Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008010.1 Hibiscus syriacus cultivar Beakdansim tig00110472_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: 3152856
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 14
Found at i:1194138 original size:18 final size:18
Alignment explanation
Indices: 1194111--1194145 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1194101 AGAAACACAA
1194111 TGTTTAAAATTTGATTTT
1 TGTTTAAAATTTGATTTT
* *
1194129 TGTTTTAAATTTTATTT
1 TGTTTAAAATTTGATTT
1194146 ATGCCAAATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.66
Consensus pattern (18 bp):
TGTTTAAAATTTGATTTT
Found at i:1198233 original size:2 final size:2
Alignment explanation
Indices: 1198226--1198256 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1198216 TCGCCAACTT
1198226 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1198257 TTGTAATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1217295 original size:36 final size:37
Alignment explanation
Indices: 1217254--1217336 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 37
1217244 AAAATAATAT
* *
1217254 CACTATT-TAAGGCTCAATCTCACATAGTATTGGAAA
1 CACTATTGGAAGGCTCAATCCCACATAGTATTGGAAA
* *
1217290 CACTATTGGGAATGCTCAATCCCATATAGTATTGGAAA
1 CACTATT-GGAAGGCTCAATCCCACATAGTATTGGAAA
*
1217328 CATTATTGG
1 CACTATTGG
1217337 GAATGGTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
36 7 0.17
37 2 0.05
38 31 0.77
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (37 bp):
CACTATTGGAAGGCTCAATCCCACATAGTATTGGAAA
Found at i:1217309 original size:38 final size:38
Alignment explanation
Indices: 1217265--1217341 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
1217255 ACTATTTAAG
*
1217265 GCTCAATCTCACATAGTATTGGAAACACTATTGGGAAT
1 GCTCAATCCCACATAGTATTGGAAACACTATTGGGAAT
* *
1217303 GCTCAATCCCATATAGTATTGGAAACATTATTGGGAAT
1 GCTCAATCCCACATAGTATTGGAAACACTATTGGGAAT
1217341 G
1 G
1217342 GTATTTAAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (38 bp):
GCTCAATCCCACATAGTATTGGAAACACTATTGGGAAT
Found at i:1217646 original size:21 final size:20
Alignment explanation
Indices: 1217621--1217943 Score: 262
Period size: 21 Copynumber: 15.6 Consensus size: 20
1217611 AATATGTAAA
* *
1217621 TCGCAATGCGATAGTCGACT
1 TCGCATTGCGATAGTCGAGT
* *
1217641 ATCGCATTGCGAT-TTAC-ATAT
1 -TCGCATTGCGATAGT-CGA-GT
*
1217662 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGT-CGAGT
1217683 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCG-AGT
* *
1217704 TCGCGTTGCGATAGTCCAAGT
1 TCGCATTGCGATAGT-CGAGT
*
1217725 TCGCATTGCGATAGTCGACT
1 TCGCATTGCGATAGTCGAGT
* *
1217745 ATCGCATTGCGAT-TTAC-ATAT
1 -TCGCATTGCGATAGT-CGA-GT
*
1217766 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGT-CGAGT
1217787 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCG-AGT
*
1217808 TCGCGTTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCG-AGT
* *
1217829 TCGCGTTGCGATAGTCCAAGT
1 TCGCATTGCGATAGT-CGAGT
*
1217850 TCGCATTGCGATAGTCGACT
1 TCGCATTGCGATAGTCGAGT
* *
1217870 ATCGCATTGCGAT-TTAC-ATAT
1 -TCGCATTGCGATAGT-CGA-GT
* *
1217891 TCGCATTGCGATAATCCAAGT
1 TCGCATTGCGATAGT-CGAGT
1217912 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCG-AGT
*
1217933 TCGCGTTGCGA
1 TCGCATTGCGA
1217944 ATCTGGAAAC
Statistics
Matches: 252, Mismatches: 31, Indels: 38
0.79 0.10 0.12
Matches are distributed among these distances:
20 51 0.20
21 196 0.78
22 5 0.02
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.30
Consensus pattern (20 bp):
TCGCATTGCGATAGTCGAGT
Found at i:1217741 original size:104 final size:104
Alignment explanation
Indices: 1217621--1217943 Score: 458
Period size: 104 Copynumber: 3.1 Consensus size: 104
1217611 AATATGTAAA
*
1217621 TCGCAATGCGATAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCG
1 TCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCG
*
1217686 CATTGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAAGT
66 CATTGCGATAGTCGAAGTTCGCGTTGCGATAGTCGAAGT
1217725 TCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCG
1 TCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCG
1217790 CATTGCGATAGTCGAAGTTCGCGTTGCGATAGTCGAAGT
66 CATTGCGATAGTCGAAGTTCGCGTTGCGATAGTCGAAGT
* * * * * *
1217829 TCGCGTTGCGATAGTCCAAGT-TCGCATTGCGATAGT-CGACTA-TCGCATTGCGAT-TTACATA
1 TCGCATTGCGATAGT-CGACTATCGCATTGCGAT-TTAC-A-TATTCGCATTGCGATAGTCCA-A
* * *
1217890 -TTCGCATTGCGATAATCCAAGTTCGCATTGCGATAGTCGAAGT
61 GTTCGCATTGCGATAGTCGAAGTTCGCGTTGCGATAGTCGAAGT
*
1217933 TCGCGTTGCGA
1 TCGCATTGCGA
1217944 ATCTGGAAAC
Statistics
Matches: 203, Mismatches: 11, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
104 183 0.90
105 18 0.09
106 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.30
Consensus pattern (104 bp):
TCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCG
CATTGCGATAGTCGAAGTTCGCGTTGCGATAGTCGAAGT
Found at i:1217800 original size:125 final size:125
Alignment explanation
Indices: 1217661--1217943 Score: 539
Period size: 125 Copynumber: 2.3 Consensus size: 125
1217651 GATTTACATA
* *
1217661 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAAGTT
1 TTCGCATTGCGATAGTCGAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAAGTT
*
1217726 CGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAG
66 CGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAATCCAAG
1217786 TTCGCATTGCGATAGTCGAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAAGTT
1 TTCGCATTGCGATAGTCGAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAAGTT
1217851 CGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAATCCAAG
66 CGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAATCCAAG
1217911 TTCGCATTGCGATAGTCGAAGTTCGCGTTGCGA
1 TTCGCATTGCGATAGTCGAAGTTCGCGTTGCGA
1217944 ATCTGGAAAC
Statistics
Matches: 155, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
125 155 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (125 bp):
TTCGCATTGCGATAGTCGAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAAGTT
CGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAATCCAAG
Found at i:1221007 original size:2 final size:2
Alignment explanation
Indices: 1221000--1221035 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1220990 CAATTTTGTA
1221000 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
1221036 GAATTTAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1221697 original size:21 final size:21
Alignment explanation
Indices: 1221673--1221777 Score: 115
Period size: 21 Copynumber: 5.1 Consensus size: 21
1221663 GCAAATTCGC
1221673 GTTGCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* **
1221694 GTTGAAAATCGCGTTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
* *
1221714 TTTTCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* *
1221735 GTTGAAATTCGCGTTGCGAT-
1 GTTGCATTTCGCGTTGCGATA
* *
1221755 TTTCCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
1221776 GT
1 GT
1221778 CTACAGTTGT
Statistics
Matches: 65, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
20 31 0.48
21 34 0.52
ACGTcount: A:0.17, C:0.18, G:0.26, T:0.39
Consensus pattern (21 bp):
GTTGCATTTCGCGTTGCGATA
Found at i:1221722 original size:41 final size:41
Alignment explanation
Indices: 1221677--1221777 Score: 184
Period size: 41 Copynumber: 2.5 Consensus size: 41
1221667 ATTCGCGTTG
*
1221677 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
1221718 CATTTCGCGTTGCGATAGTTGAAATTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1221759 CATTTCGCGTTGCGATAGT
1 CATTTCGCGTTGCGATAGT
1221778 CTACAGTTGT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.39
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:1221727 original size:20 final size:20
Alignment explanation
Indices: 1221702--1221774 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
1221692 TAGTTGAAAA
*
1221702 TCGCGTTGCGATTTTTCATT
1 TCGCGTTGCGATTTTCCATT
* ** *
1221722 TCGCGTTGCGATAGTTGAAAT
1 TCGCGTTGCGAT-TTTCCATT
1221743 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
1221763 TCGCGTTGCGAT
1 TCGCGTTGCGAT
1221775 AGTCTACAGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.14, C:0.21, G:0.25, T:0.41
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:1221940 original size:6 final size:6
Alignment explanation
Indices: 1221896--1221926 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
1221886 GACACGTATT
1221896 ACCACG ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG A
1221927 GACGACGACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:1222564 original size:19 final size:19
Alignment explanation
Indices: 1222540--1222605 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
1222530 ATCTTTTTTT
1222540 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
* * **
1222559 CAACGACAACTGTAGACTATCG
1 CAACG--AA-TTTGGAAAATCG
1222581 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
1222600 CAACGA
1 CAACGA
1222606 CAACTGCAGA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 19 0.53
20 2 0.06
21 2 0.06
22 13 0.36
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (19 bp):
CAACGAATTTGGAAAATCG
Found at i:1222582 original size:22 final size:22
Alignment explanation
Indices: 1222555--1222626 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
1222545 AATTTGGAAA
1222555 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
1222577 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
*
1222596 ATCGCAACGACAACTGCAGACT
1 ATCGCAACGACAACTGTAGACT
1222618 ATCGCAACG
1 ATCGCAACG
1222627 CGAAATGGAA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 13 0.34
20 2 0.05
21 2 0.05
22 21 0.55
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:1222585 original size:41 final size:41
Alignment explanation
Indices: 1222540--1222646 Score: 171
Period size: 41 Copynumber: 2.6 Consensus size: 41
1222530 ATCTTTTTTT
*
1222540 CAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCG
1 CAACGAATTTGGAAAATCGCAACGACAACTGCAGACTATCG
1222581 CAACGAATTTGGAAAATCGCAACGACAACTGCAGACTATCG
1 CAACGAATTTGGAAAATCGCAACGACAACTGCAGACTATCG
*
1222622 CAACGCGAA-ATGGAAAATCGCAACG
1 CAA--CGAATTTGGAAAATCGCAACG
1222647 CGATTTTCAA
Statistics
Matches: 62, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
41 43 0.69
42 15 0.24
43 4 0.06
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (41 bp):
CAACGAATTTGGAAAATCGCAACGACAACTGCAGACTATCG
Found at i:1222643 original size:20 final size:20
Alignment explanation
Indices: 1222618--1222687 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
1222608 ACTGCAGACT
1222618 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
1222638 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
1222659 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
1222679 AACGCAACG
1 ATCGCAACG
1222688 TGATTTTCAA
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
20 23 0.61
21 15 0.39
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:1222660 original size:41 final size:41
Alignment explanation
Indices: 1222615--1222715 Score: 175
Period size: 41 Copynumber: 2.5 Consensus size: 41
1222605 ACAACTGCAG
*
1222615 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAAACGCAACGCGATTTTCA
*
1222656 ACTATCGCAACGCGAAATGGAAAAACGCAACGTGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAAACGCAACGCGATTTTCA
*
1222697 ACTATCGCAATGCGAAATG
1 ACTATCGCAACGCGAAATG
1222716 CAACGTGAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAAACGCAACGCGATTTTCA
Found at i:1222664 original size:21 final size:21
Alignment explanation
Indices: 1222638--1222711 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 21
1222628 GAAATGGAAA
1222638 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
** ** *
1222659 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGATTTTCAACT
* *
1222679 AACGCAACGTGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
*
1222700 ATCGCAATGCGA
1 ATCGCAACGCGA
1222712 AATGCAACGT
Statistics
Matches: 37, Mismatches: 15, Indels: 2
0.69 0.28 0.04
Matches are distributed among these distances:
20 13 0.35
21 24 0.65
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:1223634 original size:12 final size:12
Alignment explanation
Indices: 1223610--1223724 Score: 62
Period size: 12 Copynumber: 9.4 Consensus size: 12
1223600 TAAGACTAAT
1223610 ATAA-TAAAATA
1 ATAATTAAAATA
*
1223621 ATAATTAAAGTA
1 ATAATTAAAATA
1223633 ATAATTTAAAAT-
1 ATAA-TTAAAATA
1223645 AT-ATTAAAAATA
1 ATAATT-AAAATA
1223657 ATAATAATAAAA-A
1 ATAAT--TAAAATA
*
1223670 TTAAGTTAAAAT-
1 ATAA-TTAAAATA
* *
1223682 ATAACT-AAACA
1 ATAATTAAAATA
**
1223693 ACGATTAAAATAA
1 ATAATTAAAAT-A
1223706 ATAAAATTAAAATA
1 AT--AATTAAAATA
1223720 ATAAT
1 ATAAT
1223725 AATAAAATGT
Statistics
Matches: 78, Mismatches: 12, Indels: 27
0.67 0.10 0.23
Matches are distributed among these distances:
10 5 0.06
11 14 0.18
12 28 0.36
13 14 0.18
14 8 0.10
15 9 0.12
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (12 bp):
ATAATTAAAATA
Found at i:1223634 original size:25 final size:24
Alignment explanation
Indices: 1223606--1223668 Score: 60
Period size: 25 Copynumber: 2.5 Consensus size: 24
1223596 ATTATAAGAC
1223606 TAATATAATAAAATAATAATTAAAGTAA
1 TAATATAATAAAAT-AT-ATTAAA--AA
1223634 TAAT-T--TAAAATATATTAAAAA
1 TAATATAATAAAATATATTAAAAA
1223655 TAATAATAATAAAA
1 TAAT-ATAATAAAA
1223669 ATTAAGTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
21 6 0.19
23 7 0.23
24 2 0.06
25 11 0.35
27 1 0.03
28 4 0.13
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
TAATATAATAAAATATATTAAAAA
Found at i:1223730 original size:14 final size:15
Alignment explanation
Indices: 1223696--1223732 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
1223686 CTAAACAACG
1223696 ATTAAAATAAATAAA
1 ATTAAAATAAATAAA
1223711 ATTAAAAT-AATAATA
1 ATTAAAATAAATAA-A
1223726 A-TAAAAT
1 ATTAAAAT
1223733 GTAAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATTAAAATAAATAAA
Found at i:1225074 original size:124 final size:123
Alignment explanation
Indices: 1224791--1225074 Score: 471
Period size: 123 Copynumber: 2.3 Consensus size: 123
1224781 TCAAACAAAT
* * *
1224791 GTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGTTGATCTATCTCCTTCTGTGGTAGAGT
1 GTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTCCTTCTATGATAGAGT
* *
1224856 CATGCAAAAGGTTAAACAAGCTCTTCTCATATGAACTTCTTCTTCCTTCTTCAGATGA
66 CATGCAAAAGGTTAAACAAGCTATTCTCATATGAACTTCTTCTTCCTTATTCAGATGA
1224914 GTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTCCTTCTATGATAGAGT
1 GTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTCCTTCTATGATAGAGT
* * *
1224979 CATGCAAAAGGTTGAACAAGCTATTCTCATTATGAATTTCTTCTTTCTTATTCAGATGA
66 CATGCAAAAGGTTAAACAAGCTATTCTCA-TATGAACTTCTTCTTCCTTATTCAGATGA
1225038 GTTCTTCTCATTATGAACTTTCTCT-GAAAACGTTGAT
1 GTTCTTCTCATTATGAACTTTCTCTGGAAAA-GTTGAT
1225075 CCATCGAATG
Statistics
Matches: 151, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
123 94 0.62
124 57 0.38
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.40
Consensus pattern (123 bp):
GTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTCCTTCTATGATAGAGT
CATGCAAAAGGTTAAACAAGCTATTCTCATATGAACTTCTTCTTCCTTATTCAGATGA
Found at i:1226227 original size:33 final size:33
Alignment explanation
Indices: 1226190--1226260 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
1226180 ATATTTTGTT
*
1226190 TGTTTTTAAGATTATATTAATCTATTTACAGGA
1 TGTTTTTAAGATAATATTAATCTATTTACAGGA
1226223 TGTTTTTAAGATAATATTAATCTATTTACAGGA
1 TGTTTTTAAGATAATATTAATCTATTTACAGGA
1226256 TGTTT
1 TGTTT
1226261 ATATGAAACA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (33 bp):
TGTTTTTAAGATAATATTAATCTATTTACAGGA
Found at i:1226293 original size:18 final size:18
Alignment explanation
Indices: 1226270--1226304 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1226260 TATATGAAAC
1226270 AAATTGAATTTCAAAAAT
1 AAATTGAATTTCAAAAAT
*
1226288 AAATTGAATTTTAAAAA
1 AAATTGAATTTCAAAAA
1226305 GATAAACTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (18 bp):
AAATTGAATTTCAAAAAT
Found at i:1226674 original size:12 final size:11
Alignment explanation
Indices: 1226650--1226724 Score: 71
Period size: 12 Copynumber: 6.5 Consensus size: 11
1226640 CATGACCCTC
*
1226650 TTTTTCTATTT
1 TTTTTCTTTTT
1226661 TTTTTCTTTCTT
1 TTTTTCTTT-TT
*
1226673 TTTTTCATTTTA
1 TTTTTC-TTTTT
1226685 TTTTTCTTTTAT
1 TTTTTCTTTT-T
*
1226697 TATTTT-TTATT
1 T-TTTTCTTTTT
1226708 TTTTTCTTTATT
1 TTTTTCTTT-TT
1226720 TTTTT
1 TTTTT
1226725 TTCATCATCT
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
10 4 0.08
11 16 0.30
12 26 0.49
13 7 0.13
ACGTcount: A:0.09, C:0.08, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:1226677 original size:14 final size:14
Alignment explanation
Indices: 1226652--1226743 Score: 51
Period size: 16 Copynumber: 6.0 Consensus size: 14
1226642 TGACCCTCTT
1226652 TTTCTATTTTTTTTC
1 TTTCT-TTTTTTTTC
1226667 TTTCTTTTTTTCATT-
1 TTTCTTTTTTT--TTC
* *
1226682 TTATTTTTCTTTTATTA
1 TT-TCTTT-TTTT-TTC
*
1226699 TTTTTTATTTTTTTC
1 TTTCTT-TTTTTTTC
*
1226714 TTTATTTTTTTTTC
1 TTTCTTTTTTTTTC
*
1226728 ATCATCTTTTTTTTTC
1 -T-TTCTTTTTTTTTC
1226744 AAGCATAATA
Statistics
Matches: 64, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
14 14 0.22
15 15 0.23
16 28 0.44
17 7 0.11
ACGTcount: A:0.10, C:0.11, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTCTTTTTTTTTC
Found at i:1226694 original size:19 final size:18
Alignment explanation
Indices: 1226656--1226727 Score: 67
Period size: 19 Copynumber: 3.8 Consensus size: 18
1226646 CCTCTTTTTC
1226656 TATT-TTTTTTCTTTCTTT
1 TATTATTTTTT-TTTCTTT
*
1226674 TTTTCATTTTATTTTTCTTT
1 TATT-ATTTT-TTTTTCTTT
1226694 TATTATTTTTTATTT-TTT
1 TATTATTTTTT-TTTCTTT
*
1226712 TCTTTATTTTTTTTTC
1 T-ATTATTTTTTTTTC
1226728 ATCATCTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
18 12 0.27
19 17 0.38
20 14 0.31
21 2 0.04
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (18 bp):
TATTATTTTTTTTTCTTT
Found at i:1226738 original size:49 final size:48
Alignment explanation
Indices: 1226650--1226742 Score: 109
Period size: 49 Copynumber: 1.9 Consensus size: 48
1226640 CATGACCCTC
**
1226650 TTTTTCTATTTTTTTTCTTTCTTTTTTTCATTTTATTTTTCTTTTATTA
1 TTTTTCTATTTTTTTTCTTTCTTTTTTTCATCATATTTTT-TTTTATTA
* *
1226699 TTTTT-TA-TTTTTTTCTTTATTTTTTTTTCATCATCTTTTTTTTT
1 TTTTTCTATTTTTTTTC-TT-TCTTTTTTTCATCATATTTTTTTTT
1226743 CAAGCATAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
47 8 0.21
48 8 0.21
49 22 0.58
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.81
Consensus pattern (48 bp):
TTTTTCTATTTTTTTTCTTTCTTTTTTTCATCATATTTTTTTTTATTA
Found at i:1238233 original size:12 final size:12
Alignment explanation
Indices: 1238209--1238323 Score: 62
Period size: 12 Copynumber: 9.4 Consensus size: 12
1238199 TAAGACTAAT
1238209 ATAA-TAAAATA
1 ATAATTAAAATA
*
1238220 ATAATTAAAGTA
1 ATAATTAAAATA
1238232 ATAATTTAAAAT-
1 ATAA-TTAAAATA
1238244 AT-ATTAAAAATA
1 ATAATT-AAAATA
1238256 ATAATAATAAAA-A
1 ATAAT--TAAAATA
*
1238269 TTAAGTTAAAAT-
1 ATAA-TTAAAATA
* *
1238281 ATAACT-AAACA
1 ATAATTAAAATA
* *
1238292 ATGACTAAAATAA
1 ATAATTAAAAT-A
1238305 ATAAAATTAAAATA
1 AT--AATTAAAATA
1238319 ATAAT
1 ATAAT
1238324 AATAAAATGT
Statistics
Matches: 80, Mismatches: 10, Indels: 27
0.68 0.09 0.23
Matches are distributed among these distances:
10 5 0.06
11 16 0.20
12 28 0.35
13 15 0.19
14 8 0.10
15 8 0.10
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (12 bp):
ATAATTAAAATA
Found at i:1238233 original size:25 final size:24
Alignment explanation
Indices: 1238180--1238267 Score: 60
Period size: 23 Copynumber: 3.6 Consensus size: 24
1238170 TAAATAAATT
* *
1238180 AATAATATATATATAAT-TA-TAAG
1 AATAATATA-ATAAAATATATTAAA
*
1238203 ACTAATATAATAAAATAATAATTAAA
1 AATAATATAATAAAAT-AT-ATTAAA
1238229 GTAATAAT-T--TAAAATATATTAAA
1 --AATAATATAATAAAATATATTAAA
1238252 AATAATAATAATAAAA
1 AATAAT-ATAATAAAA
1238268 ATTAAGTTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 18
0.70 0.05 0.25
Matches are distributed among these distances:
21 6 0.12
22 6 0.12
23 15 0.29
24 3 0.06
25 12 0.24
26 3 0.06
27 1 0.02
28 5 0.10
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (24 bp):
AATAATATAATAAAATATATTAAA
Found at i:1238363 original size:22 final size:21
Alignment explanation
Indices: 1238304--1238352 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 21
1238294 GACTAAAATA
1238304 AATAAAAT-TAAAATAATAAT
1 AATAAAATGTAAAATAATAAT
1238324 AATAAAATGTAAAAATAATAAT
1 AATAAAATGT-AAAATAATAAT
1238346 AATAAAA
1 AATAAAA
1238353 CTTGTAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 8 0.30
21 1 0.04
22 18 0.67
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (21 bp):
AATAAAATGTAAAATAATAAT
Found at i:1239685 original size:3 final size:3
Alignment explanation
Indices: 1239677--1239724 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
1239667 TAAAATTATT
1239677 TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA -AA TACA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
1239720 TAA TA
1 TAA TA
1239725 TTTAAATGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
2 5 0.12
3 35 0.85
4 1 0.02
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:1239700 original size:20 final size:21
Alignment explanation
Indices: 1239678--1239724 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
1239668 AAAATTATTT
*
1239678 AATAATAATAATATAATA-AT
1 AATAATAATAATAAAATACAT
1239698 AATAATAATAATAAAATACA-
1 AATAATAATAATAAAATACAT
1239718 AATAATA
1 AATAATA
1239725 TTTAAATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
AATAATAATAATAAAATACAT
Found at i:1245551 original size:13 final size:14
Alignment explanation
Indices: 1245522--1245559 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
1245512 ATATATATAT
1245522 TTTTTAAAATCTTAA
1 TTTTTAAAA-CTTAA
1245537 TTTTTAAAA-TTAA
1 TTTTTAAAACTTAA
1245550 TTATTTAAAA
1 TT-TTTAAAA
1245560 ATATAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.27
14 7 0.32
15 9 0.41
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTTTAAAACTTAA
Found at i:1245801 original size:3 final size:3
Alignment explanation
Indices: 1245779--1245839 Score: 95
Period size: 3 Copynumber: 20.3 Consensus size: 3
1245769 TTTATTTTCA
* * *
1245779 AAT AAT GAT AAT GAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1245827 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
1245840 TTAAATATTG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1246509 original size:21 final size:22
Alignment explanation
Indices: 1246472--1246512 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1246462 CATATTTAAA
*
1246472 TATTTTAATACAAGAAAGTTTT
1 TATTTTAATAAAAGAAAGTTTT
1246494 TATTTTAA-AAAAGAAAGTT
1 TATTTTAATAAAAGAAAGTT
1246513 GATGTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.41
Consensus pattern (22 bp):
TATTTTAATAAAAGAAAGTTTT
Found at i:1259938 original size:294 final size:291
Alignment explanation
Indices: 1259412--1259997 Score: 1056
Period size: 294 Copynumber: 2.0 Consensus size: 291
1259402 CCTTTTTAGC
1259412 AAGCTTGTTGGCGAGATGAAGATATGGTTTATGACCAAATGCAAACACGGCAACATGAGAATACG
1 AAGCTTGTTGGCGAGATGAAGATATGGTTTATGACCAAATGCAAACACGGCAACATGAGAATACG
1259477 AGTGCCTAAACTATTGGTTTTCTGCCATGTTTGTTTTGATAGTTTTGGCTTGGTGAAACTGCAGG
66 AGTGCCTAAACTATTGGTTTTCTGCCATGTTTGTTTTGATAGTTTTGGCTTGGTGAAACTGCAGG
1259542 GGACTTGGTTTTTGAAAGACGAGGCATTAAGATCAAATTCCAGGTAAATTATTGACCCAGATCTT
131 GGACTTGGTTTTTGAAAGACGAGGCATTAAGATCAAATTCCAGGTAAATTATTGACCCAGATCTT
1259607 TAATTAACTGAACACCCGAAATCTTTTGCGGTTAAAGTTCAGTTGCAGGTCTGAAAATTGGAAAC
196 TAATTAACTGAACACCCGAAA-CTTTTGCGGTTAAAGTTCAGTTGCAGGTCTGAAAATTGGAAAC
1259672 ATGTTCAA-TTATTGTTTAGATTTAACATGTT
260 ATGTTCAATTTATTGTTTAGATTTAACATGTT
1259703 AAGCTTGTTGGCGAGATGAAGATATGGTGTTATGTGACCAAATGCAAAACACGGCAACATGAGAA
1 AAGCTTGTTGGCGAGATGAAGATATGGT-TTA--TGACCAAATGC-AAACACGGCAACATGAGAA
1259768 TACGAGTGCCTAAACTATTGG-TTTCTGCCATGTTTG-TTTGATAG-TTTGGCTTGGTGAAACTG
62 TACGAGTGCCTAAACTATTGGTTTTCTGCCATGTTTGTTTTGATAGTTTTGGCTTGGTGAAACTG
1259830 CAGGGGACTTGGTTTTTGAAAGACGAGGCATTAAAGATCAAAATTCCAGGGTAAAATTATTGACC
127 CAGGGGACTTGGTTTTTGAAAGACGAGGCATT-AAGATC-AAATTCCA-GGT-AAATTATTGACC
1259895 CAGATCTTTAATTAACTGAACACCCGAAA-TTTTGCGGTTAAAGTTCAGTTGCAGGTCTGAAAAT
188 CAGATCTTTAATTAACTGAACACCCGAAACTTTTGCGGTTAAAGTTCAGTTGCAGGTCTGAAAAT
1259959 TGGAAACATGTTCAATTTATTGTTTAGATTTAACATGTT
253 TGGAAACATGTTCAATTTATTGTTTAGATTTAACATGTT
1259998 TTTGACAAAT
Statistics
Matches: 286, Mismatches: 0, Indels: 14
0.95 0.00 0.05
Matches are distributed among these distances:
291 28 0.10
292 53 0.19
293 14 0.05
294 84 0.29
295 66 0.23
296 41 0.14
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (291 bp):
AAGCTTGTTGGCGAGATGAAGATATGGTTTATGACCAAATGCAAACACGGCAACATGAGAATACG
AGTGCCTAAACTATTGGTTTTCTGCCATGTTTGTTTTGATAGTTTTGGCTTGGTGAAACTGCAGG
GGACTTGGTTTTTGAAAGACGAGGCATTAAGATCAAATTCCAGGTAAATTATTGACCCAGATCTT
TAATTAACTGAACACCCGAAACTTTTGCGGTTAAAGTTCAGTTGCAGGTCTGAAAATTGGAAACA
TGTTCAATTTATTGTTTAGATTTAACATGTT
Found at i:1267664 original size:30 final size:29
Alignment explanation
Indices: 1267621--1267692 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 29
1267611 AAATTAAAAA
*
1267621 TTAAAAAGTTTAAATTTTGATTATAAT-TAT-T
1 TTAAAAA--TTAAATTTT-A-TAGAATATATAT
1267652 TTAAATAATTAAATTTTATAGAATATATAT
1 TTAAA-AATTAAATTTTATAGAATATATAT
1267682 TTAAAAATTAA
1 TTAAAAATTAA
1267693 TTGATTGAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
28 5 0.14
29 10 0.27
30 15 0.41
31 5 0.14
32 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (29 bp):
TTAAAAATTAAATTTTATAGAATATATAT
Found at i:1272796 original size:18 final size:15
Alignment explanation
Indices: 1272773--1272811 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 15
1272763 TTTATAATTA
1272773 TTTTAATATTATATACT
1 TTTTAATATT-T-TACT
1272790 CTTTTAATATTTTACT
1 -TTTTAATATTTTACT
1272806 TTTTAA
1 TTTTAA
1272812 AAAACAACCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.29
16 4 0.19
17 1 0.05
18 10 0.48
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTAATATTTTACT
Found at i:1275652 original size:17 final size:18
Alignment explanation
Indices: 1275630--1275669 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
1275620 AAAAAATGCA
1275630 AATAAAAATATA-ATTAT
1 AATAAAAATATATATTAT
*
1275647 AATAAAAATATATTTTAT
1 AATAAAAATATATATTAT
1275665 AATAA
1 AATAA
1275670 CTCACTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AATAAAAATATATATTAT
Found at i:1276586 original size:212 final size:214
Alignment explanation
Indices: 1276266--1276659 Score: 584
Period size: 212 Copynumber: 1.9 Consensus size: 214
1276256 CGATATATTT
* *
1276266 ACATATGTGCTCAACCCAAACTATTTAAAACCTAATTAATAATTTAAAATCCAATAACTTTTAAA
1 ACATATGGGCTCAACCCAAACCATTTAAAACCTAATTAATAATTTAAAATCCAATAACTTTTAAA
1276331 CCTAAATCAATATTAATTATTAAAAAATATAAAATTTTATTTTATAATTATATATCATTTAAATT
66 CCTAAATCAATATTAATTATTAAAAAATATAAAATTTTATTTTATAATTATATATCATTTAAATT
*
1276396 AATTGTAAACTATTTTTTTTGAATTAAAAAATATTTA-ATTTTATATAAATTAACCGAAATTAAA
131 AATCGTAAACTATTTTTTTTGAATT-AAAAATATTTAGATTTTATATAAATTAACCGAAATTAAA
1276460 TTTTAAATATATTATATATA
195 TTTTAAATATATTATATATA
* * *
1276480 ACATATGGGCTCAGCCC-AACCATTTAAATCC-AATT-A-AATTTAAGATCCAATAACTTTT-AA
1 ACATATGGGCTCAACCCAAACCATTTAAAACCTAATTAATAATTTAAAATCCAATAACTTTTAAA
* ** * *
1276540 CTTAAATCAATATTAATTAATTAAATTTTATATAAATTTTTATTTTATAATTATATATTATTTAA
66 CCTAAATCAATATTAATT-ATTAAA--AAATATAAAATTTTATTTTATAATTATATATCATTTAA
* * *
1276605 ATTAATCGTAAATTGTTTTTTTTGAATTAAAAATATTTAGTTTTTATATAAATTA
128 ATTAATCGTAAACTATTTTTTTTGAATTAAAAATATTTAGATTTTATATAAATTA
1276660 GAAATTTTTA
Statistics
Matches: 162, Mismatches: 14, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
209 19 0.12
210 27 0.17
211 12 0.07
212 77 0.48
213 12 0.07
214 15 0.09
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.44
Consensus pattern (214 bp):
ACATATGGGCTCAACCCAAACCATTTAAAACCTAATTAATAATTTAAAATCCAATAACTTTTAAA
CCTAAATCAATATTAATTATTAAAAAATATAAAATTTTATTTTATAATTATATATCATTTAAATT
AATCGTAAACTATTTTTTTTGAATTAAAAATATTTAGATTTTATATAAATTAACCGAAATTAAAT
TTTAAATATATTATATATA
Found at i:1277955 original size:20 final size:19
Alignment explanation
Indices: 1277922--1277960 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
1277912 TTTTAATAAG
1277922 TTTTTATCTATAAAATTAAA
1 TTTTTATCTAT-AAATTAAA
* *
1277942 TTTTTATTTTTAAATTAAA
1 TTTTTATCTATAAATTAAA
1277961 ATATTAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTTATCTATAAATTAAA
Found at i:1277981 original size:10 final size:8
Alignment explanation
Indices: 1277955--1278004 Score: 64
Period size: 8 Copynumber: 6.0 Consensus size: 8
1277945 TTATTTTTAA
1277955 ATTAAAAT
1 ATTAAAAT
1277963 ATTAAAAT
1 ATTAAAAT
*
1277971 ATTAAAAA
1 ATTAAAAT
*
1277979 ATATATTAAT
1 AT-TA-AAAT
1277989 ATTAAAAT
1 ATTAAAAT
1277997 ATTAAAAT
1 ATTAAAAT
1278005 GTAGAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
8 28 0.78
9 4 0.11
10 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATTAAAAT
Found at i:1278012 original size:16 final size:14
Alignment explanation
Indices: 1277963--1278014 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
1277953 AAATTAAAAT
1277963 ATTAAAATATTAAA
1 ATTAAAATATTAAA
* *
1277977 A--AATATATTAAT
1 ATTAAAATATTAAA
1277989 ATTAAAATATTAAA
1 ATTAAAATATTAAA
1278003 ATGTAGAAATAT
1 AT-TA-AAATAT
1278015 AATATTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 10 0.33
14 12 0.40
15 2 0.07
16 6 0.20
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (14 bp):
ATTAAAATATTAAA
Found at i:1288168 original size:34 final size:34
Alignment explanation
Indices: 1288130--1288230 Score: 139
Period size: 34 Copynumber: 3.0 Consensus size: 34
1288120 AAATTTAATG
* *
1288130 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTTGAATAATATAATTTATATTTTAAAT
* * * *
1288164 TTAAATTTTGAATAATATTATTTTTATTTTTATT
1 TTAAATTTTGAATAATATAATTTATATTTTAAAT
*
1288198 TTAAATTTTGAATAATATAATTTGTATTTTAAA
1 TTAAATTTTGAATAATATAATTTATATTTTAAA
1288231 AACATTTATC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 57 1.00
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (34 bp):
TTAAATTTTGAATAATATAATTTATATTTTAAAT
Found at i:1288779 original size:21 final size:21
Alignment explanation
Indices: 1288749--1288842 Score: 145
Period size: 21 Copynumber: 4.5 Consensus size: 21
1288739 TATGGTATAA
*
1288749 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
1288770 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
1288791 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
*
1288812 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
1288833 AACCCTGCGG
1 AACCCTGCGG
1288843 AGATGGCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 3 0.04
21 63 0.91
22 3 0.04
ACGTcount: A:0.20, C:0.28, G:0.34, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:1288872 original size:21 final size:21
Alignment explanation
Indices: 1288846--1288893 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
1288836 CCTGCGGAGA
*
1288846 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
1288867 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
1288888 GGGCAT
1 TGGCAT
1288894 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:1290666 original size:35 final size:32
Alignment explanation
Indices: 1290627--1290711 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 32
1290617 AATTCTAAAT
1290627 AAATAATAATTATATAAATATTATTTTAATAAAAA
1 AAATAATAATTATATAAATA-TA--TTAATAAAAA
* * *
1290662 AAATAATATTTACATAAATATATTAATATAAA
1 AAATAATAATTATATAAATATATTAATAAAAA
* *
1290694 AAATAATAACTATTTAAA
1 AAATAATAATTATATAAA
1290712 AAAATACTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
32 23 0.53
34 2 0.05
35 18 0.42
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (32 bp):
AAATAATAATTATATAAATATATTAATAAAAA
Found at i:1290701 original size:32 final size:34
Alignment explanation
Indices: 1290622--1290702 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 34
1290612 TTAATAATTC
*
1290622 TAAATAAATAATAATTATATAAATATTATTTTAATA
1 TAAA-AAATAATAATTACATAAATATTA-TTTAATA
* *
1290658 AAAAAAATAATATTTACATAAATA-TA-TTAATA
1 TAAAAAATAATAATTACATAAATATTATTTAATA
1290690 TAAAAAATAATAA
1 TAAAAAATAATAA
1290703 CTATTTAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
32 17 0.43
34 2 0.05
35 18 0.45
36 3 0.08
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (34 bp):
TAAAAAATAATAATTACATAAATATTATTTAATA
Found at i:1290727 original size:34 final size:34
Alignment explanation
Indices: 1290655--1290734 Score: 92
Period size: 34 Copynumber: 2.3 Consensus size: 34
1290645 TATTATTTTA
* * *
1290655 ATAAAAAAAATAATATTTACATAAATATATTAAT
1 ATAAAAAAAATAATATTTACATAAAAATACTAAC
1290689 ATAAAAAATAATAACTATTTA-A-AAAAATACTAAC
1 ATAAAAAA-AATAA-TATTTACATAAAAATACTAAC
1290723 ATAAAAATAAAT
1 ATAAAAA-AAAT
1290735 TTCTTACCAC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
34 27 0.68
35 7 0.17
36 6 0.15
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (34 bp):
ATAAAAAAAATAATATTTACATAAAAATACTAAC
Found at i:1291584 original size:30 final size:30
Alignment explanation
Indices: 1291549--1291651 Score: 149
Period size: 30 Copynumber: 3.5 Consensus size: 30
1291539 ATACACTTAG
1291549 AATCATTGAATTAAATTTTCTTACATATAA
1 AATCATTGAATTAAATTTTCTTACATATAA
* *
1291579 AATCATTG-ATT-AATTTTATATACACT-TAG
1 AATCATTGAATTAAATTTTCT-TACA-TATAA
1291608 AATCATTGAATTAAATTTTCTTACATATAA
1 AATCATTGAATTAAATTTTCTTACATATAA
1291638 AATCATTGAATTAA
1 AATCATTGAATTAA
1291652 TAAAAATAGA
Statistics
Matches: 64, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
28 7 0.11
29 18 0.28
30 32 0.50
31 7 0.11
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.43
Consensus pattern (30 bp):
AATCATTGAATTAAATTTTCTTACATATAA
Found at i:1291606 original size:59 final size:60
Alignment explanation
Indices: 1291529--1291652 Score: 241
Period size: 59 Copynumber: 2.1 Consensus size: 60
1291519 GTAATATTTT
1291529 TTAATTTTATATACACTTAGAATCATTGAATTAAATTTTCTTACATATAAAATCATTG-A
1 TTAATTTTATATACACTTAGAATCATTGAATTAAATTTTCTTACATATAAAATCATTGAA
1291588 TTAATTTTATATACACTTAGAATCATTGAATTAAATTTTCTTACATATAAAATCATTGAA
1 TTAATTTTATATACACTTAGAATCATTGAATTAAATTTTCTTACATATAAAATCATTGAA
1291648 TTAAT
1 TTAAT
1291653 AAAAATAGAT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
59 58 0.91
60 6 0.09
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (60 bp):
TTAATTTTATATACACTTAGAATCATTGAATTAAATTTTCTTACATATAAAATCATTGAA
Found at i:1296517 original size:20 final size:22
Alignment explanation
Indices: 1296492--1296531 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
1296482 TGAATTAAGA
1296492 AAATTAAAT-A-GAATTCAACC
1 AAATTAAATAACGAATTCAACC
1296512 AAATTAAATAACGAATTCAA
1 AAATTAAATAACGAATTCAA
1296532 TGAAAATTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 1 0.06
22 8 0.44
ACGTcount: A:0.57, C:0.12, G:0.05, T:0.25
Consensus pattern (22 bp):
AAATTAAATAACGAATTCAACC
Found at i:1297324 original size:9 final size:9
Alignment explanation
Indices: 1297312--1297345 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
1297302 AAATATTTTG
1297312 TATTTAATT
1 TATTTAATT
*
1297321 TATTTAA-G
1 TATTTAATT
1297329 TATTTAATT
1 TATTTAATT
1297338 TATTTAAT
1 TATTTAAT
1297346 ATTTTACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (9 bp):
TATTTAATT
Found at i:1297351 original size:17 final size:17
Alignment explanation
Indices: 1297311--1297349 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
1297301 TAAATATTTT
1297311 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
1297328 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
1297345 -TATTT
1 GTATTT
1297350 TACTTAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:1299748 original size:34 final size:34
Alignment explanation
Indices: 1299693--1299763 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
1299683 CGTTAATATG
1299693 GTTGGATTTATTTTAATTTATTTTG-TTAAATTT
1 GTTGGATTTATTTTAATTTATTTTGCTTAAATTT
*
1299726 GTTGGACTTT-TTGTTAATTTATTTTGCTTAATTTT
1 GTTGGA-TTTATT-TTAATTTATTTTGCTTAAATTT
1299761 GTT
1 GTT
1299764 TATTACCATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
33 8 0.24
34 16 0.47
35 10 0.29
ACGTcount: A:0.20, C:0.03, G:0.14, T:0.63
Consensus pattern (34 bp):
GTTGGATTTATTTTAATTTATTTTGCTTAAATTT
Found at i:1313999 original size:43 final size:43
Alignment explanation
Indices: 1313949--1314115 Score: 226
Period size: 43 Copynumber: 3.9 Consensus size: 43
1313939 TGATAACGAA
****
1313949 AAACGCCGCAATAGGTCACAAGATTTAGCGGCGTTTTTCCCAC
1 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAC
*
1313992 AAACGCCGCAATAGGTGTTGAGATTTAGCGACGTTTTTCCCAC
1 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAC
** * *
1314035 AAACGATGTAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAT
1 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAC
* * *
1314078 AAACGCCACAATAGATGTTGAGATTTAGCGGCATTTTT
1 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTT
1314116 GGATACAAAC
Statistics
Matches: 108, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 108 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (43 bp):
AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAC
Found at i:1314157 original size:43 final size:43
Alignment explanation
Indices: 1314103--1314301 Score: 247
Period size: 43 Copynumber: 4.7 Consensus size: 43
1314093 TGTTGAGATT
* *
1314103 TAGCGGCATTTTTGGATACAAACACCGCAAAAGGTCAGATCTA
1 TAGCGGCGTTTTTGGATACAAACGCCGCAAAAGGTCAGATCTA
* * * * *
1314146 TAGTGACATTTTTGGATAAAAACGCCGCAAAAGGTTAGATCTA
1 TAGCGGCGTTTTTGGATACAAACGCCGCAAAAGGTCAGATCTA
** *
1314189 TAGCGGCGTTTTTGGATACAAACGCCATAAAAGGTTAGATCTA
1 TAGCGGCGTTTTTGGATACAAACGCCGCAAAAGGTCAGATCTA
*** * *
1314232 TAGCGGCGTTTTTCCCT-CAAATGCCGCAAAAAGTCAGATCTA
1 TAGCGGCGTTTTTGGATACAAACGCCGCAAAAGGTCAGATCTA
*
1314274 TAGCGGCGTTTTTAGATACAAACGCCGC
1 TAGCGGCGTTTTTGGATACAAACGCCGC
1314302 TAATTACCAT
Statistics
Matches: 132, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
42 34 0.26
43 98 0.74
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (43 bp):
TAGCGGCGTTTTTGGATACAAACGCCGCAAAAGGTCAGATCTA
Found at i:1314284 original size:42 final size:43
Alignment explanation
Indices: 1313974--1314301 Score: 210
Period size: 43 Copynumber: 7.7 Consensus size: 43
1313964 TCACAAGATT
* *
1313974 TAGCGGCGTTTTTCC-CACAAACGCCGCAATAGGTGTTGAGAT-T-
1 TAGCGGCGTTTTTCCATACAAACGCCGCAA-AAG-GTT-AGATCTA
* * ** * *
1314017 TAGCGACGTTTTTCC-CACAAACGATGTAATAGGTGTTGAGAT-T-
1 TAGCGGCGTTTTTCCATACAAACGCCGCAA-AAG-GTT-AGATCTA
* *
1314060 TAGCGGCGTTTTTCCCAT--AAACGCCACAATAGATGTTGAGAT-T-
1 TAGCGGCGTTTTT-CCATACAAACGCCGCAA-A-AGGTT-AGATCTA
* ** * *
1314103 TAGCGGCATTTTTGGATACAAACACCGCAAAAGGTCAGATCTA
1 TAGCGGCGTTTTTCCATACAAACGCCGCAAAAGGTTAGATCTA
* * * ** *
1314146 TAGTGACATTTTTGGATAAAAACGCCGCAAAAGGTTAGATCTA
1 TAGCGGCGTTTTTCCATACAAACGCCGCAAAAGGTTAGATCTA
** **
1314189 TAGCGGCGTTTTTGGATACAAACGCCATAAAAGGTTAGATCTA
1 TAGCGGCGTTTTTCCATACAAACGCCGCAAAAGGTTAGATCTA
* * * *
1314232 TAGCGGCGTTTTTCCCT-CAAATGCCGCAAAAAGTCAGATCTA
1 TAGCGGCGTTTTTCCATACAAACGCCGCAAAAGGTTAGATCTA
**
1314274 TAGCGGCGTTTTTAGATACAAACGCCGC
1 TAGCGGCGTTTTTCCATACAAACGCCGC
1314302 TAATTACCAT
Statistics
Matches: 235, Mismatches: 42, Indels: 16
0.80 0.14 0.05
Matches are distributed among these distances:
41 4 0.02
42 40 0.17
43 180 0.77
44 11 0.05
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (43 bp):
TAGCGGCGTTTTTCCATACAAACGCCGCAAAAGGTTAGATCTA
Found at i:1317453 original size:41 final size:41
Alignment explanation
Indices: 1317390--1317814 Score: 379
Period size: 41 Copynumber: 10.3 Consensus size: 41
1317380 CTGCGTTTGT
* ** *
1317390 GCCACTAAAGTACTAGTCTATAGCGGCGTAAGTATATAAAC
1 GCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAAC
* * * *
1317431 GCCACTAAAGTACAAG-CGTATAGTGACGTTTTTATACAAAC
1 GCCACTAAAGTACAAGTC-TATAGCGGCGTTTGTATAAAAAC
* * *
1317472 GCCACTAAAGTATAAGTGTATAGCGGCGTTTGTATATAAAC
1 GCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAAC
* * * * *
1317513 GCCACTAAATTACGAGTCTTTAGCGGCGTTTCTAAACACAAAC
1 GCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATA-A-AAAC
* * *
1317556 GCCATTAAAGTACAAGTGTATAGCGACGTTTGTATAAAAAC
1 GCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAAC
* * ** *
1317597 GCCACTAAAGTACGAGTCTTTAGCTTCGTTTGTATAAAAAT
1 GCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAAC
*
1317638 GCCACTAAAGTACAAGTCTTTAGCGGCGTTTGTATAAAAAC
1 GCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAAC
* * * *
1317679 GCCACTAAAGTACGAGTTTTTAGCGGCGTTTGTTTAAAAAAAC
1 GCCACTAAAGTACAAGTCTATAGCGGCGTTTG--TATAAAAAC
* * * * * * *
1317722 GCCACTAAAATACGAGTCTTTAGCGGCATTTATTTAAAAAAA
1 GCCACTAAAGTACAAGTCTATAGCGGCGTTTGTAT-AAAAAC
** * * * *
1317764 GCCACTATGGCT-GAA-CCTATTGCGGCGTTTTTATAAAAAC
1 GCCACTAAAG-TACAAGTCTATAGCGGCGTTTGTATAAAAAC
*
1317804 GCCGCTAAAGT
1 GCCACTAAAGT
1317815 TAACATTTTG
Statistics
Matches: 311, Mismatches: 65, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.00
40 13 0.04
41 214 0.69
42 14 0.05
43 69 0.22
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (41 bp):
GCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAAC
Found at i:1317543 original size:82 final size:82
Alignment explanation
Indices: 1317390--1317814 Score: 417
Period size: 82 Copynumber: 5.1 Consensus size: 82
1317380 CTGCGTTTGT
* ** * * *
1317390 GCCACTAAAGTACTAGTCTATAGCGGCGTAAGTATATAAACGCCACTAAAGTACAAG-CGTATAG
1 GCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTC-TTTAG
* * *
1317454 TGACGTTTTTATACAAAC
65 CGGCGTTTTTATAAAAAC
* * * *
1317472 GCCACTAAAGTATAAGTGTATAGCGGCGTTTGTATATAAACGCCACTAAATTACGAGTCTTTAGC
1 GCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGC
* *
1317537 GGCGTTTCTAAACACAAAC
66 GGCGTTTTTATA-A-AAAC
* * *
1317556 GCCATTAAAGTACAAGTGTATAGCGACGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGC
1 GCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGC
** * *
1317621 TTCGTTTGTATAAAAAT
66 GGCGTTTTTATAAAAAC
* *
1317638 GCCACTAAAGTACAAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTTTTTAGC
1 GCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGC
*
1317703 GGCGTTTGTTTAAAAAAAC
66 GGCG-TT-TTTATAAAAAC
* * * * * * * * * **
1317722 GCCACTAAAATACGAGTCTTTAGCGGCATTTATTTAAAAAAAGCCACT-ATG-GCTGAACCTATT
1 GCCACTAAAGTACAAGTCTATAGCGGCGTTTGTAT-AAAAACGCCACTAAAGTAC-GAGTCT-TT
1317785 -GCGGCGTTTTTATAAAAAC
63 AGCGGCGTTTTTATAAAAAC
*
1317804 GCCGCTAAAGT
1 GCCACTAAAGT
1317815 TAACATTTTG
Statistics
Matches: 288, Mismatches: 47, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
82 147 0.51
83 7 0.02
84 121 0.42
85 13 0.05
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (82 bp):
GCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGC
GGCGTTTTTATAAAAAC
Found at i:1317627 original size:125 final size:123
Alignment explanation
Indices: 1317390--1317748 Score: 412
Period size: 125 Copynumber: 2.9 Consensus size: 123
1317380 CTGCGTTTGT
* * *** * * * *
1317390 GCCACTAAAGTACTAGTCTATAGCGGCGTAAGTATATAAACGCCACTAAAGTACAAGCGTATAGT
1 GCCACTAAAGTACAAGTCTTTAGCGGCGTTTCTAAAAAAACGCCACTAAAGTACAAGTGTATAGC
* * ** * * *
1317455 GACGTTTTTATACAAACGCCACTAAAGTATAAGTGTATAGCGGCGTTTGTATATAAAC
66 GACGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAAC
* * *
1317513 GCCACTAAATTACGAGTCTTTAGCGGCGTTTCTAAACACAAACGCCATTAAAGTACAAGTGTATA
1 GCCACTAAAGTACAAGTCTTTAGCGGCGTTTCTAAA-A-AAACGCCACTAAAGTACAAGTGTATA
** *
1317578 GCGACGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCTTCGTTTGTATAAAAAT
64 GCGACGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAAC
* * * * *
1317638 GCCACTAAAGTACAAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTTTTTAGC
1 GCCACTAAAGTACAAGTCTTTAGCGGCGTTTCTAAAAAAACGCCACTAAAGTACAAGTGTATAGC
* * *
1317703 GGCGTTTGTTTAAAAAAACGCCACTAAAATACGAGTCTTTAGCGGC
66 GACGTTTG--TATAAAAACGCCACTAAAGTACGAGTCTTTAGCGGC
1317749 ATTTATTTAA
Statistics
Matches: 198, Mismatches: 34, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
123 60 0.30
124 1 0.01
125 137 0.69
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (123 bp):
GCCACTAAAGTACAAGTCTTTAGCGGCGTTTCTAAAAAAACGCCACTAAAGTACAAGTGTATAGC
GACGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAAC
Found at i:1317669 original size:166 final size:166
Alignment explanation
Indices: 1317390--1317746 Score: 443
Period size: 166 Copynumber: 2.2 Consensus size: 166
1317380 CTGCGTTTGT
* * *
1317390 GCCACTAAAGTACTAGTCTATAGCGGCGTAAGTATATAAACGCCACTAAAGTACAAGCGTATAGT
1 GCCACTAAAGTACAAGTCTATAGCGACGTAAGTATAAAAACGCCACTAAAGTACAAGCGTATAGT
* * * * *
1317455 GACGTTTTTATACAAACGCCACTAAAGTATAAGTGTATAGCGGCGTTTGTATATAAACGCCACTA
66 GACGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTA
*
1317520 AATTACGAGTCTTTAGCGGCGTTTCTAAACACAAAC
131 AAGTACGAGTCTTTAGCGGCGTTTCTAAACACAAAC
* * ** * *
1317556 GCCATTAAAGTACAAGTGTATAGCGACGTTTGTATAAAAACGCCACTAAAGTACGAGTC-TTTAG
1 GCCACTAAAGTACAAGTCTATAGCGACGTAAGTATAAAAACGCCACTAAAGTACAAG-CGTATAG
* * *
1317620 CT-TCGTTTGTATAAAAATGCCACTAAAGTACAAGTCTTTAGCGGCGTTTGTATAAAAACGCCAC
65 -TGACGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCAC
* *
1317684 TAAAGTACGAGTTTTTAGCGGCGTTTGTTTAAA-A-AAAC
129 TAAAGTACGAGTCTTTAGCGGCG-TT-TCTAAACACAAAC
* * *
1317722 GCCACTAAAATACGAGTCTTTAGCG
1 GCCACTAAAGTACAAGTCTATAGCG
1317747 GCATTTATTT
Statistics
Matches: 162, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
166 152 0.94
167 5 0.03
168 5 0.03
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (166 bp):
GCCACTAAAGTACAAGTCTATAGCGACGTAAGTATAAAAACGCCACTAAAGTACAAGCGTATAGT
GACGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTA
AAGTACGAGTCTTTAGCGGCGTTTCTAAACACAAAC
Found at i:1317789 original size:125 final size:123
Alignment explanation
Indices: 1317390--1317814 Score: 370
Period size: 125 Copynumber: 3.4 Consensus size: 123
1317380 CTGCGTTTGT
* * * ** * * *
1317390 GCCACTAAAGTACTAGTCTATAGCGGCGTAAGTATATAAACGCCACTAAAGTACAAGCGTATAGT
1 GCCACTAAAGTACAAGCCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTGTATAGC
* * * * ** * * * * * *
1317455 GACGTTTTTATACAAACGCCACTAAAGTATAAGTGTATAGCGGCGTTTGTATATAAAC
66 GACGTTTGTAAAAAAACGCCACTAAAATACGAGTCTTTAGCGGCATTTATATAAAAAA
* * * * * *
1317513 GCCACTAAATTACGAGTCTTTAGCGGCGTTTCTAAACACAAACGCCATTAAAGTACAAGTGTATA
1 GCCACTAAAGTACAAGCCTTTAGCGGCGTTTGTATA-A-AAACGCCACTAAAGTACAAGTGTATA
* * ** * * *
1317578 GCGACGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCTTCGTTTGTATAAAAAT
64 GCGACGTTTGTAAAAAAACGCCACTAAAATACGAGTCTTTAGCGGCATTTATATAAAAAA
* * * *
1317638 GCCACTAAAGTACAAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTTTTTAGC
1 GCCACTAAAGTACAAGCCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTGTATAGC
* *
1317703 GGCGTTTGTTTAAAAAAACGCCACTAAAATACGAGTCTTTAGCGGCATTTATTTAAAAAAA
66 GACGTTTG--TAAAAAAACGCCACTAAAATACGAGTCTTTAGCGGCATTTATAT-AAAAAA
** * * *
1317764 GCCACTATGGCT-GAA-CCTATT-GCGGCGTTTTTATAAAAACGCCGCTAAAGT
1 GCCACTAAAG-TACAAGCCT-TTAGCGGCGTTTGTATAAAAACGCCACTAAAGT
1317815 TAACATTTTG
Statistics
Matches: 251, Mismatches: 44, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
123 60 0.24
124 1 0.00
125 172 0.69
126 17 0.07
127 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (123 bp):
GCCACTAAAGTACAAGCCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTGTATAGC
GACGTTTGTAAAAAAACGCCACTAAAATACGAGTCTTTAGCGGCATTTATATAAAAAA
Found at i:1317801 original size:166 final size:165
Alignment explanation
Indices: 1317390--1317814 Score: 392
Period size: 166 Copynumber: 2.6 Consensus size: 165
1317380 CTGCGTTTGT
* * * * * * * * * *
1317390 GCCACTAAAGTACTAGTCTATAGCGGC-GTAAGTATATAAACGCCACTAAAGTACAAGCGTATAG
1 GCCACTAAAATACAAGTCTATAGCGACATTTA-TATAAAAAAGCCACTAAAGTAGAA-CCTTTAG
* * * * * *
1317454 TGACGTTTTTATACAAACGCCACTAAAGTATAAGTGTATAGCGGCGTTTGTATATAAACGCCACT
64 CGGCGTTTTTATAAAAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACT
*
1317519 AAATTACGAGTCTTTAGCGGCGTTTCTAAACACAAAC
129 AAAGTACGAGTCTTTAGCGGCGTTTCTAAACACAAAC
* * * * * * **
1317556 GCCATTAAAGTACAAGTGTATAGCGACGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGC
1 GCCACTAAAATACAAGTCTATAGCGACATTTATATAAAAAAGCCACTAAAGTA-GAACCTTTAGC
** * * *
1317621 TTCGTTTGTATAAAAATGCCACTAAAGTACAAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTA
65 GGCGTTTTTATAAAAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTA
* *
1317686 AAGTACGAGTTTTTAGCGGCGTTTGTTTAAA-A-AAAC
130 AAGTACGAGTCTTTAGCGGCG-TT-TCTAAACACAAAC
* * * * **
1317722 GCCACTAAAATACGAGTCTTTAGCGGCATTTATTTAAAAAAAGCCACTATGGCT-GAACCTATT-
1 GCCACTAAAATACAAGTCTATAGCGACATTTATAT-AAAAAAGCCACTAAAG-TAGAACCT-TTA
*
1317785 GCGGCGTTTTTATAAAAACGCCGCTAAAGT
63 GCGGCGTTTTTATAAAAACGCCACTAAAGT
1317815 TAACATTTTG
Statistics
Matches: 207, Mismatches: 45, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
166 181 0.87
167 20 0.10
168 6 0.03
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (165 bp):
GCCACTAAAATACAAGTCTATAGCGACATTTATATAAAAAAGCCACTAAAGTAGAACCTTTAGCG
GCGTTTTTATAAAAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAA
AGTACGAGTCTTTAGCGGCGTTTCTAAACACAAAC
Found at i:1318957 original size:12 final size:12
Alignment explanation
Indices: 1318940--1318964 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1318930 AGACAATAAG
1318940 TGAAATATTTAT
1 TGAAATATTTAT
1318952 TGAAATATTTAT
1 TGAAATATTTAT
1318964 T
1 T
1318965 ACTGCTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TGAAATATTTAT
Found at i:1322453 original size:149 final size:149
Alignment explanation
Indices: 1322211--1322517 Score: 542
Period size: 149 Copynumber: 2.1 Consensus size: 149
1322201 CATCGAAGTG
1322211 CCGCGTAGAATTGCACCGTAGTACCATATAATAATATCCATAAGGAACACATATTATTCCTTAAG
1 CCGCGTAGAATTGCACCGTAGTACCATATAATAATATCCATAAGGAACACATATTATTCCTTAAG
*
1322276 AATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCACAGAAT
66 AATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAAT
*
1322341 ATATATATATCCCGAAAGA
131 ATACATATATCCCGAAAGA
* * * *
1322360 CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCATATATTATTCCTTAAG
1 CCGCGTAGAATTGCACCGTAGTACCATATAATAATATCCATAAGGAACACATATTATTCCTTAAG
1322425 AATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAAT
66 AATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAAT
* *
1322490 ATACATATGTCCCGAAGGA
131 ATACATATATCCCGAAAGA
1322509 CCGCGTAGA
1 CCGCGTAGA
1322518 CCCTCGACTC
Statistics
Matches: 150, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
149 150 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (149 bp):
CCGCGTAGAATTGCACCGTAGTACCATATAATAATATCCATAAGGAACACATATTATTCCTTAAG
AATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAAT
ATACATATATCCCGAAAGA
Found at i:1327573 original size:23 final size:23
Alignment explanation
Indices: 1327547--1327591 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1327537 CACCACAGCT
*
1327547 CGTATAATTACACCGAAGTGCCG
1 CGTAGAATTACACCGAAGTGCCG
* *
1327570 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTACACCGAAGTGCC
1327592 ATATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (23 bp):
CGTAGAATTACACCGAAGTGCCG
Found at i:1327809 original size:149 final size:149
Alignment explanation
Indices: 1327559--1327873 Score: 569
Period size: 149 Copynumber: 2.1 Consensus size: 149
1327549 TATAATTACA
1327559 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
*
1327623 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATACTAGAGATCAAGTATGTGTCTTTCAAGACTTCACACATGTT
* *
1327688 CCACAGAATATATATATATC
130 CCAAAGAATATACATATATC
*
1327708 CCGAAGGACCGCGTAGAATTGCACCGTAGTGTCATATAATAATGTCCATAAGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
1327773 TCCTTAAGAATCATATACATATACTAGAGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAGAGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
*
1327838 CAAAGAATATACATATGTC
131 CAAAGAATATACATATATC
1327857 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
1327874 CCCTCGACTC
Statistics
Matches: 160, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
148 1 0.01
149 159 0.99
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
TCCTTAAGAATCATATACATATACTAGAGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:1334914 original size:14 final size:14
Alignment explanation
Indices: 1334891--1334924 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
1334881 AAAGAATAAC
1334891 AAAA-AATATTAAT
1 AAAATAATATTAAT
*
1334904 ATAATAATATTAAT
1 AAAATAATATTAAT
1334918 AAAATAA
1 AAAATAA
1334925 ATATATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 3 0.17
14 15 0.83
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AAAATAATATTAAT
Found at i:1335359 original size:33 final size:33
Alignment explanation
Indices: 1335303--1335389 Score: 111
Period size: 33 Copynumber: 2.6 Consensus size: 33
1335293 AGTCCTACTT
* * * *
1335303 GGACTCAAAATGCTTTGGTTTTAGTGTTTCAATG
1 GGACTC-AAATACATTGGTTTTAGTATTTCAATA
* *
1335337 GGACTTAAATACGTTGGTTTTAGTATTTCAATA
1 GGACTCAAATACATTGGTTTTAGTATTTCAATA
1335370 GGACTCAAATACATTGGTTT
1 GGACTCAAATACATTGGTTT
1335390 ATTTTCTGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 41 0.89
34 5 0.11
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (33 bp):
GGACTCAAATACATTGGTTTTAGTATTTCAATA
Found at i:1335438 original size:3 final size:3
Alignment explanation
Indices: 1335432--1335487 Score: 55
Period size: 3 Copynumber: 18.7 Consensus size: 3
1335422 GGCCTACAAA
*
1335432 AAT AAT AA- AAT AAA AAT -AT AAT AAT AAT AAT AAT AAAT AAAT ATAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT A-AT
1335478 AAT -AT AAT AA
1 AAT AAT AAT AA
1335488 AATGTTTTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
2 6 0.13
3 30 0.65
4 10 0.22
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:1335443 original size:8 final size:8
Alignment explanation
Indices: 1335430--1335490 Score: 56
Period size: 8 Copynumber: 7.6 Consensus size: 8
1335420 TGGGCCTACA
1335430 AAAATAAT
1 AAAATAAT
1335438 AAAATAA-
1 AAAATAAT
1335445 AAATATAAT
1 AAA-ATAAT
1335454 AATAATAAT
1 AA-AATAAT
*
1335463 AATA-AAT
1 AAAATAAT
1335470 -AAATATAT
1 AAAATA-AT
*
1335478 AATATAAT
1 AAAATAAT
1335486 AAAAT
1 AAAAT
1335491 GTTTTTGTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
6 2 0.05
7 7 0.16
8 20 0.47
9 13 0.30
10 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (8 bp):
AAAATAAT
Found at i:1335960 original size:84 final size:82
Alignment explanation
Indices: 1335833--1336344 Score: 487
Period size: 84 Copynumber: 6.2 Consensus size: 82
1335823 CTGAATGGAA
* * * * * *
1335833 TCGAACTCGAATTGTCTTTG--GCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGGT
1 TCGAACTCGAA-GGTCTTTGTTGCAGATAACCCTTCTGGACTTAAGTTATGCTGCAAATGAT-GT
* * * *
1335896 ACCTTTGAGCTAAGTGGAG
64 GCCTTGGAGCTGAGTGTAG
* *
1335915 TCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGGA-TTGAGTTATG-TCGTAAATGATG
1 TCGAACTCGAAGGTCTTTGTTG-CAGATAACCCTTCT-GGACTTAAGTTATGCT-GCAAATGATG
* * *
1335978 TGCCCTCGAAGCTGAGTGTAA
63 TG-CCTTGGAGCTGAGTGTAG
* * * * *
1335999 TCAAACTCGAGGGTCTTTG--GCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATAATGTGC
1 TCGAACTCGAAGGTCTTTGTTGCAGATAACCCTTCTGGACTTAAGTTATGCTGCAAATGATGTGC
*
1336062 CTTGGAGCTGAGCGTAG
66 CTTGGAGCTGAGTGTAG
* * * * *
1336079 TTGAACTTGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATAT
1 TCGAACTCGAAGGTCTTT-GTT-GCAGATAACCCTTCTGGACTTAAGTTATGCTGCAAATGATGT
* *
1336144 GCCTTGGAGTTGAGCGTAG
64 GCCTTGGAGCTGAGTGTAG
** * * * *
1336163 TCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
1 TCGAACTCGAAGGTC-TTT-GTTGCAGATAACCCTTCTGGACTTAAGTTATGCTGCAAATGATGT
* * *
1336228 GCCCTCGAAGCTGAGTGTAA
64 G-CCTTGGAGCTGAGTGTAG
* * * *
1336248 TCGAACTCGAGGGTCTTCGGTTGGCAGATAACCCTTCTTGACTTAAGTTATGATGCAAATGATGT
1 TCGAACTCGAAGGTCTT-TGTT-GCAGATAACCCTTCTGGACTTAAGTTATGCTGCAAATGATGT
*
1336313 GCCTTGGAGCTGAGCGTAG
64 GCCTTGGAGCTGAGTGTAG
1336332 TCGAACTCGAAGG
1 TCGAACTCGAAGG
1336345 CCTTGGATGG
Statistics
Matches: 352, Mismatches: 62, Indels: 30
0.79 0.14 0.07
Matches are distributed among these distances:
80 30 0.09
81 40 0.11
82 13 0.04
83 4 0.01
84 194 0.55
85 71 0.20
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (82 bp):
TCGAACTCGAAGGTCTTTGTTGCAGATAACCCTTCTGGACTTAAGTTATGCTGCAAATGATGTGC
CTTGGAGCTGAGTGTAG
Found at i:1336282 original size:169 final size:161
Alignment explanation
Indices: 1335833--1336344 Score: 560
Period size: 169 Copynumber: 3.1 Consensus size: 161
1335823 CTGAATGGAA
* * * *
1335833 TCGAACTCGAATTGTCTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGGTAC
1 TCGAACTCGAA-GGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGTTATGCTGCAAATGAT-GTGC
* * * * * * *
1335898 CTTTGAGCTAAGTGGAGTCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGGA-TTGAGT
64 CCTTGAGCTGAGTGTAGTCGAACTCGAAGGTCTTGGTTGGCAGATAACCCTTCT-CGACTTAAGT
* * * *
1335962 TATGTCGTAAATGATGTGCCCTCGAAGCTGAGTGTAA
128 TATGTC--AAATGATGTG-CCTTGGAGCTGAGCGTAG
* * * * * *
1335999 TCAAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATAATGTG-CC
1 TCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCC
* * *
1336063 TTGGAGCTGAGCGTAGTTGAACTTGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTT
66 TT-GAGCTGAGTGTAGTCGAACTCGAAGGTC-TTGGTTGGCAGATAACCCTTCTCGACTTAAGTT
* *
1336128 ATGCTACAAATGATATGCCTTGGAGTTGAGCGTAG
129 ATG-T-CAAATGATGTGCCTTGGAGCTGAGCGTAG
* *
1336163 TCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
1 TCGAACTCGAAGGTC-TTTGG---CAGATAGCCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
* * * *
1336228 GCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTCGGTTGGCAGATAACCCTTCTTGACTTA
62 GCCCTTG-AGCTGAGTGTAGTCGAACTCGAAGGTCTT-GGTTGGCAGATAACCCTTCTCGACTTA
1336293 AGTTATGATGCAAATGATGTGCCTTGGAGCTGAGCGTAG
125 AGTTATG-T-CAAATGATGTGCCTTGGAGCTGAGCGTAG
1336332 TCGAACTCGAAGG
1 TCGAACTCGAAGG
1336345 CCTTGGATGG
Statistics
Matches: 290, Mismatches: 44, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
163 3 0.01
164 53 0.18
165 85 0.29
166 10 0.03
167 1 0.00
168 39 0.13
169 99 0.34
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (161 bp):
TCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCC
TTGAGCTGAGTGTAGTCGAACTCGAAGGTCTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTAT
GTCAAATGATGTGCCTTGGAGCTGAGCGTAG
Found at i:1336684 original size:110 final size:110
Alignment explanation
Indices: 1336461--1337110 Score: 1042
Period size: 110 Copynumber: 6.0 Consensus size: 110
1336451 CAAATATTTA
* * * *
1336461 TGTTGTTTCGAGGCCAATATCCTTCGCCGTGAAGTTGAAATTGACTC----TGAAACTGGAAAGT
1 TGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGT
* *
1336522 TATTTGTTGACAGCCA-TCGCCCCTTCGCTGTGAAGTTGAGCTTG
66 TGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTG
*
1336566 TGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAGGT
1 TGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGT
*
1336631 TATTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTG
66 TGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTG
1336676 TGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGT
1 TGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGT
* * *
1336741 TGTTTGTTGACAGTCAGTTGCCCCTTCACTGTGAAGTTAAGCTTG
66 TGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTG
* *
1336786 TGTTGTCTCGAGTCCAATA-CCATTCGCTGTGAAATTGAAATTGACTCTGAATGAAACTAAAAAG
1 TGTTGTCTCGAGTCCAATATCC-TTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAG
* * * *
1336850 TTGTTTGTTGACAGTCAGCCGCCCCTTTGATATGAAGTTGAGCTTG
65 TTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTG
*
1336896 TGTTGTCTCGAGTCCAATACCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGT
1 TGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGT
1336961 TGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTG
66 TGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTG
* *
1337006 TGTTGTCTCGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGT
1 TGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGT
* * *
1337071 TGTTTGTTGACCGTCAGTCACCCCTTCGCTTTGAAGTTGA
66 TGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGA
1337111 ACAACCACCA
Statistics
Matches: 506, Mismatches: 32, Indels: 9
0.93 0.06 0.02
Matches are distributed among these distances:
105 44 0.09
109 29 0.06
110 431 0.85
111 2 0.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (110 bp):
TGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGT
TGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTG
Found at i:1340785 original size:31 final size:31
Alignment explanation
Indices: 1340724--1340852 Score: 136
Period size: 32 Copynumber: 4.1 Consensus size: 31
1340714 GATCCTCGGT
* * *
1340724 AACTGTCTATAGGTTCCGAAGGAACCTAGGTA
1 AACTGTCCATATGTTCCGAA-GAACATAGGTA
* **
1340756 AACTGTCTATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
*
1340787 TACTGTCCATATG-TCTCGAA-AGACATAGGTAA
1 AACTGTCCATATGTTC-CGAAGA-ACATAGGT-A
*
1340819 AACTGTCCATATGTTCCGTAGAACATAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
1340850 AAC
1 AAC
1340853 CCTCGACTCT
Statistics
Matches: 82, Mismatches: 10, Indels: 11
0.80 0.10 0.11
Matches are distributed among these distances:
30 3 0.04
31 35 0.43
32 41 0.50
33 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (31 bp):
AACTGTCCATATGTTCCGAAGAACATAGGTA
Found at i:1341649 original size:21 final size:21
Alignment explanation
Indices: 1341625--1341669 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1341615 TGTTGTTCGT
* *
1341625 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1341646 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1341667 TTG
1 TTG
1341670 CCCAGAAATC
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:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1345003 original size:30 final size:31
Alignment explanation
Indices: 1344964--1345093 Score: 86
Period size: 31 Copynumber: 4.2 Consensus size: 31
1344954 GAAGGACCTA
* * * *
1344964 TCCAGAGGTCATAAAGATCCTCGGT-AACTG
1 TCCATAGGTCACAAAGAACCTAGGTAAACTG
* *
1344994 TCCATAGGTCCCGAAGAACCTAGGTAAACTG
1 TCCATAGGTCACAAAGAACCTAGGTAAACTG
* ** * *
1345025 TCCATATGTTC-CTTAGAACATAGGTATACTG
1 TCCATA-GGTCACAAAGAACCTAGGTAAACTG
* * *
1345056 TCCATATGTCTCGAAAG-ACATAGGTAAAACTG
1 TCCATAGGTCAC-AAAGAACCTAGGT-AAACTG
1345088 TCCATA
1 TCCATA
1345094 TGTTCCGTAG
Statistics
Matches: 79, Mismatches: 16, Indels: 8
0.77 0.16 0.08
Matches are distributed among these distances:
30 21 0.27
31 42 0.53
32 16 0.20
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.26
Consensus pattern (31 bp):
TCCATAGGTCACAAAGAACCTAGGTAAACTG
Found at i:1345099 original size:63 final size:61
Alignment explanation
Indices: 1344986--1345114 Score: 188
Period size: 63 Copynumber: 2.1 Consensus size: 61
1344976 AAAGATCCTC
* *
1344986 GGTAACTGTCCATAGGTCCCGAAGAACCTAGGTAAACTGTCCATATGTTCCTTAGAACATA
1 GGTAACTGTCCATAGGTCCCGAAGAACATAGGTAAACTGTCCATATGTTCCGTAGAACATA
* *
1345047 GGTATACTGTCCATATGTCTCGAA-AGACATAGGTAAAACTGTCCATATGTTCCGTAGAACATA
1 GGTA-ACTGTCCATAGGTCCCGAAGA-ACATAGGT-AAACTGTCCATATGTTCCGTAGAACATA
1345110 GGTAA
1 GGTAA
1345115 ACCCTCGACT
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
61 5 0.08
62 25 0.41
63 31 0.51
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (61 bp):
GGTAACTGTCCATAGGTCCCGAAGAACATAGGTAAACTGTCCATATGTTCCGTAGAACATA
Found at i:1345109 original size:32 final size:31
Alignment explanation
Indices: 1344989--1345116 Score: 152
Period size: 31 Copynumber: 4.1 Consensus size: 31
1344979 GATCCTCGGT
* * * *
1344989 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTTCCGTAGAACATAGGTA
*
1345020 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCGTAGAACATAGGTA
* *
1345051 TACTGTCCATATG-TCTCG-AAAGACATAGGTAA
1 AACTGTCCATATGTTC-CGTAGA-ACATAGGT-A
1345083 AACTGTCCATATGTTCCGTAGAACATAGGTA
1 AACTGTCCATATGTTCCGTAGAACATAGGTA
1345114 AAC
1 AAC
1345117 CCTCGACTCT
Statistics
Matches: 82, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
30 4 0.05
31 51 0.62
32 23 0.28
33 4 0.05
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.27
Consensus pattern (31 bp):
AACTGTCCATATGTTCCGTAGAACATAGGTA
Found at i:1347575 original size:14 final size:14
Alignment explanation
Indices: 1347558--1347591 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1347548 ATGAGAAAAG
1347558 AATAAAAAAATATT
1 AATAAAAAAATATT
* *
1347572 AATATAATAATATT
1 AATAAAAAAATATT
1347586 AATAAA
1 AATAAA
1347592 TATATATATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AATAAAAAAATATT
Found at i:1347598 original size:14 final size:14
Alignment explanation
Indices: 1347566--1347608 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 14
1347556 AGAATAAAAA
1347566 AATATTAATATAAT
1 AATATTAATATAAT
1347580 AATATTAATA-AAT
1 AATATTAATATAAT
1347593 ATATATATATATATAA
1 A-ATAT-TA-ATATAA
1347609 CAATGTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.16
14 14 0.56
15 2 0.08
16 3 0.12
17 2 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AATATTAATATAAT
Found at i:1347682 original size:15 final size:16
Alignment explanation
Indices: 1347658--1347691 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1347648 AATGAAAAAA
*
1347658 AAATATAAAAT-AAAT
1 AAATAAAAAATGAAAT
1347673 AAATAAAAAATGAAAT
1 AAATAAAAAATGAAAT
1347689 AAA
1 AAA
1347692 AAGAATAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (16 bp):
AAATAAAAAATGAAAT
Found at i:1347698 original size:21 final size:21
Alignment explanation
Indices: 1347652--1347699 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
1347642 GGAGAAAATG
1347652 AAAA-AAAAATATAAAATAAA
1 AAAATAAAAATATAAAATAAA
* *
1347672 TAAATAAAAA-ATGAAATAAA
1 AAAATAAAAATATAAAATAAA
1347692 AAGAATAA
1 AA-AATAA
1347700 GTCAAAAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (21 bp):
AAAATAAAAATATAAAATAAA
Found at i:1348004 original size:34 final size:34
Alignment explanation
Indices: 1347966--1348052 Score: 119
Period size: 33 Copynumber: 2.6 Consensus size: 34
1347956 AGTCCTACTT
*
1347966 GGACTCAAAATGC-TTCGGTTTTAGTAG-TTCAATA
1 GGACTCAAAATACGTT-GGTTTTAGT-GTTTCAATA
1348000 GGACTC-AAATACGTTGGTTTTAGTGTTTCAATA
1 GGACTCAAAATACGTTGGTTTTAGTGTTTCAATA
1348033 GGACTC-AAATACGTTGGTTT
1 GGACTCAAAATACGTTGGTTT
1348053 ATTTTTTGAA
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
32 1 0.02
33 41 0.82
34 8 0.16
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.37
Consensus pattern (34 bp):
GGACTCAAAATACGTTGGTTTTAGTGTTTCAATA
Found at i:1348023 original size:33 final size:33
Alignment explanation
Indices: 1347982--1348052 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
1347972 AAAATGCTTC
1347982 GGTTTTAGTAG-TTCAATAGGACTCAAATACGTT
1 GGTTTTAGT-GTTTCAATAGGACTCAAATACGTT
1348015 GGTTTTAGTGTTTCAATAGGACTCAAATACGTT
1 GGTTTTAGTGTTTCAATAGGACTCAAATACGTT
1348048 GGTTT
1 GGTTT
1348053 ATTTTTTGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
32 1 0.03
33 36 0.97
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (33 bp):
GGTTTTAGTGTTTCAATAGGACTCAAATACGTT
Found at i:1348130 original size:31 final size:30
Alignment explanation
Indices: 1348092--1348156 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 30
1348082 TTGGGCCTAC
1348092 AAAAAT-AATAAAATAGAA-ATATAATAATAAT
1 AAAAATAAAT-AAATA-AATATATAAT-ATAAT
1348123 AAAAATAAATAAATAAATATATAATATAAT
1 AAAAATAAATAAATAAATATATAATATAAT
1348153 AAAA
1 AAAA
1348157 TATTTTTGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
30 11 0.34
31 18 0.56
32 3 0.09
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (30 bp):
AAAAATAAATAAATAAATATATAATATAAT
Found at i:1348153 original size:20 final size:18
Alignment explanation
Indices: 1348092--1348155 Score: 57
Period size: 17 Copynumber: 3.7 Consensus size: 18
1348082 TTGGGCCTAC
1348092 AAAA-ATAAT-AA-AATA
1 AAAATATAATAAATAATA
*
1348107 GAAATATAAT-AATAATA
1 AAAATATAATAAATAATA
1348124 AAAATA-AATAAATAAATA
1 AAAATATAATAAAT-AATA
*
1348142 TATAATATAATAAA
1 -AAAATATAATAAA
1348156 ATATTTTTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
15 3 0.08
16 10 0.25
17 12 0.30
18 4 0.10
19 5 0.12
20 6 0.15
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.27
Consensus pattern (18 bp):
AAAATATAATAAATAATA
Found at i:1348157 original size:25 final size:25
Alignment explanation
Indices: 1348096--1348158 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 25
1348086 GCCTACAAAA
1348096 ATAATAAAATAGAAATATAATAATAAT
1 ATAATAAAAT--AAATATAATAATAAT
*
1348123 A-AAAATAAATAAATA-AATATATAAT
1 ATAATA-AAATAAATATAATA-ATAAT
1348148 ATAATAAAATA
1 ATAATAAAATA
1348159 TTTTTGTAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
24 4 0.13
25 16 0.52
26 6 0.19
27 5 0.16
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (25 bp):
ATAATAAAATAAATATAATAATAAT
Found at i:1348703 original size:20 final size:20
Alignment explanation
Indices: 1348675--1348809 Score: 103
Period size: 20 Copynumber: 6.7 Consensus size: 20
1348665 AATTGGGAAA
*
1348675 ATCGTAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
1348695 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
1348715 ATCGCGATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* * *
1348736 ATCGCAACGAGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
1348756 TTCGCAACGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* * * *
1348776 TTCACAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
1348796 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
1348810 TTTCAAAGCG
Statistics
Matches: 93, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
19 4 0.04
20 65 0.70
21 22 0.24
22 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:1348719 original size:61 final size:61
Alignment explanation
Indices: 1348685--1348803 Score: 166
Period size: 61 Copynumber: 2.0 Consensus size: 61
1348675 ATCGTAATGC
* * *
1348685 GATACTGACTATCGCAATGCGATACTGACTATCGCGATGCGATAATACAAAATCGCAACGA
1 GATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACAAAATCGCAACGA
* * * * *
1348746 GATACTTACTTTCGCAACGCGATACTGACTTTCACAACGCGATAATACATAATCGCAA
1 GATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACAAAATCGCAA
1348804 TGCGATTTTC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (61 bp):
GATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACAAAATCGCAACGA
Found at i:1349311 original size:20 final size:20
Alignment explanation
Indices: 1349283--1349331 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
1349273 TTTATTCTCT
*
1349283 CGTTACGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* **
1349303 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
*
1349323 TGTTGCGAT
1 CGTTGCGAT
1349332 TTTCATTTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.39
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:1349332 original size:20 final size:20
Alignment explanation
Indices: 1349299--1349341 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
1349289 GATAGTCAAA
1349299 TTCGCGTTGCGATTGTCATT
1 TTCGCGTTGCGATTGTCATT
* *
1349319 TTCGTGTTGCGATTTTCATT
1 TTCGCGTTGCGATTGTCATT
1349339 TTC
1 TTC
1349342 AGAAACTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.09, C:0.19, G:0.21, T:0.51
Consensus pattern (20 bp):
TTCGCGTTGCGATTGTCATT
Found at i:1350682 original size:18 final size:18
Alignment explanation
Indices: 1350661--1350705 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
1350651 TCCACTTCGG
*
1350661 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
1350679 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
1350697 GAGTCATCA
1 GAGCCATCA
1350706 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:1351212 original size:20 final size:20
Alignment explanation
Indices: 1351187--1351232 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
1351177 TAGTTTACTT
1351187 TCGCAACACGAAAAT-GACTA
1 TCGCAACACGAAAATAG-CTA
* *
1351207 TCGCAACGCGGAAATAGCTA
1 TCGCAACACGAAAATAGCTA
1351227 TCGCAA
1 TCGCAA
1351233 TGCGAAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.39, C:0.26, G:0.20, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATAGCTA
Found at i:1351248 original size:19 final size:19
Alignment explanation
Indices: 1351226--1351289 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
1351216 GGAAATAGCT
1351226 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1351245 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
1351259 ATCGCAATACGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1351278 ATCGCAATGCGA
1 ATCGCAATGCGA
1351290 TTTGTGTTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 10 0.27
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 21 0.57
ACGTcount: A:0.47, C:0.20, G:0.19, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1351326 original size:14 final size:14
Alignment explanation
Indices: 1351307--1351364 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
1351297 TTGTGTTTCG
*
1351307 CGTTGCGATTTTGT
1 CGTTGCGATTTTAT
*
1351321 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TAT
1351337 CGCATTGCGATTTTAT
1 CG--TTGCGATTTTAT
1351353 CGTTGCGATTTT
1 CGTTGCGATTTT
1351365 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTAT
Found at i:1351345 original size:32 final size:33
Alignment explanation
Indices: 1351302--1351380 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
1351292 TGTGTTTGTG
* *
1351302 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTATCGTTGCGATTTTCA
1351334 TTTCGCATTGCGATTTTATCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTATCGTTGCGATTTTCA
1351367 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
1351381 GGCCATTTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 25 0.57
33 19 0.43
ACGTcount: A:0.13, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTATCGTTGCGATTTTCA
Found at i:1353288 original size:14 final size:14
Alignment explanation
Indices: 1353269--1353304 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1353259 ATTGTTTAAT
1353269 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
1353283 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
1353297 TGATTTGT
1 TGATTTGT
1353305 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1353455 original size:19 final size:17
Alignment explanation
Indices: 1353431--1353476 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 17
1353421 ACAACGAGAG
1353431 AATCGCAATGCGAAATGAA
1 AATCGCAATGCG-AA-GAA
1353450 AATCGCAA--CG-AGAA
1 AATCGCAATGCGAAGAA
1353464 AATCGCAATGCGA
1 AATCGCAATGCGA
1353477 TTTTCATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
14 11 0.46
15 1 0.04
16 2 0.08
17 2 0.08
19 8 0.33
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.13
Consensus pattern (17 bp):
AATCGCAATGCGAAGAA
Found at i:1353541 original size:20 final size:20
Alignment explanation
Indices: 1353495--1353571 Score: 138
Period size: 20 Copynumber: 3.9 Consensus size: 20
1353485 TCGCATTGCG
*
1353495 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
1353515 A-TTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
1353534 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
1353554 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
1353572 TCAAATGAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
19 18 0.33
20 37 0.67
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.36
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:1353549 original size:39 final size:40
Alignment explanation
Indices: 1353495--1353571 Score: 138
Period size: 39 Copynumber: 1.9 Consensus size: 40
1353485 TCGCATTGCG
*
1353495 ATTTTCTCGTTGCGATAGCCA-TTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCCATTTTCGCGTTGCGATAGCC
1353534 ATTTTCGCGTTGCGATAGCCATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAGCCATTTTCGCGTTGCGATAG
1353572 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 20 0.56
40 16 0.44
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.36
Consensus pattern (40 bp):
ATTTTCGCGTTGCGATAGCCATTTTCGCGTTGCGATAGCC
Found at i:1354051 original size:14 final size:14
Alignment explanation
Indices: 1354032--1354121 Score: 54
Period size: 14 Copynumber: 5.7 Consensus size: 14
1354022 GAAACTGACT
*
1354032 ATCGCAACGAGAGA
1 ATCGCAACGAGAAA
1354046 ATCGCAATGCGAAAAGAAA
1 ATCGCAA--CG---AGAAA
*
1354065 ATCGCAACGAGATA
1 ATCGCAACGAGAAA
1354079 ATCGCAATACGAAATGAAA
1 ATCGC-A-ACG--A-GAAA
* *
1354098 ATCGCAATGACAAA
1 ATCGCAACGAGAAA
1354112 ATCGCAACGA
1 ATCGCAACGA
1354122 TTTTAATTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 28 0.47
15 2 0.03
16 5 0.08
17 4 0.07
18 2 0.03
19 19 0.32
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.12
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:1354069 original size:19 final size:19
Alignment explanation
Indices: 1354045--1354106 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
1354035 GCAACGAGAG
1354045 AATCGCAATGCGAAAAGAA
1 AATCGCAATGCGAAAAGAA
*
1354064 AATCGCAA--CG---AGAT
1 AATCGCAATGCGAAAAGAA
* *
1354078 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAAAGAA
1354097 AATCGCAATG
1 AATCGCAATG
1354107 ACAAAATCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 11 0.32
16 2 0.06
17 2 0.06
19 19 0.56
ACGTcount: A:0.48, C:0.18, G:0.19, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAAAGAA
Found at i:1354074 original size:33 final size:33
Alignment explanation
Indices: 1354032--1354118 Score: 120
Period size: 33 Copynumber: 2.6 Consensus size: 33
1354022 GAAACTGACT
* *
1354032 ATCGCAACGAGAGAATCGCAATGCGAAAAGAAA
1 ATCGCAACGAGAAAATCGCAATACGAAAAGAAA
* *
1354065 ATCGCAACGAGATAATCGCAATACGAAATGAAA
1 ATCGCAACGAGAAAATCGCAATACGAAAAGAAA
* *
1354098 ATCGCAATGACAAAATCGCAA
1 ATCGCAACGAGAAAATCGCAA
1354119 CGATTTTAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.13
Consensus pattern (33 bp):
ATCGCAACGAGAAAATCGCAATACGAAAAGAAA
Found at i:1354176 original size:33 final size:33
Alignment explanation
Indices: 1354118--1354241 Score: 140
Period size: 33 Copynumber: 3.7 Consensus size: 33
1354108 CAAAATCGCA
* * *
1354118 ACGATTTTAATTTTCGCTTTGCGATTCCCTCGTT
1 ACGATTTTCA-TTTCGCATTGCGATTCTCTCGTT
* *
1354152 ACGATTTTCATTTCACATTGCGATTCTCTCATT
1 ACGATTTTCATTTCGCATTGCGATTCTCTCGTT
* ** *
1354185 GCCTTTTTCATTTCGCATTGCGATTCTATCGTT
1 ACGATTTTCATTTCGCATTGCGATTCTCTCGTT
* *
1354218 GCGATTTGCATTTCGCATTGCGAT
1 ACGATTTTCATTTCGCATTGCGAT
1354242 GGTCAAATGA
Statistics
Matches: 76, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
33 67 0.88
34 9 0.12
ACGTcount: A:0.16, C:0.23, G:0.15, T:0.45
Consensus pattern (33 bp):
ACGATTTTCATTTCGCATTGCGATTCTCTCGTT
Found at i:1355058 original size:24 final size:24
Alignment explanation
Indices: 1355031--1355077 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
1355021 GTATTCGAAA
* *
1355031 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
1355055 TTTGATATTGGTCAATACACGGA
1 TTTGATATTGGTCAATACACGGA
1355078 TTTTTATGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:1357575 original size:19 final size:19
Alignment explanation
Indices: 1357551--1357642 Score: 96
Period size: 19 Copynumber: 5.4 Consensus size: 19
1357541 TCATTTGACC
1357551 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1357570 ATCGCAA--CG--A-GATA
1 ATCGCAATGCGAAATGAAA
1357584 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1357603 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1357617 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1357636 ATCGCAA
1 ATCGCAA
1357643 CGAGGGAATC
Statistics
Matches: 59, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
14 20 0.34
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 27 0.46
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1357588 original size:14 final size:14
Alignment explanation
Indices: 1357566--1357656 Score: 56
Period size: 14 Copynumber: 5.8 Consensus size: 14
1357556 AATGCGAAAT
1357566 GAAAATCGCAACGA
1 GAAAATCGCAACGA
*
1357580 GATAATCGCAATGCGAAA
1 GAAAATCGCAA--CG--A
1357598 TGAAAATCGCAACGA
1 -GAAAATCGCAACGA
*
1357613 GAGAATCGCAATGCGAAA
1 GAAAATCGCAA--CG--A
1357631 TGAAAATCGCAACGA
1 -GAAAATCGCAACGA
**
1357646 GGGAATCGCAA
1 GAAAATCGCAA
1357657 AGCGAAAATT
Statistics
Matches: 61, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 29 0.48
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 20 0.33
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:1357593 original size:33 final size:33
Alignment explanation
Indices: 1357551--1357678 Score: 211
Period size: 33 Copynumber: 3.8 Consensus size: 33
1357541 TCATTTGACC
*
1357551 ATCGCAATGCGAAATGAAAATCGCAACGAGATA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1357584 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
1357617 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
1357650 ATCGCAAAGCGAAAATTAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
1357679 CGATTTTAGT
Statistics
Matches: 90, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
33 74 0.82
34 16 0.18
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:1357700 original size:19 final size:19
Alignment explanation
Indices: 1357678--1357722 Score: 83
Period size: 18 Copynumber: 2.4 Consensus size: 19
1357668 AAATCGCAAC
1357678 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
1357697 GCGA-TTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
1357715 GCGATTTT
1 GCGATTTT
1357723 GTCATTGCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.11, C:0.16, G:0.27, T:0.47
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:1357764 original size:33 final size:33
Alignment explanation
Indices: 1357693--1357766 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 33
1357683 TTTAGTTTCG
* * **
1357693 CGTTGCGA-TTTAGTTTCGCGTTGCGATTTTGT
1 CGTTGCGATTTTAGTTTCGCATTGCGATTCTCC
*
1357725 CATTGCGATTTTCA-TTTCGCATTGCGATTCTCC
1 CGTTGCGATTTT-AGTTTCGCATTGCGATTCTCC
1357758 CGTTGCGAT
1 CGTTGCGAT
1357767 AGTCAGTTTC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
32 7 0.21
33 26 0.76
34 1 0.03
ACGTcount: A:0.12, C:0.22, G:0.23, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTTTAGTTTCGCATTGCGATTCTCC
Found at i:1361517 original size:20 final size:20
Alignment explanation
Indices: 1361492--1361589 Score: 137
Period size: 20 Copynumber: 5.0 Consensus size: 20
1361482 TTTTGGTTGA
1361492 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
*
1361512 AATGAAAATCGCAACGCG-G
1 AATGAAAATCGCAACGAGAG
**
1361531 AAATGACTATCGCAACGAGAG
1 -AATGAAAATCGCAACGAGAG
*
1361552 AATGAAAATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
1361571 AATGAAAATCGCAACGAGA
1 AATGAAAATCGCAACGAGA
1361590 TAATTGCGAT
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
19 19 0.28
20 48 0.71
21 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.23, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:1361534 original size:40 final size:39
Alignment explanation
Indices: 1361490--1361589 Score: 173
Period size: 40 Copynumber: 2.5 Consensus size: 39
1361480 TCTTTTGGTT
1361490 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGC
**
1361529 GGAAATGACTATCGCAACGAGAGAATGAAAATCGCAACGC
1 -GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGC
1361569 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
1361590 TAATTGCGAT
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
39 19 0.34
40 37 0.66
ACGTcount: A:0.47, C:0.18, G:0.24, T:0.11
Consensus pattern (39 bp):
GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGC
Found at i:1361668 original size:20 final size:19
Alignment explanation
Indices: 1361593--1361718 Score: 127
Period size: 20 Copynumber: 6.7 Consensus size: 19
1361583 AACGAGATAA
*
1361593 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCTCG
*
1361612 TCGCGA--TT-A--TCTCG
1 TTGCGATTTTCATTTCTCG
*
1361626 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCTCG
1361645 TTGCGATTTTCATTCTCTCG
1 TTGCGATTTTCATT-TCTCG
1361665 TTGCGATTTTCATTCTCTCG
1 TTGCGATTTTCATT-TCTCG
** *
1361685 TTGCGATAGTCATTTCCACG
1 TTGCGATTTTCATTT-CTCG
*
1361705 TTGTGATTTTCATT
1 TTGCGATTTTCATT
1361719 ATCGAAACTA
Statistics
Matches: 89, Mismatches: 11, Indels: 13
0.79 0.10 0.12
Matches are distributed among these distances:
14 9 0.10
16 3 0.03
17 3 0.03
19 24 0.27
20 50 0.56
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCTCG
Found at i:1362359 original size:41 final size:41
Alignment explanation
Indices: 1362244--1362377 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
1362234 TTGAAAATCG
* * *
1362244 CATTGCGATTATGTATTATCTCGTTGCGAAAGTTAGTATCTA
1 CATTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGTATC-A
* * ** *
1362286 -GTCGCGA--AAGTAAGTATCGCGTTGCGAAAGTCAGTATCA
1 CATTGCGATTTTGT-ATTATCGCGTTGCGAAAGTCAGTATCA
* *
1362325 CATTGCGATTTTGTATTATCGCGTTGCGATAGTCAGTATCG
1 CATTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGTATCA
1362366 CATTGCGATTTT
1 CATTGCGATTTT
1362378 CCAAATTCGC
Statistics
Matches: 75, Mismatches: 13, Indels: 9
0.77 0.13 0.09
Matches are distributed among these distances:
39 4 0.05
40 28 0.37
41 41 0.55
42 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (41 bp):
CATTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGTATCA
Found at i:1362366 original size:20 final size:20
Alignment explanation
Indices: 1362260--1362373 Score: 86
Period size: 20 Copynumber: 5.7 Consensus size: 20
1362250 GATTATGTAT
* *
1362260 TATCTCGTTGCGAAAGTTAG
1 TATCGCGTTGCGAAAGTCAG
** * *
1362280 TATCTAGTCGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
1362300 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* * ** *
1362320 TATCACATTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
*
1362341 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
1362361 TATCGCATTGCGA
1 TATCGCGTTGCGA
1362374 TTTTCCAAAT
Statistics
Matches: 74, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
19 3 0.04
20 57 0.77
21 12 0.16
22 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:1362393 original size:41 final size:41
Alignment explanation
Indices: 1362300--1362395 Score: 122
Period size: 41 Copynumber: 2.3 Consensus size: 41
1362290 CGAAAGTAAG
* ** *
1362300 TATCGCGTTGCGAAAGTCAGTATCACATTGCGATTTTGTAT
1 TATCGCGTTGCGATAGTCAGTATCACATTGCGATTTTCAAA
*
1362341 TATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAAA
1 TATCGCGTTGCGATAGTCAGTATCACATTGCGATTTT-CAAA
*
1362383 T-TCGCATTGCGAT
1 TATCGCGTTGCGAT
1362396 TTACTTATTC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
41 46 0.96
42 2 0.04
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (41 bp):
TATCGCGTTGCGATAGTCAGTATCACATTGCGATTTTCAAA
Found at i:1362407 original size:20 final size:21
Alignment explanation
Indices: 1362363--1362414 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
1362353 ATAGTCAGTA
*
1362363 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
1362384 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
1362404 TCGCATTGCGA
1 TCGCATTGCGA
1362415 ATTGGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Done.