1 GTGATGAGGA
29381 CGTCTAGTCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.21, C:0.11, G:0.39, T:0.29
Consensus pattern (40 bp):
GTGATGAGGAGATCTGGTCGGGGGATGACATTGTTCCTAC
Found at i:29522 original size:66 final size:66
Alignment explanation
Indices: 29408--29785 Score: 482
Period size: 66 Copynumber: 5.7 Consensus size: 66
29398 GGATAATTTT
* * * * * * *
29408 TTTCAAGAGAAACTGTCTCAAGAGAGTCACAATTTGTTTTAAGGGAAACAATCTCAATTG-TTTA
1 TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAA-AGATGTA
29472 TG
65 TG
* * * * *
29474 TTTCTATAGAAACTGTCTCAGGAGAGACATAATTTGTTTCAAGAGAAACAATCTCAAAG-TTTAT
1 TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGATGTAT
29538 G
66 G
*
29539 TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAA-AGGAAACAATCTCAAAGATGTA
1 TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGA-GAAACAATCTCAAAGATGTA
29603 TG
65 TG
*
29605 TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATCTGTTTCAAGAGAAACAATCTCAAAGATGTAT
1 TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGATGTAT
29670 G
66 G
*
29671 TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAG-T-TCG
1 TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGATGT-A
29734 TG
65 TG
* * * *
29736 TCTT--AAGGAAGACTGTCTCAAGTGAGACGAAATTTGTTTTTAAGAGAAAC
1 T-TTCAAAAGAA-ACTGTCTCAAGAGAGACAAAATTTG-TTTCAAGAGAAAC
29786 TGTCTCAAGC
Statistics
Matches: 283, Mismatches: 22, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
64 7 0.02
65 86 0.30
66 189 0.67
67 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.29
Consensus pattern (66 bp):
TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGATGTAT
G
Found at i:29624 original size:30 final size:30
Alignment explanation
Indices: 29590--29691 Score: 98
Period size: 30 Copynumber: 3.2 Consensus size: 30
29580 AAGGAAACAA
29590 TCTCAAAGATGTATGTTTCAAAAGAAACTG
1 TCTCAAAGATGTATGTTTCAAAAGAAACTG
* * **
29620 TCTCAAGAGA-GACAAAATCTGTTTCAAGAGAAACAA
1 TCTCAA-AGATG------TATGTTTCAAAAGAAACTG
29656 TCTCAAAGATGTATGTTTCAAAAGAAACTG
1 TCTCAAAGATGTATGTTTCAAAAGAAACTG
29686 TCTCAA
1 TCTCAA
29692 GAGAGACAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
30 28 0.50
31 3 0.05
35 3 0.05
36 22 0.39
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (30 bp):
TCTCAAAGATGTATGTTTCAAAAGAAACTG
Found at i:29643 original size:131 final size:131
Alignment explanation
Indices: 29408--29730 Score: 488
Period size: 131 Copynumber: 2.5 Consensus size: 131
29398 GGATAATTTT
* * * * * *
29408 TTTCAAGAGAAACTGTCTCAAGAGAGTCACAATTTGTTTTAAGGGAAACAATCTCAATTGTTTAT
1 TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAAGGAAACAATCTCAA-AGTGTAT
* * * * * *
29473 GTTTCTATAGAAACTGTCTCAGGAGAGACATAATTTGTTTCAAGAGAAACAATCTCAAAG-TTTA
65 GTTTCAAAAGAAACTGTCTCAAGAGAGACAAAATCTGTTTCAAGAGAAACAATCTCAAAGATGTA
29537 TG
130 TG
29539 TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAAGGAAACAATCTCAAAGATGTAT
1 TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAAGGAAACAATCTCAAAG-TGTAT
29604 GTTTCAAAAGAAACTGTCTCAAGAGAGACAAAATCTGTTTCAAGAGAAACAATCTCAAAGATGTA
65 GTTTCAAAAGAAACTGTCTCAAGAGAGACAAAATCTGTTTCAAGAGAAACAATCTCAAAGATGTA
29669 TG
130 TG
*
29671 TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTG-TTTCAAGAGAAACAATCTCAAAGT
1 TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAAG-GAAACAATCTCAAAGT
29731 TCGTGTCTTA
Statistics
Matches: 176, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
130 1 0.01
131 119 0.68
132 56 0.32
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (131 bp):
TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAAGGAAACAATCTCAAAGTGTATG
TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATCTGTTTCAAGAGAAACAATCTCAAAGATGTAT
G
Found at i:29753 original size:197 final size:197
Alignment explanation
Indices: 29408--29785 Score: 537
Period size: 197 Copynumber: 1.9 Consensus size: 197
29398 GGATAATTTT
* * * * * * * *
29408 TTTCAAGAGAAACTGTCTCAAGAGAGTCACAATTTGTTTTAAGGGAAACAATCTCAATTGTTTAT
1 TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATCTGTTTCAAGAGAAACAATCTCAATAGTGTAT
* * * * *
29473 GTTTCTATAGAAACTGTCTCAGGAGAGACATAATTTGTTTCAAGAGAAACAATCTCAAAGTTTAT
66 GTTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGTTCAT
29538 GTTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAAG-GAAACAATCTCAAAGATGT
131 GTTT-AAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAAGAGAAACAATCTCAAAGATGT
29602 ATG
195 ATG
29605 TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATCTGTTTCAAGAGAAACAATCTCAA-AGATGTA
1 TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATCTGTTTCAAGAGAAACAATCTCAATAG-TGTA
*
29669 TGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGTTCG
65 TGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGTTCA
* * * *
29734 TGTCTT-AAGGAAGACTGTCTCAAGTGAGACGAAATTTGTTTTTAAGAGAAAC
130 TGT-TTAAAAGAA-ACTGTCTCAAGAGAGACAAAATTTGTTTTAAAGAGAAAC
29786 TGTCTCAAGC
Statistics
Matches: 159, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
196 6 0.04
197 146 0.92
198 7 0.04
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.29
Consensus pattern (197 bp):
TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATCTGTTTCAAGAGAAACAATCTCAATAGTGTAT
GTTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGTTCAT
GTTTAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAAGAGAAACAATCTCAAAGATGTA
TG
Found at i:29754 original size:131 final size:126
Alignment explanation
Indices: 29408--29785 Score: 470
Period size: 131 Copynumber: 2.9 Consensus size: 126
29398 GGATAATTTT
* * * * *
29408 TTTCAAGAGAAACTGTCTCAAGAGAGTCACAATTTGTTTTAAGGGAAACAATCTCAATTGTTTAT
1 TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAACAATCTCAA-AG-TTAT
* * *
29473 GTTTCTATAGAAACTGTCTCAGGAGAGACATAATTTGTTTCAAGAGAAACAATCTCAAAGTTTAT
64 G-TT-TA-AGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGTGTAT
29538 G
126 G
29539 TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAA-AGGAAACAATCTCAAAGATGTA
1 TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGA-GAAACAATCTCAAAG-T-TA
*
29603 TGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAATCTGTTTCAAGAGAAACAATCTCAAAGATGT
63 TGTTT---AAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAG-TGT
29668 ATG
124 ATG
* *
29671 TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGTTCGTG
1 TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAACAATCTCAAAGTT-ATG
* * *
29736 TCTTAAGGAAGACTGTCTCAAGTGAGACGAAATTTGTTTTTAAGAGAAAC
65 T-TTAA-GAA-ACTGTCTCAAGAGAGACAAAATTTG-TTTCAAGAGAAAC
29786 TGTCTCAAGC
Statistics
Matches: 219, Mismatches: 16, Indels: 23
0.85 0.06 0.09
Matches are distributed among these distances:
129 3 0.01
130 8 0.04
131 131 0.60
132 76 0.35
133 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.29
Consensus pattern (126 bp):
TTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAACAATCTCAAAGTTATGT
TTAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGTGTATG
Found at i:29788 original size:37 final size:37
Alignment explanation
Indices: 29738--29836 Score: 130
Period size: 37 Copynumber: 2.7 Consensus size: 37
29728 AGTTCGTGTC
*
29738 TTAAG-GAAGACTGTCTCAAGTGAGACGAAATTTGTTT
1 TTAAGAGAA-ACTGTCTCAAGTGAGACAAAATTTGTTT
*
29775 TTAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTT
1 TTAAGAGAAACTGTCTCAAGTGAGACAAAATTTGTTT
**
29812 TT-AGAGAAAACAATCTCAAGTGAGA
1 TTAAGAG-AAACTGTCTCAAGTGAGA
29837 TCAATTTTGT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
36 4 0.07
37 48 0.87
38 3 0.05
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.28
Consensus pattern (37 bp):
TTAAGAGAAACTGTCTCAAGTGAGACAAAATTTGTTT
Found at i:29846 original size:37 final size:37
Alignment explanation
Indices: 29751--29866 Score: 121
Period size: 37 Copynumber: 3.2 Consensus size: 37
29741 AGGAAGACTG
* **
29751 TCTCAAGTGAGACGAAATTTGTTTTTAAGAGAAACTG
1 TCTCAAGTGAGACAAAATTTGTTTTTAAGAGAAACAA
*
29788 TCTCAAGCGAGACAAAATTTGTTTTT-AGAGAAAACAA
1 TCTCAAGTGAGACAAAATTTGTTTTTAAGAG-AAACAA
* * *
29825 TCTCAAGTGAGATC-AATTTTG-TTTCAAGTGAAACAA
1 TCTCAAGTGAGA-CAAAATTTGTTTTTAAGAGAAACAA
*
29861 TTTCAA
1 TCTCAA
29867 AATCTGTGAA
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
36 18 0.27
37 48 0.72
38 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (37 bp):
TCTCAAGTGAGACAAAATTTGTTTTTAAGAGAAACAA
Found at i:33331 original size:6 final size:6
Alignment explanation
Indices: 33301--33346 Score: 56
Period size: 6 Copynumber: 7.2 Consensus size: 6
33291 AATGAATGTC
*
33301 ATGCAGA ATGCAAA GATGTAA ATGCAA ATGCAA ATGCAA ATGCAA A
1 ATGCA-A ATGC-AA -ATGCAA ATGCAA ATGCAA ATGCAA ATGCAA A
33347 AATGTTGATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
6 24 0.69
7 7 0.20
8 4 0.11
ACGTcount: A:0.50, C:0.13, G:0.20, T:0.17
Consensus pattern (6 bp):
ATGCAA
Found at i:40726 original size:14 final size:14
Alignment explanation
Indices: 40689--40737 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
40679 ATCTCTCTCT
*
40689 ATATACATACATAC
1 ATATACATACACAC
40703 ATATAC--ACACAC
1 ATATACATACACAC
**
40715 ATATACATACACGT
1 ATATACATACACAC
40729 ATATACATA
1 ATATACATA
40738 TATTATTTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 11 0.37
14 19 0.63
ACGTcount: A:0.49, C:0.22, G:0.02, T:0.27
Consensus pattern (14 bp):
ATATACATACACAC
Found at i:41378 original size:14 final size:13
Alignment explanation
Indices: 41328--41378 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
41318 TTACTTTTCA
41328 TATTAATTATAATC
1 TATTAATTATAA-C
*
41342 T-TTATATTATAAA
1 TATTA-ATTATAAC
*
41355 TCTTAATTATAAC
1 TATTAATTATAAC
41368 TATTAAATTAT
1 TATT-AATTAT
41379 TTTTATTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 14 0.45
14 17 0.55
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (13 bp):
TATTAATTATAAC
Found at i:41509 original size:2 final size:2
Alignment explanation
Indices: 41502--41527 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
41492 TTTAACTTCA
41502 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
41528 TAAAAATGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:42307 original size:2 final size:2
Alignment explanation
Indices: 42197--42287 Score: 173
Period size: 2 Copynumber: 45.5 Consensus size: 2
42187 TATATTAACT
42197 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
42239 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
*
42281 TG TA TA T
1 TA TA TA T
42288 GTACACACAC
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 87 1.00
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (2 bp):
TA
Found at i:51186 original size:10 final size:11
Alignment explanation
Indices: 51150--51179 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
51140 TGGGGATTTC
*
51150 TTTTGAAAAGG
1 TTTTGAAAAGA
51161 TTTTGAAAAGA
1 TTTTGAAAAGA
51172 TTTTGAAA
1 TTTTGAAA
51180 TATTTTGGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (11 bp):
TTTTGAAAAGA
Found at i:53829 original size:139 final size:139
Alignment explanation
Indices: 53647--54052 Score: 576
Period size: 139 Copynumber: 2.9 Consensus size: 139
53637 AATGGAAACA
* *
53647 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTCCCTCATCGGGTGAGTTCTTCTCA
1 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCA
*
53712 TTATGAACTCTCAACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGT
66 TTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGT
53777 GACGAATCG
131 GACGAATCG
*
53786 AGCTAAGGTTGAACAAGTTCTTTTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCA
1 AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCA
* ** **
53851 TTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAAGCATCACTGATTCAA----A-ATGT
66 TTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGT
*
53911 CG-TGAATCG
131 -GACGAATCG
* * * * *
53920 AG-TGATAGGTCGAACAAGCTCTTCTCATTATGAATTTCTTTTCCCTCTATCGGATGAGCTCTTC
1 AGCT-A-AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTC-ATCGGATGAGTTCTTC
*
53984 TCATTATGAACTCTCCACTGGAAATGTTGATCCCTCAAGTGAGGTGTTGC-GATTCAACTCCATA
63 TCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATA
54048 TGTGA
128 TGTGA
54053 TTCGGATGAT
Statistics
Matches: 235, Mismatches: 22, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
133 1 0.00
134 13 0.06
135 45 0.19
136 59 0.25
139 113 0.48
140 4 0.02
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (139 bp):
AGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCA
TTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGT
GACGAATCG
Found at i:55219 original size:55 final size:54
Alignment explanation
Indices: 54871--55281 Score: 384
Period size: 54 Copynumber: 7.6 Consensus size: 54
54861 AAAAAAATAT
** * * * *
54871 TCAAGAAACCCCTGAAAACCA-AGCTTAATTTCTTTGAAAA-TCATTTGAAAACA
1 TCAAGAAACTTCTGAAAATCAGA-CTTAGTTTCTTTAAAAACTCATTTGAAATCA
* * * * * *** **
54924 TCAAGAAAC-TCTTAAAAATTAGGCTTAATTTCTTTGAACGGTCATTTGAGAAAAA
1 TCAAGAAACTTC-TGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTGA-AATCA
** *
54979 TCAAGAAACTTCCAAAAATCAGACTTAGTTTCTTTAAAAA---ATTTGAAAAGCA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTG-AAATCA
* *
55031 TCAAGAAACTTCTAAAAATCATACTTAGTTTCTTTAAAAACTCATTTGAAATCA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTGAAATCA
* * * *
55085 TCATGAAACTTCTGAAAATCAGACTTAGTTTCGTTGAAAACTTATTTGAAATCA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTGAAATCA
* *
55139 TCAAGAAACTTCTGAAAACCAGACTTAGTTTCTTTAAAAACTCACTTGAAAATCA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTG-AAATCA
* * * ***
55194 TCATGAAACTTCTGAAAATCTGACTTAGTTTCTTTAAAAACTAATAAAAAATACCA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTGAAAT--CA
* *
55250 TGTCAAGAAACCTCTGAAAATCAGACGTAGTT
1 --TCAAGAAACTTCTGAAAATCAGACTTAGTT
55282 CCTAAAAACA
Statistics
Matches: 300, Mismatches: 44, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
52 47 0.16
53 31 0.10
54 107 0.36
55 85 0.28
56 4 0.01
58 26 0.09
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (54 bp):
TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTGAAATCA
Found at i:55223 original size:109 final size:108
Alignment explanation
Indices: 54978--55238 Score: 366
Period size: 109 Copynumber: 2.4 Consensus size: 108
54968 TTTGAGAAAA
* ** *
54978 ATCAAGAAACTTCCAAAAATCAGACTTAGTTTCTTTAAAA--AATTTGAAAAGCATCAAGAAACT
1 ATCATGAAACTTCTGAAAATCAGACTTAGTTTCTTAAAAACTAATTTGAAAAGCATCAAGAAACT
* * *
55041 TCTAAAAATCATACTTAGTTTCTTTAAAAACTCATTTGAAATC
66 TCTAAAAACCAGACTTAGTTTCTTTAAAAACTCACTTGAAATC
* * *
55084 ATCATGAAACTTCTGAAAATCAGACTTAGTTTCGTTGAAAACTTATTTG-AAATCATCAAGAAAC
1 ATCATGAAACTTCTGAAAATCAGACTTAGTTTC-TTAAAAACTAATTTGAAAAGCATCAAGAAAC
*
55148 TTCTGAAAACCAGACTTAGTTTCTTTAAAAACTCACTTGAAAATC
65 TTCTAAAAACCAGACTTAGTTTCTTTAAAAACTCACTTG-AAATC
*
55193 ATCATGAAACTTCTGAAAATCTGACTTAGTTTCTTTAAAAACTAAT
1 ATCATGAAACTTCTGAAAATCAGACTTAGTTTC-TTAAAAACTAAT
55239 AAAAAATACC
Statistics
Matches: 137, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
106 30 0.22
107 6 0.04
108 49 0.36
109 52 0.38
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.33
Consensus pattern (108 bp):
ATCATGAAACTTCTGAAAATCAGACTTAGTTTCTTAAAAACTAATTTGAAAAGCATCAAGAAACT
TCTAAAAACCAGACTTAGTTTCTTTAAAAACTCACTTGAAATC
Found at i:62022 original size:20 final size:21
Alignment explanation
Indices: 61999--62078 Score: 67
Period size: 20 Copynumber: 3.8 Consensus size: 21
61989 TTGGTGCAGA
61999 GGGAATCGATACCCCCTTGA-
1 GGGAATCGATACCCCCTTGAG
*
62019 GGGAA-CTGATTCCCCCTTTGAAG
1 GGGAATC-GATACCCCC-TTG-AG
* * **
62042 GGGAACCGATTCCCCC-ACAG
1 GGGAATCGATACCCCCTTGAG
62062 GGGAATCGATACCCCCT
1 GGGAATCGATACCCCCT
62079 GGGGTTCTGG
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
19 1 0.02
20 29 0.59
21 3 0.06
22 1 0.02
23 14 0.29
24 1 0.02
ACGTcount: A:0.24, C:0.33, G:0.25, T:0.19
Consensus pattern (21 bp):
GGGAATCGATACCCCCTTGAG
Found at i:62052 original size:23 final size:20
Alignment explanation
Indices: 61997--62057 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 20
61987 TTTTGGTGCA
* *
61997 GAGGGAATCGATACCCCCTT
1 GAGGGAACCGATTCCCCCTT
*
62017 GAGGGAACTGATTCCCCCTTT
1 GAGGGAACCGATTCCCCC-TT
62038 GAAGGGGAACCGATTCCCCC
1 G-A-GGGAACCGATTCCCCC
62058 ACAGGGGAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 15 0.44
21 3 0.09
22 1 0.03
23 15 0.44
ACGTcount: A:0.23, C:0.31, G:0.26, T:0.20
Consensus pattern (20 bp):
GAGGGAACCGATTCCCCCTT
Found at i:64373 original size:30 final size:30
Alignment explanation
Indices: 64337--64398 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
64327 TAAATGGGAG
* *
64337 AAGTGTTAACGTAAGGGGGAGTAATTTTTC
1 AAGTGTTAAAGTAAGGGCGAGTAATTTTTC
*
64367 AAGTGTTAAAGTAAGGGCGATTAATTTTTC
1 AAGTGTTAAAGTAAGGGCGAGTAATTTTTC
64397 AA
1 AA
64399 AAACGTCGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.34
Consensus pattern (30 bp):
AAGTGTTAAAGTAAGGGCGAGTAATTTTTC
Found at i:66569 original size:7 final size:7
Alignment explanation
Indices: 66559--66609 Score: 52
Period size: 7 Copynumber: 7.6 Consensus size: 7
66549 ACCATAAACC
66559 ATAGACA
1 ATAGACA
*
66566 ATAG-CC
1 ATAGACA
*
66572 ATAAACA
1 ATAGACA
66579 ATAGACA
1 ATAGACA
*
66586 ATAG-CC
1 ATAGACA
*
66592 ATAAACA
1 ATAGACA
66599 ATAGACA
1 ATAGACA
66606 ATAG
1 ATAG
66610 CCCAATATAC
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
6 8 0.24
7 26 0.76
ACGTcount: A:0.55, C:0.18, G:0.12, T:0.16
Consensus pattern (7 bp):
ATAGACA
Found at i:66575 original size:20 final size:20
Alignment explanation
Indices: 66550--66611 Score: 115
Period size: 20 Copynumber: 3.1 Consensus size: 20
66540 ATCTATAAAA
*
66550 CCATAAACCATAGACAATAG
1 CCATAAACAATAGACAATAG
66570 CCATAAACAATAGACAATAG
1 CCATAAACAATAGACAATAG
66590 CCATAAACAATAGACAATAG
1 CCATAAACAATAGACAATAG
66610 CC
1 CC
66612 CAATATACAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.52, C:0.24, G:0.10, T:0.15
Consensus pattern (20 bp):
CCATAAACAATAGACAATAG
Found at i:66793 original size:58 final size:59
Alignment explanation
Indices: 66668--66794 Score: 134
Period size: 58 Copynumber: 2.2 Consensus size: 59
66658 CGTAATGCAA
* * * * **
66668 TCCCGAGTATGGCACATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTTAAGTACAG
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
* ** *
66727 TCCC-AATATGACACATAAGGGT-GTGCCCACCATATACACTA-GTATCCTTTAGTGTAT
1 TCCCGAATATGACACATAA-GGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
66784 TCCCGAATATG
1 TCCCGAATATG
66795 CAACCTGCTA
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
57 16 0.29
58 33 0.59
59 7 0.12
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
Found at i:74314 original size:28 final size:29
Alignment explanation
Indices: 74268--74329 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 29
74258 CAACCCATCT
* * *
74268 ATTTTCCAAAATTTTTGAATTGATCCCCA
1 ATTTTCCAAAACTTATGAAATGATCCCCA
* *
74297 CTTTT-CAAAACTTATGAAATGGTCCCCA
1 ATTTTCCAAAACTTATGAAATGATCCCCA
74325 ATTTT
1 ATTTT
74330 TCTAAGGCTT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (29 bp):
ATTTTCCAAAACTTATGAAATGATCCCCA
Found at i:76333 original size:16 final size:15
Alignment explanation
Indices: 76300--76388 Score: 63
Period size: 17 Copynumber: 5.5 Consensus size: 15
76290 TCTGTCTATT
*
76300 TTCTTCTTCTTTTT-
1 TTCTTTTTCTTTTTC
76314 TTCTTTTTCTGTTTTC
1 TTCTTTTTCT-TTTTC
*
76330 TTCTGTTTTCTCTTTC
1 TTCT-TTTTCTTTTTC
* *
76346 TTTCCTTTTCTTTTTTT
1 -TTCTTTTTC-TTTTTC
*
76363 TTGTTTTTCTCTTTTTC
1 TT-CTTTT-TCTTTTTC
76380 TTTCTTTTT
1 -TTCTTTTT
76389 GTATTTTTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
14 9 0.16
15 4 0.07
16 16 0.28
17 25 0.43
18 4 0.07
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (15 bp):
TTCTTTTTCTTTTTC
Found at i:76377 original size:18 final size:18
Alignment explanation
Indices: 76298--76398 Score: 61
Period size: 18 Copynumber: 5.8 Consensus size: 18
76288 GATCTGTCTA
76298 TTTTCTTCTTCTTTTTTTC-
1 TTTTC-TCTT-TTTTTTTCT
* *
76317 TTTT-TCTGTTTTCTTCT
1 TTTTCTCTTTTTTTTTCT
*
76334 GTTTTCTC--TTTCTTTC-
1 -TTTTCTCTTTTTTTTTCT
* *
76350 CTTT-TCTTTTTTTTTGT
1 TTTTCTCTTTTTTTTTCT
*
76367 TTTTCTCTTTTTCTTTCT
1 TTTTCTCTTTTTTTTTCT
* *
76385 TTTTGTATTTTTTT
1 TTTTCTCTTTTTTT
76399 ATATCTCTTC
Statistics
Matches: 62, Mismatches: 13, Indels: 15
0.69 0.14 0.17
Matches are distributed among these distances:
14 2 0.03
15 3 0.05
16 13 0.21
17 12 0.19
18 26 0.42
19 6 0.10
ACGTcount: A:0.01, C:0.17, G:0.04, T:0.78
Consensus pattern (18 bp):
TTTTCTCTTTTTTTTTCT
Found at i:76380 original size:34 final size:33
Alignment explanation
Indices: 76298--76398 Score: 98
Period size: 34 Copynumber: 3.0 Consensus size: 33
76288 GATCTGTCTA
* *
76298 TTTTCTTCTTCTTTTTTTCTTTTTCTGTTTTCTTCTG
1 TTTTC-TCTT-TTTCTTTCTTTTTCT-TTTT-TTTTG
*
76335 TTTTCTC--TTTCTTTCCTTTTCTTTTTTTTTG
1 TTTTCTCTTTTTCTTTCTTTTTCTTTTTTTTTG
* *
76366 TTTTTCTCTTTTTCTTTCTTTTTGTATTTTTTT
1 -TTTTCTCTTTTTCTTTCTTTTTCTTTTTTTTT
76399 ATATCTCTTC
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
31 4 0.07
32 11 0.20
33 13 0.24
34 20 0.36
36 2 0.04
37 5 0.09
ACGTcount: A:0.01, C:0.17, G:0.04, T:0.78
Consensus pattern (33 bp):
TTTTCTCTTTTTCTTTCTTTTTCTTTTTTTTTG
Found at i:79234 original size:10 final size:11
Alignment explanation
Indices: 79221--79252 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
79211 ATACAATGAT
79221 ATAAAATAA-A
1 ATAAAATAATA
79231 ATAAAATAATA
1 ATAAAATAATA
79242 AT-AAATAATA
1 ATAAAATAATA
79252 A
1 A
79253 AAGAATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 18 0.86
11 3 0.14
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
ATAAAATAATA
Found at i:79453 original size:11 final size:11
Alignment explanation
Indices: 79437--79466 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
79427 TGGGGATTTC
*
79437 TTTTGAAAAGG
1 TTTTGAAAAGA
79448 TTTTGAAAAGA
1 TTTTGAAAAGA
79459 TTTTGAAA
1 TTTTGAAA
79467 TGTTTTGGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (11 bp):
TTTTGAAAAGA
Found at i:88053 original size:30 final size:30
Alignment explanation
Indices: 87997--88058 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
87987 TCATTTTTAT
* *
87997 AATTTAGTGATTTGATTGTAACAATTGTTA
1 AATTTAGTGACTTGATTGTAACAATTGATA
* *
88027 AATTTAGTGACTTGGTTGCT-ATAATTGATA
1 AATTTAGTGACTTGATTG-TAACAATTGATA
88057 AA
1 AA
88059 CTAACTTGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.44
Consensus pattern (30 bp):
AATTTAGTGACTTGATTGTAACAATTGATA
Found at i:89985 original size:19 final size:19
Alignment explanation
Indices: 89961--90007 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
89951 AATTATGAAT
89961 AGAACAACCTGGGTTGAGA
1 AGAACAACCTGGGTTGAGA
89980 AGAACAACCTGGGTTGAGA
1 AGAACAACCTGGGTTGAGA
*
89999 AGATCAACC
1 AGAACAACC
90008 CATAATTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.38, C:0.19, G:0.28, T:0.15
Consensus pattern (19 bp):
AGAACAACCTGGGTTGAGA
Found at i:96533 original size:12 final size:12
Alignment explanation
Indices: 96516--96557 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
96506 GGTTTACGGG
96516 GAAGCTGCAAAA
1 GAAGCTGCAAAA
96528 GAAGCTGCAAAA
1 GAAGCTGCAAAA
* *
96540 GAACCCGCAAAAA
1 GAAGCTGC-AAAA
96553 GAAGC
1 GAAGC
96558 CCAAGGAGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 18 0.69
13 8 0.31
ACGTcount: A:0.50, C:0.21, G:0.24, T:0.05
Consensus pattern (12 bp):
GAAGCTGCAAAA
Found at i:97862 original size:33 final size:33
Alignment explanation
Indices: 97819--97884 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
97809 AGATACCAAC
* ** *
97819 TTATATAAAGGTTATCATTTGTTATTGTTTAAT
1 TTATAAAAAGGTTATCATTCATTATTATTTAAT
*
97852 TTATAAAAAGGTTATTATTCATTATTATTTAAT
1 TTATAAAAAGGTTATCATTCATTATTATTTAAT
97885 AACAAAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (33 bp):
TTATAAAAAGGTTATCATTCATTATTATTTAAT
Found at i:99106 original size:36 final size:36
Alignment explanation
Indices: 98986--99161 Score: 212
Period size: 36 Copynumber: 4.8 Consensus size: 36
98976 AGTCACTATT
*
98986 TGTAAACCATAATTCACACCCAAAAAAAGCTTCATATG
1 TGTAAACCATAATTCACACCCAAAAAAAGC--CACATG
* * * *
99024 TGTAAACCATAGTTCACACCGGAAAAAAGATCCATATG
1 TGTAAACCATAATTCACACC-CAAAAAA-AGCCACATG
99062 TGTAAACCATAATTCACACCCAAAATAAAGCC-CATG
1 TGTAAACCATAATTCACACCCAAAA-AAAGCCACATG
*
99098 TGTAAACCATAATTCACTCCCAAAATAAAGCC-CATG
1 TGTAAACCATAATTCACACCCAAAA-AAAGCCACATG
* *
99134 TGTAAACCATATTTCACGCCCAAAAAAA
1 TGTAAACCATAATTCACACCCAAAAAAA
99162 AAACTCGAAG
Statistics
Matches: 125, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
35 3 0.02
36 61 0.49
37 7 0.06
38 46 0.37
39 6 0.05
40 2 0.02
ACGTcount: A:0.44, C:0.25, G:0.10, T:0.22
Consensus pattern (36 bp):
TGTAAACCATAATTCACACCCAAAAAAAGCCACATG
Found at i:104488 original size:20 final size:19
Alignment explanation
Indices: 104463--104513 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
104453 GAAATCCCTT
*
104463 TGAAAATACATGATTTTTAA
1 TGAAAATACATGA-CTTTAA
* *
104483 TGAAAAAACAAGACTTTAA
1 TGAAAATACATGACTTTAA
*
104502 TGAACATACATG
1 TGAAAATACATG
104514 CTCTTGGTCG
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (19 bp):
TGAAAATACATGACTTTAA
Found at i:107594 original size:18 final size:18
Alignment explanation
Indices: 107533--107605 Score: 83
Period size: 18 Copynumber: 3.9 Consensus size: 18
107523 AGGGATTATC
107533 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* * * *
107551 AATGGTTCTTTGGAACAAT
1 AGTGGTCCTTCGGGAC-AT
107570 CAGTGGTCCTTCGGGACAT
1 -AGTGGTCCTTCGGGACAT
*
107589 AGTGGTCCTTCGAGACA
1 AGTGGTCCTTCGGGACA
107606 AATACTCAGT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
18 28 0.64
19 4 0.09
20 12 0.27
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:113026 original size:2 final size:2
Alignment explanation
Indices: 113019--113064 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
113009 TTAAAAAGGG
113019 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
113061 AT AT
1 AT AT
113065 TGGCTCCACG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:114314 original size:18 final size:18
Alignment explanation
Indices: 114291--114363 Score: 101
Period size: 18 Copynumber: 3.9 Consensus size: 18
114281 GAGGATTATC
114291 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* *
114309 AGTGGTTCTTCGGAACAAT
1 AGTGGTCCTTCGGGAC-AT
114328 CAGTGGTCCTTCGGGACAT
1 -AGTGGTCCTTCGGGACAT
*
114347 AGTGGTCCTTCGAGACA
1 AGTGGTCCTTCGGGACA
114364 AATACTCAGT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
18 30 0.62
19 4 0.08
20 14 0.29
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:115152 original size:77 final size:77
Alignment explanation
Indices: 115071--115534 Score: 358
Period size: 77 Copynumber: 5.8 Consensus size: 77
115061 AAGAAATATA
* * * * *
115071 GTTGCGCCTAAAAATATCATAGTTCATTAAGAAATAGGTTGTGATATGGAATGTTAATATTTTTA
1 GTTGCGCCCAAGAATGTCATGGTTCACTAAGAAATAGGTTGTGATATGGAATGTTAATATTTTTA
115136 TTAATAAAATGG
66 TTAATAAAATGG
** * * *
115148 GTTGCATCTAAGAATGTCATGGTTCACTAAGAATGTCATGGTTCACTAAGAAATATGTTGCGATA
1 GTTGCGCCCAAGAATGTCATGGTTCACTAAGAA-AT-A-GGTT--GT--G--ATA---TG-GA-A
* * * * *
115213 TG-GAATGTTAATATTTTTATAAATAAAATGG
52 TGTTAATATT--TTTATTAATAAA----ATGG
* * * * *
115244 GATGCGCCCAAGAATGTCATAGTTCACTAAGAAACAGGTTGTGATCTCGAATGTTAATATTTTTA
1 GTTGCGCCCAAGAATGTCATGGTTCACTAAGAAATAGGTTGTGATATGGAATGTTAATATTTTTA
115309 TTAATAAAATGG
66 TTAATAAAATGG
** * * *
115321 GTTG-ATCCAAGAATGTCACGGTTCACTGAGAAATATGTTGTGATATGGAATGTTAATATTTTTA
1 GTTGCGCCCAAGAATGTCATGGTTCACTAAGAAATAGGTTGTGATATGGAATGTTAATATTTTTA
*
115385 TTAATAAAATAG
66 TTAATAAAATGG
** *
115397 GTTGCGCCCAAGAATGTCATGGTTCACTAAGAAATAAATTGCGATATGGAATGTTAATATTTTTA
1 GTTGCGCCCAAGAATGTCATGGTTCACTAAGAAATAGGTTGTGATATGGAATGTTAATATTTTTA
**
115462 TTAATAAAATAA
66 TTAATAAAATGG
*** * * * * * * *
115474 GTTATACCCGAGAATGTCATGATTCATTAAGAAATATGTTGTCATCTAGAATGTTAA-ATTT
1 GTTGCGCCCAAGAATGTCATGGTTCACTAAGAAATAGGTTGTGATATGGAATGTTAATATTT
115535 CTTGTTATAA
Statistics
Matches: 306, Mismatches: 59, Indels: 45
0.75 0.14 0.11
Matches are distributed among these distances:
76 70 0.23
77 143 0.47
78 1 0.00
79 1 0.00
80 4 0.01
81 9 0.03
82 4 0.01
83 7 0.02
84 2 0.01
86 3 0.01
87 2 0.01
89 3 0.01
90 7 0.02
91 4 0.01
92 9 0.03
93 4 0.01
94 1 0.00
96 32 0.10
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.36
Consensus pattern (77 bp):
GTTGCGCCCAAGAATGTCATGGTTCACTAAGAAATAGGTTGTGATATGGAATGTTAATATTTTTA
TTAATAAAATGG
Found at i:115179 original size:19 final size:19
Alignment explanation
Indices: 115155--115199 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
115145 TGGGTTGCAT
115155 CTAAGAATGTCATGGTTCA
1 CTAAGAATGTCATGGTTCA
115174 CTAAGAATGTCATGGTTCA
1 CTAAGAATGTCATGGTTCA
115193 CTAAGAA
1 CTAAGAA
115200 ATATGTTGCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (19 bp):
CTAAGAATGTCATGGTTCA
Found at i:115224 original size:96 final size:96
Alignment explanation
Indices: 115078--115276 Score: 290
Period size: 96 Copynumber: 2.1 Consensus size: 96
115068 ATAGTTGCGC
* * * *
115078 CTAAAAATATCATAGTTCATTAAGAAATAGGTTGTGATATGGAATGTTAATATTTTTATTAATAA
1 CTAAGAATATCATAGTTCACTAAGAAATAGGTTGCGATATGGAATGTTAATATTTTTATAAATAA
* * * *
115143 AATGGGTTGCATCTAAGAATGTCATGGTTCA
66 AATGGGATGCACCCAAGAATGTCATAGTTCA
* * *
115174 CTAAGAATGTCATGGTTCACTAAGAAATATGTTGCGATATGGAATGTTAATATTTTTATAAATAA
1 CTAAGAATATCATAGTTCACTAAGAAATAGGTTGCGATATGGAATGTTAATATTTTTATAAATAA
*
115239 AATGGGATGCGCCCAAGAATGTCATAGTTCA
66 AATGGGATGCACCCAAGAATGTCATAGTTCA
115270 CTAAGAA
1 CTAAGAA
115277 ACAGGTTGTG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 91 1.00
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.34
Consensus pattern (96 bp):
CTAAGAATATCATAGTTCACTAAGAAATAGGTTGCGATATGGAATGTTAATATTTTTATAAATAA
AATGGGATGCACCCAAGAATGTCATAGTTCA
Found at i:115454 original size:153 final size:153
Alignment explanation
Indices: 115176--115534 Score: 497
Period size: 153 Copynumber: 2.3 Consensus size: 153
115166 ATGGTTCACT
*
115176 AAGAATGTCATGGTTCACTAAGAAATATGTTGCGATATGGAATGTTAATATTTTTATAAATAAAA
1 AAGAATGTCATGGTTCACTAAGAAATATGTTGTGATATGGAATGTTAATATTTTTATAAATAAAA
* ** * *
115241 TGGGATGCGCCCAAGAATGTCATAGTTCACTAAGAAACAGGTTGTGATCTCGAATGTTAATATTT
66 TAGGATGCGCCCAAGAATGTCATAGTTCACTAAGAAACAAATTGCGATATCGAATGTTAATATTT
**
115306 TTATTAATAAAATGGGTTGAT-CC
131 TTATTAATAAAATAAGTT-ATACC
* * *
115329 AAGAATGTCACGGTTCACTGAGAAATATGTTGTGATATGGAATGTTAATATTTTTATTAATAAAA
1 AAGAATGTCATGGTTCACTAAGAAATATGTTGTGATATGGAATGTTAATATTTTTATAAATAAAA
* * * *
115394 TAGGTTGCGCCCAAGAATGTCATGGTTCACTAAGAAATAAATTGCGATATGGAATGTTAATATTT
66 TAGGATGCGCCCAAGAATGTCATAGTTCACTAAGAAACAAATTGCGATATCGAATGTTAATATTT
115459 TTATTAATAAAATAAGTTATACCC
131 TTATTAATAAAATAAGTTATA-CC
* * * * * *
115483 GAGAATGTCATGATTCATTAAGAAATATGTTGTCATCTAGAATGTTAA-ATTT
1 AAGAATGTCATGGTTCACTAAGAAATATGTTGTGATATGGAATGTTAATATTT
115535 CTTGTTATAA
Statistics
Matches: 181, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
152 2 0.01
153 137 0.76
154 42 0.23
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (153 bp):
AAGAATGTCATGGTTCACTAAGAAATATGTTGTGATATGGAATGTTAATATTTTTATAAATAAAA
TAGGATGCGCCCAAGAATGTCATAGTTCACTAAGAAACAAATTGCGATATCGAATGTTAATATTT
TTATTAATAAAATAAGTTATACC
Found at i:115548 original size:77 final size:76
Alignment explanation
Indices: 115176--115534 Score: 386
Period size: 77 Copynumber: 4.7 Consensus size: 76
115166 ATGGTTCACT
* *
115176 AAGAATGTCATGGTTCACTAAGAAATATGTTG-CGATATGGAATGTTAATATTTTTATAAATAAA
1 AAGAATGTCATGATTCACTAAGAAATATGTTGTC-ATATGGAATGTTAATATTTTTATTAATAAA
* ***
115240 ATGGGATGCGCCC
65 ATAGG-TTATCCC
* * * * *
115253 AAGAATGTCAT-AGTTCACTAAGAAACAGGTTGTGATCTCGAATGTTAATATTTTTATTAATAAA
1 AAGAATGTCATGA-TTCACTAAGAAATATGTTGTCATATGGAATGTTAATATTTTTATTAATAAA
*
115317 ATGGGTTGAT-CC
65 ATAGGTT-ATCCC
* * * *
115329 AAGAATGTCACGGTTCACTGAGAAATATGTTGTGATATGGAATGTTAATATTTTTATTAATAAAA
1 AAGAATGTCATGATTCACTAAGAAATATGTTGTCATATGGAATGTTAATATTTTTATTAATAAAA
**
115394 TAGGTTGCGCCC
66 TAGGTT-ATCCC
* **
115406 AAGAATGTCATGGTTCACTAAGAAATAAATTG-CGATATGGAATGTTAATATTTTTATTAATAAA
1 AAGAATGTCATGATTCACTAAGAAATATGTTGTC-ATATGGAATGTTAATATTTTTATTAATAAA
*
115470 ATAAGTTATACCC
65 ATAGGTTAT-CCC
* * * *
115483 GAGAATGTCATGATTCATTAAGAAATATGTTGTCATCTAGAATGTTAA-ATTT
1 AAGAATGTCATGATTCACTAAGAAATATGTTGTCATATGGAATGTTAATATTT
115535 CTTGTTATAA
Statistics
Matches: 239, Mismatches: 35, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
76 70 0.29
77 168 0.70
78 1 0.00
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (76 bp):
AAGAATGTCATGATTCACTAAGAAATATGTTGTCATATGGAATGTTAATATTTTTATTAATAAAA
TAGGTTATCCC
Found at i:115912 original size:21 final size:22
Alignment explanation
Indices: 115888--115931 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
115878 AGAGAGAATC
*
115888 GAATCAACAAA-AAAAACTTTT
1 GAATCAAAAAAGAAAAACTTTT
*
115909 GAATTAAAAAAGGAAAAACTTTT
1 GAATCAAAAAA-GAAAAACTTTT
115932 TGGGAAAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
23 10 0.53
ACGTcount: A:0.57, C:0.09, G:0.09, T:0.25
Consensus pattern (22 bp):
GAATCAAAAAAGAAAAACTTTT
Found at i:116075 original size:70 final size:69
Alignment explanation
Indices: 115947--116076 Score: 192
Period size: 70 Copynumber: 1.9 Consensus size: 69
115937 AAGTTAAATA
* *
115947 TCATTTTCTATTTTTTTAAATTCGAAAGAATCGATATTTTTGGGAAAGTATCGATACTTTGTAGC
1 TCATTTTCTATTTTTTTAAATTCGAAAGAATCGATATTTTTGGAAAAATATCGATACTTTGTAGC
116012 CTTC
66 CTTC
*
116016 TCATTTTCTATTTTTTTAAAATTCGAAAGTATCGATATTTGTT-GAAAAATATTCG-TACTTT
1 TCATTTTCTATTTTTTT-AAATTCGAAAGAATCGATATTT-TTGGAAAAATA-TCGATACTTT
116077 TGAACCTTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
69 17 0.31
70 33 0.60
71 5 0.09
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (69 bp):
TCATTTTCTATTTTTTTAAATTCGAAAGAATCGATATTTTTGGAAAAATATCGATACTTTGTAGC
CTTC
Found at i:116684 original size:20 final size:20
Alignment explanation
Indices: 116655--116707 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
116645 AGTGAGTTTT
*
116655 GGATCGATCCTTTAGGCAAA
1 GGATCAATCCTTTAGGCAAA
* *
116675 GGATCAATCCTTTAGGGAAG
1 GGATCAATCCTTTAGGCAAA
*
116695 GGATCAATTCTTT
1 GGATCAATCCTTT
116708 TAATGGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (20 bp):
GGATCAATCCTTTAGGCAAA
Found at i:117695 original size:42 final size:41
Alignment explanation
Indices: 117648--117751 Score: 154
Period size: 41 Copynumber: 2.5 Consensus size: 41
117638 CGAAGTAAAA
** *
117648 CTCAACACATTAACCTTGCCCCATGATCTTCTTGGAGCTAAG
1 CTCAACACACCAACCTTACCCCATGATCTT-TTGGAGCTAAG
*
117690 CTCAACGCACCAACCTTACCCCATGATCTTTTGGAGCTAAG
1 CTCAACACACCAACCTTACCCCATGATCTTTTGGAGCTAAG
*
117731 CTCAACGCACCAACCTTACCC
1 CTCAACACACCAACCTTACCC
117752 TGTATATTCC
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
41 32 0.55
42 26 0.45
ACGTcount: A:0.27, C:0.37, G:0.12, T:0.24
Consensus pattern (41 bp):
CTCAACACACCAACCTTACCCCATGATCTTTTGGAGCTAAG
Found at i:117736 original size:41 final size:42
Alignment explanation
Indices: 117659--117751 Score: 170
Period size: 41 Copynumber: 2.2 Consensus size: 42
117649 TCAACACATT
*
117659 AACCTTGCCCCATGATCTTCTTGGAGCTAAGCTCAACGCACC
1 AACCTTACCCCATGATCTTCTTGGAGCTAAGCTCAACGCACC
117701 AACCTTACCCCATGATCTT-TTGGAGCTAAGCTCAACGCACC
1 AACCTTACCCCATGATCTTCTTGGAGCTAAGCTCAACGCACC
117742 AACCTTACCC
1 AACCTTACCC
117752 TGTATATTCC
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 32 0.64
42 18 0.36
ACGTcount: A:0.26, C:0.37, G:0.14, T:0.24
Consensus pattern (42 bp):
AACCTTACCCCATGATCTTCTTGGAGCTAAGCTCAACGCACC
Found at i:118009 original size:28 final size:26
Alignment explanation
Indices: 117959--118011 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
117949 CGACCTAAAT
*
117959 TGGATAGTAAGTTGCTCACTCATCCA
1 TGGATAGGAAGTTGCTCACTCATCCA
*
117985 TGGATAGCGAAGTTGTTCCACTCATCC
1 TGGATAG-GAAGTTGCT-CACTCATCC
118012 CATAACATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 7 0.30
27 7 0.30
28 9 0.39
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (26 bp):
TGGATAGGAAGTTGCTCACTCATCCA
Found at i:118317 original size:18 final size:18
Alignment explanation
Indices: 118294--118329 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
118284 CGGCAAATTA
118294 TTTTACCCCAACATACAT
1 TTTTACCCCAACATACAT
118312 TTTTACCCCAACATACAT
1 TTTTACCCCAACATACAT
118330 CTACCAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (18 bp):
TTTTACCCCAACATACAT
Found at i:119559 original size:77 final size:79
Alignment explanation
Indices: 119430--119807 Score: 333
Period size: 77 Copynumber: 4.8 Consensus size: 79
119420 GGGACGTTGT
* * * * * * *
119430 ATGCAACCCATTTTATTAATAAAATTAATAACATTCCAGATCACAACATATTTCTTAGTGAACCA
1 ATGCAACTCATTTTATTAATAAAAATATTAACATTTCAGATCATAACTTATTTCTTAATGAACCA
119495 TGACATTCTT-GG-
66 TGACATTCTTAGGC
* * * * *
119507 ATGCAACTCATTTTATTAATAAAAATATTAAAATTTCATATCGTAACCTATTTCTTAATGAAACA
1 ATGCAACTCATTTTATTAATAAAAATATTAACATTTCAGATCATAACTTATTTCTTAATGAACCA
* * *
119572 TGACATTGTTGGGT
66 TGACATTCTTAGGC
* * * ** *
119586 ATTGGGTGCAACCCATTTTATTAATAAAAATATTAACATTTAACATTTTAACTTATTTCTTAGTG
1 A-----TGCAACTCATTTTATTAATAAAAATATTAACATTTCAGATCATAACTTATTTCTTAATG
** *
119651 AATTATGACATTATT-GGAC
61 AACCATGACATTCTTAGG-C
* * *
119670 A--CAA-TCCATTTTATTAATAAAAATATTAACA-TTCTAGATCACAACTTATTTTTTAATAAAC
1 ATGCAACT-CATTTTATTAATAAAAATATTAACATTTC-AGATCATAACTTATTTCTTAATGAAC
*
119731 CATGACATACTTAGGC
64 CATGACATTCTTAGGC
* * * *
119747 A--CAACTCATTTTATTAATAAAATTATTAACATTTCATATCATAACTTATTTATTACTGAAC
1 ATGCAACTCATTTTATTAATAAAAATATTAACATTTCAGATCATAACTTATTTCTTAATGAAC
119808 TATAAATTTT
Statistics
Matches: 245, Mismatches: 43, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
76 2 0.01
77 168 0.69
78 8 0.03
79 1 0.00
83 2 0.01
84 64 0.26
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.39
Consensus pattern (79 bp):
ATGCAACTCATTTTATTAATAAAAATATTAACATTTCAGATCATAACTTATTTCTTAATGAACCA
TGACATTCTTAGGC
Found at i:119610 original size:84 final size:84
Alignment explanation
Indices: 119503--119667 Score: 222
Period size: 84 Copynumber: 2.0 Consensus size: 84
119493 CATGACATTC
* * *
119503 TTGGATGCAACTCATTTTATTAATAAAAATATTAAAATTTCATATCGTAACCTATTTCTTAATGA
1 TTGGATGCAACCCATTTTATTAATAAAAATATTAAAATTTAACATCGTAACCTATTTCTTAATGA
*
119568 AACATGACATTGTTGGGTA
66 AACATGACATTATTGGGTA
* * ** * *
119587 TTGGGTGCAACCCATTTTATTAATAAAAATATTAACATTTAACATTTTAACTTATTTCTTAGTGA
1 TTGGATGCAACCCATTTTATTAATAAAAATATTAAAATTTAACATCGTAACCTATTTCTTAATGA
**
119652 ATTATGACATTATTGG
66 AACATGACATTATTGG
119668 ACACAATCCA
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
84 69 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.41
Consensus pattern (84 bp):
TTGGATGCAACCCATTTTATTAATAAAAATATTAAAATTTAACATCGTAACCTATTTCTTAATGA
AACATGACATTATTGGGTA
Found at i:119713 original size:40 final size:40
Alignment explanation
Indices: 119676--119779 Score: 108
Period size: 37 Copynumber: 2.7 Consensus size: 40
119666 GGACACAATC
*
119676 CATTTTATTAATAAAAATATTAACATTC-TAGATCACAACT
1 CATTTTATTAATAAAAATATTAACATTCTTAG-GCACAACT
* ** * *
119716 TATTTT-TTAAT-AAACCA-TGACATACTTAGGCACAACT
1 CATTTTATTAATAAAAATATTAACATTCTTAGGCACAACT
*
119753 CATTTTATTAATAAAATTATTAACATT
1 CATTTTATTAATAAAAATATTAACATT
119780 TCATATCATA
Statistics
Matches: 49, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
37 18 0.37
38 12 0.24
39 9 0.18
40 10 0.20
ACGTcount: A:0.42, C:0.14, G:0.04, T:0.39
Consensus pattern (40 bp):
CATTTTATTAATAAAAATATTAACATTCTTAGGCACAACT
Found at i:119737 original size:161 final size:161
Alignment explanation
Indices: 119431--119738 Score: 388
Period size: 161 Copynumber: 1.9 Consensus size: 161
119421 GGACGTTGTA
* * *
119431 TGCAACCCATTTTATTAATAAAATTAATAACATTCCAGATCACAACATATTTCTTAGTGAACCAT
1 TGCAACCCATTTTATTAATAAAAATAATAACATTCAACATCACAACATATTTCTTAGTGAACCAT
* ** * **
119496 GACATTCTTGGATGCAACTCATTTTATTAATAAAAATATTAAAATTTCATATCGTAACCTATTTC
66 GACATTATTGGACACAACTCATTTTATTAATAAAAATATTAAAATTTCAGATCACAACCTATTTC
119561 TTAATGAAACATGACATTGTTGGGTATTGGG
131 TTAATGAAACATGACATTGTTGGGTATTGGG
* * *** * **
119592 TGCAACCCATTTTATTAATAAAAATATTAACATTTAACATTTTAACTTATTTCTTAGTGAATTAT
1 TGCAACCCATTTTATTAATAAAAATAATAACATTCAACATCACAACATATTTCTTAGTGAACCAT
* *
119657 GACATTATTGGACACAA-TCCATTTTATTAATAAAAATATTAACA-TTCTAGATCACAACTTATT
66 GACATTATTGGACACAACT-CATTTTATTAATAAAAATATTAAAATTTC-AGATCACAACCTATT
*
119720 TTTTAAT-AAACCATGACAT
129 TCTTAATGAAA-CATGACAT
119739 ACTTAGGCAC
Statistics
Matches: 124, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
160 7 0.06
161 117 0.94
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (161 bp):
TGCAACCCATTTTATTAATAAAAATAATAACATTCAACATCACAACATATTTCTTAGTGAACCAT
GACATTATTGGACACAACTCATTTTATTAATAAAAATATTAAAATTTCAGATCACAACCTATTTC
TTAATGAAACATGACATTGTTGGGTATTGGG
Found at i:120063 original size:31 final size:31
Alignment explanation
Indices: 119979--120063 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 31
119969 AGTTGGTCAT
* * *
119979 TTTTGTTTTATTTTTATAAATATATGATCAC
1 TTTTGTTTTATTTTAATTAATATGTGATCAC
***
120010 -TTT-TTTTA-AAAAATTAATATGTGATCAC
1 TTTTGTTTTATTTTAATTAATATGTGATCAC
*
120038 TTTTGTTTTATTTTAATTAAGATGTG
1 TTTTGTTTTATTTTAATTAATATGTG
120064 GCCACTTAAT
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
28 14 0.34
29 8 0.20
30 8 0.20
31 11 0.27
ACGTcount: A:0.31, C:0.05, G:0.09, T:0.55
Consensus pattern (31 bp):
TTTTGTTTTATTTTAATTAATATGTGATCAC
Found at i:121347 original size:17 final size:19
Alignment explanation
Indices: 121325--121361 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
121315 GTCCAAACCC
121325 AAAATA-TTAAAA-CTAAA
1 AAAATATTTAAAATCTAAA
121342 AAAATATTTAAAATCTAAA
1 AAAATATTTAAAATCTAAA
121361 A
1 A
121362 CATAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 6 0.33
19 6 0.33
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAATATTTAAAATCTAAA
Found at i:123137 original size:21 final size:22
Alignment explanation
Indices: 123113--123168 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
123103 TATTTTAATG
*
123113 ATTAAAATTAAATTTTTTA-AA
1 ATTAAAATTAAATTATTTATAA
* * *
123134 ATTAAAATCAAGTTATTTATAT
1 ATTAAAATTAAATTATTTATAA
*
123156 ATAAAAATTAAAT
1 ATTAAAATTAAAT
123169 ATTAAATGTA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 16 0.59
22 11 0.41
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
ATTAAAATTAAATTATTTATAA
Found at i:124076 original size:40 final size:40
Alignment explanation
Indices: 124032--124142 Score: 113
Period size: 39 Copynumber: 2.8 Consensus size: 40
124022 AACACATAAG
*
124032 TCAAATTCGCAACACTGAATTTCAAATTCGTAACT-GAATT
1 TCAAATTCGCAA-ACTGAATTTCAAATTCGCAACTCGAATT
* * *
124072 TCAAATTCGC-AACTCAATTTCGAATTCGCAACTCGATTT
1 TCAAATTCGCAAACTGAATTTCAAATTCGCAACTCGAATT
* * *
124111 TCGAATTTGCAAAAC-GAATTT-AATTTCGCAAC
1 TCAAATTCGC-AAACTGAATTTCAAATTCGCAAC
124143 AGGTTTTAGT
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
38 19 0.32
39 22 0.37
40 15 0.25
41 3 0.05
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (40 bp):
TCAAATTCGCAAACTGAATTTCAAATTCGCAACTCGAATT
Found at i:124105 original size:19 final size:19
Alignment explanation
Indices: 123953--124110 Score: 102
Period size: 19 Copynumber: 8.0 Consensus size: 19
123943 AAATGACCAA
* * *
123953 CAAATTCGCAACGCGAACTC
1 CAAATTCGCAACTC-AATTT
* * *
123973 CAATTTCGCAACCCAGTTT
1 CAAATTCGCAACTCAATTT
*
123992 CCAAATTCGCAACACGAATTT
1 -CAAATTCGCAACTC-AATTT
* * **
124013 GTAAA-TCGCAACACATAAGT
1 -CAAATTCGCAACTCA-ATTT
*
124033 CAAATTCGCAACACTGAATTT
1 CAAATTCGC-A-ACTCAATTT
* *
124054 CAAATTCGTAACTGAATTT
1 CAAATTCGCAACTCAATTT
124073 CAAATTCGCAACTCAATTT
1 CAAATTCGCAACTCAATTT
* *
124092 CGAATTCGCAACTCGATTT
1 CAAATTCGCAACTCAATTT
124111 TCGAATTTGC
Statistics
Matches: 110, Mismatches: 22, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
19 49 0.45
20 40 0.36
21 18 0.16
22 3 0.03
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.27
Consensus pattern (19 bp):
CAAATTCGCAACTCAATTT
Found at i:125109 original size:24 final size:24
Alignment explanation
Indices: 125077--125130 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
125067 GTATTCGAAA
125077 TTTGATCTTGGTAAATACCCGGAC
1 TTTGATCTTGGTAAATACCCGGAC
* * *
125101 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTAAATACCCGGAC
125125 TTTGAT
1 TTTGAT
125131 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):
TTTGATCTTGGTAAATACCCGGAC
Found at i:127891 original size:25 final size:25
Alignment explanation
Indices: 127853--127902 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
127843 AAATCAATTA
*
127853 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
127878 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
127903 GAAAATAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:128309 original size:18 final size:18
Alignment explanation
Indices: 128288--128324 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
128278 GTAATTGGAG
128288 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
128306 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
128324 T
1 T
128325 ATATATAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:129486 original size:29 final size:29
Alignment explanation
Indices: 129425--129486 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
129415 ATTTTTTGTT
** ****
129425 GCGATTGTTGCGAAAGTCAAATTCGCGTT
1 GCGATTGTTGCGAAAGTCAAATAAGAAAC
129454 GCGATTGTTGCGAAAGTCAAATAAGAAAC
1 GCGATTGTTGCGAAAGTCAAATAAGAAAC
129483 GCGA
1 GCGA
129487 AATCGTAACG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.24
Consensus pattern (29 bp):
GCGATTGTTGCGAAAGTCAAATAAGAAAC
Found at i:129524 original size:20 final size:20
Alignment explanation
Indices: 129499--129600 Score: 123
Period size: 20 Copynumber: 5.1 Consensus size: 20
129489 TCGTAACGCC
* *
129499 AATTTGAATTTCGCGTTGCG
1 AATTTGACTATCGCGTTGCG
*
129519 AATTTGACTATCGCGTTGCA
1 AATTTGACTATCGCGTTGCG
*
129539 AATTTGACTATCGCGTTGTG
1 AATTTGACTATCGCGTTGCG
*** *
129559 AATTTGACTATCGCAACGTG
1 AATTTGACTATCGCGTTGCG
*
129579 AATTTGACTTTCGCGTTGCG
1 AATTTGACTATCGCGTTGCG
129599 AA
1 AA
129601 AGTGCACTTT
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 69 1.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.36
Consensus pattern (20 bp):
AATTTGACTATCGCGTTGCG
Found at i:129554 original size:40 final size:40
Alignment explanation
Indices: 129488--129600 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 40
129478 GAAACGCGAA
* * *
129488 ATCGTAACGCCAATTTGAATTTCGCGTTGCGAATTTGACT
1 ATCGCAACGCAAATTTGACTTTCGCGTTGCGAATTTGACT
*** * *
129528 ATCGCGTTGCAAATTTGACTATCGCGTTGTGAATTTGACT
1 ATCGCAACGCAAATTTGACTTTCGCGTTGCGAATTTGACT
**
129568 ATCGCAACGTGAATTTGACTTTCGCGTTGCGAA
1 ATCGCAACGCAAATTTGACTTTCGCGTTGCGAA
129601 AGTGCACTTT
Statistics
Matches: 58, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (40 bp):
ATCGCAACGCAAATTTGACTTTCGCGTTGCGAATTTGACT
Found at i:129719 original size:37 final size:37
Alignment explanation
Indices: 129669--129786 Score: 112
Period size: 37 Copynumber: 3.5 Consensus size: 37
129659 CAAATCAACT
129669 TTTACAAATCAATTAAACAAGCAAAAAATAATACTTA
1 TTTACAAATCAATTAAACAAGCAAAAAATAATACTTA
* *
129706 TTTACACATCAATT--A-AA-C---AAATCA-AC-T-
1 TTTACAAATCAATTAAACAAGCAAAAAATAATACTTA
*
129733 TTTACAAATCAATTAAACAAGCAAAAAATAATTCTTA
1 TTTACAAATCAATTAAACAAGCAAAAAATAATACTTA
* **
129770 TTTCCTCATCAATTAAA
1 TTTACAAATCAATTAAA
129787 AAATCAACTT
Statistics
Matches: 63, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
27 13 0.21
28 1 0.02
29 3 0.05
30 7 0.11
31 1 0.02
33 1 0.02
34 7 0.11
35 2 0.03
36 1 0.02
37 27 0.43
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.31
Consensus pattern (37 bp):
TTTACAAATCAATTAAACAAGCAAAAAATAATACTTA
Found at i:129802 original size:63 final size:64
Alignment explanation
Indices: 129657--129813 Score: 271
Period size: 64 Copynumber: 2.5 Consensus size: 64
129647 GAAATTTAAC
129657 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATACTTATTTACACATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATACTTATTTACACATCAATTA
* * *
129721 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATACTTATTTACACATCAATTA
129785 AA-AAATCAACTTTTACAAATCAATGTAAA
1 AACAAATCAACTTTTACAAATCAAT-TAAA
129814 ATTCAATTAA
Statistics
Matches: 89, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
63 22 0.25
64 67 0.75
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.29
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATACTTATTTACACATCAATTA
Found at i:131196 original size:21 final size:21
Alignment explanation
Indices: 131170--131288 Score: 114
Period size: 21 Copynumber: 5.7 Consensus size: 21
131160 GTGAATCGGG
* * *
131170 CTCTTGAACGGTGGGAGGGAC
1 CTCTTGAACGATGAGAGGGGC
* *
131191 CTCTTGAACGATGACAGAGGC
1 CTCTTGAACGATGAGAGGGGC
* * *
131212 CTCTTGAATGGTGGGAGGGGC
1 CTCTTGAACGATGAGAGGGGC
131233 CTCTTGAACGATGAGAGGGGC
1 CTCTTGAACGATGAGAGGGGC
* * *
131254 CTCTTGAATGAT-AGGAGGCGT
1 CTCTTGAACGATGA-GAGGGGC
*
131275 CTCTTGAACAATGA
1 CTCTTGAACGATGA
131289 CAGGTGAATC
Statistics
Matches: 78, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
20 1 0.01
21 76 0.97
22 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGATGAGAGGGGC
Found at i:131229 original size:42 final size:41
Alignment explanation
Indices: 131170--131291 Score: 154
Period size: 42 Copynumber: 2.9 Consensus size: 41
131160 GTGAATCGGG
*
131170 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGAGGC
1 CTCTTGAATGGTGGGAGGG-CCTCTTGAACGATGACAGAGGC
* *
131212 CTCTTGAATGGTGGGAGGGGCCTCTTGAACGATGAGAGGGGC
1 CTCTTGAATGGTGGGA-GGGCCTCTTGAACGATGACAGAGGC
* * * *
131254 CTCTTGAATGATAGGAGGCGTCTCTTGAACAATGACAG
1 CTCTTGAATGGTGGGAGG-GCCTCTTGAACGATGACAG
131292 GTGAATCGGG
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 2 0.03
42 65 0.93
43 3 0.04
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (41 bp):
CTCTTGAATGGTGGGAGGGCCTCTTGAACGATGACAGAGGC
Found at i:133456 original size:20 final size:20
Alignment explanation
Indices: 133431--133512 Score: 114
Period size: 20 Copynumber: 4.2 Consensus size: 20
133421 AAACTTAAAT
133431 TCGCAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
133451 TCGCAACGC-AAACATGAAAA
1 TCGCAACGCGAAA-ATGAAAA
*
133471 TCGTAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
* *
133491 TCGTAACGTGAAAAT-AAAA
1 TCGCAACGCGAAAATGAAAA
133510 TCG
1 TCG
133513 TATTGATATT
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
19 10 0.17
20 45 0.78
21 3 0.05
ACGTcount: A:0.49, C:0.18, G:0.18, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGAAAATGAAAA
Found at i:133543 original size:20 final size:20
Alignment explanation
Indices: 133520--133560 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
133510 TCGTATTGAT
133520 ATTTTCATTTTCGTGTTGCG
1 ATTTTCATTTTCGTGTTGCG
133540 ATTTTCATTTTCGTGTTGCG
1 ATTTTCATTTTCGTGTTGCG
133560 A
1 A
133561 ATTTAAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.12, C:0.15, G:0.20, T:0.54
Consensus pattern (20 bp):
ATTTTCATTTTCGTGTTGCG
Found at i:133571 original size:20 final size:20
Alignment explanation
Indices: 133528--133571 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
133518 ATATTTTCAT
* * *
133528 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGAATTTAAG
133548 TTTCGTGTTGCGAATTTAAG
1 TTTCGTGTTGCGAATTTAAG
133568 TTTC
1 TTTC
133572 AAAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGAATTTAAG
Found at i:133935 original size:22 final size:22
Alignment explanation
Indices: 133898--133955 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
133888 TTTGAGAGAT
133898 GGAGAT-A-GACGGATTTCGCC
1 GGAGATGAGGACGGATTTCGCC
* * * *
133918 GGAGATGGGGATGGATTTTGTC
1 GGAGATGAGGACGGATTTCGCC
133940 GGAGATGAGGACGGAT
1 GGAGATGAGGACGGAT
133956 GTCACCGTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
20 6 0.20
22 24 0.80
ACGTcount: A:0.24, C:0.10, G:0.43, T:0.22
Consensus pattern (22 bp):
GGAGATGAGGACGGATTTCGCC
Found at i:134138 original size:20 final size:20
Alignment explanation
Indices: 134110--134195 Score: 145
Period size: 20 Copynumber: 4.3 Consensus size: 20
134100 TAAACGCGCT
*
134110 TTGCAAATTTGACTTCTGTG
1 TTGCGAATTTGACTTCTGTG
*
134130 TTGCGAATTTAACTTCTGTG
1 TTGCGAATTTGACTTCTGTG
*
134150 TTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGACTTCTGTG
134170 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTCTGTG
134190 TTGCGA
1 TTGCGA
134196 TTTACAAATT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.17, C:0.14, G:0.23, T:0.45
Consensus pattern (20 bp):
TTGCGAATTTGACTTCTGTG
Found at i:134213 original size:40 final size:40
Alignment explanation
Indices: 134110--134260 Score: 123
Period size: 40 Copynumber: 3.8 Consensus size: 40
134100 TAAACGCGCT
* * *
134110 TTGCAAATTTGAC-TTCTGTGTTGCGAATTTAACTTCTGTG
1 TTGCGAATTTGACATTC-GCGTTGCGAATTTGACTTCTGTG
* * *
134150 TTGCGAATTTGACTTTTGTGTTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACATTCGCGTTGCGAATTTGACTTCTGTG
** *
134190 TTGCG-ATTT-ACAAATTCGCGTTGCGAATTTGGA-AACTGGG
1 TTGCGAATTTGAC--ATTCGCGTTGCGAATTT-GACTTCTGTG
* *
134230 TTGCGAAATTGGA-GTTCGCGTTGCGAATTTG
1 TTGCG-AATTTGACATTCGCGTTGCGAATTTG
134261 TTGGTCATTT
Statistics
Matches: 93, Mismatches: 11, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
38 2 0.02
39 5 0.05
40 78 0.84
41 4 0.04
42 3 0.03
43 1 0.01
ACGTcount: A:0.20, C:0.14, G:0.26, T:0.40
Consensus pattern (40 bp):
TTGCGAATTTGACATTCGCGTTGCGAATTTGACTTCTGTG
Found at i:134233 original size:60 final size:60
Alignment explanation
Indices: 134110--134259 Score: 146
Period size: 60 Copynumber: 2.5 Consensus size: 60
134100 TAAACGCGCT
* * * *** *
134110 TTGCAAATTTGACTTCTGTGTTGCGAATTTAACTTCTGTGTTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGACTTCTGTGTTGCGAATTTAAATTCTGCGTTGCGAATTTGACAACTGGG
134170 TTGCGAATTTGACTTCTGTGTTGCG-ATTTACAAATTC-GCGTTGCGAATTTGGA-AACTGGG
1 TTGCGAATTTGACTTCTGTGTTGCGAATTT--AAATTCTGCGTTGCGAATTT-GACAACTGGG
* * *
134230 TTGCGAAATTGGAGTTC-GCGTTGCGAATTT
1 TTGCG-AATTTGACTTCTGTGTTGCGAATTT
134260 GTTGGTCATT
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
59 4 0.05
60 51 0.68
61 20 0.27
ACGTcount: A:0.20, C:0.14, G:0.25, T:0.41
Consensus pattern (60 bp):
TTGCGAATTTGACTTCTGTGTTGCGAATTTAAATTCTGCGTTGCGAATTTGACAACTGGG
Found at i:138700 original size:27 final size:27
Alignment explanation
Indices: 138668--138740 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
138658 ACAAATATCC
* **
138668 ATCACATTAATTTATCTATTGATATTA
1 ATCACATTAATTCAAATATTGATATTA
*
138695 ATCACATTCATTCAAATATTGATATTA
1 ATCACATTAATTCAAATATTGATATTA
* *
138722 ATCATATTCATTCAAATAT
1 ATCACATTAATTCAAATAT
138741 AACATCAACA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.40, C:0.14, G:0.03, T:0.44
Consensus pattern (27 bp):
ATCACATTAATTCAAATATTGATATTA
Found at i:140152 original size:25 final size:24
Alignment explanation
Indices: 140124--140177 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
140114 AAACTACTGT
*
140124 GTAGAATTTTGCACACAAGTGACAC
1 GTAGAA-TATGCACACAAGTGACAC
**
140149 GTAGAATATGCACTGAAGTGACAC
1 GTAGAATATGCACACAAGTGACAC
*
140173 ATAGA
1 GTAGA
140178 TTTGTCCCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (24 bp):
GTAGAATATGCACACAAGTGACAC
Found at i:140223 original size:23 final size:23
Alignment explanation
Indices: 140170--140234 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
140160 ACTGAAGTGA
* **
140170 CACATAGATTTGTCCCAAAGGAC
1 CACATAGAATTGTCCCAAACAAC
* * *
140193 CGCGTAGAATTGTCCTAAACAAC
1 CACATAGAATTGTCCCAAACAAC
*
140216 CACATAGAATTGTCACAAA
1 CACATAGAATTGTCCCAAA
140235 GACCTAGGTA
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.22
Consensus pattern (23 bp):
CACATAGAATTGTCCCAAACAAC
Found at i:146099 original size:23 final size:23
Alignment explanation
Indices: 146071--146147 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
146061 CGAAGTGCCA
*
146071 CATAGATTTGTCCCGAAGGACCG
1 CATAGAATTGTCCCGAAGGACCG
* * * *
146094 CGTAGAATTGTCCCAAAAGACCA
1 CATAGAATTGTCCCGAAGGACCG
*
146117 CATGGAATTGTCCCGAAGGACCG
1 CATAGAATTGTCCCGAAGGACCG
146140 CATAGAAT
1 CATAGAAT
146148 CCCTCTACTC
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.19
Consensus pattern (23 bp):
CATAGAATTGTCCCGAAGGACCG
Found at i:151723 original size:59 final size:59
Alignment explanation
Indices: 151630--151747 Score: 191
Period size: 59 Copynumber: 2.0 Consensus size: 59
151620 GGGTTGTTAG
* *
151630 AGCCATATTATTGAGTTTACCTTTTCATTACGACTAGGAGGGTTCGATAGGACACTTAT
1 AGCCATATTATCGAGTTTACCTTTTCATTACGACTAGGACGGTTCGATAGGACACTTAT
* * *
151689 AGCCATATTATCGAGTTTGCCTTTTCATTGCGACTAGGACGGTTTGATAGGACACTTAT
1 AGCCATATTATCGAGTTTACCTTTTCATTACGACTAGGACGGTTCGATAGGACACTTAT
151748 TTTCCACAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (59 bp):
AGCCATATTATCGAGTTTACCTTTTCATTACGACTAGGACGGTTCGATAGGACACTTAT
Found at i:156855 original size:14 final size:14
Alignment explanation
Indices: 156838--156865 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
156828 ATCATAACAA
156838 AATTATATAACTAT
1 AATTATATAACTAT
156852 AATTATATAACTAT
1 AATTATATAACTAT
156866 TCATTCACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTATATAACTAT
Found at i:159228 original size:3 final size:3
Alignment explanation
Indices: 159220--159244 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
159210 ATAAATGTAA
159220 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
159245 TAACTAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:167845 original size:3 final size:3
Alignment explanation
Indices: 167839--167890 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
167829 CGAGTTTTAA
*
167839 AAT AAT AAT AAT AGT AAT ATAT AAT AAT -AT AAT AAT -AT AA- AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
167882 AA- AAT AAT A
1 AAT AAT AAT A
167891 TATGTATTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
2 8 0.19
3 31 0.74
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:167864 original size:16 final size:15
Alignment explanation
Indices: 167839--167955 Score: 62
Period size: 16 Copynumber: 7.5 Consensus size: 15
167829 CGAGTTTTAA
167839 AATA-ATAATAATAGT
1 AATATATAATAATA-T
167854 AATATATAATAATAT
1 AATATATAATAATAT
*
167869 AATAATATAAAATAAAAT
1 AAT-ATAT--AATAATAT
* *
167887 AATATATGTATTATAT
1 AATATAT-AATAATAT
**
167903 AATATA-AATGCTAT
1 AATATATAATAATAT
* *
167917 -ATAGTATACTAACAT
1 AATA-TATAATAATAT
*
167932 -ATGTACTATATAATAT
1 AATATA-TA-ATAATAT
167948 AATATATA
1 AATATATA
167956 TGTATGCTAT
Statistics
Matches: 77, Mismatches: 16, Indels: 17
0.70 0.15 0.15
Matches are distributed among these distances:
13 3 0.04
14 9 0.12
15 16 0.21
16 31 0.40
17 8 0.10
18 10 0.13
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.38
Consensus pattern (15 bp):
AATATATAATAATAT
Found at i:167888 original size:10 final size:11
Alignment explanation
Indices: 167836--167890 Score: 51
Period size: 10 Copynumber: 4.9 Consensus size: 11
167826 AAACGAGTTT
167836 TAAAATAATAA
1 TAAAATAATAA
*
167847 TAATAGTAATATA
1 TAA-AATAATA-A
167860 TAATAAT-ATAA
1 TAA-AATAATAA
*
167871 TAATATAA-AA
1 TAAAATAATAA
167881 TAAAATAATA
1 TAAAATAATA
167891 TATGTATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
10 11 0.31
11 9 0.25
12 9 0.25
13 7 0.19
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:168061 original size:16 final size:16
Alignment explanation
Indices: 167997--168070 Score: 51
Period size: 16 Copynumber: 4.6 Consensus size: 16
167987 AATAAATAAC
* *
167997 ATAATATATATACTAT
1 ATAATATAAATAATAT
* *
168013 ACAATATAAACAATAT
1 ATAATATAAATAATAT
* ** *
168029 A-ATATGTTTATACTAT
1 ATA-ATATAAATAATAT
168045 ATAATATAAATAATAT
1 ATAATATAAATAATAT
*
168061 ATTATATAAA
1 ATAATATAAA
168071 CAAGGTCAGA
Statistics
Matches: 42, Mismatches: 14, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
15 1 0.02
16 40 0.95
17 1 0.02
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.39
Consensus pattern (16 bp):
ATAATATAAATAATAT
Found at i:179109 original size:17 final size:17
Alignment explanation
Indices: 179087--179121 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
179077 GAATGATAAA
179087 AAAGAGAACAAAAAATG
1 AAAGAGAACAAAAAATG
**
179104 AAAGAGAAGTAAAAATG
1 AAAGAGAACAAAAAATG
179121 A
1 A
179122 TCCTACCCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.20, T:0.09
Consensus pattern (17 bp):
AAAGAGAACAAAAAATG
Found at i:180249 original size:23 final size:23
Alignment explanation
Indices: 180189--180249 Score: 54
Period size: 24 Copynumber: 2.6 Consensus size: 23
180179 TGCAAAAAAA
*
180189 AAAAAATAAAAAAATAAATGGAC
1 AAAAAATAAAAGAATAAATGGAC
* *
180212 ATAAAATTAACAGAATGAAAT-G-C
1 A-AAAAATAAAAGAAT-AAATGGAC
180235 AAAAAATAAATAGAA
1 AAAAAATAAA-AGAA
180250 CGAATTCATG
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
22 7 0.23
23 7 0.23
24 12 0.40
25 4 0.13
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.16
Consensus pattern (23 bp):
AAAAAATAAAAGAATAAATGGAC
Found at i:182838 original size:36 final size:36
Alignment explanation
Indices: 182798--182871 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 36
182788 TTATTTACCA
*
182798 ATAAAATCTAGATTGAGTTGCATGT-AGTGTTTGAGG
1 ATAAAATCTAGATCGAGTTGCAT-TCAGTGTTTGAGG
*
182834 ATAAAATCTAGATCGAGTTGCATTCAGTGTTTGGGG
1 ATAAAATCTAGATCGAGTTGCATTCAGTGTTTGAGG
182870 AT
1 AT
182872 TGATCTTGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 1 0.03
36 34 0.97
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (36 bp):
ATAAAATCTAGATCGAGTTGCATTCAGTGTTTGAGG
Found at i:185801 original size:198 final size:200
Alignment explanation
Indices: 185463--185846 Score: 634
Period size: 198 Copynumber: 1.9 Consensus size: 200
185453 GCACTTAATC
* * *
185463 TTGCCTTGAATAACATTTGTTCGGCAAAACAGTTCGACGGAAATGAGGAAACATATGACTTGTGC
1 TTGCCTTGAATAACATTTGTTCGGCAAAAAAGTTCGACGGAAATGAGGAAACACATGACCTGTGC
* *
185528 CATTGAATTACTAATATTCACGGGGATGCCATACAAATCAATAATTTCATGATGAACCACAACAT
66 CATTGAATTACTAATATTCACGGGGATGCCATACAAATCAACAATTTCATCATGAACCACAACAT
185593 GAGATTGGTAATCTTTCAAAGATTTAGT-C-CTT-AGTTACTTTCAGTTGCCGATACTCGTTTTT
131 GAGATTGGTAATCTTTCAAAGATTTAGTCCTCTTAAGTTACTTTCAG-TGCCGATACTCGTTTTT
185655 CTTCGA
195 CTTCGA
*
185661 TTGCCTTGAATAATATTTGTTCGGCAAAAAA-TGTCGACGGAAATGAGGAAACACATGACCTGTG
1 TTGCCTTGAATAACATTTGTTCGGCAAAAAAGT-TCGACGGAAATGAGGAAACACATGACCTGTG
* *
185725 CCATTGAATTACTAATATTCACGGGGATGCCATA-ATAATCAACAATTTCATCATGAATCATAAC
65 CCATTGAATTACTAATATTCACGGGGATGCCATACA-AATCAACAATTTCATCATGAACCACAAC
185789 ATGAGATTGGTAATCTTTCAAAGATTTAGTCCTCTTAAGTTACTTTCAGTGCCGATAC
129 ATGAGATTGGTAATCTTTCAAAGATTTAGTCCTCTTAAGTTACTTTCAGTGCCGATAC
185847 GCATTTGCTT
Statistics
Matches: 173, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
197 2 0.01
198 146 0.84
199 1 0.01
200 12 0.07
201 12 0.07
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (200 bp):
TTGCCTTGAATAACATTTGTTCGGCAAAAAAGTTCGACGGAAATGAGGAAACACATGACCTGTGC
CATTGAATTACTAATATTCACGGGGATGCCATACAAATCAACAATTTCATCATGAACCACAACAT
GAGATTGGTAATCTTTCAAAGATTTAGTCCTCTTAAGTTACTTTCAGTGCCGATACTCGTTTTTC
TTCGA
Found at i:190056 original size:16 final size:15
Alignment explanation
Indices: 190031--190124 Score: 94
Period size: 16 Copynumber: 6.5 Consensus size: 15
190021 TGAGTTTTAA
190031 AATA-ATAATAATAGT
1 AATATATAATAATA-T
190046 AATATATAATAATAT
1 AATATATAATAATAT
190061 AATATATATATAATAT
1 AATATATA-ATAATAT
*
190077 AATAT-TAATACTAT
1 AATATATAATAATAT
*
190091 -ATA-AT-ATAGTA-
1 AATATATAATAATAT
190102 ACATATAT-ATAATAT
1 A-ATATATAATAATAT
190117 AATATATA
1 AATATATA
190125 TGTATACTAT
Statistics
Matches: 68, Mismatches: 3, Indels: 16
0.78 0.03 0.18
Matches are distributed among these distances:
12 5 0.07
13 7 0.10
14 19 0.28
15 16 0.24
16 21 0.31
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (15 bp):
AATATATAATAATAT
Found at i:190056 original size:19 final size:19
Alignment explanation
Indices: 190032--190124 Score: 92
Period size: 19 Copynumber: 5.2 Consensus size: 19
190022 GAGTTTTAAA
190032 ATAATAATAATAGTAATAT
1 ATAATAATAATAGTAATAT
*
190051 ATAATAAT-ATAATATATAT
1 ATAATAATAATAGTA-ATAT
*
190070 ATAAT-ATAATATTAATACT
1 ATAATAATAATAGTAATA-T
*
190089 AT-ATAAT-ATAGTAACAT
1 ATAATAATAATAGTAATAT
190106 AT-AT-ATAATA-TAATAT
1 ATAATAATAATAGTAATAT
190122 ATA
1 ATA
190125 TGTATACTAT
Statistics
Matches: 63, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
16 9 0.14
17 8 0.13
18 19 0.30
19 27 0.43
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
ATAATAATAATAGTAATAT
Found at i:190064 original size:5 final size:5
Alignment explanation
Indices: 190032--190230 Score: 87
Period size: 5 Copynumber: 38.6 Consensus size: 5
190022 GAGTTTTAAA
190032 ATAAT AATAAT AGTAAT AT-AT AATAAT ATAAT ATATAT ATAAT ATAAT
1 ATAAT -ATAAT A-TAAT ATAAT -ATAAT ATAAT ATA-AT ATAAT ATAAT
*
190080 ATTAAT ACT-AT ATAAT ATAGT A-ACAT AT-AT ATAAT ATAAT AT-AT
1 A-TAAT A-TAAT ATAAT ATAAT ATA-AT ATAAT ATAAT ATAAT ATAAT
* * * * *
190124 AT-GT ATACT ATACCAT ATAAT AAAAT AGTCAAA ATAA- ATAAC ATAAT
1 ATAAT ATAAT ATA--AT ATAAT ATAAT A-T-AAT ATAAT ATAAT ATAAT
* * *
190171 AT-AT ATACTAT ACAAT ATAA- ACT-AT ATAAT ACGCTTAT ATTAT ATAAT
1 ATAAT ATA--AT ATAAT ATAAT A-TAAT ATAAT A---TAAT ATAAT ATAAT
190219 ATAA- ATAAT ATA
1 ATAAT ATAAT ATA
190231 TTTAAACAAG
Statistics
Matches: 154, Mismatches: 14, Indels: 51
0.70 0.06 0.23
Matches are distributed among these distances:
4 30 0.19
5 85 0.55
6 24 0.16
7 11 0.07
8 4 0.03
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:190067 original size:2 final size:2
Alignment explanation
Indices: 190047--190135 Score: 56
Period size: 2 Copynumber: 48.5 Consensus size: 2
190037 AATAATAGTA
190047 AT AT AT A- AT A- AT AT A- AT AT AT AT AT A- AT AT A- AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
190083 A- AT ACT AT AT A- AT AT AGT A- AC AT AT AT AT A- AT AT A- AT AT
1 AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
*
190122 AT AT GT AT ACT AT A
1 AT AT AT AT A-T AT A
190136 CCATATAATA
Statistics
Matches: 70, Mismatches: 3, Indels: 28
0.69 0.03 0.28
Matches are distributed among these distances:
1 11 0.16
2 53 0.76
3 6 0.09
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (2 bp):
AT
Found at i:190125 original size:16 final size:16
Alignment explanation
Indices: 190038--190145 Score: 84
Period size: 16 Copynumber: 6.7 Consensus size: 16
190028 TAAAATAATA
190038 ATAATAGTAATATATA-
1 ATAATA-TAATATATAT
190054 ATAATATAATATATAT
1 ATAATATAATATATAT
190070 ATAATATAATAT-TA-
1 ATAATATAATATATAT
*
190084 ATACTAT-ATA-ATAT
1 ATAATATAATATATAT
*
190098 AGTAACAT-ATATATAAT
1 A-TAATATAATATAT-AT
*
190115 ATAATATATATGTATACT
1 ATAATATA-ATATATA-T
190133 ATACCATATAATA
1 ATA--ATATAATA
190146 AAATAGTCAA
Statistics
Matches: 75, Mismatches: 6, Indels: 19
0.75 0.06 0.19
Matches are distributed among these distances:
13 5 0.07
14 7 0.09
15 18 0.24
16 25 0.33
17 4 0.05
18 9 0.12
19 2 0.03
20 5 0.07
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (16 bp):
ATAATATAATATATAT
Found at i:191599 original size:36 final size:36
Alignment explanation
Indices: 191559--191632 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 36
191549 TTATTTACCA
*
191559 ATAAAATCTAGATTGAGTTGCATGT-AGTGTTTGAGG
1 ATAAAATCTAGATCGAGTTGCAT-TCAGTGTTTGAGG
*
191595 ATAAAATCTAGATCGAGTTGCATTCAGTGTTTGGGG
1 ATAAAATCTAGATCGAGTTGCATTCAGTGTTTGAGG
191631 AT
1 AT
191633 TGATCTTGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 1 0.03
36 34 0.97
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (36 bp):
ATAAAATCTAGATCGAGTTGCATTCAGTGTTTGAGG
Found at i:192705 original size:23 final size:23
Alignment explanation
Indices: 192650--192699 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
192640 AAGTTCTCCA
**
192650 TTTCTCTACGTTTTTCAATTTAT
1 TTTCTCTACCCTTTTCAATTTAT
192673 TTTCTCTACCCTTTTCAATTTAT
1 TTTCTCTACCCTTTTCAATTTAT
192696 TTTC
1 TTTC
192700 ATTACCGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.16, C:0.22, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTCTCTACCCTTTTCAATTTAT
Found at i:198242 original size:11 final size:12
Alignment explanation
Indices: 198226--198254 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
198216 GACACTTTAA
198226 TATTAT-GATTT
1 TATTATGGATTT
198237 TATTATGGATTT
1 TATTATGGATTT
198249 TATTAT
1 TATTAT
198255 TCTAGAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (12 bp):
TATTATGGATTT
Found at i:198362 original size:60 final size:60
Alignment explanation
Indices: 198235--198363 Score: 136
Period size: 60 Copynumber: 2.2 Consensus size: 60
198225 ATATTATGAT
* * ** * * * *
198235 TTTA-TTATGGATTTTATTATTCTAGAGTTAATATTGTGGTTTGAATTTTGATATTTTGG
1 TTTATTTATGGATTTTACTATTCTAAACATAATATTGTGGTTTGAATCTTGAAAATTTGC
* * *
198294 TTTGTTTATGGATTTTACTGTTCTAAACATAATATTGTGGTTTGAGTCTT-AAAATTTGAC
1 TTTATTTATGGATTTTACTATTCTAAACATAATATTGTGGTTTGAATCTTGAAAATTTG-C
198354 TTTATTTATG
1 TTTATTTATG
198364 AATATATATA
Statistics
Matches: 56, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
59 9 0.16
60 47 0.84
ACGTcount: A:0.25, C:0.05, G:0.17, T:0.53
Consensus pattern (60 bp):
TTTATTTATGGATTTTACTATTCTAAACATAATATTGTGGTTTGAATCTTGAAAATTTGC
Found at i:198372 original size:2 final size:2
Alignment explanation
Indices: 198365--198393 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
198355 TTATTTATGA
198365 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
198394 ATTTTAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:204257 original size:44 final size:43
Alignment explanation
Indices: 204192--204274 Score: 139
Period size: 44 Copynumber: 1.9 Consensus size: 43
204182 TAAAGACAAT
*
204192 TTTTCTTAAAAACAAAGTTTGTCTCGCTTGAGACCATTTTCTG
1 TTTTCTTAAAAACAAAGTTTGTCTCGCTTGAGACAATTTTCTG
*
204235 TTTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACAATTT
1 TTTTCT-TAAAAACAAAGTTTGTCTCGCTTGAGACAATTT
204275 CTCTCAAAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
43 6 0.16
44 31 0.84
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (43 bp):
TTTTCTTAAAAACAAAGTTTGTCTCGCTTGAGACAATTTTCTG
Found at i:204284 original size:36 final size:36
Alignment explanation
Indices: 204236--204306 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
204226 CATTTTCTGT
** *
204236 TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACAA
1 TTTCTCTAAAAACAAATTTCATCTAGCTTGAGACAA
*
204272 TTTCTCTCAAAACAAATTTCATCTAGCTTGAGACA
1 TTTCTCTAAAAACAAATTTCATCTAGCTTGAGACA
204307 TTTTTCCCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (36 bp):
TTTCTCTAAAAACAAATTTCATCTAGCTTGAGACAA
Found at i:204699 original size:65 final size:66
Alignment explanation
Indices: 204536--204789 Score: 296
Period size: 65 Copynumber: 3.8 Consensus size: 66
204526 AAACCTTTAT
* * * * *
204536 GATTATTTCTCTTGAAACAAGTGTTGTCTCACTTGAGACAGTTTCTCTTGAAACATGAAAAATCT
1 GATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAT---AAATCT
204601 TTGA
63 TTGA
** * * *
204605 GATTGTTTCTTTTGAAACAAATTTAGTCTCTCTTAAGACAGTTTCGCTTGAAACATAAA-CTTTG
1 GATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAATCTTTG
204669 A
66 A
* * *
204670 GATTGTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACGGTTTCTCTTGAAACAAAAATCTTTG
1 GATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAATCTTTG
204735 A
66 A
* * * * * *
204736 GATTG-TTCCCTCGAAACAAATTTTATATATCTTGAGATAGTTTCTATTGAAACA
1 GATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
204790 AATTATCCCT
Statistics
Matches: 160, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
65 98 0.61
66 14 0.09
69 48 0.30
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (66 bp):
GATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAATCTTTG
A
Found at i:205066 original size:137 final size:135
Alignment explanation
Indices: 204791--205176 Score: 346
Period size: 137 Copynumber: 2.8 Consensus size: 135
204781 ATTGAAACAA
* ** * * *
204791 ATTATCCCTAAAGATGGCCAATTATCCTCATCACGTAGGACCATGTCGTCCATCGACCAGATCTC
1 ATTATCCCTAAAGATGGCAAACCATCCTCATCACGTAGGACCATATCATCCACCGACCAGATCTC
* * * ** * * * *
204856 CTCATGCGTAGGAGCCGCATCACTTTTAGATAGCCAGACTTCCTCATCACGTAGTAACCGTGCTA
66 CTCATACATAGGAGCAGCATCACCCTTAGATAGCCAGAATTCCTCATAACATAGGAACCGTGCTA
204921 TCTAC
131 TCTAC
* *
204926 ATTATCCCTAAAGATGG-AAAGCCATCCTCATCACGTAGGAATCATATCATCCACCGACTAGATC
1 ATTATCCCTAAAGATGGCAAA-CCATCCTCATCACGTAGG-ACCATATCATCCACCGACCAGATC
* ** * *
204990 TCCTCATCACATAGGAGTAGTGTCACCCTTAGATAGCTAGAATTCCTCATAACATAGGAATCGTG
64 TCCTCAT-ACATAGGAGCAGCATCACCCTTAGATAGCCAGAATTCCTCATAACATAGGAACCGTG
*
205055 TTATCTAC
128 CTATCTAC
* * * * * * * *
205063 ATTATCCCTAAAGATAGTCAGA-CGTCCTCATCACGTATGAACCGTGTCATTCACTGACCAGATC
1 ATTATCCCTAAAGAT-GGCAAACCATCCTCATCACGTA-GGACCATATCATCCACCGACCAGATC
* * * * * * *
205127 TCCACAT-CATGTAGGCGCCGCATCATCCTTAGATAACCGGACTTCCTCAT
64 TCCTCATACA--TAGGAGCAGCATCACCCTTAGATAGCCAGAATTCCTCAT
205177 CATTAGATAA
Statistics
Matches: 199, Mismatches: 44, Indels: 14
0.77 0.17 0.05
Matches are distributed among these distances:
134 2 0.01
135 35 0.18
136 26 0.13
137 132 0.66
138 2 0.01
139 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (135 bp):
ATTATCCCTAAAGATGGCAAACCATCCTCATCACGTAGGACCATATCATCCACCGACCAGATCTC
CTCATACATAGGAGCAGCATCACCCTTAGATAGCCAGAATTCCTCATAACATAGGAACCGTGCTA
TCTAC
Done.