Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008755.1 Hibiscus syriacus cultivar Beakdansim tig00111847_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: 3030620
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 14
Found at i:1524431 original size:22 final size:20
Alignment explanation
Indices: 1524406--1524445 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
1524396 AGGGATCCGC
1524406 TAATTATAATTTATAATAATAA
1 TAATTATAA--TATAATAATAA
1524428 TAATTATAATATAATAAT
1 TAATTATAATATAATAAT
1524446 TATTATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TAATTATAATATAATAATAA
Found at i:1524456 original size:20 final size:20
Alignment explanation
Indices: 1524406--1524456 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
1524396 AGGGATCCGC
*
1524406 TAATTATAAT-TTATAATAA
1 TAATTATAATAATATAATAA
* *
1524425 TAATAATTATAATATAATAA
1 TAATTATAATAATATAATAA
*
1524445 TTATTATAATAA
1 TAATTATAATAA
1524457 AATATTTATT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TAATTATAATAATATAATAA
Found at i:1524465 original size:17 final size:17
Alignment explanation
Indices: 1524418--1524466 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
1524408 ATTATAATTT
*
1524418 ATAATAATAATAATTATA
1 ATAA-AATAATTATTATA
*
1524436 ATATAATAATTATTATA
1 ATAAAATAATTATTATA
*
1524453 ATAAAATATTTATT
1 ATAAAATAATTATT
1524467 TCCCGGACAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 24 0.89
18 3 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATAAAATAATTATTATA
Found at i:1524578 original size:198 final size:200
Alignment explanation
Indices: 1524218--1524600 Score: 698
Period size: 198 Copynumber: 1.9 Consensus size: 200
1524208 ATTAATACTA
*
1524218 ATAATAATTATAATTTATAATAATAATAATTATTATAATAAAATATTTATTTCCCAGACAAAACG
1 ATAATAATAATAATTTATAATAATAATAATTATTATAATAAAATATTTATTTCCCAGACAAAACG
*
1524283 GGTGTCTACAGCTGCCCCTCTTTGCCCATTCTTGTGTTAACAAGAATAGGGCAAAGATAAAAAAG
66 GGTGTCTAAAGCTGCCCCTCTTTGCCCATTCTTGTGTTAACAAGAATAGGGCAAAGATAAAAAAG
*
1524348 ACAACGCGTTTTTGTCTAGTTTCATCTCTGTGCTTTTAAAACTTGATAAGGGATCCGCTAATTAT
131 ACAACGCGTTTTTGTCTAGTTCCATCTCTGTGCTTTTAAAACTTGATAAGGGATCCGCTAATTAT
1524413 AATTT
196 AATTT
*
1524418 ATAATAATAATAA-TTATAAT-ATAATAATTATTATAATAAAATATTTATTTCCCGGACAAAACG
1 ATAATAATAATAATTTATAATAATAATAATTATTATAATAAAATATTTATTTCCCAGACAAAACG
*
1524481 GGTGTCTAAAGCTGCCCCTCTTTGCCTATTCTTGTGTTAACAAGAATAGGGCAAAGATAAAAAAG
66 GGTGTCTAAAGCTGCCCCTCTTTGCCCATTCTTGTGTTAACAAGAATAGGGCAAAGATAAAAAAG
*
1524546 ACAACGCTTTTTTGTCTAGTTCCATCTCTGTGCTTTTAAAACTTGATAAGGGATC
131 ACAACGCGTTTTTGTCTAGTTCCATCTCTGTGCTTTTAAAACTTGATAAGGGATC
1524601 TACTCCATCC
Statistics
Matches: 177, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
198 158 0.89
199 7 0.04
200 12 0.07
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (200 bp):
ATAATAATAATAATTTATAATAATAATAATTATTATAATAAAATATTTATTTCCCAGACAAAACG
GGTGTCTAAAGCTGCCCCTCTTTGCCCATTCTTGTGTTAACAAGAATAGGGCAAAGATAAAAAAG
ACAACGCGTTTTTGTCTAGTTCCATCTCTGTGCTTTTAAAACTTGATAAGGGATCCGCTAATTAT
AATTT
Found at i:1524678 original size:37 final size:37
Alignment explanation
Indices: 1524637--1524731 Score: 113
Period size: 37 Copynumber: 2.6 Consensus size: 37
1524627 CAGACTCCAT
* * *
1524637 ATCAATTTGCTTTACTAGTCTTTGGTGAAGACTTAAG
1 ATCAATTTGCTTCACTACTCTTCGGTGAAGACTTAAG
* *
1524674 ATCAATTTGCTTCACTACTCTTCGGTGAAGGCTTGAG
1 ATCAATTTGCTTCACTACTCTTCGGTGAAGACTTAAG
**
1524711 ATGGATTTGC-TCA-TACTCTTC
1 ATCAATTTGCTTCACTACTCTTC
1524732 ACTACTCTTC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
35 8 0.16
36 3 0.06
37 40 0.78
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (37 bp):
ATCAATTTGCTTCACTACTCTTCGGTGAAGACTTAAG
Found at i:1524988 original size:42 final size:42
Alignment explanation
Indices: 1524942--1525034 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
1524932 AAATTACCCA
* * *
1524942 AAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCG
1 AAGGACTTAATCATCATGCTCGAAAGACTTACTAATGGCACG
*
1524984 AAGGACTTCATCATCATGCTCGAAAGACTTACTAATGGCACG
1 AAGGACTTAATCATCATGCTCGAAAGACTTACTAATGGCACG
*
1525026 AAGGGCTTA
1 AAGGACTTA
1525035 CTAAGTGCGA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (42 bp):
AAGGACTTAATCATCATGCTCGAAAGACTTACTAATGGCACG
Found at i:1524990 original size:20 final size:20
Alignment explanation
Indices: 1524962--1525038 Score: 57
Period size: 20 Copynumber: 3.8 Consensus size: 20
1524952 TCATCATGCT
* *
1524962 CGAAAGACTTACTGATGGCC
1 CGAAAGACTTACTAATGGCA
* * *
1524982 CGAAGGACTTCATCATCAT-GCT
1 CGAAAGACTT-A-C-TAATGGCA
1525004 CGAAAGACTTACTAATGGCA
1 CGAAAGACTTACTAATGGCA
* *
1525024 CGAAGGGCTTACTAA
1 CGAAAGACTTACTAA
1525039 GTGCGAAATG
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
19 3 0.07
20 25 0.56
21 2 0.04
22 12 0.27
23 3 0.07
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.22
Consensus pattern (20 bp):
CGAAAGACTTACTAATGGCA
Found at i:1525012 original size:22 final size:21
Alignment explanation
Indices: 1524951--1525014 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 21
1524941 AAAGGATTTA
1524951 ATCATCATGCTCGAAAGACTT
1 ATCATCATGCTCGAAAGACTT
* * *
1524972 A-C-TGATGGCCCGAAGGACTT
1 ATCATCAT-GCTCGAAAGACTT
1524992 CATCATCATGCTCGAAAGACTT
1 -ATCATCATGCTCGAAAGACTT
1525014 A
1 A
1525015 CTAATGGCAC
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
19 3 0.09
20 12 0.36
21 3 0.09
22 12 0.36
23 3 0.09
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (21 bp):
ATCATCATGCTCGAAAGACTT
Found at i:1527934 original size:15 final size:14
Alignment explanation
Indices: 1527910--1527945 Score: 63
Period size: 14 Copynumber: 2.5 Consensus size: 14
1527900 TAATGAGAAA
1527910 GTTCAAAAAAAGAT
1 GTTCAAAAAAAGAT
1527924 GTTCAAAAAAAGAT
1 GTTCAAAAAAAGAT
1527938 GTTGCAAA
1 GTT-CAAA
1527946 TGAAATAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.53, C:0.08, G:0.17, T:0.22
Consensus pattern (14 bp):
GTTCAAAAAAAGAT
Found at i:1533690 original size:4 final size:4
Alignment explanation
Indices: 1533677--1533715 Score: 71
Period size: 4 Copynumber: 10.0 Consensus size: 4
1533667 AATAAAATTG
1533677 CATA -ATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1533716 AAAACGCACC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.09
4 31 0.91
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:1535309 original size:23 final size:23
Alignment explanation
Indices: 1535282--1535360 Score: 86
Period size: 23 Copynumber: 3.4 Consensus size: 23
1535272 GGAGCCGAGC
1535282 TGGAGCATGGGCGTGGGTAACAG
1 TGGAGCATGGGCGTGGGTAACAG
* * * *
1535305 TGGAGAAAGGACATGGGTAACAG
1 TGGAGCATGGGCGTGGGTAACAG
* * * *
1535328 TGGAACACGAGCGTGGGTGACAG
1 TGGAGCATGGGCGTGGGTAACAG
1535351 TGGAGCATGG
1 TGGAGCATGG
1535361 TGCTTCACAT
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.28, C:0.13, G:0.44, T:0.15
Consensus pattern (23 bp):
TGGAGCATGGGCGTGGGTAACAG
Found at i:1535656 original size:22 final size:22
Alignment explanation
Indices: 1535628--1535692 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
1535618 ATATTAATAC
1535628 TAATAATAATTATAATTTATAA
1 TAATAATAATTATAATTTATAA
*
1535650 TAATAATAATTATAATCTAATAA
1 TAATAATAATTATAAT-TTATAA
* * *
1535673 TTATTATAA-TATAATATATA
1 TAATAATAATTATAATTTATA
1535693 TTTCTCGGAC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.08
22 22 0.59
23 12 0.32
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATAATAATTATAATTTATAA
Found at i:1535672 original size:17 final size:17
Alignment explanation
Indices: 1535628--1535688 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
1535618 ATATTAATAC
*
1535628 TAATAATAATTATAATT-
1 TAAT-ATAATAATAATTA
1535645 T-ATAATAATAATAATTA
1 TAAT-ATAATAATAATTA
* *
1535662 TAATCTAATAATTATTA
1 TAATATAATAATAATTA
1535679 TAATATAATA
1 TAATATAATA
1535689 TATATTTCTC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
16 14 0.37
17 22 0.58
18 2 0.05
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATATAATAATAATTA
Found at i:1535686 original size:14 final size:15
Alignment explanation
Indices: 1535630--1535692 Score: 67
Period size: 14 Copynumber: 4.2 Consensus size: 15
1535620 ATTAATACTA
*
1535630 ATAATAATTATAATTT
1 ATAATAATAATAA-TT
1535646 ATAATAATAATAATT
1 ATAATAATAATAATT
*
1535661 ATAAT-CTAATAATT
1 ATAATAATAATAATT
*
1535675 ATTATAAT-ATAATAT
1 ATAATAATAATAAT-T
1535690 ATA
1 ATA
1535693 TTTCTCGGAC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
14 17 0.43
15 11 0.28
16 12 0.30
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAATAATAATT
Found at i:1536990 original size:81 final size:81
Alignment explanation
Indices: 1536892--1537303 Score: 565
Period size: 81 Copynumber: 5.1 Consensus size: 81
1536882 ATGTTTTAAA
*
1536892 TAAAAGATTAATGGCCTAGTTTTGCATTTGACAGAAATGTGTCAATTATGCTAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGTTATGCATTTGACAGAAATGTGTCAATTATGCTAGTTAGATGAAAG
* *
1536957 GTTAAATAACTTTGTG
66 GTTAAATACCTTTGAG
* *
1536973 TAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATG-TCAGTTAGATGAAA
1 TAAAAGATTAATGGCCTAGTTATGCATTTGACAGAAATGTGTCAATTATGCT-AGTTAGATGAAA
* *
1537037 TGTTAAATACTTTTGAG
65 GGTTAAATACCTTTGAG
* * * * * *
1537054 TAAAAGATTAATGGTCTAGCTATGCATCTGACAGAAAAGTGTCAATTATGCCAGTTGGATGAAAG
1 TAAAAGATTAATGGCCTAGTTATGCATTTGACAGAAATGTGTCAATTATGCTAGTTAGATGAAAG
1537119 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * * * *
1537135 TAAAATATTAATGGCCTACTTGTGCATTTGAAAGAAATATGTCATTTATGCTAGTTACATGAAAG
1 TAAAAGATTAATGGCCTAGTTATGCATTTGACAGAAATGTGTCAATTATGCTAGTTAGATGAAAG
1537200 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
1537216 TAAAAGATTAATGGCCTAGTTATGCATTTGACAGAAAGGTTTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGTTATGCATTTGACAGAAATGTGTCAATTATGCTAGTTAGATGAAAG
* * *
1537281 GCTAAATTCCTTTGGG
66 GTTAAATACCTTTGAG
1537297 TAAAAGA
1 TAAAAGA
1537304 ATAAATGTTT
Statistics
Matches: 288, Mismatches: 41, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
80 1 0.00
81 287 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (81 bp):
TAAAAGATTAATGGCCTAGTTATGCATTTGACAGAAATGTGTCAATTATGCTAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:1538863 original size:23 final size:23
Alignment explanation
Indices: 1538837--1538926 Score: 108
Period size: 23 Copynumber: 3.9 Consensus size: 23
1538827 GTGCCACGTC
*
1538837 TTTGTCCCAAAGGACCACATAGT
1 TTTGTCCCAAAGGACCACATAGG
** * * *
1538860 TTTGTATCGAAGGAACACAAAGG
1 TTTGTCCCAAAGGACCACATAGG
*
1538883 ATTGTCCCAAAGGACCACATAGG
1 TTTGTCCCAAAGGACCACATAGG
*
1538906 TTTGTCCCGAAGGACCACATA
1 TTTGTCCCAAAGGACCACATA
1538927 AAACCCTTGA
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 53 1.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.22
Consensus pattern (23 bp):
TTTGTCCCAAAGGACCACATAGG
Found at i:1542109 original size:17 final size:17
Alignment explanation
Indices: 1542087--1542122 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
1542077 ATAAAGTTCA
*
1542087 TCCATACTTATTTTGTT
1 TCCATACTTATTTCGTT
1542104 TCCATACTTATTTCGTT
1 TCCATACTTATTTCGTT
1542121 TC
1 TC
1542123 TAAGCCCACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.22, G:0.06, T:0.56
Consensus pattern (17 bp):
TCCATACTTATTTCGTT
Found at i:1549188 original size:62 final size:62
Alignment explanation
Indices: 1549066--1549188 Score: 176
Period size: 62 Copynumber: 2.0 Consensus size: 62
1549056 ACTCAAAGTT
* * * * *
1549066 ACATAACAATGTCAAAATGAATATTTAAGTAACATATATTTAAATGACAACAAGTTTATTTA
1 ACATAACAATGGCAAAATAAATATTTAAGAAACATATATTTAAATAACAACAAGTATATTTA
*
1549128 ACATAACAATGGCAGAATAAATATTTAAGAAACATATATTTAAATAACAACCAA-TATATTT
1 ACATAACAATGGCAAAATAAATATTTAAGAAACATATATTTAAATAACAA-CAAGTATATTT
1549189 GATAACATGT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
62 51 0.94
63 3 0.06
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.32
Consensus pattern (62 bp):
ACATAACAATGGCAAAATAAATATTTAAGAAACATATATTTAAATAACAACAAGTATATTTA
Found at i:1550593 original size:25 final size:25
Alignment explanation
Indices: 1550549--1550598 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
1550539 ATTGTTTAAA
*
1550549 TTATATTTGTTGATCAAGTCTATGT
1 TTATATTTGTTGATCAAGTCAATGT
*
1550574 TTATATTATGTTG-TCCAGTCAATGT
1 TTATATT-TGTTGATCAAGTCAATGT
1550599 CTGAGACATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.24, C:0.10, G:0.16, T:0.50
Consensus pattern (25 bp):
TTATATTTGTTGATCAAGTCAATGT
Found at i:1551433 original size:2 final size:2
Alignment explanation
Indices: 1551426--1551460 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1551416 AACAGAAATA
1551426 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1551461 ACAAACGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1565336 original size:21 final size:21
Alignment explanation
Indices: 1565310--1565354 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1565300 GATTTCTGGG
* *
1565310 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1565331 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1565352 CAA
1 CAA
1565355 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1566169 original size:31 final size:31
Alignment explanation
Indices: 1566131--1566284 Score: 256
Period size: 31 Copynumber: 5.0 Consensus size: 31
1566121 GGGTCGAGGG
1566131 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
1566162 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
1566193 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
1566224 TTACCTATGTCCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
1566255 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
1566285 GTCCTTCGGG
Statistics
Matches: 117, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
31 116 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:1568058 original size:36 final size:35
Alignment explanation
Indices: 1567938--1568074 Score: 157
Period size: 35 Copynumber: 3.9 Consensus size: 35
1567928 GTTTTTCTCG
* *
1567938 AAACACAATTTTGTTTCGCTTGAGACAGTTTTATAA
1 AAACA-AATTTTGTCTCGCTTGAGACAATTTTATAA
* * *
1567974 AAACAAATTTTGTCTTGCATGAGACAGTTTTATAA
1 AAACAAATTTTGTCTCGCTTGAGACAATTTTATAA
* * *
1568009 AAACAAATTTTGTCTCGTTTGAGACAATTTCTCTCA
1 AAACAAATTTTGTCTCGCTTGAGACAATTT-TATAA
* * *
1568045 AAATAAATTTTGTCTCACTTGATACAATTT
1 AAACAAATTTTGTCTCGCTTGAGACAATTT
1568075 ATCTCGGAAT
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
35 53 0.61
36 34 0.39
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (35 bp):
AAACAAATTTTGTCTCGCTTGAGACAATTTTATAA
Found at i:1568076 original size:70 final size:71
Alignment explanation
Indices: 1567938--1568076 Score: 156
Period size: 71 Copynumber: 2.0 Consensus size: 71
1567928 GTTTTTCTCG
* * ** *
1567938 AAACACAATTTTGTTTCGCTTGAGACAGTTTTATAAAAACAAATTTTGTCTTGCATGAGACAGTT
1 AAACACAATTTTGTCTCGCTTGAGACAATTTTATAAAAACAAATTTTGTCTCACATGAGACAGAT
1568003 TTATAA
66 TTATAA
* * * * * *
1568009 AAACA-AATTTTGTCTCGTTTGAGACAATTTCTCTCAAAATAAATTTTGTCTCACTTGATACA-A
1 AAACACAATTTTGTCTCGCTTGAGACAATTT-TATAAAAACAAATTTTGTCTCACATGAGACAGA
1568072 TTTAT
65 TTTAT
1568077 CTCGGAATAC
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
70 27 0.48
71 29 0.52
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.40
Consensus pattern (71 bp):
AAACACAATTTTGTCTCGCTTGAGACAATTTTATAAAAACAAATTTTGTCTCACATGAGACAGAT
TTATAA
Found at i:1568395 original size:66 final size:63
Alignment explanation
Indices: 1568219--1568412 Score: 190
Period size: 66 Copynumber: 2.9 Consensus size: 63
1568209 AAAATTTATA
* * * * *
1568219 ATCTTCGAGTATGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACCGTTTCTCATGAAACACC
1 ATCTTTGAGT-TGTTTCCCTTGAAAC-AA-TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACC
1568284 C
63 C
* * * * *
1568285 ATCTTTGAGATTGTTTCCCTCGAAATGAATGTTGTTTCTATTGAGACAATTTCTCTTGAAACACA
1 ATCTTTGAG-TTGTTTCCCTTGAAA-CAAT-TTGTCTCTCTTGAGACAGTTTCTCTTGAAACAC-
*
1568350 TC
62 CC
* *
1568352 ATCTTTGAGTCTGTTTCCCTTGAAACAAGTTTGTCTCTCTTGAGACGGTTTCTCTTCAAAC
1 ATCTTTGAGT-TGTTTCCCTTGAAACAA-TTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC
1568413 CAAAATCCCT
Statistics
Matches: 104, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
65 1 0.01
66 78 0.75
67 25 0.24
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (63 bp):
ATCTTTGAGTTGTTTCCCTTGAAACAATTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACCC
Found at i:1568755 original size:134 final size:131
Alignment explanation
Indices: 1568472--1568774 Score: 367
Period size: 134 Copynumber: 2.3 Consensus size: 131
1568462 TCCTCTGACT
* * * * *
1568472 AGATCTCCTCATCACGTAGGAGCCGTGTCACCCCTAGATAATTAGCCGTCTTCATCATGTAGGAA
1 AGATCTCCTCATCACGTAGGAGCTGTGTCACCCCTAGATAATCAGCCATCCTCATCATATAGGAA
* ** * *
1568537 TCGTGTTATCATCCCTAAAGATAGCTTGCCATCCTTATCGCATAGGAACCGTGTCATCCATCGAC
66 CCGTGTTATCATCCCTAAAGATAGCTAACCATCCTCATCGCATAGGAACCGTGTCATCCACCGAC
1568602 C
131 C
* * *
1568603 AGACCTCCTCATCACGTAGGAGTTGTGTCACCCCTAGATAATCAGTCATCCTCATCGA-ATAGGA
1 AGATCTCCTCATCACGTAGGAGCTGTGTCACCCCTAGATAATCAGCCATCCTCATC-ATATAGGA
* * * *
1568667 ACCGTGTTATCACCCTCCCTAAAGAT-GGTCAACCATCCTCATTGCGTAGGAACTGTGTCATCCA
65 ACCGTGTTATCA---TCCCTAAAGATAGCT-AACCATCCTCATCGCATAGGAACCGTGTCATCCA
1568731 CCGACC
126 CCGACC
* * *
1568737 ATATCTCATCATCACGTAGGAGCTGTGTCACCCATAGA
1 AGATCTCCTCATCACGTAGGAGCTGTGTCACCCCTAGA
1568775 CGACCAAAAC
Statistics
Matches: 145, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
131 65 0.45
132 1 0.01
133 2 0.01
134 77 0.53
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (131 bp):
AGATCTCCTCATCACGTAGGAGCTGTGTCACCCCTAGATAATCAGCCATCCTCATCATATAGGAA
CCGTGTTATCATCCCTAAAGATAGCTAACCATCCTCATCGCATAGGAACCGTGTCATCCACCGAC
C
Found at i:1572186 original size:98 final size:99
Alignment explanation
Indices: 1572010--1572188 Score: 299
Period size: 98 Copynumber: 1.8 Consensus size: 99
1572000 AGTAATTATT
* * *
1572010 AAAATATCACCTTTTTATTTAAAAATATTTTTTCTAATATTAATTTTAAAAAATATAAAATAAAT
1 AAAATATCAACTCTTTATTTAAAAATATTATTTCTAATATTAATTTTAAAAAATATAAAATAAAT
*
1572075 ATTAAATTCTAATGAAAAAGGATGTAAAGCTAAA
66 ATTAAAATCTAATGAAAAAGGATGTAAAGCTAAA
1572109 AAAATATCAACTCTTTATTT-AAAATATTATTTCTAATATTAATTTTAAAAAATATAAAATAAAT
1 AAAATATCAACTCTTTATTTAAAAATATTATTTCTAATATTAATTTTAAAAAATATAAAATAAAT
1572173 ATTAATAAT-TAATGAA
66 ATTAA-AATCTAATGAA
1572189 TAATAATTCA
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
98 55 0.73
99 20 0.27
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (99 bp):
AAAATATCAACTCTTTATTTAAAAATATTATTTCTAATATTAATTTTAAAAAATATAAAATAAAT
ATTAAAATCTAATGAAAAAGGATGTAAAGCTAAA
Found at i:1573391 original size:3 final size:3
Alignment explanation
Indices: 1573383--1573409 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1573373 GTTACTCAAT
1573383 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1573410 TAAATATACA
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):
ATA
Found at i:1573654 original size:17 final size:16
Alignment explanation
Indices: 1573626--1573657 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
1573616 TGGGATCATA
1573626 ATATTAATTTTATATT
1 ATATTAATTTTATATT
1573642 ATATTATATTTTATAT
1 ATATTA-ATTTTATAT
1573658 AAATAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATATTAATTTTATATT
Found at i:1573841 original size:22 final size:22
Alignment explanation
Indices: 1573798--1573861 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
1573788 ATTTATAATT
*
1573798 TAATATTAAT-TTAATTTTTTTA
1 TAAT-TTAATATTAAATTTTTTA
* *
1573820 TAAATTT-TTATTCAATTTTTTA
1 T-AATTTAATATTAAATTTTTTA
1573842 TAATTTAATATTAAATTTTT
1 TAATTTAATATTAAATTTTT
1573862 ACTTGTTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 6 0.18
22 25 0.74
23 3 0.09
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TAATTTAATATTAAATTTTTTA
Found at i:1573862 original size:21 final size:22
Alignment explanation
Indices: 1573814--1573862 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
1573804 TAATTTAATT
* *
1573814 TTTTTATAAATTTTTATTCAAT
1 TTTTTATAAATTTATATTCAAA
1573836 TTTTTAT-AATTTAATATT-AAA
1 TTTTTATAAATTT-ATATTCAAA
1573857 TTTTTA
1 TTTTTA
1573863 CTTGTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTTTATAAATTTATATTCAAA
Found at i:1573992 original size:16 final size:17
Alignment explanation
Indices: 1573972--1574019 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
1573962 AACATTCTTA
1573972 AAATAATATTATATCTC
1 AAATAATATTATATCTC
*
1573989 -AATAATTTTAT-TCTC
1 AAATAATATTATATCTC
1574004 AAATATAATATTATAT
1 -AA-ATAATATTATAT
1574020 TCTATAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 4 0.16
16 10 0.40
17 1 0.04
18 9 0.36
19 1 0.04
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (17 bp):
AAATAATATTATATCTC
Found at i:1575156 original size:21 final size:21
Alignment explanation
Indices: 1575132--1575172 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1575122 TAAAAATTAC
* *
1575132 TTAAAATATTATTATTTTTAT
1 TTAAAACATTAATATTTTTAT
*
1575153 TTAAAACATTAATGTTTTTA
1 TTAAAACATTAATATTTTTA
1575173 ATATTTTCAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
TTAAAACATTAATATTTTTAT
Found at i:1577039 original size:14 final size:13
Alignment explanation
Indices: 1577011--1577044 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
1577001 GATATCAAAT
1577011 ATATTATAGTATA
1 ATATTATAGTATA
*
1577024 ATATTATATTTATA
1 ATATTATA-GTATA
1577038 ATATTAT
1 ATATTAT
1577045 TATATAGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (13 bp):
ATATTATAGTATA
Found at i:1577050 original size:27 final size:26
Alignment explanation
Indices: 1577011--1577066 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 26
1577001 GATATCAAAT
1577011 ATATTATAGTATA-ATATTATATTTATA
1 ATATTATAGTATACAT-TTATATTT-TA
1577038 ATATTATTA-TATAGCATTTATATTTTA
1 ATATTA-TAGTATA-CATTTATATTTTA
1577065 AT
1 AT
1577067 TATAGTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
27 14 0.54
28 10 0.38
29 2 0.08
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.54
Consensus pattern (26 bp):
ATATTATAGTATACATTTATATTTTA
Found at i:1578083 original size:26 final size:25
Alignment explanation
Indices: 1578045--1578128 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 25
1578035 ATTCACGTGT
*
1578045 TTTTTTTTA-TTTTGCTGTATTTAA
1 TTTTTTTTATTTTTACTGTATTTAA
* * *
1578069 TTTTTTATTATTTTTATTTTATTTTA
1 TTTTTT-TTATTTTTACTGTATTTAA
*
1578095 TTTATTTTTATTTTTAATGTTAATTTTAA
1 TTT-TTTTTATTTTTACTG-T-A-TTTAA
1578124 TTTTT
1 TTTTT
1578129 AAGGAATCAA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
24 6 0.13
25 3 0.06
26 24 0.51
27 4 0.09
28 3 0.06
29 7 0.15
ACGTcount: A:0.20, C:0.01, G:0.04, T:0.75
Consensus pattern (25 bp):
TTTTTTTTATTTTTACTGTATTTAA
Found at i:1578099 original size:20 final size:19
Alignment explanation
Indices: 1578071--1578108 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
1578061 GTATTTAATT
1578071 TTTTATTATTTTTATTTTA
1 TTTTATTATTTTTATTTTA
1578090 TTTTATTTATTTTTATTTT
1 TTTTA-TTATTTTTATTTT
1578109 TAATGTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTATTATTTTTATTTTA
Found at i:1578104 original size:10 final size:10
Alignment explanation
Indices: 1578070--1578107 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
1578060 TGTATTTAAT
1578070 TTTTTA-TTA
1 TTTTTATTTA
1578079 TTTTTATTT-
1 TTTTTATTTA
1578088 TATTTTATTTA
1 T-TTTTATTTA
1578099 TTTTTATTT
1 TTTTTATTT
1578108 TTAATGTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 7 0.27
10 18 0.69
11 1 0.04
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:1580784 original size:105 final size:106
Alignment explanation
Indices: 1580645--1580997 Score: 539
Period size: 106 Copynumber: 3.3 Consensus size: 106
1580635 TCGATGACAA
1580645 AAACTTTTCAGTGATATATCATTTCATTTCAGAAAAACGTCATTTTCTCATAGACCATTTAATGC
1 AAACTTTTCAGTGATATATCATTTCATTTCAGAAAAACGTCATTTTCTCATAGACCATTTAATGC
1580710 ACAATG-AAAAAACTTTCAGTGCCCAATTAATTCACTTTAG
66 ACAATGAAAAAAACTTTCAGTGCCCAATTAATTCACTTTAG
* * * *
1580750 AAACTGTTCAGTGATATATCATTTCATTTTAGAAAAACGTTATTTTCTCATAGACCATTTAATGT
1 AAACTTTTCAGTGATATATCATTTCATTTCAGAAAAACGTCATTTTCTCATAGACCATTTAATGC
** *
1580815 ACAATGAAAAAAAAAATTCAGTTCCCAATTAATTCACTTTAG
66 ACAATG-AAAAAAACTTTCAGTGCCCAATTAATTCACTTTAG
* * * *
1580857 AGACTTTTCAGTGATATATCATTTCATTTTAG-AAAACGTCATTTTCTCATATATCATTTAATGC
1 AAACTTTTCAGTGATATATCATTTCATTTCAGAAAAACGTCATTTTCTCATAGACCATTTAATGC
* *
1580921 ACAATGAAAAAAACTTTTTAGTGCCCAATTACTTCACTTTAG
66 ACAATGAAAAAAAC-TTTCAGTGCCCAATTAATTCACTTTAG
* *
1580963 AAACTTTTCAGTGATATATAACTTCATTTCAGAAA
1 AAACTTTTCAGTGATATATCATTTCATTTCAGAAA
1580998 CTTTTCAGCG
Statistics
Matches: 222, Mismatches: 22, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
105 74 0.33
106 85 0.38
107 63 0.28
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (106 bp):
AAACTTTTCAGTGATATATCATTTCATTTCAGAAAAACGTCATTTTCTCATAGACCATTTAATGC
ACAATGAAAAAAACTTTCAGTGCCCAATTAATTCACTTTAG
Found at i:1580987 original size:32 final size:31
Alignment explanation
Indices: 1580951--1581029 Score: 122
Period size: 32 Copynumber: 2.5 Consensus size: 31
1580941 GTGCCCAATT
*
1580951 ACTTCACTTTAGAAACTTTTCAGTGATATATA
1 ACTTCA-TTTAGAAACTTTTCAGCGATATATA
1580983 ACTTCATTTCAGAAACTTTTCAGCGATATATA
1 ACTTCATTT-AGAAACTTTTCAGCGATATATA
1581015 ACTTCATTGTAGAAA
1 ACTTCATT-TAGAAA
1581030 AACTTCATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
31 3 0.07
32 40 0.91
33 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (31 bp):
ACTTCATTTAGAAACTTTTCAGCGATATATA
Found at i:1585902 original size:7 final size:6
Alignment explanation
Indices: 1585892--1586002 Score: 56
Period size: 6 Copynumber: 18.3 Consensus size: 6
1585882 AGTTCAAATC
*
1585892 AAAGCAA AAAGAA AAA-AA GAAAGAA AGAA-AA AAA-AA GAAA-AA ATAGAA
1 AAAG-AA AAAGAA AAAGAA -AAAGAA A-AAGAA AAAGAA -AAAGAA AAAGAA
* * * *
1585940 CAAAGAA AAA-AGA AAAGAGC AAAGAA AAAAAA AAACAG AAAG-- AAAGAA
1 -AAAGAA AAAGA-A AAAGA-A AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
1585988 AAAGAA GAAAGAA AA
1 AAAGAA -AAAGAA AA
1586003 TGTATCAAGA
Statistics
Matches: 85, Mismatches: 8, Indels: 23
0.73 0.07 0.20
Matches are distributed among these distances:
4 4 0.05
5 9 0.11
6 46 0.54
7 26 0.31
ACGTcount: A:0.79, C:0.04, G:0.16, T:0.01
Consensus pattern (6 bp):
AAAGAA
Found at i:1585916 original size:4 final size:4
Alignment explanation
Indices: 1585899--1586001 Score: 69
Period size: 4 Copynumber: 26.8 Consensus size: 4
1585889 ATCAAAGCAA
* * *
1585899 AAAG AAAA AAAG AAAG AAAG AAA- AAA- AAAG AAA- AAAT AGAAC AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG A-AAG AAAG
* *
1585945 AAA- AAAG AAA- AGAG CAAAG AAA- AAA- AAA- AACAG AAAG AAAG AAAA
1 AAAG AAAG AAAG AAAG -AAAG AAAG AAAG AAAG AA-AG AAAG AAAG AAAG
1585990 AGAAG AAAG AAA
1 A-AAG AAAG AAA
1586002 ATGTATCAAG
Statistics
Matches: 82, Mismatches: 8, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
3 22 0.27
4 49 0.60
5 11 0.13
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.01
Consensus pattern (4 bp):
AAAG
Found at i:1585939 original size:19 final size:17
Alignment explanation
Indices: 1585897--1586002 Score: 70
Period size: 18 Copynumber: 6.1 Consensus size: 17
1585887 AAATCAAAGC
*
1585897 AAAAAGAAAAAAAGAAA
1 AAAAAAAAAAAAAGAAA
*
1585914 GAAAGAAAAAAAAAG-AA
1 -AAAAAAAAAAAAAGAAA
* * *
1585931 AAAATAGAACAAAGAAA
1 AAAAAAAAAAAAAGAAA
**
1585948 AAAGAAAAGAGCAAAGAAA
1 AAA-AAAA-AAAAAAGAAA
*
1585967 AAAAAAAACAGAAAGAAA
1 AAAAAAAA-AAAAAGAAA
* * *
1585985 GAAAAAGAAGAAAGAAA
1 AAAAAAAAAAAAAGAAA
1586002 A
1 A
1586003 TGTATCAAGA
Statistics
Matches: 70, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
16 10 0.14
17 17 0.24
18 31 0.44
19 12 0.17
ACGTcount: A:0.80, C:0.03, G:0.16, T:0.01
Consensus pattern (17 bp):
AAAAAAAAAAAAAGAAA
Found at i:1585964 original size:49 final size:47
Alignment explanation
Indices: 1585891--1586002 Score: 138
Period size: 49 Copynumber: 2.3 Consensus size: 47
1585881 AAGTTCAAAT
*
1585891 CAAAGCAAAAAGAAAAAAAGAAAGAAAGAAAAAAAA-AGAAAAAATAGAA
1 CAAAGAAAAAAG-AAAAAAGAAAGAAA-AAAAAAAACAGAAAAAA-AGAA
* *
1585940 CAAAGAAAAAAGAAAAGAGCAAAGAAAAAAAAAAACAGAAAGAAAGAA
1 CAAAGAAAAAAGAAAAAAG-AAAGAAAAAAAAAAACAGAAAAAAAGAA
*
1585988 -AAAGAAGAAAGAAAA
1 CAAAGAAAAAAGAAAA
1586003 TGTATCAAGA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
47 14 0.25
48 18 0.32
49 25 0.44
ACGTcount: A:0.79, C:0.04, G:0.16, T:0.01
Consensus pattern (47 bp):
CAAAGAAAAAAGAAAAAAGAAAGAAAAAAAAAAACAGAAAAAAAGAA
Found at i:1585968 original size:41 final size:41
Alignment explanation
Indices: 1585912--1586002 Score: 100
Period size: 40 Copynumber: 2.3 Consensus size: 41
1585902 GAAAAAAAGA
*
1585912 AAGAAAGAAAAAAAAAGAAAAAATAG-AACAAAGAAAAAAGA
1 AAGAAAGAAAAAAAAA-AAAAAACAGAAACAAAGAAAAAAGA
* * *
1585953 AA-AGAGCAAAGAAAAAAAAAAACAGAAAGAAAG-AAAAAG-
1 AAGAAAG-AAAAAAAAAAAAAAACAGAAACAAAGAAAAAAGA
1585992 AAGAAAGAAAA
1 AAGAAAGAAAA
1586003 TGTATCAAGA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
39 5 0.12
40 20 0.49
41 16 0.39
ACGTcount: A:0.79, C:0.03, G:0.16, T:0.01
Consensus pattern (41 bp):
AAGAAAGAAAAAAAAAAAAAAACAGAAACAAAGAAAAAAGA
Found at i:1587553 original size:23 final size:24
Alignment explanation
Indices: 1587534--1587602 Score: 69
Period size: 22 Copynumber: 3.1 Consensus size: 24
1587524 CAACTTTTTT
1587534 TAAT-AATAAAAAAATTC-TTTAA
1 TAATCAATAAAAAAATTCTTTTAA
*
1587556 TATTCAATAAAAAAATTC-TTTAA
1 TAATCAATAAAAAAATTCTTTTAA
*
1587579 -AAT-ATATTAAAAAATTC-TTTAA
1 TAATCA-ATAAAAAAATTCTTTTAA
1587601 TA
1 TA
1587603 TATATTAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
21 1 0.02
22 21 0.51
23 19 0.46
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (24 bp):
TAATCAATAAAAAAATTCTTTTAA
Found at i:1587590 original size:22 final size:22
Alignment explanation
Indices: 1587542--1587612 Score: 99
Period size: 22 Copynumber: 3.2 Consensus size: 22
1587532 TTTAATAATA
*
1587542 AAAAAATTCTTTAATAT-TCAATA
1 AAAAAATTCTTTAATATAT--ATT
*
1587565 AAAAAATTCTTTAAAATATATT
1 AAAAAATTCTTTAATATATATT
1587587 AAAAAATTCTTTAATATATATT
1 AAAAAATTCTTTAATATATATT
1587609 AAAA
1 AAAA
1587613 GACATTTTCT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
22 27 0.61
23 16 0.36
24 1 0.02
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAAAATTCTTTAATATATATT
Found at i:1589494 original size:2 final size:2
Alignment explanation
Indices: 1589487--1589535 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
1589477 TAGATATTAC
1589487 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
1589529 AT AT AT A
1 AT AT AT A
1589536 GTTTGAGCAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1591644 original size:194 final size:194
Alignment explanation
Indices: 1591287--1591645 Score: 459
Period size: 194 Copynumber: 1.9 Consensus size: 194
1591277 GTGTTTTGCT
* ***
1591287 ACAATATCTATTTCGTCACGTATAAGTTGATTTTAATGCATTAATTGTGACAATATAAATTATCA
1 ACAATATCTATTTCGTCACATATAAGTTGATTTTAATGCATTAATCACGACAATATAAATTATCA
** *
1591352 ATAACGAAATCTTATTTAATTTAGTGACGTAACCAACTGTCATAGAATATAAATTATAAAGTGAC
66 ATAACGAAATCTTACATAATTTAGTGACATAACCAACTGTCATAGAATATAAATTATAAAGTGAC
* * * *
1591417 GTTATGCATAGACGTCATTCATAATATTATTAGGTAACATTTGTATTATGTCACTAAAAATGTG
131 GTTATACATAAACGTCATCCATAATACTATTAGGTAACATTTGTATTATGTCACTAAAAATGTG
* * * *
1591481 ACAATATCTCTTTCGTCACATATAGGTTGATTTTAATGTATT-ATCCACGACGATATAAATTATC
1 ACAATATCTATTTCGTCACATATAAGTTGATTTTAATGCATTAAT-CACGACAATATAAATTATC
* ** ** * * *
1591545 AATAACGAAATTTTACATAATTTAGTGACATAATTAGTTGTCATTGAATATTAATTATATAGTGA
65 AATAACGAAATCTTACATAATTTAGTGACATAACCAACTGTCATAGAATATAAATTATAAAGTGA
* * **
1591610 CGTTATATATAAATGTCATCCATGCTACTATTAGGT
130 CGTTATACATAAACGTCATCCATAATACTATTAGGT
1591646 GACGATATAC
Statistics
Matches: 137, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
193 2 0.01
194 135 0.99
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (194 bp):
ACAATATCTATTTCGTCACATATAAGTTGATTTTAATGCATTAATCACGACAATATAAATTATCA
ATAACGAAATCTTACATAATTTAGTGACATAACCAACTGTCATAGAATATAAATTATAAAGTGAC
GTTATACATAAACGTCATCCATAATACTATTAGGTAACATTTGTATTATGTCACTAAAAATGTG
Found at i:1592546 original size:44 final size:44
Alignment explanation
Indices: 1592477--1592566 Score: 144
Period size: 44 Copynumber: 2.0 Consensus size: 44
1592467 TATCGGAGCA
* *
1592477 AGAAATGATAAATGTTGGGGAATTTTTTAAGGCCCATACCATCC
1 AGAAATGATAAATGTTGGAGAATTTTTGAAGGCCCATACCATCC
* *
1592521 AGAAATGATAAATGTTGGAGCATTTTTGAAGGCCCATATCATCC
1 AGAAATGATAAATGTTGGAGAATTTTTGAAGGCCCATACCATCC
1592565 AG
1 AG
1592567 GAATACAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (44 bp):
AGAAATGATAAATGTTGGAGAATTTTTGAAGGCCCATACCATCC
Found at i:1594829 original size:102 final size:100
Alignment explanation
Indices: 1594644--1594888 Score: 253
Period size: 102 Copynumber: 2.4 Consensus size: 100
1594634 ACACGAACAT
* ** *
1594644 TTGAGATTGTTTTTCTCAAAACAAATTTCGTCTCGCTTGAGATAATTCCCCCGGAACACAAATTT
1 TTGAGATTGTTTTTCTCAAAACAAATTTCGTCTCGCTTGAGACAATTCCCCCAAAACAAAAATTT
* *
1594709 CAAAGTTGTTTTACTTGAAACAAAATTAATCTCAC
66 CAAAATTGTTTCACTTGAAACAAAATTAATCTCAC
* *
1594744 TTGAGATTGTTTATT-TCAAAACGAA-TTCGTCTCGCTTGAGACAATTTTCCCTCAAAACATAAA
1 TTGAGATTGTTT-TTCTCAAAACAAATTTCGTCTCGCTTGAGACAA--TTCCCCCAAAACA-AAA
* * ** *
1594807 ATTT-AGAAATTGTTTCACTTGAAACAAATTTGATAACAT
62 ATTTCA-AAATTGTTTCACTTGAAACAAAATTAATCTCAC
* * * * *
1594846 TTGACATTATTTTTCTTAAAAACAAATTTCGTTTTGCTTGAGA
1 TTGAGATTGTTTTTC-TCAAAACAAATTTCGTCTCGCTTGAGA
1594889 TAGTTTTCCT
Statistics
Matches: 118, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
99 18 0.15
100 21 0.18
101 15 0.13
102 42 0.36
103 8 0.07
104 14 0.12
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.38
Consensus pattern (100 bp):
TTGAGATTGTTTTTCTCAAAACAAATTTCGTCTCGCTTGAGACAATTCCCCCAAAACAAAAATTT
CAAAATTGTTTCACTTGAAACAAAATTAATCTCAC
Found at i:1595215 original size:61 final size:61
Alignment explanation
Indices: 1595149--1595271 Score: 176
Period size: 61 Copynumber: 2.0 Consensus size: 61
1595139 TTATCTTCAG
* * *
1595149 ACAATTAAACTTCCTCAAT-AAGAAGGAACATCATTGTCTTCAGATTCACTATCCTTCAAGA
1 ACAATTAAACTTCCTC-ATCAAGAAGGAACAACATTGTCTTCAGATTCACAATCCTACAAGA
* * *
1595210 ACAATTAGACTTCCTCATCAAGAAGGAATAACATTGTCTTCAGATTCCCAATCCTACAAGA
1 ACAATTAAACTTCCTCATCAAGAAGGAACAACATTGTCTTCAGATTCACAATCCTACAAGA
1595271 A
1 A
1595272 TGACTAGTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 2 0.04
61 53 0.96
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.28
Consensus pattern (61 bp):
ACAATTAAACTTCCTCATCAAGAAGGAACAACATTGTCTTCAGATTCACAATCCTACAAGA
Found at i:1595285 original size:61 final size:61
Alignment explanation
Indices: 1595157--1595299 Score: 164
Period size: 61 Copynumber: 2.3 Consensus size: 61
1595147 AGACAATTAA
* * * *
1595157 ACTTCCTCAAT-AAGAAGGAACATCATTGTCTTCAGATTCACTATCCTTCAAGAACAATTAG
1 ACTTCCTC-ATCAAGAAGGAACAACATTGTCTTCAGATTCACAATCCTACAAGAACAACTAG
* * **
1595218 ACTTCCTCATCAAGAAGGAATAACATTGTCTTCAGATTCCCAATCCTACAAGAATGACTAG
1 ACTTCCTCATCAAGAAGGAACAACATTGTCTTCAGATTCACAATCCTACAAGAACAACTAG
**
1595279 TTTTCCTCA-CAAAGAAGGAAC
1 ACTTCCTCATC-AAGAAGGAAC
1595300 CATGTCAAAT
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
60 3 0.04
61 66 0.96
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (61 bp):
ACTTCCTCATCAAGAAGGAACAACATTGTCTTCAGATTCACAATCCTACAAGAACAACTAG
Found at i:1600478 original size:49 final size:50
Alignment explanation
Indices: 1600387--1600482 Score: 149
Period size: 49 Copynumber: 1.9 Consensus size: 50
1600377 TTGTTAAAAC
* * *
1600387 AAAGAGTAAATTCAACAGGGAGTATCAATACGCCTTCAAGGAGTATCGAT
1 AAAGAGTAAATTCAACAGAGAGTATCAATACACATTCAAGGAGTATCGAT
*
1600437 AAAGAGTAAATTCAACA-AGAGTATCGATACACATTCAAGGAGTATC
1 AAAGAGTAAATTCAACAGAGAGTATCAATACACATTCAAGGAGTATC
1600483 AATACTGCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 25 0.60
50 17 0.40
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.22
Consensus pattern (50 bp):
AAAGAGTAAATTCAACAGAGAGTATCAATACACATTCAAGGAGTATCGAT
Found at i:1601812 original size:36 final size:37
Alignment explanation
Indices: 1601772--1601844 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 37
1601762 TAATGCGTTA
* * *
1601772 GGTTTGTCGTTTTTATATTCTTAATGTAAT-TTTTAT
1 GGTTTGTCATTATTATATCCTTAATGTAATGTTTTAT
* *
1601808 GGTTTGTTATTATTATCTCCTTAATGTAATGTTTTAT
1 GGTTTGTCATTATTATATCCTTAATGTAATGTTTTAT
1601845 ATTTTAGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
36 25 0.81
37 6 0.19
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.59
Consensus pattern (37 bp):
GGTTTGTCATTATTATATCCTTAATGTAATGTTTTAT
Found at i:1605508 original size:15 final size:15
Alignment explanation
Indices: 1605488--1605518 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1605478 GTAAAAATAT
1605488 GATAAAACCGGTAAA
1 GATAAAACCGGTAAA
1605503 GATAAAACCGGTAAA
1 GATAAAACCGGTAAA
1605518 G
1 G
1605519 CGCTACCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.13, G:0.23, T:0.13
Consensus pattern (15 bp):
GATAAAACCGGTAAA
Found at i:1605870 original size:182 final size:176
Alignment explanation
Indices: 1605439--1605916 Score: 594
Period size: 182 Copynumber: 2.7 Consensus size: 176
1605429 ACGGTTTATG
* *
1605439 TCGATACTTTA-AAAAATGTATCGAT--ATATCAATATAACA-GTAAAAATATGATAAAACCGG-
1 TCGATACTTTATAAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGATAAAA-CGGT
* *
1605499 -T-AAAGATAAAACCGGTAAAGCGCTACCGAATATATTGAAAGTGTCGATACTTTAATATAAGTA
65 CTCAAAGACAAAATCGGTAAAGCGCTACCGAATATATTGAAAGTGTCGATACTTTAATATAAGTA
*
1605562 TCGACACTGTGTGAATTTAAAAGAGAAATTTTAGCGCCTACAAAGTG
130 TCGACACTGTGTGAATTTAAAAGAGAAATTTTAGCGCCTACAAAGTA
* * * * * *
1605609 TCTATACTTTATAACAATGTATCGATCCACAATGATATAACAGGTAAAAATATGACAAAACATGT
1 TCGATACTTTATAAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGATAAAAC-GGT
* * * * *
1605674 CTCTAAAGGACAAAATCGATATAGAGCGACCGAATATATTGAAAGTGTCGATATTTTAATATAAG
65 CTC-AAA-GACAAAATCGGTAAAGCGCTACCGAATATATTGAAAGTGTCGATACTTTAATATAAG
* * *
1605739 TATCGACACAT-TGTGAATTTAAAAAAGAAGTAATTTTAGTGCCTATAAAGTA
128 TATCGACAC-TGTGTGAATTT--AAAAG-AGAAATTTTAGCGCCTACAAAGTA
1605791 TCGATACTTTATAAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGATAAAATCGGT
1 TCGATACTTTATAAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGATAAAA-CGGT
* * * *
1605856 CTCGAAATGACAAAATCGGTAAAGCGCTATCGGATATATTGAAATTGTTGATACTTTAATA
65 CTC-AAA-GACAAAATCGGTAAAGCGCTACCGAATATATTGAAAGTGTCGATACTTTAATA
1605917 AATACGCGTA
Statistics
Matches: 257, Mismatches: 36, Indels: 18
0.83 0.12 0.06
Matches are distributed among these distances:
170 10 0.04
171 13 0.05
173 11 0.04
174 17 0.07
176 1 0.00
178 3 0.01
179 68 0.26
180 1 0.00
181 5 0.02
182 127 0.49
183 1 0.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (176 bp):
TCGATACTTTATAAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGATAAAACGGTC
TCAAAGACAAAATCGGTAAAGCGCTACCGAATATATTGAAAGTGTCGATACTTTAATATAAGTAT
CGACACTGTGTGAATTTAAAAGAGAAATTTTAGCGCCTACAAAGTA
Found at i:1608318 original size:21 final size:21
Alignment explanation
Indices: 1608294--1608337 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1608284 AAGACAATCA
1608294 AGAGTCAAAGAGAAACTTGAG
1 AGAGTCAAAGAGAAACTTGAG
* *
1608315 AGAGTCGAAGAGACACTTGAG
1 AGAGTCAAAGAGAAACTTGAG
1608336 AG
1 AG
1608338 GCATAATGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.11, G:0.32, T:0.14
Consensus pattern (21 bp):
AGAGTCAAAGAGAAACTTGAG
Found at i:1608413 original size:33 final size:33
Alignment explanation
Indices: 1608371--1608436 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
1608361 AAATAGATGG
*
1608371 AGTGGTGAAAGAAGTTGAGGTGTTGACGGGTGA
1 AGTGCTGAAAGAAGTTGAGGTGTTGACGGGTGA
*
1608404 AGTGCTGAAAGAAGTTGAGGTGTTGAGGGGTGA
1 AGTGCTGAAAGAAGTTGAGGTGTTGACGGGTGA
1608437 CCTTATGGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.27, C:0.03, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGCTGAAAGAAGTTGAGGTGTTGACGGGTGA
Found at i:1608641 original size:18 final size:18
Alignment explanation
Indices: 1608618--1608656 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
1608608 GAAAAAATAT
1608618 GAAGAAGAAAAGAAGGAA
1 GAAGAAGAAAAGAAGGAA
*
1608636 GAAGAAGAAAAGATGGAA
1 GAAGAAGAAAAGAAGGAA
1608654 GAA
1 GAA
1608657 ATGAGGAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.03
Consensus pattern (18 bp):
GAAGAAGAAAAGAAGGAA
Found at i:1610233 original size:19 final size:19
Alignment explanation
Indices: 1610209--1610257 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1610199 AATGTAGGGT
1610209 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1610228 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
1610247 TAATTTTGTAT
1 TAATTTTGTAT
1610258 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1610592 original size:15 final size:15
Alignment explanation
Indices: 1610569--1610607 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
1610559 GTCCAATATG
1610569 GTTCCCAAACGTAAA
1 GTTCCCAAACGTAAA
*
1610584 GTTCTCAAACGTAAA
1 GTTCCCAAACGTAAA
*
1610599 GTTTCCAAA
1 GTTCCCAAA
1610608 AAATAGGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (15 bp):
GTTCCCAAACGTAAA
Found at i:1611138 original size:199 final size:200
Alignment explanation
Indices: 1610624--1611772 Score: 1323
Period size: 200 Copynumber: 5.8 Consensus size: 200
1610614 GTAAGCAGAT
* * * *
1610624 GTGTCGATACATTTATAAAAAATATCGATACCAAAAACATAGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * *
1610689 GGTAATTTTGTAATATAACCGGTATAAGTATACC-AGTTTTATGTGAGAATAGGTCTACATAATG
66 GGTAATTTTGTAATGTAACCGGTATAAATATACCGA-TTTTATATGAGAATAGGTCTACATAATG
* * * * * *
1610753 TATCGACACTTTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGATTGCCCCAAATGATGAACG
130 TATCGACACTTTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGACCAAAATGGTGCACC
1610818 CATAAA
195 CATAAA
1610824 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * *
1610889 GGTAAATTTATAATGTAACCGGTATAACTACACCGATTTTATGA-GAGAATAGGTCTACATAATG
66 GGTAATTTTGTAATGTAACCGGTATAAATATACCGATTTTAT-ATGAGAATAGGTCTACATAATG
* * * * * * *
1610953 TATCAACACTTTTGGAATTTGTGTCGATACTGTTTGTCCTGAAGGAATGACCAAAAGGGTGCACC
130 TATCGACACTTTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGACCAAAATGGTGCACC
1611018 CATAAA
195 CATAAA
* ** * *
1611024 GTGTCGATACATTT-TTAAAAGTGCCGATCCCAGAGACATCGAAACCCATAATTATAATTTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* *
1611088 GGTAATTTTGTAATGTAATCGGTATAAATATACCGATTTTATATGAGAATAGGTATACATAATGT
66 GGTAATTTTGTAATGTAACCGGTATAAATATACCGATTTTATATGAGAATAGGTCTACATAATGT
** * * * *
1611153 ATCGACACAATTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAAAGCCCAAAATGGTGAACGC
131 ATCGACACTTTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGACCAAAATGGTGCACCC
1611218 ATAAA
196 ATAAA
* * * * *
1611223 GTGTCGATACATTTTTTAAAAGTGTCGATCCCAGAGATATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * *
1611288 GGTAATTTTGAAATGTAACCAGTATAAATATACCTG-TTTTATGTGAGAATAGGTCTACATAATG
66 GGTAATTTTGTAATGTAACCGGTATAAATATACC-GATTTTATATGAGAATAGGTCTACATAATG
* * * **
1611352 TATCAACAC-TTT---A------TCGATACATTTTGTCCAAAATGAATGCAAAAACAAATGGTGC
130 TATCGACACTTTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATG--ACCA-AAATGGTGC
*
1611407 ACACATAAA
192 ACCCATAAA
* * * *
1611416 GTGTCTATACATTTATAAAAAGTATAGATCCCAGAAACATCGAAACACATGATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * *
1611481 GGTAATTTT-TCAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTAGAAAATG
66 GGTAATTTTGT-AATGTAACCGGTATAAATATACCGATTTTATATGAGAATAGGTCTACATAATG
* * * * * *
1611545 TATCGACACTTATGGAATTCGTGTCGATACTTTTTATCTAGAATG-ATG-CCAAAAGGGTGCACC
130 TATCGACACTTTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGACCAAAATGGTGCACC
*
1611608 CATTAA
195 CATAAA
* * ** * *
1611614 GTGTCAATACATTTTTAAAAAGTGCCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* ** * *
1611679 GGTAAATTTCCAATGTAACCGATATAAATATACC-AGTTTTATGA-GAAAATAGGTC-AGCATAA
66 GGTAATTTTGTAATGTAACCGGTATAAATATACCGA-TTTTAT-ATGAGAATAGGTCTA-CATAA
* * * *
1611741 AGTATCGTCAATTGTT-AAATTTGTGTCGATAC
128 TGTATCGACACTT-TTGAAATTGGTGTCGATAC
1611773 CATTTTAAAA
Statistics
Matches: 812, Mismatches: 112, Indels: 52
0.83 0.11 0.05
Matches are distributed among these distances:
190 23 0.03
192 2 0.00
193 137 0.17
194 2 0.00
196 1 0.00
197 2 0.00
198 145 0.18
199 177 0.22
200 300 0.37
201 2 0.00
202 3 0.00
203 18 0.02
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.31
Consensus pattern (200 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
GGTAATTTTGTAATGTAACCGGTATAAATATACCGATTTTATATGAGAATAGGTCTACATAATGT
ATCGACACTTTTGAAATTGGTGTCGATACTTTTTGTCCAGAATGAATGACCAAAATGGTGCACCC
ATAAA
Found at i:1614555 original size:24 final size:24
Alignment explanation
Indices: 1614504--1614556 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
1614494 TTTCATATGT
* * *
1614504 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
* *
1614528 AATTTGAGTTTGAGTTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
1614552 AATTT
1 AATTT
1614557 CGGCTCCACT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:1616437 original size:198 final size:197
Alignment explanation
Indices: 1615766--1616724 Score: 1089
Period size: 198 Copynumber: 4.9 Consensus size: 197
1615756 TAAAGTTTCC
* * *
1615766 CATAAAGTGTCGATACATGCTTAAAAAATATCGATCCCAAAAACATCGAAACCGAAAATTATAAT
1 CATAAAGTGTCGATACAT-TTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
** * *
1615831 GTAATAGGTAAATTTACAATGTAACCGATATAAATT-TATTGGTTTTTTGAGA-AATA-G-ATAC
65 GTAATAGGTAAATTTACAATGTAACCGATAT-AATTATACCGGTTTTATGAGAGAATAGGTCTAC
*
1615892 ATAATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCC-AACGTGG
129 ATAATGTATCGACACTTGTGGAATTTGTGTCGATAC-TTTTGTCCAAAATGAATGCCAAAAG-GG
1615956 TGCACG
192 TGCACG
*
1615962 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
1 CATAAAGTGTCGATACA-TTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* ** * * * *
1616027 GTAATAGGTAATTTTGTAATATAACC-AGTATAAATATATCGGTTTTATGTGAGAATAGGTCTAC
65 GTAATAGGTAAATTTACAATGTAACCGA-TATAATTATACCGGTTTTATGAGAGAATAGGTCTAC
* * * * * * * *
1616091 ATAATGTGTCAACAGTT-TTGAATTTTGTGTCGATACTTTTTGTCTAGAATGATTGGCCAAAATG
129 ATAATGTATCGACACTTGTGGAA-TTTGTGTCGATAC-TTTTGTCCAAAATGAAT-GCCAAAAGG
*
1616155 GTGAACG
191 GTGCACG
* * *
1616162 CATAAAGTGTCGATACATTTATAAAAAGTATCGACCCCAGAAACATCGAAACCCATAATTATAAT
1 CATAAAGTGTCGATACATTT-TAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * *
1616227 GTAATAGGTAAATTTACAATGTAACCGATATAATTATACCAGTTTTATGAGATAATAGGTCTATA
65 GTAATAGGTAAATTTACAATGTAACCGATATAATTATACCGGTTTTATGAGAGAATAGGTCTACA
*
1616292 TAATGTATCGACACTTGTGGAATTTGTATCGATA-TTTTGTCCAAAATGAATGCCAAAAGGGTTG
130 TAATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTGTCCAAAATGAATGCCAAAAGGG-TG
*
1616356 CACA
194 CACG
* *
1616360 CATAAAGTGTCGATACAGTTTTAAAAAGTATCAATCCCAAAAACATTGAAACCGATAATTATAAT
1 CATAAAGTGTCGATACA-TTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * ** * * * * *
1616425 ATAATAGGTAAATTTACATTGTAAAGGGTATAAATT-TACCAGTTTTTTGAGAAAATAGGT-GA-
65 GTAATAGGTAAATTTACAATGTAACCGATAT-AATTATACCGGTTTTATGAGAGAATAGGTCTAC
* * * *
1616487 ATAATGTATCGACACATTTTAG-ATTTGTGTCGATACATTTTGTCCAGAATGAATGCCAAACGGG
129 ATAATGTATCGACAC-TTGTGGAATTTGTGTCGATAC-TTTTGTCCAAAATGAATGCCAAA-AGG
*
1616551 GTGCAGG
191 GTGCACG
* * * * ** * * *
1616558 TAGAAAGTGTTGATACATTTGAAATTGTATCGATCCAAAAAACATCGAAACCGATAATTATGACG
1 CATAAAGTGTCGATACATTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
* * *
1616623 TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCAACAT
66 TAATAGGTAAATTTACAATGTAACCGATATAATTATACCGGTTTTATGAGAGAATAGGTCTACAT
* * ** *
1616688 AATGTATCAACCCTT-TTAAATTTTTGTCGATACTTTT
131 AATGTATCGACACTTGTGGAATTTGTGTCGATACTTTT
1616725 TAAATAACAC
Statistics
Matches: 649, Mismatches: 91, Indels: 45
0.83 0.12 0.06
Matches are distributed among these distances:
195 4 0.01
196 127 0.20
197 111 0.17
198 183 0.28
199 71 0.11
200 146 0.22
201 7 0.01
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (197 bp):
CATAAAGTGTCGATACATTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
TAATAGGTAAATTTACAATGTAACCGATATAATTATACCGGTTTTATGAGAGAATAGGTCTACAT
AATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTGTCCAAAATGAATGCCAAAAGGGTGCA
CG
Found at i:1621087 original size:198 final size:198
Alignment explanation
Indices: 1620738--1621422 Score: 856
Period size: 198 Copynumber: 3.5 Consensus size: 198
1620728 CCTAAATATA
* * *
1620738 TGTCGATACATTT-TCTAAAAGTATCGA-CCCAAAAACATCAAAACCAATAATTATAAGGTAATA
1 TGTCGATACATTTAT-TAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * * * * * *
1620801 GGTAAATTAACAATGTAACCGATAT-AA-ATACCGGTTAATTAGAAAACAAGTCAACATAATGTA
65 GGTAAATTTACAATGTAACCGGTATAAATATACCGTTTTATGAGAAAATAGGTCAGCATAATGTA
**
1620864 TCGACACTTGTGCAATTTGTGTCGATACTTATTGTCCAGAATGAATGCCCAAACGAGGTGCACGC
130 TCGACACTTGTTAAATTTGTGTCGATACTT-TTGTCCAGAATGAATGCCCAAACG-GGTGCACGC
1620929 ATAAAG
193 ATAAAG
* * *
1620935 TATCGATACATTTATTAAAAGTATCGATCCCAATAA-ATC-AAACCGATAATTATAATGT-ATAT
1 TGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
* *
1620997 GTAAATTTACAATGTAACCGGTATAAATATATCGATTTTATGAGAAAATAGGTCAGCATAAAGTA
66 GTAAATTTACAATGTAACCGGTATAAATATACCG-TTTTATGAGAAAATAGGTCAGCATAATGTA
*
1621062 TCGACACTTGTTAAATTTGTGTCGATACATTTTGTCCATAATGAATG-CCAAACGGGTGCACGCA
130 TCGACACTTGTTAAATTTGTGTCGATAC-TTTTGTCCAGAATGAATGCCCAAACGGGTGCACGCA
1621126 TAAAG
194 TAAAG
* * *
1621131 TGTCAATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTACAATGTGATAG
1 TGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
* ** * *
1621196 GTAAATTTATAATGT-ACC-CAATAGAATATACCGGTTTTATGAGAAAATAGGTCTGAATAATGT
66 GTAAATTTACAATGTAACCGGTATA-AATATACC-GTTTTATGAGAAAATAGGTCAGCATAATGT
* * *
1621259 ATCGACACTTTTTAAGTTTGTGTCGATACTTTTTTCCAGAATGAATGCCC-AACGTGGTGCACGC
129 ATCGACACTTGTTAAATTTGTGTCGATACTTTTGTCCAGAATGAATGCCCAAACG-GGTGCACGC
1621323 ATAAAG
193 ATAAAG
** * * *
1621329 TGTCGATACATTTCA--AATTGTATCGATCCAAAAAACATCGAAATCGATAATTATAATATAATA
1 TGTCGATACATTT-ATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * *
1621392 GGTAAATTTGCAATGTTACCAGTATAAATAT
65 GGTAAATTTACAATGTAACCGGTATAAATAT
1621423 CAGTTTACTT
Statistics
Matches: 426, Mismatches: 46, Indels: 31
0.85 0.09 0.06
Matches are distributed among these distances:
195 25 0.06
196 67 0.16
197 120 0.28
198 190 0.45
199 24 0.06
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (198 bp):
TGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
GTAAATTTACAATGTAACCGGTATAAATATACCGTTTTATGAGAAAATAGGTCAGCATAATGTAT
CGACACTTGTTAAATTTGTGTCGATACTTTTGTCCAGAATGAATGCCCAAACGGGTGCACGCATA
AAG
Found at i:1621542 original size:84 final size:86
Alignment explanation
Indices: 1621445--1621604 Score: 261
Period size: 84 Copynumber: 1.9 Consensus size: 86
1621435 AAATAGGTCA
*
1621445 ATATAAACGCTACCTATTACATTATATAAGCACTACCTAATATGTTATTGTACTTGATAAT-TTT
1 ATATAAACGCTACCTATTACATTATAAAAGCACTACCTAATATGTTATTGTACTTGATAATATTT
1621509 -CGGTTAAATGCTATTTTATT
66 CCGGTTAAATGCTATTTTATT
* ** *
1621529 ATATAAGCGCTACCTATTACATTATAAAAGCGTTTCCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAACGCTACCTATTACATTATAAAAGCACTACCTAATATGTTATTGTACTTGATAATATTT
1621594 CCGGTTAAATG
66 CCGGTTAAATG
1621605 ATATAACAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
84 56 0.81
85 3 0.04
86 10 0.14
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.41
Consensus pattern (86 bp):
ATATAAACGCTACCTATTACATTATAAAAGCACTACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATGCTATTTTATT
Found at i:1625646 original size:61 final size:62
Alignment explanation
Indices: 1625551--1625675 Score: 243
Period size: 61 Copynumber: 2.0 Consensus size: 62
1625541 AAAGGAGAAG
1625551 TCAATGGGTAAATGAGTCTTTTAACAAGGAAAATAATTAAATAA-TGTTGTGCGTGTTTATA
1 TCAATGGGTAAATGAGTCTTTTAACAAGGAAAATAATTAAATAATTGTTGTGCGTGTTTATA
1625612 TCAATGGGTAAATGAGTCTTTTAACAAGGAAAATAATTAAATAATTGTTGTGCGTGTTTATA
1 TCAATGGGTAAATGAGTCTTTTAACAAGGAAAATAATTAAATAATTGTTGTGCGTGTTTATA
1625674 TC
1 TC
1625676 CCTTGTGGAA
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
61 44 0.70
62 19 0.30
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (62 bp):
TCAATGGGTAAATGAGTCTTTTAACAAGGAAAATAATTAAATAATTGTTGTGCGTGTTTATA
Found at i:1627988 original size:24 final size:23
Alignment explanation
Indices: 1627918--1627982 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 23
1627908 CAATTTTATA
*
1627918 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* *
1627941 CGACACTTCGGTGCAAATTCTACG
1 TGGCACTTCGGTGC-AATTCTACG
*
1627965 TGGCACTTCAGTGCAATT
1 TGGCACTTCGGTGCAATT
1627983 TATACGAACT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 15 0.43
24 20 0.57
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:1628539 original size:21 final size:21
Alignment explanation
Indices: 1628509--1628550 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1628499 GCTGAAATAT
* *
1628509 TGTAGCAGTGCATCGGTACAC
1 TGTAGAAGTGCATCGATACAC
*
1628530 TGTAGAAGTGTATCGATACAC
1 TGTAGAAGTGCATCGATACAC
1628551 AATTTATATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (21 bp):
TGTAGAAGTGCATCGATACAC
Found at i:1631956 original size:181 final size:183
Alignment explanation
Indices: 1631633--1632090 Score: 650
Period size: 182 Copynumber: 2.5 Consensus size: 183
1631623 GTATTAATCC
* * * * ** ** * * *
1631633 ACAATGATATAACAAGTAAAATTATGACAAAACCAATATTGAAATCATAAAACCGGTAAAGCGGT
1 ACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAAAACCGGTAAAACGAT
* * * * *
1631698 ATCGAATATATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTCGTTAATTTAAAAGAGA
66 ACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTGAATTTAAAAGAGA
1631763 AGCAGTTTTAGCGCCTACAAAGTGTCGATACTTTCAAAAAATATATCGATC-A
131 AGCAGTTTTAGCGCCTACAAAGTGTCGATACTTTCAAAAAATATATCGATCAA
* * *
1631815 ACAACGATATAACAGGTAAAAATATGATAAAACTGGTATCAAAATGATGAAACCGGTAAAACGCT
1 ACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAAAACCGGTAAAACGAT
* * *
1631880 ACCGGATATATTGAAAGTGTCGAAACTTT-ATATAAGGATCGACACTTTGTGAATTTAAAAGAGA
66 ACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTGAATTTAAAAGAGA
* * *
1631944 AGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTTAAAAAATGTATCGATCAA
131 AGCAGTTTTAGCGCCTACAAAGTGTCGATACTTTCAAAAAATATATCGATCAA
* *
1631997 ACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAAAACCGGAAAAATGAT
1 ACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAAAACCGGTAAAACGAT
*
1632062 ACCGGATATATTAAAAGTGTTGATACTTT
66 ACCGGATATATTAAAAGTGTCGATACTTT
1632091 CGTAAGTATG
Statistics
Matches: 244, Mismatches: 31, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
181 81 0.33
182 163 0.67
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (183 bp):
ACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAAAACCGGTAAAACGAT
ACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTGAATTTAAAAGAGA
AGCAGTTTTAGCGCCTACAAAGTGTCGATACTTTCAAAAAATATATCGATCAA
Found at i:1632034 original size:20 final size:20
Alignment explanation
Indices: 1632011--1632058 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1632001 CGATATAACA
1632011 GGTAAAAATATGATAAAACC
1 GGTAAAAATATGATAAAACC
*
1632031 GGTATCAAA-ATGATAAAACC
1 GGTA-AAAATATGATAAAACC
1632051 GG-AAAAAT
1 GGTAAAAAT
1632059 GATACCGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 3 0.12
19 1 0.04
20 17 0.71
21 3 0.12
ACGTcount: A:0.54, C:0.10, G:0.17, T:0.19
Consensus pattern (20 bp):
GGTAAAAATATGATAAAACC
Found at i:1634585 original size:182 final size:182
Alignment explanation
Indices: 1633919--1634940 Score: 1694
Period size: 182 Copynumber: 5.6 Consensus size: 182
1633909 TTTTACCTTT
* * *
1633919 TTTAAAAGAGAAGAAGTTATATCGTCAATAAAGTGTCGATACTTTATAAAAATATATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1633984 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
* *
1634049 CGGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGAAACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
1634101 TTTAAAAGAGAAG-AGTTATAGTGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* *
1634165 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGTTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
1634230 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCG--ACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* *
1634280 -TTAATAAGAGAAGAAGTTATAGCGCCAATAACGTGGCGATACTTTATAAAAATGTATCGATCCA
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
*
1634344 TAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
65 TAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
* *
1634409 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACATTTTTGAAA
130 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
1634462 TTTAAAAGAGAAGAAGTTATAGAGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * * *
1634527 AACAATATAACAGGTAATAATATGACAAAATCGATCTCGAAATGACAAAACTGGTAAAGCGCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
* *
1634592 CAGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGAAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
1634644 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATATTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * *
1634709 AACAATATAACAGGTAAAAATATGATAAAACCGGTCTCGAAATGACAAAATAGGTAAAGCACTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
* * *
1634774 CAGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACATTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
1634826 -TTAATAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
* * * * **
1634890 TAATAATATAACATGTAAAAATATGATAAAATCGGTCTATAAATGACAAAA
65 TAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAA
1634941 GGTGAACGCA
Statistics
Matches: 793, Mismatches: 41, Indels: 12
0.94 0.05 0.01
Matches are distributed among these distances:
178 4 0.01
179 18 0.02
180 152 0.19
181 153 0.19
182 462 0.58
183 4 0.01
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.28
Consensus pattern (182 bp):
TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
Found at i:1635828 original size:11 final size:11
Alignment explanation
Indices: 1635811--1635862 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
1635801 GAAACAGATC
1635811 ATAACAAACTA
1 ATAACAAACTA
*
1635822 CTAACAAACTA
1 ATAACAAACTA
1635833 ATAACAAACTA
1 ATAACAAACTA
* *
1635844 AGT-CCTAACTA
1 A-TAACAAACTA
1635855 ATAACAAA
1 ATAACAAA
1635863 AACTAACTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 1 0.03
11 31 0.94
12 1 0.03
ACGTcount: A:0.58, C:0.21, G:0.02, T:0.19
Consensus pattern (11 bp):
ATAACAAACTA
Found at i:1636002 original size:36 final size:36
Alignment explanation
Indices: 1635960--1636111 Score: 268
Period size: 36 Copynumber: 4.2 Consensus size: 36
1635950 CAATACATCT
1635960 TTCCGTTCGACTTGAATCGGAAGTGTCGATGCTTCC
1 TTCCGTTCGACTTGAATCGGAAGTGTCGATGCTTCC
*
1635996 TTCCGTTCGACTTGAATCGGAAGTGCCGATGCTTCC
1 TTCCGTTCGACTTGAATCGGAAGTGTCGATGCTTCC
*
1636032 TTCCGTTCGACTTGAATTGGAAGTGTCGATGCTTCC
1 TTCCGTTCGACTTGAATCGGAAGTGTCGATGCTTCC
*
1636068 TTCCGTTCGACTTGAATCGGAAGTGTCGATGCTTTC
1 TTCCGTTCGACTTGAATCGGAAGTGTCGATGCTTCC
*
1636104 TTTCGTTC
1 TTCCGTTC
1636112 TTCTTATTCA
Statistics
Matches: 110, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 110 1.00
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (36 bp):
TTCCGTTCGACTTGAATCGGAAGTGTCGATGCTTCC
Found at i:1638142 original size:27 final size:26
Alignment explanation
Indices: 1638100--1638150 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
1638090 TTTTTTATAT
*
1638100 ATTTGAGAAATATTTAGGGTTTTTAG
1 ATTTGAGAAATATTTAGGATTTTTAG
1638126 ATTTGAGAAA-AGTTTTAGGATTTTT
1 ATTTGAGAAATA--TTTAGGATTTTT
1638151 TAAAAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 1 0.05
26 10 0.45
27 11 0.50
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (26 bp):
ATTTGAGAAATATTTAGGATTTTTAG
Found at i:1645476 original size:15 final size:16
Alignment explanation
Indices: 1645458--1645489 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
1645448 TTATTAATAG
1645458 TGACAAAACT-AATTT
1 TGACAAAACTAAATTT
1645473 TGACAAAACTAAATTT
1 TGACAAAACTAAATTT
1645489 T
1 T
1645490 TCACAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.34
Consensus pattern (16 bp):
TGACAAAACTAAATTT
Found at i:1653164 original size:20 final size:20
Alignment explanation
Indices: 1653108--1653165 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
1653098 TTTGCAAATA
*
1653108 TGTTAACTGTTTAAATTTAG
1 TGTTTACTGTTTAAATTTAG
* *
1653128 TGTTT-CTTATTTAAATTTTG
1 TGTTTAC-TGTTTAAATTTAG
*
1653148 TGTTTACTGTTTCAATTT
1 TGTTTACTGTTTAAATTT
1653166 GCAATTATAC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.22, C:0.07, G:0.12, T:0.59
Consensus pattern (20 bp):
TGTTTACTGTTTAAATTTAG
Found at i:1657813 original size:24 final size:24
Alignment explanation
Indices: 1657781--1657865 Score: 116
Period size: 24 Copynumber: 3.5 Consensus size: 24
1657771 AAATATTTTA
* *
1657781 TCTGATTTCTGACCTGAATTCTAT
1 TCTGATTTCTGATCTGAATTCTGT
*
1657805 TCTGATTTCTGATCTGGATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
* *
1657829 TCTGATATCTGTTCTGAATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
*
1657853 TTTGATTTCTGAT
1 TCTGATTTCTGAT
1657866 ATCTCCGTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.51
Consensus pattern (24 bp):
TCTGATTTCTGATCTGAATTCTGT
Found at i:1657851 original size:12 final size:12
Alignment explanation
Indices: 1657794--1657863 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
1657784 GATTTCTGAC
*
1657794 CTGAATTCTATT
1 CTGAATTCTGTT
* *
1657806 CTGATTTCTGAT
1 CTGAATTCTGTT
*
1657818 CTGGATTCTGTT
1 CTGAATTCTGTT
1657830 CTG-ATATCTGTT
1 CTGAAT-TCTGTT
1657842 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
1657854 TTGATTTCTG
1 CTGAATTCTG
1657864 ATATCTCCGT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
11 2 0.04
12 44 0.92
13 2 0.04
ACGTcount: A:0.16, C:0.16, G:0.17, T:0.51
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:1660856 original size:22 final size:22
Alignment explanation
Indices: 1660830--1660880 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
1660820 TACTATACGA
* * *
1660830 AATGAACTGTACTGTGAATAGT
1 AATGAACAGTACCGTGAACAGT
1660852 AATGAACAGTACCGTGAACAGT
1 AATGAACAGTACCGTGAACAGT
1660874 AATGAAC
1 AATGAAC
1660881 GACTCTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.24
Consensus pattern (22 bp):
AATGAACAGTACCGTGAACAGT
Found at i:1661463 original size:21 final size:21
Alignment explanation
Indices: 1661412--1661475 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
1661402 ATATGAAATT
*
1661412 TTATCCCGAAGGACCTGTGAA
1 TTATCCCGAAGGACCTATGAA
* *
1661433 TATGTCCCGAAGGACCTATGAG
1 T-TATCCCGAAGGACCTATGAA
1661455 TTATCCCGAAGGACCTATGAA
1 TTATCCCGAAGGACCTATGAA
1661476 ACCCTCGACT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 19 0.51
22 18 0.49
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (21 bp):
TTATCCCGAAGGACCTATGAA
Found at i:1668415 original size:22 final size:22
Alignment explanation
Indices: 1668390--1668431 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1668380 TATGAAATTT
* *
1668390 TGTCTCGAAAGACCTGTGAATA
1 TGTCCCGAAAGACCTATGAATA
*
1668412 TGTCCCGAAGGACCTATGAA
1 TGTCCCGAAAGACCTATGAA
1668432 ACCCTCGACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (22 bp):
TGTCCCGAAAGACCTATGAATA
Found at i:1670897 original size:21 final size:20
Alignment explanation
Indices: 1670869--1670907 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
1670859 CATTATAGGA
*
1670869 ATTTATGGCATCGACAAAAT
1 ATTTATGGCATCAACAAAAT
*
1670889 ATTTCATGGCTTCAACAAA
1 ATTT-ATGGCATCAACAAA
1670908 TACCTTGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (20 bp):
ATTTATGGCATCAACAAAAT
Found at i:1673947 original size:36 final size:36
Alignment explanation
Indices: 1673906--1674008 Score: 188
Period size: 36 Copynumber: 2.9 Consensus size: 36
1673896 AGTTGAGTAT
*
1673906 TATCAGCTTTGGTACATTCGTGTATTAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
*
1673942 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCC
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
1673978 TATCAGCTTTGGTACATTCGTGTATCAATGT
1 TATCAGCTTTGGTACATTCGTGTATCAATGT
1674009 CCAGCACCGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 65 1.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (36 bp):
TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
Found at i:1683369 original size:19 final size:17
Alignment explanation
Indices: 1683346--1683389 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 17
1683336 TTGCAAAACA
1683346 ACTTAACATTTCATAAGT
1 ACTTAACATTTCATAA-T
*
1683364 ACCTTAATATTTCATAAT
1 A-CTTAACATTTCATAAT
1683382 ACTTAACA
1 ACTTAACA
1683390 AAATACCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 6 0.26
18 3 0.13
19 14 0.61
ACGTcount: A:0.41, C:0.18, G:0.02, T:0.39
Consensus pattern (17 bp):
ACTTAACATTTCATAAT
Found at i:1684646 original size:11 final size:10
Alignment explanation
Indices: 1684630--1684696 Score: 57
Period size: 10 Copynumber: 6.5 Consensus size: 10
1684620 GATTTCAAGC
1684630 ATATAAGTATA
1 ATATAA-TATA
1684641 ATATAAT-TA
1 ATATAATATA
*
1684650 ATATAAAATA
1 ATATAATATA
1684660 ATATATATATA
1 ATATA-ATATA
*
1684671 TATATTATATA
1 -ATATAATATA
*
1684682 ACATAA-ATGA
1 ATATAATAT-A
1684692 ATATA
1 ATATA
1684697 TACAAATGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
9 10 0.22
10 17 0.37
11 15 0.33
12 4 0.09
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (10 bp):
ATATAATATA
Found at i:1694501 original size:27 final size:27
Alignment explanation
Indices: 1694439--1694505 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
1694429 TATCTCGACA
*
1694439 TTTTGCGGCATTTGTTATCTCTTCACC
1 TTTTGCGGCGTTTGTTATCTCTTCACC
** * *
1694466 TACTACGGCGTTTGTTATCTTTTCACC
1 TTTTGCGGCGTTTGTTATCTCTTCACC
1694493 TTTTGCGGCGTTT
1 TTTTGCGGCGTTT
1694506 ATAAAAATGC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.10, C:0.24, G:0.18, T:0.48
Consensus pattern (27 bp):
TTTTGCGGCGTTTGTTATCTCTTCACC
Found at i:1695059 original size:190 final size:190
Alignment explanation
Indices: 1694700--1695081 Score: 705
Period size: 190 Copynumber: 2.0 Consensus size: 190
1694690 TTCAATTAAA
1694700 GGATTAGTGTCTTGATTAATCGATAATTGGTAACATAATTATAGTTAAGGATGACCATTTGACCT
1 GGATTAGTGTCTTGATTAATCGATAATTGGTAACATAATTATAGTTAAGGATGACCATTTGACCT
1694765 AAACTAATGTTTCTACTCGAATCAATCCTATCCTATAAGATCGATTCTTTTTTTTTTTTTGAAAT
66 AAACTAATGTTTCTACTCGAATCAATCCTATCCTATAAGATCGATTC-TTTTTTTTTTTTGAAAT
1694830 AAGTTTCATTAGATTTAGGATAAAAAATCTCACCATATATGAG-AATATTATAATTATTCT
130 AAGTTTCATTAGATTTAGGATAAAAAATCTCACCATATATGAGAAATATTATAATTATTCT
1694890 GGATTAGTGTCTTGATTAATCGATAATTGGTAACATAATTATAGTTAAGGATGACCATTTGACCT
1 GGATTAGTGTCTTGATTAATCGATAATTGGTAACATAATTATAGTTAAGGATGACCATTTGACCT
1694955 AAACTAATGTTTCTACTCGAATCAATCCTATCCTATAAGATCGATTC-TTTTTTTTTTTGAAATA
66 AAACTAATGTTTCTACTCGAATCAATCCTATCCTATAAGATCGATTCTTTTTTTTTTTTGAAATA
*
1695019 AGTTTCATTTAGATTTAGGATAAAAAATCTCTCACATATATGAGAAAATATTATAATTATTCT
131 AGTTTCA-TTAGATTTAGGATAAAAAATCTCAC-CATATATGAG-AAATATTATAATTATTCT
1695082 CAAATATTTA
Statistics
Matches: 187, Mismatches: 1, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
188 24 0.13
189 24 0.13
190 122 0.65
192 17 0.09
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (190 bp):
GGATTAGTGTCTTGATTAATCGATAATTGGTAACATAATTATAGTTAAGGATGACCATTTGACCT
AAACTAATGTTTCTACTCGAATCAATCCTATCCTATAAGATCGATTCTTTTTTTTTTTTGAAATA
AGTTTCATTAGATTTAGGATAAAAAATCTCACCATATATGAGAAATATTATAATTATTCT
Found at i:1700563 original size:15 final size:15
Alignment explanation
Indices: 1700517--1700564 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
1700507 ACTATGTTTA
1700517 TAAATTAAAATATAG
1 TAAATTAAAATATAG
* **
1700532 TAATTTTCAA-A-AG
1 TAAATTAAAATATAG
1700545 TAAATTAAAATATAG
1 TAAATTAAAATATAG
1700560 TAAAT
1 TAAAT
1700565 GATTTTAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
13 9 0.36
14 2 0.08
15 14 0.56
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.35
Consensus pattern (15 bp):
TAAATTAAAATATAG
Found at i:1710338 original size:14 final size:14
Alignment explanation
Indices: 1710319--1710355 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1710309 AAACCAATTG
*
1710319 GGGTTGGGTCAAGC
1 GGGTTGGGTCAAAC
1710333 GGGTTGGGTCAAAC
1 GGGTTGGGTCAAAC
*
1710347 GGGTCGGGT
1 GGGTTGGGT
1710356 TGATCGGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.51, T:0.22
Consensus pattern (14 bp):
GGGTTGGGTCAAAC
Found at i:1713701 original size:44 final size:43
Alignment explanation
Indices: 1713616--1713701 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
1713606 TTTTAAAAGA
* * * *
1713616 AAAAAATGAAATTTTTGAAAAAAGATTTGGTGCTTTCAAATTG
1 AAAAAATGAAAATTTTGAAAAAAAATTTGGTGATTTAAAATTG
*
1713659 AAAAAATGAAAATTTTGAAAAAGAAATTT-TTGATTTGAAAATT
1 AAAAAATGAAAATTTTGAAAAA-AAATTTGGTGATTT-AAAATT
1713702 AAGCTTGATA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
43 26 0.72
44 10 0.28
ACGTcount: A:0.49, C:0.02, G:0.14, T:0.35
Consensus pattern (43 bp):
AAAAAATGAAAATTTTGAAAAAAAATTTGGTGATTTAAAATTG
Found at i:1715911 original size:23 final size:22
Alignment explanation
Indices: 1715887--1715930 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
1715877 GAGCCAAGAT
1715887 AAGCTTAAATATACCATTAAAATA
1 AAGCTTAAATA-ACCA-TAAAATA
*
1715911 AAGTTTAAATAACCATAAAA
1 AAGCTTAAATAACCATAAAA
1715931 CCAACCACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 4 0.21
24 10 0.53
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.27
Consensus pattern (22 bp):
AAGCTTAAATAACCATAAAATA
Found at i:1718255 original size:14 final size:14
Alignment explanation
Indices: 1718236--1718265 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
1718226 TATTAAAATT
1718236 AAAAAATAAAGAAA
1 AAAAAATAAAGAAA
1718250 AAAAAATAAAGAAA
1 AAAAAATAAAGAAA
1718264 AA
1 AA
1718266 TAAACAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.87, C:0.00, G:0.07, T:0.07
Consensus pattern (14 bp):
AAAAAATAAAGAAA
Found at i:1719992 original size:15 final size:15
Alignment explanation
Indices: 1719974--1720003 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1719964 ACATTTGTGA
1719974 AGCAATTCTTTGTAG
1 AGCAATTCTTTGTAG
1719989 AGCAATTCTTTGTAG
1 AGCAATTCTTTGTAG
1720004 CAGTCCCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (15 bp):
AGCAATTCTTTGTAG
Found at i:1725668 original size:22 final size:22
Alignment explanation
Indices: 1725640--1725681 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1725630 ACGTATACGG
1725640 TTTTAAAATTATAATATATATT
1 TTTTAAAATTATAATATATATT
* *
1725662 TTTTAAAGTTGTAATATATA
1 TTTTAAAATTATAATATATA
1725682 GCTTTGAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (22 bp):
TTTTAAAATTATAATATATATT
Found at i:1725691 original size:22 final size:22
Alignment explanation
Indices: 1725651--1725692 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1725641 TTTAAAATTA
** *
1725651 TAATATATATTTTTTAAAGTTG
1 TAATATATAGCTTTGAAAGTTG
1725673 TAATATATAGCTTTGAAAGT
1 TAATATATAGCTTTGAAAGT
1725693 GTGTGTATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (22 bp):
TAATATATAGCTTTGAAAGTTG
Found at i:1725848 original size:12 final size:12
Alignment explanation
Indices: 1725834--1725886 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 12
1725824 ATATTTGTTA
1725834 TTTTTTATTTGATT
1 TTTTTTA-TT-ATT
1725848 TTTGTTTATTATT
1 TTT-TTTATTATT
*
1725861 TTTTTTCTTATT
1 TTTTTTATTATT
1725873 TTTTATT-TTATT
1 TTTT-TTATTATT
1725885 TT
1 TT
1725887 GTAGGTCTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
12 19 0.53
13 8 0.22
14 5 0.14
15 4 0.11
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.81
Consensus pattern (12 bp):
TTTTTTATTATT
Found at i:1725857 original size:15 final size:14
Alignment explanation
Indices: 1725825--1725880 Score: 50
Period size: 13 Copynumber: 4.4 Consensus size: 14
1725815 ATATATATTA
1725825 TATTTGTTATTTTT
1 TATTTGTTATTTTT
1725839 TATTTG--A-TTTT
1 TATTTGTTATTTTT
* *
1725850 TGTTTATTA-TTTT
1 TATTTGTTATTTTT
*
1725863 T-TTTCTTATTTTT
1 TATTTGTTATTTTT
1725876 TATTT
1 TATTT
1725881 TATTTTGTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
11 8 0.23
12 7 0.20
13 11 0.31
14 9 0.26
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (14 bp):
TATTTGTTATTTTT
Found at i:1729698 original size:54 final size:54
Alignment explanation
Indices: 1729633--1730229 Score: 762
Period size: 54 Copynumber: 11.1 Consensus size: 54
1729623 CTATGTGTAT
* * *
1729633 TATCGGCACTAAGTGTGCAATCCATGGAATTTATAATAAGTTTATGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
* * *
1729687 TATCGACACTAAGTGTACAACCCATGGAATTCATAATAAGTTTATGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
** * *
1729741 TATCGATACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACTG
1 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
* * * * *
1729795 TATCGACAATAAATGTGCAACCCACAGAATTCATAATAAGTTTATGAATGACCG
1 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
* * * *
1729849 TAACGGCACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAACGATCG
1 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
* * * *
1729903 TATCGGTACTAAGTGAGCAACCCACGAAATTCATAATAAGTTTATGAACGACCA
1 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
* ** *
1729957 TATCGGCACTAAGTGTGTAACCCACATAATTCATAATAAGTTCATGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
* * * * *
1730011 TATCGGTACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAATGATCG
1 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
** * * *
1730065 TATCTACACTAAGTGTGCAACCTATGGAATTCATAATAAGTTTATGAATGACCG
1 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
* * *
1730119 TATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAAAGACCG
1 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
* * * ** * * *
1730173 TATTGGCACTAAGGGTGCAACCTACAAAATTCATAATGAGTTTGTGAATGACCG
1 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
1730227 TAT
1 TAT
1730230 AAGCACTATA
Statistics
Matches: 478, Mismatches: 65, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 478 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (54 bp):
TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
Found at i:1729753 original size:27 final size:27
Alignment explanation
Indices: 1729669--1729754 Score: 68
Period size: 27 Copynumber: 3.2 Consensus size: 27
1729659 GAATTTATAA
*
1729669 TAAGTTTATGAACGACCGTATCGACAC
1 TAAGTTTATGAACGACCGTATCGATAC
* * * ** * *
1729696 TAAGTGTA-CAACCCATGGAATTC-ATAA
1 TAAGTTTATGAA-CGACCGTA-TCGATAC
1729723 TAAGTTTATGAACGACCGTATCGATAC
1 TAAGTTTATGAACGACCGTATCGATAC
1729750 TAAGT
1 TAAGT
1729755 GTGCAACCCA
Statistics
Matches: 40, Mismatches: 15, Indels: 8
0.63 0.24 0.13
Matches are distributed among these distances:
26 4 0.10
27 32 0.80
28 4 0.10
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (27 bp):
TAAGTTTATGAACGACCGTATCGATAC
Found at i:1729780 original size:27 final size:27
Alignment explanation
Indices: 1729750--1729835 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 27
1729740 GTATCGATAC
1729750 TAAGTGTGCAACCCACAGAATTCATAA
1 TAAGTGTGCAACCCACAGAATTCATAA
* * * * *
1729777 TAAGTTTATG-AA-CGACTGTA-TCGACAA
1 TAAG--TGTGCAACCCACAGAATTC-ATAA
*
1729804 TAAATGTGCAACCCACAGAATTCATAA
1 TAAGTGTGCAACCCACAGAATTCATAA
1729831 TAAGT
1 TAAGT
1729836 TTATGAATGA
Statistics
Matches: 41, Mismatches: 12, Indels: 12
0.63 0.18 0.18
Matches are distributed among these distances:
25 3 0.07
26 4 0.10
27 27 0.66
28 4 0.10
29 3 0.07
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (27 bp):
TAAGTGTGCAACCCACAGAATTCATAA
Found at i:1735769 original size:90 final size:89
Alignment explanation
Indices: 1735617--1735789 Score: 301
Period size: 90 Copynumber: 1.9 Consensus size: 89
1735607 ACACACCCTT
*
1735617 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTTAAATTAATTAAATCTATATTTA
1 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
*
1735682 ATTAATTGAAATTTAATAATCCTC
66 ATTAATTGAAATTAAATAATCCTC
* *
1735706 TTATATCCAAGTTACCCTGATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATATTT
1 TTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATCTATATTT
1735771 AATTAATTGAAATTAAATA
65 AATTAATTGAAATTAAATA
1735790 TTCAGGATTA
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 29 0.37
90 50 0.63
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (89 bp):
TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
ATTAATTGAAATTAAATAATCCTC
Found at i:1745700 original size:20 final size:20
Alignment explanation
Indices: 1745658--1745726 Score: 104
Period size: 20 Copynumber: 3.5 Consensus size: 20
1745648 TGGATAATTA
* *
1745658 GTATCAATACTAAGAAG-AT
1 GTATCAATACAAAGAGGAAT
1745677 GTATCAATACAAAGAGGAAT
1 GTATCAATACAAAGAGGAAT
1745697 GTATCAATACAAAGAGGAAT
1 GTATCAATACAAAGAGGAAT
*
1745717 GTATCGATAC
1 GTATCAATAC
1745727 CATGGATTCC
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 15 0.33
20 31 0.67
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.23
Consensus pattern (20 bp):
GTATCAATACAAAGAGGAAT
Found at i:1746119 original size:20 final size:20
Alignment explanation
Indices: 1746094--1746143 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
1746084 GATGTAATTA
*
1746094 GTATCAATACTAAGAAGAAT
1 GTATCAATACAAAGAAGAAT
*
1746114 GTATCAATACAAAGAGGAAT
1 GTATCAATACAAAGAAGAAT
*
1746134 GTATCGATAC
1 GTATCAATAC
1746144 CATGGATTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.24
Consensus pattern (20 bp):
GTATCAATACAAAGAAGAAT
Found at i:1746274 original size:417 final size:421
Alignment explanation
Indices: 1745677--1746441 Score: 1355
Period size: 417 Copynumber: 1.8 Consensus size: 421
1745667 CTAAGAAGAT
*
1745677 GTATCAATACAAAGAGGAATGTATCAATACAAAGAGGAATGTATCGATACCATGGATTCCATAAT
1 GTATCAATACAAAGAAGAATGTATCAATACAAAGAGGAATGTATCGATACCATGGATTCCATAAT
1745742 GCATAATGGTATCGATACTAAAGGGGTATCGGTACCATAATATAGAAGTATCGATATCATACAAG
66 GCATAATGGTATCGATACTAAAGGGGTATCGGTACCATAATATAGAAGTATCGATATCATACAAG
1745807 GGTACCGATACTATTGAGCCTGAAATGTTTTAGATAGGATAAATTTTAATAGAAATTGAATATAA
131 GGTACCGATACTATTGAGCCTGAAATGTTTTAGATAGGATAAATTTTAATAGAAATTGAATATAA
* *
1745872 TAGTAC-TTTAAGTATTATT-AAGTATAAATGTTAGAGAGTCTACTAACATTTGTATGGGATGTG
196 TAGTACTTTTAAGTATTATTAAAGAACAAATGTTAGAGAGTCTACTAACATTTGTATGGGATGTG
*
1745935 TAATAAT-GATGCTTGTGTAGATCAT-ACCAAGCTCCAGAGTCAAGAAAGAAAAAGGGAAAGGAT
261 TAATAATGGATGCTTGTGTAGATCATAACCAAGCTCCAGAGTCAAGAAAGAAAAAGAGAAAGGAT
* *
1745998 AAAATTGCGGAATAGTCATACATAGAATAACAGTACCGATATTATAGGTTTAAATTTTGGGAAAT
326 AAAATTACGGAATAGTCAGACATAGAATAACAGTACCGATATTATAGGTTTAAATTTTGGGAAAT
1746063 AAGATGAATAATATCGATATGGATGTAATTA
391 AAGATGAATAATATCGATATGGATGTAATTA
*
1746094 GTATCAATACTAAGAAGAATGTATCAATACAAAGAGGAATGTATCGATACCATGGATTCCATAAT
1 GTATCAATACAAAGAAGAATGTATCAATACAAAGAGGAATGTATCGATACCATGGATTCCATAAT
* *
1746159 GCATAAATGGTATCGATACTGAAGGGAGTATCGGTACCATAGTATAGAAGTATCGATATCATACA
66 GCAT-AATGGTATCGATACTAAAGGG-GTATCGGTACCATAATATAGAAGTATCGATATCATACA
*
1746224 AGGGGTACCGATACTATTGAGCCTTAAATG-TTTAGAT-GGATAAA-TTTAATAGAAATTGAATA
129 A-GGGTACCGATACTATTGAGCCTGAAATGTTTTAGATAGGATAAATTTTAATAGAAATTGAATA
1746286 TAATAGTACTTTTAAGTATTATTAAAGAACAAATGTTAGAGAGTCTACTAACATTTGTATGGGAT
193 TAATAGTACTTTTAAGTATTATTAAAGAACAAATGTTAGAGAGTCTACTAACATTTGTATGGGAT
*
1746351 GTGTAATAATGGATGCTTGTGTAGATCATAACCAAGCTCCAGAGTCAAGCAAGAAAAAGAGAAAG
258 GTGTAATAATGGATGCTTGTGTAGATCATAACCAAGCTCCAGAGTCAAGAAAGAAAAAGAGAAAG
1746416 GATAAAATTACGGAATAGTCAGACAT
323 GATAAAATTACGGAATAGTCAGACAT
1746442 CATTGCAGTA
Statistics
Matches: 330, Mismatches: 11, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
417 94 0.28
418 40 0.12
419 94 0.28
420 45 0.14
421 57 0.17
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (421 bp):
GTATCAATACAAAGAAGAATGTATCAATACAAAGAGGAATGTATCGATACCATGGATTCCATAAT
GCATAATGGTATCGATACTAAAGGGGTATCGGTACCATAATATAGAAGTATCGATATCATACAAG
GGTACCGATACTATTGAGCCTGAAATGTTTTAGATAGGATAAATTTTAATAGAAATTGAATATAA
TAGTACTTTTAAGTATTATTAAAGAACAAATGTTAGAGAGTCTACTAACATTTGTATGGGATGTG
TAATAATGGATGCTTGTGTAGATCATAACCAAGCTCCAGAGTCAAGAAAGAAAAAGAGAAAGGAT
AAAATTACGGAATAGTCAGACATAGAATAACAGTACCGATATTATAGGTTTAAATTTTGGGAAAT
AAGATGAATAATATCGATATGGATGTAATTA
Found at i:1746633 original size:54 final size:54
Alignment explanation
Indices: 1746545--1747045 Score: 568
Period size: 54 Copynumber: 9.4 Consensus size: 54
1746535 CTATGTGTAC
* * * *
1746545 TATCGCCACTAAGTGTGCAATCTACGAAATTCATAATAAGTTTATAAACGACCG
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
*
1746599 TATC-AGCACTAAGTGTGAAACCCACGAAATTCATAATAAGTTTATGAACGACCG
1 TATCGA-CACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
* * *
1746653 TATCGACACTAAGTGTGCACCCCACGGAATTCATAATAAGTTTATGAACAACCG
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
* * * *
1746707 ----GTCAGTAAGTGTGCAACCCAC-AGAATTCATAATATGTTTATGAATGACCG
1 TATCGACACTAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGACCG
* * *
1746757 TATCGCCACTAATTGTGCAACCCACGAAATTCATAATAAGTTTATGAATGACCG
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
** * * *
1746811 TATCGGTACTAAGTGTACAACCCACAAAATTCATAATAAGTTTATGAACGACAG
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
* * *
1746865 TATCGCCACTAAGTGTGCAACCCACGAAATTCATATTAAGTTTATGAATGACCG
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
* * * * *
1746919 TATCGACACTAAGTGTGCAGCTCATGAAGTTCATAATAACTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
* * * * * * * * * *
1746973 TATTGGCACTAAGGGTGCAATCCAC-AGAATTCACAATGAGTTTGTGAATGATCA
1 TATCGACACTAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGACCG
1747027 TATCGACACTATA-TGTGCA
1 TATCGACACTA-AGTGTGCA
1747046 CCCGAAGGAT
Statistics
Matches: 377, Mismatches: 60, Indels: 20
0.82 0.13 0.04
Matches are distributed among these distances:
50 42 0.11
53 1 0.00
54 331 0.88
55 3 0.01
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (54 bp):
TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
Found at i:1747365 original size:15 final size:15
Alignment explanation
Indices: 1747341--1747443 Score: 136
Period size: 15 Copynumber: 6.9 Consensus size: 15
1747331 TTGGTTTTCC
1747341 GGAAAATGAATTACT
1 GGAAAATGAATTACT
**
1747356 GGAATTTGAATTACT
1 GGAAAATGAATTACT
1747371 GGAAAATGAATTACT
1 GGAAAATGAATTACT
**
1747386 GGAATTTGAATTACT
1 GGAAAATGAATTACT
*
1747401 GAAAAATGAATTACT
1 GGAAAATGAATTACT
**
1747416 GGAATTTGAATTA-T
1 GGAAAATGAATTACT
1747430 GGAAAATGAATTAC
1 GGAAAATGAATTAC
1747444 ATTTCTGGAA
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
14 12 0.16
15 61 0.84
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.32
Consensus pattern (15 bp):
GGAAAATGAATTACT
Found at i:1747375 original size:30 final size:30
Alignment explanation
Indices: 1747341--1747443 Score: 190
Period size: 30 Copynumber: 3.5 Consensus size: 30
1747331 TTGGTTTTCC
1747341 GGAAAATGAATTACTGGAATTTGAATTACT
1 GGAAAATGAATTACTGGAATTTGAATTACT
1747371 GGAAAATGAATTACTGGAATTTGAATTACT
1 GGAAAATGAATTACTGGAATTTGAATTACT
*
1747401 GAAAAATGAATTACTGGAATTTGAATTA-T
1 GGAAAATGAATTACTGGAATTTGAATTACT
1747430 GGAAAATGAATTAC
1 GGAAAATGAATTAC
1747444 ATTTCTGGAA
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
29 14 0.20
30 57 0.80
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.32
Consensus pattern (30 bp):
GGAAAATGAATTACTGGAATTTGAATTACT
Found at i:1747485 original size:19 final size:20
Alignment explanation
Indices: 1747429--1747494 Score: 125
Period size: 20 Copynumber: 3.4 Consensus size: 20
1747419 ATTTGAATTA
1747429 TGGAAAATGAATTACATTTC
1 TGGAAAATGAATTACATTTC
1747449 TGGAAAATGAATTACATTTC
1 TGGAAAATGAATTACATTTC
1747469 TGGAAAATGAA-TACATTTC
1 TGGAAAATGAATTACATTTC
1747488 TGGAAAA
1 TGGAAAA
1747495 CATCTGGAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
19 15 0.33
20 31 0.67
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.32
Consensus pattern (20 bp):
TGGAAAATGAATTACATTTC
Found at i:1747861 original size:27 final size:27
Alignment explanation
Indices: 1747801--1747874 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
1747791 TCTTTACTAA
1747801 ATATATT-TAAATATATAAATAA-TATT
1 ATATATTATAAATATATAAA-AATTATT
*
1747827 AT-TCATTATGAATATATAAAAATTATT
1 ATAT-ATTATAAATATATAAAAATTATT
*
1747854 ATATATTATTAA-A-ATAAAAAT
1 ATATATTATAAATATATAAAAAT
1747875 CTAATATCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
25 9 0.21
26 8 0.19
27 24 0.57
28 1 0.02
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (27 bp):
ATATATTATAAATATATAAAAATTATT
Found at i:1747952 original size:21 final size:22
Alignment explanation
Indices: 1747922--1747970 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
1747912 AAACTAAAAA
1747922 TATAATATATTATTAT-AATATT
1 TATAATATA-TATTATAAATATT
*
1747944 TATAA-ATATATTTTAAATATT
1 TATAATATATATTATAAATATT
1747965 T-TAATA
1 TATAATA
1747971 ATTAATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 8 0.33
21 11 0.46
22 5 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TATAATATATATTATAAATATT
Found at i:1747971 original size:23 final size:23
Alignment explanation
Indices: 1747920--1747981 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 23
1747910 TTAAACTAAA
1747920 AATATAATATATTATTATAATATTT
1 AATA-AATATATT-TTATAATATTT
1747945 -ATAAATATATTTTA-AATATTTT
1 AATAAATATATTTTATAATA-TTT
*
1747967 AATAATTAATATTTT
1 AATAAAT-ATATTTT
1747982 GAGAAAATGA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
21 4 0.12
22 6 0.18
23 13 0.39
24 10 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
AATAAATATATTTTATAATATTT
Found at i:1748160 original size:19 final size:19
Alignment explanation
Indices: 1748136--1748208 Score: 137
Period size: 19 Copynumber: 3.8 Consensus size: 19
1748126 TTTTTTACTA
*
1748136 GGAAAATGAATTACGTTCT
1 GGAAAACGAATTACGTTCT
1748155 GGAAAACGAATTACGTTCT
1 GGAAAACGAATTACGTTCT
1748174 GGAAAACGAATTACGTTCT
1 GGAAAACGAATTACGTTCT
1748193 GGAAAACGAATTACGT
1 GGAAAACGAATTACGT
1748209 GAAACAAACA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 53 1.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (19 bp):
GGAAAACGAATTACGTTCT
Found at i:1748254 original size:42 final size:42
Alignment explanation
Indices: 1748193--1748304 Score: 197
Period size: 42 Copynumber: 2.7 Consensus size: 42
1748183 ATTACGTTCT
* *
1748193 GGAAAACGAATTACGTGAAACAAACACGGGAAAGCATTTTCC
1 GGAAAACGAATTACATGAAACAAACACGGGAAAACATTTTCC
*
1748235 GGAAAACGAATTACATGAAACAAACACGGGAAAACATTTTTC
1 GGAAAACGAATTACATGAAACAAACACGGGAAAACATTTTCC
1748277 GGAAAACGAATTACATGAAACAAACACG
1 GGAAAACGAATTACATGAAACAAACACG
1748305 AGATTTTGGG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.47, C:0.18, G:0.19, T:0.16
Consensus pattern (42 bp):
GGAAAACGAATTACATGAAACAAACACGGGAAAACATTTTCC
Found at i:1750316 original size:3 final size:3
Alignment explanation
Indices: 1750298--1750365 Score: 77
Period size: 3 Copynumber: 23.0 Consensus size: 3
1750288 CATTTGTTTT
* * *
1750298 TTA TTT TTA TTTA TTA TTA TAA TTA TT- TTA TTA -TA TTA TTA ATA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
1750342 ATA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
1750366 AATAATAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
2 4 0.07
3 49 0.88
4 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:1751839 original size:4 final size:4
Alignment explanation
Indices: 1751832--1751856 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1751822 TAATAAATAA
1751832 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
1751857 GTTTTCTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:1752121 original size:150 final size:156
Alignment explanation
Indices: 1751907--1752198 Score: 404
Period size: 150 Copynumber: 1.9 Consensus size: 156
1751897 ATATAATTTC
**
1751907 TTTTAGGAAAAATAATCATATTTTAATATTTATTATTTTTAATATTAAGAAAATGGTTGCCTTAA
1 TTTTAGGAAAAATAAT-ATATTTTAATATTTATTATTTTTAATATTAAGAAAATGACTGCCTTAA
* * *
1751972 AGCAACTAGAAGTC-ATTTCTGATATTT-TAAATAACTAAATATCCTATTT-TGATAAAT-T-AT
65 AGCAACTAAAAGTCTATTTCTGATATTTCTAAATAAATAAATATCCTATTTAT-AAAAATATAAT
1752032 ATATATATATATAATTTTTTTTTTATTA
129 ATATATATATATAATTTTTTTTTTATTA
*
1752060 TTTTAGGAAAAAT-AT-T-TTATTAATA-TTATTTATTTTTAATATTAAGAAAATGACTGTCTTA
1 TTTTAGGAAAAATAATATATT-TTAATATTTA-TTATTTTTAATATTAAGAAAATGACTGCCTTA
* * *
1752121 AAGCAACTAAAAGTCTTTTTCTGATATTTCTAAGTAAATAAATATCTTATTTATAAAAATATAAT
64 AAGCAACTAAAAGTCTATTTCTGATATTTCTAAATAAATAAATATCCTATTTATAAAAATATAAT
1752186 ATATATATATATA
129 ATATATATATATA
1752199 TATATATATA
Statistics
Matches: 123, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
149 5 0.04
150 50 0.41
151 12 0.10
152 26 0.21
153 15 0.12
154 15 0.12
ACGTcount: A:0.41, C:0.06, G:0.07, T:0.46
Consensus pattern (156 bp):
TTTTAGGAAAAATAATATATTTTAATATTTATTATTTTTAATATTAAGAAAATGACTGCCTTAAA
GCAACTAAAAGTCTATTTCTGATATTTCTAAATAAATAAATATCCTATTTATAAAAATATAATAT
ATATATATATAATTTTTTTTTTATTA
Found at i:1752231 original size:2 final size:2
Alignment explanation
Indices: 1752179--1752220 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
1752169 ATTTATAAAA
1752179 AT AT A- 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
1752220 A
1 A
1752221 AGTTAATATA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1763494 original size:17 final size:16
Alignment explanation
Indices: 1763474--1763517 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
1763464 ATTATGCTTG
1763474 AAGAATAAAAAAAT-AA
1 AAGAA-AAAAAAATGAA
1763490 TAAG-AAAAAAAATGAA
1 -AAGAAAAAAAAATGAA
1763506 AAGAAAAAAAAA
1 AAGAAAAAAAAA
1763518 ACAAAATAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 11 0.44
16 11 0.44
17 3 0.12
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (16 bp):
AAGAAAAAAAAATGAA
Done.