Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007964.1 Hibiscus syriacus cultivar Beakdansim tig00110393_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: 1737572
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 3 of 6
Found at i:587595 original size:20 final size:20
Alignment explanation
Indices: 587556--587595 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
587546 AGTCATTTTT
** *
587556 GTGTTGCGATTTTCATTTTC
1 GTGTTGCGATTTAAAGTTTC
587576 GTGTTGCGATTTAAAGTTTC
1 GTGTTGCGATTTAAAGTTTC
587596 AGAAACTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.12, G:0.23, T:0.50
Consensus pattern (20 bp):
GTGTTGCGATTTAAAGTTTC
Found at i:589475 original size:20 final size:20
Alignment explanation
Indices: 589450--589593 Score: 192
Period size: 20 Copynumber: 7.5 Consensus size: 20
589440 AGAATAGTTT
589450 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
589470 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
589490 ACTATCGCAA--C-AAGA-G
1 ACTATCGCAATGCGAAAATG
589506 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
589524 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
589544 ACTATCGCAATGCAAAAATG
1 ACTATCGCAATGCGAAAATG
* **
589564 ACTATTGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
589584 ACTATCGCAA
1 ACTATCGCAA
589594 CGAAAGAATC
Statistics
Matches: 109, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
14 7 0.06
16 3 0.03
17 6 0.06
18 3 0.03
20 90 0.83
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.20
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:589562 original size:40 final size:40
Alignment explanation
Indices: 589450--589631 Score: 192
Period size: 40 Copynumber: 4.9 Consensus size: 40
589440 AGAATAGTTT
*
589450 ACTATCGCAATGCGAAAATGACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
*
589490 ACTATCGCAA--C-AAGA-GA--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
*
589524 ACTATCGCAATGCGAAAATGACTATCGCAATGCAAAAATG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
* **
589564 ACTATTGCAATGCGAATTTGACTATCGCAA--CG-AAA-G
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
** *
589600 A--ATCGCAATGCG-AAATGAAAATCGCATTGCGA
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGA
589632 TTCTCTCGTT
Statistics
Matches: 119, Mismatches: 14, Indels: 22
0.77 0.09 0.14
Matches are distributed among these distances:
33 10 0.08
34 36 0.30
35 2 0.02
36 5 0.04
37 9 0.08
38 4 0.03
40 53 0.45
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.19
Consensus pattern (40 bp):
ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
Found at i:589665 original size:20 final size:19
Alignment explanation
Indices: 589640--589789 Score: 74
Period size: 20 Copynumber: 8.4 Consensus size: 19
589630 GATTCTCTCG
589640 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTC-AATTCGCA
* *
589660 TTGCGATAGTCATTTCGCG
1 TTGCGATAGTCAATTCGCA
***
589679 TTGCGAT--TTTGTT-G--
1 TTGCGATAGTCAATTCGCA
* *
589693 TTGCGAT-TTCATTTCGCA
1 TTGCGATAGTCAATTCGCA
589711 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCAAT-TCGCA
589725 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTC-AATTCGCA
*
589745 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCA-ATTCGCA
* * *
589765 TT-TGATAGTCATTTCGCG
1 TTGCGATAGTCAATTCGCA
589783 TTGCGAT
1 TTGCGAT
589790 TTTAAGTTTC
Statistics
Matches: 104, Mismatches: 12, Indels: 29
0.72 0.08 0.20
Matches are distributed among these distances:
14 14 0.13
15 4 0.04
16 7 0.07
17 5 0.05
18 18 0.17
19 26 0.25
20 30 0.29
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (19 bp):
TTGCGATAGTCAATTCGCA
Found at i:589728 original size:32 final size:33
Alignment explanation
Indices: 589660--589751 Score: 114
Period size: 32 Copynumber: 2.8 Consensus size: 33
589650 CAAATTCGCA
* * * *
589660 TTGCGATAGTCATTTCGCGTTGCGATTTTGTTG
1 TTGCGATAGTCATTTCGCATTGCGATTCTCTCG
*
589693 TTGCGAT-TTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCATTGCGATTCTCTCG
*
589725 TTGCGATAGTCAAATTCGCATTGCGAT
1 TTGCGATAGTC-ATTTCGCATTGCGAT
589752 AGTCATTTTC
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
32 27 0.54
33 9 0.18
34 14 0.28
ACGTcount: A:0.16, C:0.20, G:0.23, T:0.41
Consensus pattern (33 bp):
TTGCGATAGTCATTTCGCATTGCGATTCTCTCG
Found at i:590357 original size:21 final size:21
Alignment explanation
Indices: 590266--590370 Score: 95
Period size: 21 Copynumber: 5.0 Consensus size: 21
590256 GACTCACCTG
*
590266 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
*
590288 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
590308 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
590329 ACACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
590350 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
590371 CCAACATTCT
Statistics
Matches: 63, Mismatches: 19, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
20 3 0.05
21 59 0.94
22 1 0.02
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:591807 original size:19 final size:19
Alignment explanation
Indices: 591785--591830 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
591775 GATTCACTCG
591785 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
591804 TTGCGATTTTCATTTTGCA
1 TTGCGATTTTCATTTCGCA
591823 TTGCGATT
1 TTGCGATT
591831 ATCTCGTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.15, C:0.17, G:0.17, T:0.50
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:591863 original size:20 final size:20
Alignment explanation
Indices: 591835--591923 Score: 117
Period size: 20 Copynumber: 4.5 Consensus size: 20
591825 GCGATTATCT
* *
591835 CGTTACGATAGTCCTTTCCG
1 CGTTGCGATAGTCATTTCCG
*
591855 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
*
591875 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
591895 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
591915 CGTTGCGAT
1 CGTTGCGAT
591924 TTCCGCTTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
20 58 0.97
21 2 0.03
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:594524 original size:24 final size:24
Alignment explanation
Indices: 594490--594543 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
594480 ATGAAAAATC
594490 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
594514 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
594538 ATCAAA
1 ATCAAA
594544 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:594557 original size:24 final size:24
Alignment explanation
Indices: 594490--594557 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
594480 ATGAAAAATC
* * *
594490 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
594514 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
594538 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
594558 TAGTACTCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:595418 original size:20 final size:20
Alignment explanation
Indices: 595403--595470 Score: 102
Period size: 20 Copynumber: 3.4 Consensus size: 20
595393 GTCAGAATCT
595403 CGTTGCGATTTACAGATTCG
1 CGTTGCGATTTACAGATTCG
*
595423 CATTGCGATTTAC-GTATTCG
1 CGTTGCGATTTACAG-ATTCG
*
595443 CGTTGCGATTTACATATTCG
1 CGTTGCGATTTACAGATTCG
595463 CGTTGCGA
1 CGTTGCGA
595471 ATCAGGAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
19 1 0.02
20 42 0.98
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.37
Consensus pattern (20 bp):
CGTTGCGATTTACAGATTCG
Found at i:595491 original size:21 final size:21
Alignment explanation
Indices: 595467--595512 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
595457 TATTCGCGTT
595467 GCGAATCAGGAAAATCGCAAC
1 GCGAATCAGGAAAATCGCAAC
** * *
595488 GCGAATTTGGGAAATCGCAAT
1 GCGAATCAGGAAAATCGCAAC
595509 GCGA
1 GCGA
595513 TAGTCAGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.20, G:0.28, T:0.15
Consensus pattern (21 bp):
GCGAATCAGGAAAATCGCAAC
Found at i:601981 original size:33 final size:33
Alignment explanation
Indices: 601943--602033 Score: 164
Period size: 33 Copynumber: 2.8 Consensus size: 33
601933 ATATGGAAAG
*
601943 TGATCTATGAGATCATATAAGAATGTTATACAA
1 TGATCTATGAGATCATACAAGAATGTTATACAA
601976 TGATCTATGAGATCATACAAGAATGTTATACAA
1 TGATCTATGAGATCATACAAGAATGTTATACAA
*
602009 TGATTTATGAGATCATACAAGAATG
1 TGATCTATGAGATCATACAAGAATG
602034 ATACAAGTGA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (33 bp):
TGATCTATGAGATCATACAAGAATGTTATACAA
Found at i:605514 original size:53 final size:53
Alignment explanation
Indices: 605421--605661 Score: 259
Period size: 53 Copynumber: 4.5 Consensus size: 53
605411 TACCTATTCG
* ** ** *
605421 TTCAGGGAGTATAGGACTCGAACAATCTTCAACAAACGGGTTTTCTCCCTATTGC
1 TTCAGGGAG--TAGAACTCGAACAATCTTCAACCTACGGGTTCGCTCCCTCTTGC
* *
605476 TTCAGGGAGTAGAACTCGAACAATCTCCAACC-AGCGGGTTCGCTACCTCTTGC
1 TTCAGGGAGTAGAACTCGAACAATCTTCAACCTA-CGGGTTCGCTCCCTCTTGC
* * * ** * *
605529 TTAAGGGAGTAGAACTTGAACAGTCTTCTGCCTATGAGTTCGCTCCCTCTTGC
1 TTCAGGGAGTAGAACTCGAACAATCTTCAACCTACGGGTTCGCTCCCTCTTGC
* * ** *
605582 TTCAGGGAGTAAAACTCGAACAATATTCTGCCTATGGGTTCGCTCCCTCTTGC
1 TTCAGGGAGTAGAACTCGAACAATCTTCAACCTACGGGTTCGCTCCCTCTTGC
*
605635 TTCATGGAGTAGAACTCGAACAATCTT
1 TTCAGGGAGTAGAACTCGAACAATCTT
605662 ATGGTGTGAT
Statistics
Matches: 159, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
52 1 0.01
53 148 0.93
54 1 0.01
55 9 0.06
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (53 bp):
TTCAGGGAGTAGAACTCGAACAATCTTCAACCTACGGGTTCGCTCCCTCTTGC
Found at i:605772 original size:13 final size:13
Alignment explanation
Indices: 605754--605778 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
605744 TGCTCGAAAG
605754 ACTTACTGATGGC
1 ACTTACTGATGGC
605767 ACTTACTGATGG
1 ACTTACTGATGG
605779 ATTTGCTTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (13 bp):
ACTTACTGATGGC
Found at i:606067 original size:42 final size:41
Alignment explanation
Indices: 605981--606072 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 41
605971 CCCGAAGGTT
* * * * * *
605981 TTACGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGC
1 TTACAGATGACCCGAAGGACTTAGCATCATGCTCGAAAGAC
*
606022 TTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGAC
1 TTACAGATGACCCGAAGGACTT-AGCATCATGCTCGAAAGAC
*
606064 TTACTGATG
1 TTACAGATG
606073 GCCTGACAGG
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 19 0.45
42 23 0.55
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (41 bp):
TTACAGATGACCCGAAGGACTTAGCATCATGCTCGAAAGAC
Found at i:606173 original size:215 final size:215
Alignment explanation
Indices: 605819--606246 Score: 795
Period size: 215 Copynumber: 2.0 Consensus size: 215
605809 GCAAATTACT
*
605819 CGAAGGATTTAATCATCATGCTCGAAAGACTTACTAATGGCCCGAAGGGCTTATAAATTGTGAAA
1 CGAAGGATTTAAGCATCATGCTCGAAAGACTTACTAATGGCCCGAAGGGCTTATAAATTGTGAAA
605884 TTTTGAAAATCGCATTCTTTGTTTTCAAAAATTTCATCTTCTCAAAACATCGTTTTTTCATTTTC
66 TTTTGAAAATCGCATTCTTTGTTTTCAAAAATTTCATCTTCTCAAAACATCGTTTTTTCATTTTC
*
605949 AAATTCATGTGAAAACATCCTACCCGAAGGTTTTACGGATGGCCCGAAGGACTTATCATCTTGCT
131 AAATTCATGTAAAAACATCCTACCCGAAGGTTTTACGGATGGCCCGAAGGACTTATCATCTTGCT
606014 CTAAAGGCTTACAGATGACC
196 CTAAAGGCTTACAGATGACC
* *
606034 CGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCTGACA-GGCTTATAAATTGTGAA
1 CGAAGGATTTAAGCATCATGCTCGAAAGACTTACTAATGGCCCGA-AGGGCTTATAAATTGTGAA
606098 ATTTTGAAAATCGCATTCTTTGTTTTCAAAAATTTCATCTTCTCAAAACATCGTTTTTTCATTTT
65 ATTTTGAAAATCGCATTCTTTGTTTTCAAAAATTTCATCTTCTCAAAACATCGTTTTTTCATTTT
*
606163 CAAATTCATGTAAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGACTTATCATCTTGC
130 CAAATTCATGTAAAAACATCCTACCCGAAGGTTTTACGGATGGCCCGAAGGACTTATCATCTTGC
606228 TCTAAAGGCTTACAGATGA
195 TCTAAAGGCTTACAGATGA
606247 ATTTGCTTCA
Statistics
Matches: 207, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
215 206 1.00
216 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.33
Consensus pattern (215 bp):
CGAAGGATTTAAGCATCATGCTCGAAAGACTTACTAATGGCCCGAAGGGCTTATAAATTGTGAAA
TTTTGAAAATCGCATTCTTTGTTTTCAAAAATTTCATCTTCTCAAAACATCGTTTTTTCATTTTC
AAATTCATGTAAAAACATCCTACCCGAAGGTTTTACGGATGGCCCGAAGGACTTATCATCTTGCT
CTAAAGGCTTACAGATGACC
Found at i:606343 original size:39 final size:39
Alignment explanation
Indices: 606232--606345 Score: 150
Period size: 34 Copynumber: 3.1 Consensus size: 39
606222 TCTTGCTCTA
* *
606232 AAGGCTTAC-AGATGAATTTGCTTCACTACTCTTCCGTG
1 AAGGCTTACAAGATGGATTTGCTTCACTACTCTTCGGTG
606270 AAGGCTT--AAGATGG---TGCTTCACTACTCTTCGGTG
1 AAGGCTTACAAGATGGATTTGCTTCACTACTCTTCGGTG
* *
606304 AAGGCTTACAAAATGGATTTGCTTCACTACTCTTTGGTG
1 AAGGCTTACAAGATGGATTTGCTTCACTACTCTTCGGTG
606343 AAG
1 AAG
606346 ACTTGACTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
34 26 0.39
36 6 0.09
37 5 0.08
38 7 0.11
39 22 0.33
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (39 bp):
AAGGCTTACAAGATGGATTTGCTTCACTACTCTTCGGTG
Found at i:615163 original size:6 final size:6
Alignment explanation
Indices: 615152--615178 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
615142 ACAAGCAACA
615152 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
615179 CTAATGACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:616750 original size:2 final size:2
Alignment explanation
Indices: 616732--616810 Score: 131
Period size: 2 Copynumber: 39.0 Consensus size: 2
616722 TTGGTGAGTG
* *
616732 AT AT GT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
616774 AT AT AT AT AT AT AT AT AT AT AT AT GAT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT
616811 GCATATGTAT
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
2 70 0.97
3 2 0.03
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
AT
Found at i:617216 original size:20 final size:20
Alignment explanation
Indices: 617187--617225 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
617177 TGATATTAGG
*
617187 CCTTCGGTATGGAGACCAAT
1 CCTTCAGTATGGAGACCAAT
617207 CCTTCAGTATGGAGACCAA
1 CCTTCAGTATGGAGACCAA
617226 CGGTCTCGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (20 bp):
CCTTCAGTATGGAGACCAAT
Found at i:625809 original size:20 final size:20
Alignment explanation
Indices: 625771--625809 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
625761 GGGACGATAT
* *
625771 CGATACTCAAGGGTCAGTAC
1 CGATACTAAAGGCTCAGTAC
*
625791 CGATACTAAAGGCTTAGTA
1 CGATACTAAAGGCTCAGTA
625810 TCAGTACCCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (20 bp):
CGATACTAAAGGCTCAGTAC
Found at i:627489 original size:82 final size:82
Alignment explanation
Indices: 627385--627863 Score: 656
Period size: 82 Copynumber: 5.8 Consensus size: 82
627375 CAATGGAAAT
* * * * *
627385 TATTTCAATTTATCTGAGTTGATGTGAAATATAAATGATAAGCAAAGGACGTGAATAGTGTAAAT
1 TATTTCAGTTTATCTGAGTTGATGTGAAATGTCAATGACAAGCAAAGGACGTGAATAGTGTAGAT
*
627450 TCCCTGGTTCTCTAAAA
66 TCCCTGATTCTCTAAAA
* *
627467 TATTTCAGTTTATCTGAGTTGATGTGAAATGTCAATGACAAGCAAAGGACGTGAATAGTATAGAG
1 TATTTCAGTTTATCTGAGTTGATGTGAAATGTCAATGACAAGCAAAGGACGTGAATAGTGTAGAT
627532 TCCCTGATTCTCTAAAA
66 TCCCTGATTCTCTAAAA
627549 TATTTCAGTTTATCTGAGTTGATGTGAAATGT-AAGTGACAAGCAAAGGACGTGAATAGTGTAGA
1 TATTTCAGTTTATCTGAGTTGATGTGAAATGTCAA-TGACAAGCAAAGGACGTGAATAGTGTAGA
** *
627613 TTCTTTGATT-TCAATGGAAAT
65 TTCCCTGATTCTC--T--AAAA
* * * * * *
627634 TATTTCAGATTATCTGAGTTGATGTGAAATATCAATGACAAGCAAATGATGTGAATAGTATGGAT
1 TATTTCAGTTTATCTGAGTTGATGTGAAATGTCAATGACAAGCAAAGGACGTGAATAGTGTAGAT
627699 TCCCTGATTCTCTAAAA
66 TCCCTGATTCTCTAAAA
* *
627716 TATTTCAGTTTATCTGAGTTGATGTGAAATGTCAATGACAAGCAAATGACGTAAATAGTGTAGAT
1 TATTTCAGTTTATCTGAGTTGATGTGAAATGTCAATGACAAGCAAAGGACGTGAATAGTGTAGAT
* * *
627781 TCTCTGATCCACTAAAA
66 TCCCTGATTCTCTAAAA
* * * * *
627798 TATTTCAGTTTATTTGAGTTAATGTGAAGTGTCAATGATAAGCAAAGGACGTCAATAGTGTAGAT
1 TATTTCAGTTTATCTGAGTTGATGTGAAATGTCAATGACAAGCAAAGGACGTGAATAGTGTAGAT
627863 T
66 T
627864 GTCTACAAGG
Statistics
Matches: 353, Mismatches: 37, Indels: 14
0.87 0.09 0.03
Matches are distributed among these distances:
81 4 0.01
82 277 0.78
83 1 0.00
84 1 0.00
85 66 0.19
86 4 0.01
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Consensus pattern (82 bp):
TATTTCAGTTTATCTGAGTTGATGTGAAATGTCAATGACAAGCAAAGGACGTGAATAGTGTAGAT
TCCCTGATTCTCTAAAA
Found at i:627672 original size:167 final size:163
Alignment explanation
Indices: 627385--627861 Score: 661
Period size: 167 Copynumber: 2.9 Consensus size: 163
627375 CAATGGAAAT
* * * *
627385 TATTTCAATTTATCTGAGTTGATGTGAAATATAAATGATAAGCAAAGGACGTGAATAGTGTAAAT
1 TATTTCAGTTTATCTGAGTTGATGTGAAATGT-AATGACAAGCAAAGGACGTGAATAGTGTAGAT
* *
627450 TCCCTGGTTCTC-TAAAATATTTCAGTTTATCTGAGTTGATGTGAAATGTCAATGACAAGCAAAG
65 TCTCTGATT-TCATAAAATATTTCAGTTTATCTGAGTTGATGTGAAATGTCAATGACAAGCAAAG
627514 GACGTGAATAGTATAGAGTCCCTGATTCTCTAAAA
129 GACGTGAATAGTATAGAGTCCCTGATTCTCTAAAA
627549 TATTTCAGTTTATCTGAGTTGATGTGAAATGTAAGTGACAAGCAAAGGACGTGAATAGTGTAGAT
1 TATTTCAGTTTATCTGAGTTGATGTGAAATGTAA-TGACAAGCAAAGGACGTGAATAGTGTAGAT
* * * *
627614 TCTTTGATTTCAATGGAAATTATTTCAGATTATCTGAGTTGATGTGAAATATCAATGACAAGCAA
65 TCTCTGATTTC-AT--AAAATATTTCAGTTTATCTGAGTTGATGTGAAATGTCAATGACAAGCAA
* * * *
627679 ATGATGTGAATAGTATGGATTCCCTGATTCTCTAAAA
127 AGGACGTGAATAGTATAGAGTCCCTGATTCTCTAAAA
* *
627716 TATTTCAGTTTATCTGAGTTGATGTGAAATGTCAATGACAAGCAAATGACGTAAATAGTGTAGAT
1 TATTTCAGTTTATCTGAGTTGATGTGAAATGT-AATGACAAGCAAAGGACGTGAATAGTGTAGAT
* * * * *
627781 TCTCTGA-TCCACTAAAATATTTCAGTTTATTTGAGTTAATGTGAAGTGTCAATGATAAGCAAAG
65 TCTCTGATTTCA-TAAAATATTTCAGTTTATCTGAGTTGATGTGAAATGTCAATGACAAGCAAAG
* *
627845 GACGTCAATAGTGTAGA
129 GACGTGAATAGTATAGA
627862 TTGTCTACAA
Statistics
Matches: 276, Mismatches: 30, Indels: 14
0.86 0.09 0.04
Matches are distributed among these distances:
163 4 0.01
164 120 0.43
165 2 0.01
166 3 0.01
167 145 0.53
168 2 0.01
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Consensus pattern (163 bp):
TATTTCAGTTTATCTGAGTTGATGTGAAATGTAATGACAAGCAAAGGACGTGAATAGTGTAGATT
CTCTGATTTCATAAAATATTTCAGTTTATCTGAGTTGATGTGAAATGTCAATGACAAGCAAAGGA
CGTGAATAGTATAGAGTCCCTGATTCTCTAAAA
Found at i:627798 original size:249 final size:249
Alignment explanation
Indices: 627353--627868 Score: 784
Period size: 249 Copynumber: 2.1 Consensus size: 249
627343 AAAGAATATA
*
627353 AATACTGTAGATTCTCTAATTTCAATGGAAATTATTTCAATTTATCTGAGTTGATGTGAAATATA
1 AATAGTGTAGATTCTCTAATTTCAATGGAAATTATTTCAATTTATCTGAGTTGATGTGAAATATA
* * *
627418 AATGATAAGCAAAGGACGTGAATAGTGTAAATTCCCTGGTTCTCTAAAATATTTCAGTTTATCTG
66 AATGACAAGCAAAGGACGTGAATAGTATAAATTCCCTGATTCTCTAAAATATTTCAGTTTATCTG
* * *
627483 AGTTGATGTGAAATGTCAATGACAAGCAAAGGACGTGAATAGTATAGAGTCCCTGATTCTCTAAA
131 AGTTGATGTGAAATGTCAATGACAAGCAAAGGACGTAAATAGTATAGAGTCCCTGATCCACTAAA
* *
627548 ATATTTCAGTTTATCTGAGTTGATGTGAAATGT-AAGTGACAAGCAAAGGACGTG
196 ATATTTCAGTTTATCTGAGTTAATGTGAAATGTCAA-TGACAAGCAAAGGACGTC
* *
627602 AATAGTGTAGATTCTTTGATTTCAATGGAAATTATTTCAGA-TTATCTGAGTTGATGTGAAATAT
1 AATAGTGTAGATTCTCTAATTTCAATGGAAATTATTTCA-ATTTATCTGAGTTGATGTGAAATAT
* * * **
627666 CAATGACAAGCAAATGATGTGAATAGTATGGATTCCCTGATTCTCTAAAATATTTCAGTTTATCT
65 AAATGACAAGCAAAGGACGTGAATAGTATAAATTCCCTGATTCTCTAAAATATTTCAGTTTATCT
* * * *
627731 GAGTTGATGTGAAATGTCAATGACAAGCAAATGACGTAAATAGTGTAGATTCTCTGATCCACTAA
130 GAGTTGATGTGAAATGTCAATGACAAGCAAAGGACGTAAATAGTATAGAGTCCCTGATCCACTAA
* * *
627796 AATATTTCAGTTTATTTGAGTTAATGTGAAGTGTCAATGATAAGCAAAGGACGTC
195 AATATTTCAGTTTATCTGAGTTAATGTGAAATGTCAATGACAAGCAAAGGACGTC
*
627851 AATAGTGTAGATTGTCTA
1 AATAGTGTAGATTCTCTA
627869 CAAGGCATGG
Statistics
Matches: 239, Mismatches: 26, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
249 236 0.99
250 3 0.01
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Consensus pattern (249 bp):
AATAGTGTAGATTCTCTAATTTCAATGGAAATTATTTCAATTTATCTGAGTTGATGTGAAATATA
AATGACAAGCAAAGGACGTGAATAGTATAAATTCCCTGATTCTCTAAAATATTTCAGTTTATCTG
AGTTGATGTGAAATGTCAATGACAAGCAAAGGACGTAAATAGTATAGAGTCCCTGATCCACTAAA
ATATTTCAGTTTATCTGAGTTAATGTGAAATGTCAATGACAAGCAAAGGACGTC
Found at i:629713 original size:24 final size:24
Alignment explanation
Indices: 629681--629728 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
629671 AAGAAAAAGA
629681 TCAAAAAAGAGATTATCAACATAG
1 TCAAAAAAGAGATTATCAACATAG
629705 TCAAAAAAGAGATTATCAACATAG
1 TCAAAAAAGAGATTATCAACATAG
629729 GTAACTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.12, G:0.12, T:0.21
Consensus pattern (24 bp):
TCAAAAAAGAGATTATCAACATAG
Found at i:632177 original size:20 final size:21
Alignment explanation
Indices: 632138--632177 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
632128 CATTCAAGGG
632138 GAATCAGTTCCCTCATTGGGGA
1 GAATCAGTTCCCTCA-TGGGGA
*
632160 GAATCGGTTCCCTC-TGGG
1 GAATCAGTTCCCTCATGGG
632178 TAATCTGCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
22 13 0.76
ACGTcount: A:0.17, C:0.25, G:0.30, T:0.28
Consensus pattern (21 bp):
GAATCAGTTCCCTCATGGGGA
Found at i:634041 original size:20 final size:21
Alignment explanation
Indices: 634002--634041 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
633992 CATTCAAGGG
634002 GAATCAGTTCCCTCATTGGGGA
1 GAATCAGTTCCCTCA-TGGGGA
*
634024 GAATCGGTTCCCTC-TGGG
1 GAATCAGTTCCCTCATGGG
634042 CAATCTGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
22 13 0.76
ACGTcount: A:0.17, C:0.25, G:0.30, T:0.28
Consensus pattern (21 bp):
GAATCAGTTCCCTCATGGGGA
Found at i:638380 original size:18 final size:18
Alignment explanation
Indices: 638353--638387 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
638343 GGGAGGAGAA
*
638353 AGAGATAGAGAAAAAGAT
1 AGAGAAAGAGAAAAAGAT
*
638371 AGAGAAAGAGAGAAAGA
1 AGAGAAAGAGAAAAAGA
638388 AGGAGAAGAA
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:0.63, C:0.00, G:0.31, T:0.06
Consensus pattern (18 bp):
AGAGAAAGAGAAAAAGAT
Found at i:638388 original size:12 final size:12
Alignment explanation
Indices: 638348--638381 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
638338 TTGCGGGGAG
638348 GAGAAAGAGATA
1 GAGAAAGAGATA
*
638360 GAGAAAAAGATA
1 GAGAAAGAGATA
638372 GAGAAAGAGA
1 GAGAAAGAGA
638382 GAAAGAAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.32, T:0.06
Consensus pattern (12 bp):
GAGAAAGAGATA
Found at i:638393 original size:18 final size:17
Alignment explanation
Indices: 638352--638394 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
638342 GGGGAGGAGA
*
638352 AAGAGATAGAGAAAAAG
1 AAGAGAAAGAGAAAAAG
*
638369 ATAGAGAAAGAGAGAAAG
1 A-AGAGAAAGAGAAAAAG
638387 AAGGAGAA
1 AA-GAGAA
638395 GAAGAAACGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.05
Consensus pattern (17 bp):
AAGAGAAAGAGAAAAAG
Found at i:640974 original size:21 final size:22
Alignment explanation
Indices: 640943--640997 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
640933 CTCATCTGCA
640943 GAAGAAAATCCTTG-AGT-GTGTT
1 GAAG-AAATCCTTGCA-TCGTGTT
640965 GAAGAAATCC-TGCATCGTGTT
1 GAAGAAATCCTTGCATCGTGTT
*
640986 GAAGAATTCCTT
1 GAAGAAATCCTT
640998 CAGCGTTCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 3 0.10
21 21 0.72
22 5 0.17
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (22 bp):
GAAGAAATCCTTGCATCGTGTT
Found at i:642010 original size:20 final size:20
Alignment explanation
Indices: 641985--642025 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
641975 TTGTATTATA
*
641985 GACATATATTACAAGTCACT
1 GACATATATTACAAGCCACT
642005 GACATATATTACAAGCCACT
1 GACATATATTACAAGCCACT
642025 G
1 G
642026 TGTAGGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (20 bp):
GACATATATTACAAGCCACT
Found at i:645583 original size:249 final size:249
Alignment explanation
Indices: 645145--645645 Score: 966
Period size: 249 Copynumber: 2.0 Consensus size: 249
645135 TGTTTTGTAT
645145 TCATCTCCTCCTCCTCTGTTCTGTTCCCTGTCACTAACACAACTTTTAACTAAATGCTGAACGGA
1 TCATCTCCTCCTCCTCTGTTCTGTTCCCTGTCACTAACACAACTTTTAACTAAATGCTGAACGGA
645210 AAACACGTATGTAATAGAAAAACCAATTCAATATTCAAACACCAAAGTCTCTCACCATTAAATTG
66 AAACACGTATGTAATAGAAAAACCAATTCAATATTCAAACACCAAAGTCTCTCACCATTAAATTG
645275 GACTTAAGACTATTTAGCTGACAGCTGAATCATATCCATCATATTATCATGGAGATAGTACATGT
131 GACTTAAGACTATTTAGCTGACAGCTGAATCATATCCATCATATTATCATGGAGATAGTACATGT
*
645340 TATTAATATCTAAGGTACGTTGGATTGTCAAGAATTTGTAGCAATCATATCCTC
196 TATTAATATCTAAGGTACGTTGGATTGTCAAGAATTTGTAGCAATCACATCCTC
*
645394 TCATCTCCTCCTCCTCTGTTCTGTTCCCTGTCACTAACACAACTTTTAACTAAATGCTGTACGGA
1 TCATCTCCTCCTCCTCTGTTCTGTTCCCTGTCACTAACACAACTTTTAACTAAATGCTGAACGGA
*
645459 AAACACGTGTGTAATAGAAAAACCAATTCAATATTCAAACACCAAAGTCTCTCACCATTAAATTG
66 AAACACGTATGTAATAGAAAAACCAATTCAATATTCAAACACCAAAGTCTCTCACCATTAAATTG
645524 GACTTAAGACTATTTAGCTGACAGCTGAATCATATCCATCATATTATCATGGAGATAGTACATGT
131 GACTTAAGACTATTTAGCTGACAGCTGAATCATATCCATCATATTATCATGGAGATAGTACATGT
*
645589 TATTAATATCTAAGGTACGTTGGATTGTCAAGTATTTGTAGCAATCACATCCTC
196 TATTAATATCTAAGGTACGTTGGATTGTCAAGAATTTGTAGCAATCACATCCTC
645643 TCA
1 TCA
645646 ATGTTTGTGT
Statistics
Matches: 248, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
249 248 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (249 bp):
TCATCTCCTCCTCCTCTGTTCTGTTCCCTGTCACTAACACAACTTTTAACTAAATGCTGAACGGA
AAACACGTATGTAATAGAAAAACCAATTCAATATTCAAACACCAAAGTCTCTCACCATTAAATTG
GACTTAAGACTATTTAGCTGACAGCTGAATCATATCCATCATATTATCATGGAGATAGTACATGT
TATTAATATCTAAGGTACGTTGGATTGTCAAGAATTTGTAGCAATCACATCCTC
Found at i:651489 original size:19 final size:19
Alignment explanation
Indices: 651465--651516 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
651455 AATGCATTTT
651465 ATGCATCGATGCACACACC
1 ATGCATCGATGCACACACC
651484 ATGCATCGATGCACACACC
1 ATGCATCGATGCACACACC
651503 ATGCATCGATGCAC
1 ATGCATCGATGCAC
651517 TTGGGCTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.31, C:0.35, G:0.17, T:0.17
Consensus pattern (19 bp):
ATGCATCGATGCACACACC
Found at i:651580 original size:83 final size:84
Alignment explanation
Indices: 651400--651560 Score: 254
Period size: 84 Copynumber: 1.9 Consensus size: 84
651390 AATGCAATTA
* * *
651400 ATGCACCGATGCACTCTCCATGCATCGATGCACTTGGGTTTTAATGAAAACATCGAATGCATTTT
1 ATGCACCGATGCACACACCATGCATCGATGCACTTGGGTTTTAATCAAAACATCGAATGCATTTT
651465 ATGCATCGATGCACACACC
66 ATGCATCGATGCACACACC
* *
651484 ATGCATCGATGCACACACCATGCATCGATGCACTTGGGCTTTT-A-CAAAACATTGAATGCATTT
1 ATGCACCGATGCACACACCATGCATCGATGCACTTGGG-TTTTAATCAAAACATCGAATGCATTT
651547 TATGCATCGATGCA
65 TATGCATCGATGCA
651561 TGCTTAGTGC
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
83 31 0.44
84 36 0.51
85 4 0.06
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (84 bp):
ATGCACCGATGCACACACCATGCATCGATGCACTTGGGTTTTAATCAAAACATCGAATGCATTTT
ATGCATCGATGCACACACC
Found at i:659009 original size:3 final size:3
Alignment explanation
Indices: 659001--659025 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
658991 TCTTCTCATG
659001 CTC CTC CTC CTC CTC CTC CTC CTC C
1 CTC CTC CTC CTC CTC CTC CTC CTC C
659026 GGCACCAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (3 bp):
CTC
Found at i:660283 original size:64 final size:64
Alignment explanation
Indices: 660132--660290 Score: 212
Period size: 65 Copynumber: 2.5 Consensus size: 64
660122 GAATAAATTG
* * * * * * *
660132 AACATCGAATGCAATTAATGCACCGATGCACTCTCCATGCATTGATGCACTCGGGTTTTAATGAA
1 AACATCGAATGCATTTTATGCATCGATGCACACACCATGCATCGATGCACTCGGGTTTT-ATCAA
*
660197 AACATCGAATGCATTTTATGCATCGATGCACACACCATGCATCGATGCACTTGGGCTTTT-TCAA
1 AACATCGAATGCATTTTATGCATCGATGCACACACCATGCATCGATGCACTCGGG-TTTTATCAA
*
660261 AACATCGAATGCATTTTATGCATCAATGCA
1 AACATCGAATGCATTTTATGCATCGATGCA
660291 TGCTTAGTGC
Statistics
Matches: 84, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
64 32 0.38
65 48 0.57
66 4 0.05
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (64 bp):
AACATCGAATGCATTTTATGCATCGATGCACACACCATGCATCGATGCACTCGGGTTTTATCAA
Found at i:662045 original size:18 final size:18
Alignment explanation
Indices: 662022--662060 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
662012 AAATTAAATG
662022 TCATTTTAATATCGATAT
1 TCATTTTAATATCGATAT
662040 TCATTTTAATATCGATAT
1 TCATTTTAATATCGATAT
662058 TCA
1 TCA
662061 CCTGGAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.13, G:0.05, T:0.49
Consensus pattern (18 bp):
TCATTTTAATATCGATAT
Found at i:663294 original size:8 final size:8
Alignment explanation
Indices: 663283--663307 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
663273 CGGTGAAGGT
663283 ACTGGTTC
1 ACTGGTTC
663291 ACTGGTTC
1 ACTGGTTC
663299 ACTGGTTC
1 ACTGGTTC
663307 A
1 A
663308 ACCGGATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (8 bp):
ACTGGTTC
Found at i:664054 original size:30 final size:29
Alignment explanation
Indices: 664020--664104 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 29
664010 AGTGAACCGG
*
664020 TGGTTCAAACCGGTTTTGCCGGTTTTCAGT
1 TGGTTC-AACCGGTTTTACCGGTTTTCAGT
* *
664050 TGGTTCACCTCGGTTTTATCGGTTTTCAGT
1 TGGTTCAAC-CGGTTTTACCGGTTTTCAGT
* *
664080 CGGTTCTACCGGTTTTCATCCGGTT
1 TGGTTCAACCGGTTTT-A-CCGGTT
664105 CATTGTCAGA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
29 9 0.20
30 31 0.69
31 5 0.11
ACGTcount: A:0.11, C:0.22, G:0.25, T:0.42
Consensus pattern (29 bp):
TGGTTCAACCGGTTTTACCGGTTTTCAGT
Found at i:664084 original size:20 final size:20
Alignment explanation
Indices: 664059--664097 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
664049 TTGGTTCACC
* *
664059 TCGGTTTTATCGGTTTTCAG
1 TCGGTTCTACCGGTTTTCAG
664079 TCGGTTCTACCGGTTTTCA
1 TCGGTTCTACCGGTTTTCA
664098 TCCGGTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.10, C:0.21, G:0.23, T:0.46
Consensus pattern (20 bp):
TCGGTTCTACCGGTTTTCAG
Found at i:665372 original size:16 final size:16
Alignment explanation
Indices: 665351--665385 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
665341 ATTCTTGTAT
665351 TAATAAGTGTATACGA
1 TAATAAGTGTATACGA
665367 TAATAAGTGTATACGA
1 TAATAAGTGTATACGA
665383 TAA
1 TAA
665386 GGCAGGCGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.31
Consensus pattern (16 bp):
TAATAAGTGTATACGA
Found at i:666692 original size:35 final size:35
Alignment explanation
Indices: 666598--666698 Score: 107
Period size: 34 Copynumber: 2.9 Consensus size: 35
666588 GAGTTGTGTG
* * * *
666598 ATGATTTTGAATAAGCTCTCAAACTCA-CAAAACT
1 ATGATATTGAAGAAACTCTCAAACTCATCAAGACT
*
666632 ATGATATTGAAGCAACTCT-AAACTCATCAAGACT
1 ATGATATTGAAGAAACTCTCAAACTCATCAAGACT
* * * *
666666 GTGATGTTGGAGAAACTCTCCAACTCATCAAGA
1 ATGATATTGAAGAAACTCTCAAACTCATCAAGA
666699 ATACGGTCAT
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
33 7 0.13
34 36 0.65
35 12 0.22
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.27
Consensus pattern (35 bp):
ATGATATTGAAGAAACTCTCAAACTCATCAAGACT
Found at i:681113 original size:2 final size:2
Alignment explanation
Indices: 681106--681140 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
681096 AAGAACCTAG
681106 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
681141 GGAATAACAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:681582 original size:27 final size:27
Alignment explanation
Indices: 681544--681627 Score: 150
Period size: 27 Copynumber: 3.1 Consensus size: 27
681534 GGAAGGAAGG
681544 TGAGATAGTAATGCATACAGGCACACT
1 TGAGATAGTAATGCATACAGGCACACT
*
681571 TGAGATAGTAATGCATACGGGCACACT
1 TGAGATAGTAATGCATACAGGCACACT
681598 TGAGATAGTAATGCATACAGAGCACACT
1 TGAGATAGTAATGCATACAG-GCACACT
681626 TG
1 TG
681628 CAATTGCAAG
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
27 45 0.83
28 9 0.17
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.23
Consensus pattern (27 bp):
TGAGATAGTAATGCATACAGGCACACT
Found at i:688578 original size:22 final size:22
Alignment explanation
Indices: 688534--688578 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
688524 ATTTCTGGGC
* *
688534 AAGGGGAATCGGTACCCATTCA
1 AAGGGGAATCGATACCCACTCA
*
688556 AAGGGGAATCGATACCCCCTCA
1 AAGGGGAATCGATACCCACTCA
688578 A
1 A
688579 CCGAACCAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.27, G:0.24, T:0.16
Consensus pattern (22 bp):
AAGGGGAATCGATACCCACTCA
Found at i:690210 original size:105 final size:105
Alignment explanation
Indices: 690019--690228 Score: 260
Period size: 105 Copynumber: 2.0 Consensus size: 105
690009 GAGTCGAGGG
690019 TCTACGCGGTCCTTCGGGACATATAGGTATCCTATGGAACATCTATGAGGTCCTTTGCAACACAT
1 TCTACGCGGTCCTTCGGGACATATAGGTATCCTATGGAACATCTATGAGGTCCTTTGCAACACAT
* * *
690084 ATTTGGTCTTTAGCATATGTATATGATTCTTAAGGAATTT
66 ACTTGATCATTAGCATATGTATATGATTCTTAAGGAATTT
* * * * * * * * * *
690124 TCTACGTGGTCTTTCGGGACGTATATGTATTCTTTGGAGCATGTATGAGGTCTTTTG-AGACACT
1 TCTACGCGGTCCTTCGGGACATATAGGTATCCTATGGAACATCTATGAGGTCCTTTGCA-ACACA
* * *
690188 TACTTGATCATTGGTATATGTATATGGTTCTTAAGGAATTT
65 TACTTGATCATTAGCATATGTATATGATTCTTAAGGAATTT
690229 ATATGTGGTC
Statistics
Matches: 88, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
104 1 0.01
105 87 0.99
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (105 bp):
TCTACGCGGTCCTTCGGGACATATAGGTATCCTATGGAACATCTATGAGGTCCTTTGCAACACAT
ACTTGATCATTAGCATATGTATATGATTCTTAAGGAATTT
Found at i:702464 original size:21 final size:22
Alignment explanation
Indices: 702438--702479 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
702428 TATGTTGAGT
702438 TTATAATTTAAA-ATTTAATTC
1 TTATAATTTAAAGATTTAATTC
702459 TTATAATTTAAAGATTTAATT
1 TTATAATTTAAAGATTTAATT
702480 TTAGATGTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
TTATAATTTAAAGATTTAATTC
Found at i:702870 original size:16 final size:15
Alignment explanation
Indices: 702849--702890 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
702839 TGATTGTCGA
702849 TATTTTTATTGTCTTT
1 TATTTTTATTGT-TTT
*
702865 TATTTTCTTTTGTTTT
1 TATTTT-TATTGTTTT
702881 TATTTTTATT
1 TATTTTTATT
702891 TTCAATAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 3 0.13
16 15 0.65
17 5 0.22
ACGTcount: A:0.12, C:0.05, G:0.05, T:0.79
Consensus pattern (15 bp):
TATTTTTATTGTTTT
Found at i:705575 original size:28 final size:28
Alignment explanation
Indices: 705543--705596 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
705533 CACATAGGAT
*
705543 TTACATTTAAAATAAAAGCTGCTTTTAA
1 TTACATTTAAAATAAAAGCTACTTTTAA
*
705571 TTACATTTAAAATAAATGCTACTTTT
1 TTACATTTAAAATAAAAGCTACTTTT
705597 GCTTTACTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.43
Consensus pattern (28 bp):
TTACATTTAAAATAAAAGCTACTTTTAA
Found at i:706332 original size:12 final size:13
Alignment explanation
Indices: 706315--706343 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
706305 CTTAATTACA
706315 AAAATTAAAA-TT
1 AAAATTAAAATTT
706327 AAAATTAAAATTT
1 AAAATTAAAATTT
706340 AAAA
1 AAAA
706344 ATTCGATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:708298 original size:83 final size:83
Alignment explanation
Indices: 708068--708558 Score: 518
Period size: 83 Copynumber: 5.9 Consensus size: 83
708058 TTTGATATGC
* * * * * *
708068 CTGAGTGTAATCGAACTTGAAGGTCTTTGTTGATAGATAACCCTTCTAGCCTTGAGTTATGTTGC
1 CTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGT
* *
708133 AATTGATATGCCTTTGAG
66 AAATGATGTGCCTTTGAG
* * ** * *
708151 CTAAGTGTAGTTAAACTCGAAGGTCTTTGTCGGAAGAGATAACCCTTCTAGCCTTGAGTTATGCT
1 CTGAGCGTAGTCGAACTCGAAGGTCTTTGT-TG-ACAGATAACCCTTCTAGCCTTGAGTTATGCT
* *
708216 GTAAATGATGTACCTTAGAG
64 GTAAATGATGTGCCTTTGAG
* * * * *
708236 CTGAGCGTAGTCTAACTCAAAAGTCTTTGATGACAGATAACCCTTCTCGCCTTGAGTTATGCTGT
1 CTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGT
*
708301 AAATGATGTGCCTTGGAG
66 AAATGATGTGCCTTTGAG
* * * **
708319 CTGAGCGTAGTCGAACTTGATGGTCTTTGGTTGGCAGATAACCCTTCTTTCCTTGAGTTATGCTG
1 CTGAGCGTAGTCGAACTCGAAGGTCTTT-GTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTG
*
708384 CAAATGATGTGCCTTTGAG
65 TAAATGATGTGCCTTTGAG
* * * * * * * *
708403 CTGAGTGTAATCGAACTCGAAGGTCTTGGTTGGCAAATAACTCTTATAGCCTTGAGTTATGTTGT
1 CTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGT
708468 AAATGATGTGCCTTTGAG
66 AAATGATGTGCCTTTGAG
* * * * * *
708486 CTGAGTGTAATCGAACTCGAAGGT-TTTTTTGTTAGCAGATAGCCCTTCTTA-CCTTGAGCTAAG
1 CTGAGCGTAGTCGAACTCGAAGGTCTTTGTTG--A-CAGATAACCCTTC-TAGCCTTGAGTTATG
*
708549 CTGCAAATGA
62 CTGTAAATGA
708559 GCACGATATC
Statistics
Matches: 342, Mismatches: 59, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
82 5 0.01
83 167 0.49
84 74 0.22
85 94 0.27
86 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.34
Consensus pattern (83 bp):
CTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGT
AAATGATGTGCCTTTGAG
Found at i:708406 original size:167 final size:166
Alignment explanation
Indices: 708068--708558 Score: 561
Period size: 167 Copynumber: 2.9 Consensus size: 166
708058 TTTGATATGC
* ** * * *
708068 CTGAGTGTAATCGAACTTGAAGGTCTTTGTTGATAGATAACCCTTCTAGCCTTGAGTTATGTTGC
1 CTGAGCGTAATCGAACTCAAAAGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGT
* * * ** * *
708133 AATTGATATGCCTTTGAGCTAAGTGTAGTTAAACTCGAAGGTCTTTGTCGGAAGAGATAACCCTT
66 AAATGATGTGCCTTTGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGTTGG--CAGATAACCCTT
*
708198 C-TAGCCTTGAGTTATGCTGTAAATGATGTACCTTAGAG
129 CTTA-CCTTGAGTTATGCTGCAAATGATGTACCTTAGAG
* * * * *
708236 CTGAGCGTAGTCTAACTCAAAAGTCTTTGATGACAGATAACCCTTCTCGCCTTGAGTTATGCTGT
1 CTGAGCGTAATCGAACTCAAAAGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGT
* * * *
708301 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTTGATGGTCTTTGGTTGGCAGATAACCCTTC
66 AAATGATGTGCCTTTGAGCTGAGTGTAGTCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTC
* * *
708366 TTTCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAG
130 TTACCTTGAGTTATGCTGCAAATGATGTACCTTAGAG
* * * * * * * *
708403 CTGAGTGTAATCGAACTCGAAGGTCTTGGTTGGCAAATAACTCTTATAGCCTTGAGTTATGTTGT
1 CTGAGCGTAATCGAACTCAAAAGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGT
* * * *
708468 AAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTTTTTTTGTTAGCAGATAGCCCTT
66 AAATGATGTGCCTTTGAGCTGAGTGTAGTCGAACTCGAAGG--TCTTTGTTGGCAGATAACCCTT
* *
708533 CTTACCTTGAGCTAAGCTGCAAATGA
129 CTTACCTTGAGTTATGCTGCAAATGA
708559 GCACGATATC
Statistics
Matches: 269, Mismatches: 50, Indels: 8
0.82 0.15 0.02
Matches are distributed among these distances:
167 131 0.49
168 130 0.48
169 8 0.03
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.34
Consensus pattern (166 bp):
CTGAGCGTAATCGAACTCAAAAGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGT
AAATGATGTGCCTTTGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCT
TACCTTGAGTTATGCTGCAAATGATGTACCTTAGAG
Found at i:708725 original size:32 final size:35
Alignment explanation
Indices: 708684--708776 Score: 113
Period size: 32 Copynumber: 2.8 Consensus size: 35
708674 TGGTGGACAC
* *
708684 GATATCCTTCGTCGTGAAGTTGAAATCGTGGA-TG
1 GATACCCTTCGTCGTGAAGTTGAAATCGTGAATTG
*
708718 G-T-CCCTTCGTCGTGAAGTTGAAA-CTTGAATTG
1 GATACCCTTCGTCGTGAAGTTGAAATCGTGAATTG
* *
708750 GATATCCTTCGTCGAGAAGTTGAAATC
1 GATACCCTTCGTCGTGAAGTTGAAATC
708777 CAAGTTAAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
31 4 0.08
32 23 0.46
33 2 0.04
34 20 0.40
35 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (35 bp):
GATACCCTTCGTCGTGAAGTTGAAATCGTGAATTG
Found at i:708774 original size:121 final size:121
Alignment explanation
Indices: 708560--708780 Score: 336
Period size: 121 Copynumber: 1.8 Consensus size: 121
708550 TGCAAATGAG
* * **
708560 CACGATATCCTTCTTCGTGAAGTTGAAATCGTGAATAACCCATTCATTGTGAAGTTGAGCCTCGA
1 CACGATATCCTTCGTCGTGAAGTTGAAATCGTGAATAACCCATTCATCGTGAAGTTGAAACTCGA
*
708625 ATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGTTGCTGGTGGA
66 ATTGGATATCCTTCGTCGAGAAGTTGAAATCCAAGGGTTGCATTGTTGCTGGTGGA
* ** * *
708681 CACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGTCCC-TTCGTCGTGAAGTTGAAACTTG
1 CACGATATCCTTCGTCGTGAAGTTGAAATCGTGAAT-AACCCATTCATCGTGAAGTTGAAACTCG
708745 AATTGGATATCCTTCGTCGAGAAGTTGAAATCCAAG
65 AATTGGATATCCTTCGTCGAGAAGTTGAAATCCAAG
708781 TTAAGTTGCA
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
121 86 0.97
122 3 0.03
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (121 bp):
CACGATATCCTTCGTCGTGAAGTTGAAATCGTGAATAACCCATTCATCGTGAAGTTGAAACTCGA
ATTGGATATCCTTCGTCGAGAAGTTGAAATCCAAGGGTTGCATTGTTGCTGGTGGA
Found at i:709295 original size:43 final size:43
Alignment explanation
Indices: 709242--709350 Score: 130
Period size: 43 Copynumber: 2.5 Consensus size: 43
709232 ATTCCCTTCA
*
709242 TTGTGAAGTTGAAA-CAGTGGATGTATGGGCACGATATCCTCCG
1 TTGTGGAGTTGAAATC-GTGGATGTATGGGCACGATATCCTCCG
* * * * *
709285 TTGTGGAGTTGAAATCGTAGATCTGTTGGTACGATATCCTCCG
1 TTGTGGAGTTGAAATCGTGGATGTATGGGCACGATATCCTCCG
* *
709328 TCGTAGAGTTGAAATCGTGGATG
1 TTGTGGAGTTGAAATCGTGGATG
709351 GCCCCTTCGT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 54 0.98
44 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (43 bp):
TTGTGGAGTTGAAATCGTGGATGTATGGGCACGATATCCTCCG
Found at i:709590 original size:64 final size:61
Alignment explanation
Indices: 709515--709642 Score: 175
Period size: 64 Copynumber: 2.0 Consensus size: 61
709505 GAGCAAATTG
* *
709515 TGAGTTCAATATCCTTCGCTGTGAAGTTAAAATTGACTCTGAATGAAACTGAAAAATTGTTTGT
1 TGAGTACAATATCCTTCGCTGTGAAGTTAAAATT-A-ACTGAATG-AACTGAAAAATTGTTTGT
* * * *
709579 TGAGTACAATATCCTTCGCTGTGAAGTTGAAATTAACTGAATGAATTGTAAAGTTGTTTGT
1 TGAGTACAATATCCTTCGCTGTGAAGTTAAAATTAACTGAATGAACTGAAAAATTGTTTGT
709640 TGA
1 TGA
709643 CAGACACTCC
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
61 18 0.31
62 7 0.12
63 1 0.02
64 32 0.55
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (61 bp):
TGAGTACAATATCCTTCGCTGTGAAGTTAAAATTAACTGAATGAACTGAAAAATTGTTTGT
Found at i:713678 original size:12 final size:12
Alignment explanation
Indices: 713661--713687 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
713651 TTAATTGCAA
713661 AAATTAAAATTT
1 AAATTAAAATTT
713673 AAATTAAAATTT
1 AAATTAAAATTT
713685 AAA
1 AAA
713688 AATTCGATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AAATTAAAATTT
Found at i:719042 original size:3 final size:3
Alignment explanation
Indices: 719036--719111 Score: 136
Period size: 3 Copynumber: 25.7 Consensus size: 3
719026 TTTTTACCCA
719036 TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
719083 TAT TAT TAT TAT TAT TAT CAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
719112 AATATATATT
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 68 0.97
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:720528 original size:13 final size:13
Alignment explanation
Indices: 720512--720558 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
720502 ATATGATAAA
720512 TAAATATTTATTT
1 TAAATATTTATTT
*
720525 TAAATAAATTATTT
1 TAAAT-ATTTATTT
720539 T-AATATTTAGTTT
1 TAAATATTTA-TTT
*
720552 TCAATAT
1 TAAATAT
720559 CAAAGAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 4 0.14
13 12 0.41
14 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:731610 original size:11 final size:11
Alignment explanation
Indices: 731594--731660 Score: 82
Period size: 11 Copynumber: 5.9 Consensus size: 11
731584 TGCTTGAAGA
731594 AAAAAAGAAAG
1 AAAAAAGAAAG
731605 AAAAAAGAAAG
1 AAAAAAGAAAG
*
731616 AAAAGAGAAAAAG
1 AAAA-A-AGAAAG
731629 AAAAAA-AAAG
1 AAAAAAGAAAG
*
731639 AAAAAAAAAGAG
1 AAAAAAGAA-AG
731651 AAAAAAGAAA
1 AAAAAAGAAA
731661 AAGGGGGGTC
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
10 10 0.20
11 19 0.38
12 12 0.24
13 9 0.18
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:731613 original size:7 final size:7
Alignment explanation
Indices: 731601--731662 Score: 63
Period size: 7 Copynumber: 8.3 Consensus size: 7
731591 AGAAAAAAAG
731601 AAAGAAA
1 AAAGAAA
731608 AAAGAAAGA
1 AAAG-AA-A
731617 AAAGAGAA
1 AAAGA-AA
731625 AAAGAAA
1 AAAGAAA
731632 AAA-AAA
1 AAAGAAA
*
731638 GAAAAAAA
1 -AAAGAAA
731646 AAGAGAAA
1 AA-AGAAA
731654 AAAGAAA
1 AAAGAAA
731661 AA
1 AA
731663 GGGGGGTCAA
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
6 3 0.06
7 21 0.44
8 18 0.38
9 6 0.12
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:731626 original size:28 final size:28
Alignment explanation
Indices: 731590--731662 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
731580 ATTATGCTTG
* *
731590 AAGAAAAAAAGAAAGAAAAAAG-AAAGAA
1 AAGAGAAAAAGAAA-AAAAAAGAAAAAAA
731618 AAGAGAAAAAGAAAAAAAAAGAAAAAAA
1 AAGAGAAAAAGAAAAAAAAAGAAAAAAA
731646 AAGAGAAAAAAGAAAAA
1 AAGAG-AAAAAGAAAAA
731663 GGGGGGTCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 7 0.17
28 23 0.56
29 11 0.27
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (28 bp):
AAGAGAAAAAGAAAAAAAAAGAAAAAAA
Found at i:731644 original size:35 final size:35
Alignment explanation
Indices: 731594--731663 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 35
731584 TGCTTGAAGA
*
731594 AAAAAAGAAAGAAAAAAGAA-AGAAAAGAGAAAAAG
1 AAAAAAGAAAGAAAAAA-AAGAGAAAAAAGAAAAAG
731629 AAAAAA-AAAGAAAAAAAAAGAGAAAAAAGAAAAAG
1 AAAAAAGAAAG-AAAAAAAAGAGAAAAAAGAAAAAG
731664 GGGGGTCAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 6 0.19
35 26 0.81
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (35 bp):
AAAAAAGAAAGAAAAAAAAGAGAAAAAAGAAAAAG
Found at i:733017 original size:83 final size:83
Alignment explanation
Indices: 732797--733104 Score: 539
Period size: 83 Copynumber: 3.7 Consensus size: 83
732787 AAACATTAAC
732797 TAGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAC
1 TAGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAC
*
732862 AGAACCAATCATT-AA-C
66 AGAACCAATCATTGAATT
732878 TAGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAC
1 TAGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAC
732943 AGAACCAATCATTGAATT
66 AGAACCAATCATTGAATT
* *
732961 TAGAAGATGAATGTGCTCATAGAATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
1 TAGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAC
733026 AGAACCAATCATTGAATT
66 AGAACCAATCATTGAATT
* * * *
733044 TGGAAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTAATCTGGTT
1 TAGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
733105 TGGTAAGAAC
Statistics
Matches: 217, Mismatches: 8, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
81 78 0.36
82 2 0.01
83 137 0.63
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (83 bp):
TAGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAC
AGAACCAATCATTGAATT
Found at i:734143 original size:17 final size:17
Alignment explanation
Indices: 734092--734146 Score: 60
Period size: 16 Copynumber: 3.2 Consensus size: 17
734082 TTTTTGCCAG
734092 AGAAGGTTCATAATGAGA
1 AGAA-GTTCATAATGAGA
* *
734110 AGAA-CTCAT-CTGAAGA
1 AGAAGTTCATAATG-AGA
734126 AGAAGTTCATAATGAGA
1 AGAAGTTCATAATGAGA
734143 AGAA
1 AGAA
734147 TTTGTTCAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
15 2 0.07
16 11 0.37
17 11 0.37
18 6 0.20
ACGTcount: A:0.47, C:0.09, G:0.24, T:0.20
Consensus pattern (17 bp):
AGAAGTTCATAATGAGA
Found at i:734238 original size:113 final size:113
Alignment explanation
Indices: 733863--734627 Score: 1456
Period size: 113 Copynumber: 6.8 Consensus size: 113
733853 ATTGACATTT
733863 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
*
733928 ATTTGTTCAACCTTTTGTCTGAATTCATCATTTGATGGATTA-TTTTG
66 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
733975 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
734040 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
66 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
734088 CCAGAGAAGGTTCATAATGAGAAGAACTCATCT-------GAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
734146 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
66 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
734194 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
734259 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
66 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
734307 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
*
734372 ATTTGTTCAACCTTTTGTCTGAATTCATCATTTGATGGATTATTTTTG
66 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
734420 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
734485 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
66 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
734533 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
734598 ATTTGTTCAACCTTTTGTCTGAATTCATCA
66 ATTTGTTCAACCTTTTGTCTGAATTCATCA
734628 TCTGAAGAAT
Statistics
Matches: 642, Mismatches: 3, Indels: 15
0.97 0.00 0.02
Matches are distributed among these distances:
106 106 0.17
112 106 0.17
113 430 0.67
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (113 bp):
CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
Found at i:734642 original size:65 final size:65
Alignment explanation
Indices: 734560--734692 Score: 257
Period size: 65 Copynumber: 2.0 Consensus size: 65
734550 TGAGAAGAAC
734560 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
*
734625 TCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
734690 TCA
1 TCA
734693 CTTGATGGAT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (65 bp):
TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
Found at i:734663 original size:178 final size:178
Alignment explanation
Indices: 734447--734791 Score: 672
Period size: 178 Copynumber: 1.9 Consensus size: 178
734437 TGAGAAGAAC
734447 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
*
734512 TCACTTGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
66 TCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
734577 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
131 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
*
734625 TCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
734690 TCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
66 TCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
734755 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
131 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
734792 TGCTCAAATC
Statistics
Matches: 165, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
178 165 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (178 bp):
TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
TCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
Found at i:734664 original size:291 final size:293
Alignment explanation
Indices: 734334--734891 Score: 971
Period size: 291 Copynumber: 1.9 Consensus size: 293
734324 TGAGAAGAAC
734334 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
* *
734399 TCATTTGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
66 TCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
* *
734464 AAGAAGTTCATAATGAGAAGAATTTGTTCAACC-TTTTGTCTGAATTC-ATCACTTGATGGATTA
131 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTG-CTCAAATCTATCACTTGATGGATTA
* *
734527 -TTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA-AGAAGTTCATAA
195 TTTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAGA-AAGTTCATAA
734590 TGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
259 TGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
*
734625 TCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
1 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
734690 TCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
66 TCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
* *
734755 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTGCTCAAATCTATTACTTGATGGGTTAT
131 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTGCTCAAATCTATCACTTGATGGATTAT
**
734820 TTTTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAGAAAGTTCATAATG
196 TTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAGAAAGTTCATAATG
734885 AGAAGAA
261 AGAAGAA
734892 CTCATCAAAA
Statistics
Matches: 252, Mismatches: 11, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
291 166 0.66
292 19 0.08
293 66 0.26
294 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (293 bp):
TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
TCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTGCTCAAATCTATCACTTGATGGATTAT
TTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAGAAAGTTCATAATG
AGAAGAATTTGTTCAACCTTTTGTCTGAATTCA
Found at i:734756 original size:113 final size:115
Alignment explanation
Indices: 734625--734891 Score: 416
Period size: 115 Copynumber: 2.3 Consensus size: 115
734615 TCTGAATTCA
* * *
734625 TCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACC-TTTTGTCTGAATTC
1 TCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTG-CTCAAATC
734689 -ATCACTTGATGGATTA-TTTTTGCCAGAGAAAGTTCATAATGAGAAGAAC
65 TATCACTTGATGGATTATTTTTTGCCAGAGAAAGTTCATAATGAGAAGAAC
*
734738 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTGCTCAAATCT
1 TCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTGCTCAAATCT
* * **
734803 ATTACTTGATGGGTTATTTTTTTTCAGAGAAAGTTCATAATGAGAAGAAC
66 ATCACTTGATGGATTATTTTTTGCCAGAGAAAGTTCATAATGAGAAGAAC
734853 TCATCTGAAGAAAGAAG-AGAAAGTTCATAATGAGAAGAA
1 TCATCTGAAGAAAGAAGAAG-AAGTTCATAATGAGAAGAA
734892 CTCATCAAAA
Statistics
Matches: 142, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
113 55 0.39
114 21 0.15
115 66 0.46
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (115 bp):
TCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTGCTCAAATCT
ATCACTTGATGGATTATTTTTTGCCAGAGAAAGTTCATAATGAGAAGAAC
Found at i:735151 original size:3 final size:3
Alignment explanation
Indices: 735145--735209 Score: 112
Period size: 3 Copynumber: 21.7 Consensus size: 3
735135 TTTTTACCCA
* *
735145 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
735193 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
735210 AATATATATT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:736658 original size:13 final size:13
Alignment explanation
Indices: 736642--736688 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
736632 ATATGATAAA
736642 TAAATATTTATTT
1 TAAATATTTATTT
*
736655 TAAATAAATTATTT
1 TAAAT-ATTTATTT
736669 T-AATATTTAGTTT
1 TAAATATTTA-TTT
*
736682 TCAATAT
1 TAAATAT
736689 CAAAGAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 4 0.14
13 12 0.41
14 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:737938 original size:21 final size:21
Alignment explanation
Indices: 737897--737938 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
737887 TAGATTTGGT
*
737897 ATTTAATAAATAAATTAATTA
1 ATTTAATAAATAAATAAATTA
*
737918 ATTTAA-AATTAAATAATATTA
1 ATTTAATAAATAAATAA-ATTA
737939 TATATACATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTTAATAAATAAATAAATTA
Found at i:740880 original size:26 final size:27
Alignment explanation
Indices: 740844--740899 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
740834 GGAAGGAAGG
*
740844 TGAGATAGTAATGCATAC-AGCACACT
1 TGAGATAGTAATGCAGACAAGCACACT
740870 TGAGATAGTAATGCAGACAGAGCACACT
1 TGAGATAGTAATGCAGACA-AGCACACT
740898 TG
1 TG
740900 CAATTGCAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 17 0.63
28 10 0.37
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (27 bp):
TGAGATAGTAATGCAGACAAGCACACT
Found at i:745860 original size:43 final size:43
Alignment explanation
Indices: 745798--745883 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
745788 ATGTTGAAGT
* *
745798 ATAAAATATTTGAGAAATTAGTGTTCACCTACTATAATATGAG
1 ATAAAAGATTTAAGAAATTAGTGTTCACCTACTATAATATGAG
*
745841 ATAAAAGATTTAAGCAATTAGTGTTCACCTACTATAATATGAG
1 ATAAAAGATTTAAGAAATTAGTGTTCACCTACTATAATATGAG
745884 GCTACAGATA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (43 bp):
ATAAAAGATTTAAGAAATTAGTGTTCACCTACTATAATATGAG
Found at i:749452 original size:20 final size:21
Alignment explanation
Indices: 749429--749470 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
749419 TTTTGGGTAA
749429 AATTTTA-AACTTTTTT-TTAT
1 AATTTTATAA-TTTTTTATTAT
749449 AATTTTATAATTTTTTATTAT
1 AATTTTATAATTTTTTATTAT
749470 A
1 A
749471 TTATTTAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
AATTTTATAATTTTTTATTAT
Found at i:749463 original size:21 final size:20
Alignment explanation
Indices: 749429--749470 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
749419 TTTTGGGTAA
*
749429 AATTTTAAACTTTTTTTTAT
1 AATTTTAAACTTTTTATTAT
*
749449 AATTTTATAATTTTTTATTAT
1 AATTTTA-AACTTTTTATTAT
749470 A
1 A
749471 TTATTTAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
AATTTTAAACTTTTTATTAT
Found at i:753244 original size:21 final size:21
Alignment explanation
Indices: 753218--753257 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
753208 TAGAACCCCA
*
753218 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
753239 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
753258 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:753292 original size:20 final size:20
Alignment explanation
Indices: 753263--753300 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
753253 CCCCTTCAAA
*
753263 GGGGGAATCAGTTCCCTCAT
1 GGGGGAATCAATTCCCTCAT
*
753283 GGGGGTATCAATTCCCTC
1 GGGGGAATCAATTCCCTC
753301 TGCACTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.26, G:0.29, T:0.26
Consensus pattern (20 bp):
GGGGGAATCAATTCCCTCAT
Found at i:757140 original size:22 final size:21
Alignment explanation
Indices: 757098--757137 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
757088 GAGTTTATTT
*
757098 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
757119 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
757138 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:764940 original size:25 final size:25
Alignment explanation
Indices: 764903--764969 Score: 125
Period size: 25 Copynumber: 2.7 Consensus size: 25
764893 TATCCGAGTC
764903 AAATTAATCAATCAATATTTAATTT
1 AAATTAATCAATCAATATTTAATTT
*
764928 AAATTAATTAATCAATATTTAATTT
1 AAATTAATCAATCAATATTTAATTT
764953 AAATTAATCAATCAATA
1 AAATTAATCAATCAATA
764970 AATCTAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (25 bp):
AAATTAATCAATCAATATTTAATTT
Found at i:781269 original size:15 final size:15
Alignment explanation
Indices: 781249--781277 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
781239 ACATTACATG
781249 CCCCGCATCCGCCCT
1 CCCCGCATCCGCCCT
781264 CCCCGCATCCGCCC
1 CCCCGCATCCGCCC
781278 ACCCAGTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.69, G:0.14, T:0.10
Consensus pattern (15 bp):
CCCCGCATCCGCCCT
Found at i:783279 original size:76 final size:76
Alignment explanation
Indices: 783188--783329 Score: 225
Period size: 76 Copynumber: 1.9 Consensus size: 76
783178 AAAACTAAAT
783188 TTTAAACACCTCTAAAGCTAAATAATATATATA-ATATATTAAATATTTAATAACTTCGGTTAAT
1 TTTAAACACCTCTAAAGCTAAATAATATATATATA-ATATTAAATATTTAATAACTTCGGTTAAT
783252 TCGGTTGATTCG
65 TCGGTTGATTCG
* * *
783264 TTTAAACA-CTCCTAAAGCTAAATAATATATATTTAATATTAAATATTTCATAATTTCGGTTAAT
1 TTTAAACACCT-CTAAAGCTAAATAATATATATATAATATTAAATATTTAATAACTTCGGTTAAT
783328 TC
65 TC
783330 AATCAATTAA
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
75 2 0.03
76 58 0.95
77 1 0.02
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.41
Consensus pattern (76 bp):
TTTAAACACCTCTAAAGCTAAATAATATATATATAATATTAAATATTTAATAACTTCGGTTAATT
CGGTTGATTCG
Found at i:784694 original size:262 final size:263
Alignment explanation
Indices: 784238--784776 Score: 818
Period size: 260 Copynumber: 2.0 Consensus size: 263
784228 ATAAAGTTTC
** *
784238 ACCCGACCCGACCCGCAATAATAAAAAAAATATTTTTATTCAATAAAAACAGAGACTTAATTGAA
1 ACCCGACCCGACCCAAAATAATAAAAAAAATA-TATTATTCAATAAAAACAGAGACTTAATTGAA
* * *
784303 AAAAATATATAGAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTGTATATAT
65 AAAAATATATAGAGAGAGATATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATAT
*
784368 TTTGGGTCGGGTCGGGTATTTTTCACCCTAAACCCGAACCCGACCCGACTCGAATATCACACTTA
130 TTT--GTCGGGTCGGATATTTTTCACCCTAAACCCGAACCCGACCCGACTCGAATATCACACTT-
* *
784433 AAAAAAAACCGACCCGACCCGACCAAAATAAAGTTTCAGC-CGACCCAACCCGAATATATGAATT
192 -AAAAAAACCGACCCGACCCGACCAAAATAAAATTTCA-CACAACCCAACCCGAATATATGAATT
*
784497 AGAAATCCG
255 AGAAACCCG
*
784506 ACCCGACCCGACCCAAAATAATAAAAAAAA-A-ATTATTCAATAAAAACAGTGACTTAATTGAAA
1 ACCCGACCCGACCCAAAATAATAAAAAAAATATATTATTCAATAAAAACAGAGACTTAATTGAAA
* * *
784569 AAAATTATATATAGAGAGATATTATTGTAGTTATTCTTAAATATATAAGGTAAAATTATATATA-
66 AAAA-TATATAGAGAGAGATATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATAT
* *
784633 TTT-TCGGGTCGGATATTTTTCACCCTAAACCCGAACTCGACCCGACTCGAATATTACACTTAAA
130 TTTGTCGGGTCGGATATTTTTCACCCTAAACCCGAACCCGACCCGACTCGAATATCACACTTAAA
*
784697 AAAACCGACCCGACCCGACCAAAATAAAATTTCACACAACCCGACCCGAATATATGAATTAGAAA
195 AAAACCGACCCGACCCGACCAAAATAAAATTTCACACAACCCAACCCGAATATATGAATTAGAAA
784762 CCCG
260 CCCG
*
784766 AACCGACCCGA
1 ACCCGACCCGA
784777 AATAATAAAA
Statistics
Matches: 251, Mismatches: 18, Indels: 12
0.89 0.06 0.04
Matches are distributed among these distances:
259 1 0.00
260 76 0.30
262 55 0.22
265 37 0.15
266 53 0.21
267 1 0.00
268 28 0.11
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.24
Consensus pattern (263 bp):
ACCCGACCCGACCCAAAATAATAAAAAAAATATATTATTCAATAAAAACAGAGACTTAATTGAAA
AAAATATATAGAGAGAGATATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATT
TTGTCGGGTCGGATATTTTTCACCCTAAACCCGAACCCGACCCGACTCGAATATCACACTTAAAA
AAACCGACCCGACCCGACCAAAATAAAATTTCACACAACCCAACCCGAATATATGAATTAGAAAC
CCG
Found at i:786884 original size:21 final size:21
Alignment explanation
Indices: 786846--786885 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
786836 ATCATTTATT
* * *
786846 TATTTTTTCTTTTGCTTTTCC
1 TATTTTTTATTATCCTTTTCC
786867 TATTTTTTATTATCCTTTT
1 TATTTTTTATTATCCTTTT
786886 AACATTATAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.10, C:0.15, G:0.03, T:0.72
Consensus pattern (21 bp):
TATTTTTTATTATCCTTTTCC
Found at i:790614 original size:17 final size:17
Alignment explanation
Indices: 790592--790624 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
790582 TTAAGGGTTT
790592 AATTTAAAACTTTAAAA
1 AATTTAAAACTTTAAAA
*
790609 AATTTAAAAGTTTAAA
1 AATTTAAAACTTTAAA
790625 TTAAAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (17 bp):
AATTTAAAACTTTAAAA
Found at i:790653 original size:31 final size:31
Alignment explanation
Indices: 790584--790653 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 31
790574 GATAGATATT
*
790584 AAGGGTTTAATTTAAAACTTTAAAAAATTTA
1 AAGGGTTTAAATTAAAACTTTAAAAAATTTA
* *
790615 AA-AGTTTAAATTAAAATTTTCAAAAAA-TTA
1 AAGGGTTTAAATTAAAACTTT-AAAAAATTTA
790645 AAGGGTTTA
1 AAGGGTTTA
790654 GTTTATATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 20 0.61
31 13 0.39
ACGTcount: A:0.50, C:0.03, G:0.10, T:0.37
Consensus pattern (31 bp):
AAGGGTTTAAATTAAAACTTTAAAAAATTTA
Found at i:791658 original size:270 final size:270
Alignment explanation
Indices: 791177--791719 Score: 1059
Period size: 270 Copynumber: 2.0 Consensus size: 270
791167 AATAATTTGA
* *
791177 GTTATAAGGAATGTATTTAAGTTTTAGTCAGCCTCTAGTTGAGTAAATAACTCATTCAAATACAT
1 GTTATAAGAAATGTATTTAAGTTTTAGCCAGCCTCTAGTTGAGTAAATAACTCATTCAAATACAT
791242 TGTTAGTGAAAGAGGTTGAAGAGAGTTCAAAGGCCAAGGGTAAAAGAAAGGTGGATTTCTAGTTG
66 TGTTAGTGAAAGAGGTTGAAGAGAGTTCAAAGGCCAAGGGTAAAAGAAAGGTGGATTTCTAGTTG
*
791307 TTTGAGAGAGGTTATAGCTTCCAAAGAATCCATGTAACACACTATTAGCTTTTTCATACCAGTTG
131 TTTGAGAGAGGTTATAGCTTCCAAAGAATCCATGTAACACACTATTAGCTTTTTCATACCAGATG
791372 TAGGATCATTAGAAAGAAGTTTAGCTTGAAAGTTGAGTATGAGCATGTTTATTAGCCTTCCATGG
196 TAGGATCATTAGAAAGAAGTTTAGCTTGAAAGTTGAGTATGAGCATGTTTATTAGCCTTCCATGG
791437 TAGATTTTAT
261 TAGATTTTAT
791447 GTTATAAGAAATGTATTTAAGTTTTAGCCAGCCTCTAGTTGAGTAAATAACTCATTCAAATACAT
1 GTTATAAGAAATGTATTTAAGTTTTAGCCAGCCTCTAGTTGAGTAAATAACTCATTCAAATACAT
791512 TGTTAGTGAAAGAGGTTGAAGAGAGTTCAAAGGCCAAGGGTAAAAGAAAGGTGGATTTCTAGTTG
66 TGTTAGTGAAAGAGGTTGAAGAGAGTTCAAAGGCCAAGGGTAAAAGAAAGGTGGATTTCTAGTTG
791577 TTTGAGAGAGGTTATAGCTTCCAAAGAATCCATGTAACACACTATTAGCTTTTTCATACCAGATG
131 TTTGAGAGAGGTTATAGCTTCCAAAGAATCCATGTAACACACTATTAGCTTTTTCATACCAGATG
791642 TAGGATCATTAGAAAGAAGTTTAGCTTGAAAGTTGAGTATGAGCATGTTTATTAGCCTTCCATGG
196 TAGGATCATTAGAAAGAAGTTTAGCTTGAAAGTTGAGTATGAGCATGTTTATTAGCCTTCCATGG
791707 TAGATTTTAT
261 TAGATTTTAT
791717 GTT
1 GTT
791720 TAATGTTTTC
Statistics
Matches: 270, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
270 270 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (270 bp):
GTTATAAGAAATGTATTTAAGTTTTAGCCAGCCTCTAGTTGAGTAAATAACTCATTCAAATACAT
TGTTAGTGAAAGAGGTTGAAGAGAGTTCAAAGGCCAAGGGTAAAAGAAAGGTGGATTTCTAGTTG
TTTGAGAGAGGTTATAGCTTCCAAAGAATCCATGTAACACACTATTAGCTTTTTCATACCAGATG
TAGGATCATTAGAAAGAAGTTTAGCTTGAAAGTTGAGTATGAGCATGTTTATTAGCCTTCCATGG
TAGATTTTAT
Found at i:793604 original size:18 final size:18
Alignment explanation
Indices: 793583--793650 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 18
793573 AGAATGTCCA
793583 GGGGGTACAGATTCCCCT
1 GGGGGTACAGATTCCCCT
793601 GGGGGTATC-GATT-CCCT
1 GGGGGTA-CAGATTCCCCT
*
793618 --GGGAACAGATTCCCCT
1 GGGGGTACAGATTCCCCT
**
793634 GGGGGTATTGATTCCCC
1 GGGGGTACAGATTCCCC
793651 CTAAATAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
14 1 0.02
15 8 0.20
16 4 0.10
17 4 0.10
18 23 0.56
19 1 0.02
ACGTcount: A:0.16, C:0.26, G:0.32, T:0.25
Consensus pattern (18 bp):
GGGGGTACAGATTCCCCT
Found at i:794638 original size:31 final size:31
Alignment explanation
Indices: 794600--794724 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
794590 AGGGTCGAGG
794600 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
794631 GTTTACCTATGTTCTTCGAGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
794662 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
794693 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
794724 G
1 G
794725 GTCCTTCGGG
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
31 87 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:795230 original size:21 final size:21
Alignment explanation
Indices: 795205--795247 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
795195 AAAGAATATA
795205 TTGTATAA-GCTCTGAATAATT
1 TTGTA-AATGCTCTGAATAATT
* *
795226 TTGTAAATGTTTTGAATAATT
1 TTGTAAATGCTCTGAATAATT
795247 T
1 T
795248 AAATGTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.49
Consensus pattern (21 bp):
TTGTAAATGCTCTGAATAATT
Found at i:800479 original size:31 final size:31
Alignment explanation
Indices: 800444--800541 Score: 169
Period size: 31 Copynumber: 3.2 Consensus size: 31
800434 AAAAATTGGC
*
800444 GTCTAATGTTTTCTCAGTTACACTTTTAGGT
1 GTCTAATGTTTTCTCACTTACACTTTTAGGT
800475 GTCTAATGTTTTCTCACTTACACTTTTAGGT
1 GTCTAATGTTTTCTCACTTACACTTTTAGGT
**
800506 GTCTACCGTTTTCTCACTTACACTTTTAGGT
1 GTCTAATGTTTTCTCACTTACACTTTTAGGT
800537 GTCTA
1 GTCTA
800542 CCGTTATTTT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 64 1.00
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.47
Consensus pattern (31 bp):
GTCTAATGTTTTCTCACTTACACTTTTAGGT
Found at i:802311 original size:32 final size:30
Alignment explanation
Indices: 802269--802327 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
802259 ATTGTCAAGT
*
802269 GATAATTACAAAATTGAGTCCTTGAATTTTAG
1 GATAATTAC-AAATT-AGTCCTTAAATTTTAG
* *
802301 GATATTTACAAGTTAGTCCTTAAATTT
1 GATAATTACAAATTAGTCCTTAAATTT
802328 CAACTATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 12 0.50
31 4 0.17
32 8 0.33
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.41
Consensus pattern (30 bp):
GATAATTACAAATTAGTCCTTAAATTTTAG
Found at i:802682 original size:16 final size:17
Alignment explanation
Indices: 802661--802693 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
802651 TTATTATTCA
802661 CGTGAATAG-TAAATTT
1 CGTGAATAGTTAAATTT
802677 CGTGAATAGTTAAATTT
1 CGTGAATAGTTAAATTT
802694 TGTCTGCGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.36, C:0.06, G:0.18, T:0.39
Consensus pattern (17 bp):
CGTGAATAGTTAAATTT
Found at i:806099 original size:2 final size:2
Alignment explanation
Indices: 806088--806116 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
806078 TAACTCAATT
806088 TC TC -C TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
806117 ACTATGTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:812029 original size:25 final size:25
Alignment explanation
Indices: 812000--812088 Score: 160
Period size: 25 Copynumber: 3.6 Consensus size: 25
811990 ATGGCTGCAC
*
812000 CAGACACTCTAAAATTTACTTTTAA
1 CAGACAATCTAAAATTTACTTTTAA
812025 CAGACAATCTAAAATTTACTTTTAA
1 CAGACAATCTAAAATTTACTTTTAA
812050 CAGACAATCTAAAATTTACTTTTAA
1 CAGACAATCTAAAATTTACTTTTAA
*
812075 CAAACAATCTAAAA
1 CAGACAATCTAAAA
812089 GTAGGAAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 62 1.00
ACGTcount: A:0.46, C:0.18, G:0.03, T:0.33
Consensus pattern (25 bp):
CAGACAATCTAAAATTTACTTTTAA
Found at i:815339 original size:23 final size:22
Alignment explanation
Indices: 815292--815340 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
815282 TGCATGTCAC
*
815292 ATTTTAGTCATGTGAGTATGTT
1 ATTTTAGTCATGTGAGTATGCT
*
815314 ATTTTAAGTTATGTGATGT-TGCT
1 ATTTT-AGTCATGTGA-GTATGCT
815337 ATTT
1 ATTT
815341 GGCATACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 5 0.22
23 16 0.70
24 2 0.09
ACGTcount: A:0.22, C:0.04, G:0.20, T:0.53
Consensus pattern (22 bp):
ATTTTAGTCATGTGAGTATGCT
Found at i:816842 original size:232 final size:226
Alignment explanation
Indices: 816428--816882 Score: 856
Period size: 232 Copynumber: 2.0 Consensus size: 226
816418 TTTAATTCGA
816428 TAATAATAAATAGTTGTACTGATCTATTTGCTAATGGTTTCAGATTATTTGTGAATTGAGAATGA
1 TAATAATAAATAGTTGTACTGATCTATTTGCTAATGGTTTCAGATTATTTGTGAATTGAGAATGA
816493 TTTTTGAGTGCTTTATTATGTGTTTTTCGCTTTTCCTCACACACTGCACAGTTGCATTATCAACA
66 TTTTTGAGTGCTTTATTATGTGTTTTTCGCTTTTCCTCACACACTGCACAGTTGCATTATCAACA
816558 TGAGCTAAAACCCCGCTCCGTCCTATTTAAGTAGGAGTGAGAGACTATGCCCTCGTGTGGTTTTC
131 TGAGCTAAAACCCCGCTCCGTCCTATTTAAGTAGGAGTGAGAGACTATGCCCTCGTGTGGTTTTC
816623 ACCTCCGTATGGGATAGTGGATTGCTCCGAT
196 ACCTCCGTATGGGATAGTGGATTGCTCCGAT
816654 TAATAATTAAATAGTTGTACTGATCTATTTGCTAATGGTTTCAGATTATTTGTGAATTGAGAATT
1 TAATAA-TAAATAGTTGTACTGATCTATTTGCTAATGGTTTCAGATTATTTGTGAATTGAGAA-T
816719 GATTTTTGAGTGCTTTTATTATGTGTTTTTTCGCTTTTCCTCACACACTGCACAGTTGCATTATC
64 GATTTTTGAGTGC-TTTATTATGTG-TTTTTCGCTTTTCCTCACACACTGCACAGTTGCATTATC
816784 ATAACATGAGCTAAAACCCCGCTCCGTCCTATTTAAGTAGGAGTGAGAGACTATGCCCTCGTGTG
127 --AACATGAGCTAAAACCCCGCTCCGTCCTATTTAAGTAGGAGTGAGAGACTATGCCCTCGTGTG
816849 GTTTTCACCTCCGTATGGGATAGTGGATTGCTCC
190 GTTTTCACCTCCGTATGGGATAGTGGATTGCTCC
816883 TGGAGCTCAC
Statistics
Matches: 223, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
226 6 0.03
227 56 0.25
228 14 0.06
229 11 0.05
230 39 0.17
232 97 0.43
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (226 bp):
TAATAATAAATAGTTGTACTGATCTATTTGCTAATGGTTTCAGATTATTTGTGAATTGAGAATGA
TTTTTGAGTGCTTTATTATGTGTTTTTCGCTTTTCCTCACACACTGCACAGTTGCATTATCAACA
TGAGCTAAAACCCCGCTCCGTCCTATTTAAGTAGGAGTGAGAGACTATGCCCTCGTGTGGTTTTC
ACCTCCGTATGGGATAGTGGATTGCTCCGAT
Found at i:817213 original size:46 final size:47
Alignment explanation
Indices: 817154--817287 Score: 164
Period size: 46 Copynumber: 2.9 Consensus size: 47
817144 TTTTGAATAA
*
817154 ATGTATGCGAACTAGAAATCATGCGGTTAGGTTTATTATTT-T-GAGC
1 ATGTATGCGAACTAGAAATCATGCGGTTAGGTTTATT-TTTCTCGAAC
* *
817200 ATGTATGCGAACTAGAAATCATGCGGCTAGGTTTATTTTTCTCTAAC
1 ATGTATGCGAACTAGAAATCATGCGGTTAGGTTTATTTTTCTCGAAC
* * * * *
817247 AAGCATGCGAACTAGATATCATGCAGTTAGGATTTTTTTTT
1 ATGTATGCGAACTAGAAATCATGCGGTTAGG-TTTATTTTT
817288 TGTGAATGAC
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
45 3 0.04
46 37 0.49
47 28 0.37
48 8 0.11
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.37
Consensus pattern (47 bp):
ATGTATGCGAACTAGAAATCATGCGGTTAGGTTTATTTTTCTCGAAC
Found at i:818257 original size:19 final size:19
Alignment explanation
Indices: 818233--818283 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
818223 GAAAATATTC
818233 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
818252 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
818271 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
818284 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:818325 original size:65 final size:65
Alignment explanation
Indices: 818127--818334 Score: 205
Period size: 65 Copynumber: 3.2 Consensus size: 65
818117 GCACCAAGTG
* * * ** * *
818127 TGCATCGATGCATGAAATGCATTCTATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG-CTT
1 TGCATCGGTGCATGAAATGCATTCGATGTTT-CAAAATATTCAGAGTGCATCGATGCATGGACTG
818190 A
65 A
* * *
818191 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGA--G
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGAGTGCATCGATGCATGGACTG
818254 A
65 A
* *
818255 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATCGA-TGCATCGATGCATGGA
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GAGTGCATCGATGCATGGA
818317 CTGA
62 CTGA
818321 TGCATCGGTGCATG
1 TGCATCGGTGCATG
818335 CCTTTGAATA
Statistics
Matches: 123, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
62 3 0.02
63 7 0.06
64 51 0.41
65 60 0.49
66 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (65 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGAGTGCATCGATGCATGGACTGA
Found at i:818701 original size:14 final size:14
Alignment explanation
Indices: 818682--818711 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
818672 CCCCCTTACT
818682 ATAGCACATCTTAA
1 ATAGCACATCTTAA
818696 ATAGCACATCTTAA
1 ATAGCACATCTTAA
818710 AT
1 AT
818712 TTTCTCCCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (14 bp):
ATAGCACATCTTAA
Found at i:819346 original size:21 final size:21
Alignment explanation
Indices: 819312--819355 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
819302 CAGGAGCTGG
*
819312 AGGAGGAGCACGAGAAGAACT
1 AGGAGCAGCACGAGAAGAACT
*
819333 AGGAGCAGCTCGAGAAGAACT
1 AGGAGCAGCACGAGAAGAACT
819354 AG
1 AG
819356 CTCCCGGAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.16, G:0.36, T:0.07
Consensus pattern (21 bp):
AGGAGCAGCACGAGAAGAACT
Found at i:820211 original size:21 final size:21
Alignment explanation
Indices: 820155--820218 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
820145 TCAATAAGCC
* *
820155 ATTAGGA-GCTTGAGGATCAGG
1 ATTAGGATG-TTGAGGAACGGG
* **
820176 ATTAGGTTGAGGAGGAACGGG
1 ATTAGGATGTTGAGGAACGGG
820197 ATTAGGATGTTGAGGAACGGG
1 ATTAGGATGTTGAGGAACGGG
820218 A
1 A
820219 GGACGGTTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
21 33 0.97
22 1 0.03
ACGTcount: A:0.30, C:0.06, G:0.42, T:0.22
Consensus pattern (21 bp):
ATTAGGATGTTGAGGAACGGG
Found at i:824835 original size:22 final size:21
Alignment explanation
Indices: 824793--824832 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
824783 GAGTTTGTTT
*
824793 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
824814 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
824833 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:826912 original size:19 final size:19
Alignment explanation
Indices: 826888--826938 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
826878 GAAAATATTC
826888 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
826907 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
826926 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
826939 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:826980 original size:65 final size:65
Alignment explanation
Indices: 826782--826989 Score: 214
Period size: 65 Copynumber: 3.2 Consensus size: 65
826772 GTACCAAGTG
* * ** * *
826782 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG-CTT
1 TGCATCGGTGCATGAAATGCATTCGATGTTT-CAAAATATTCAGAGTGCATCGATGCATGGACTG
826845 A
65 A
* * *
826846 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGA--G
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGAGTGCATCGATGCATGGACTG
826909 A
65 A
* *
826910 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATCGA-TGCATCGATGCATGGA
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GAGTGCATCGATGCATGGA
826972 CTGA
62 CTGA
826976 TGCATCGGTGCATG
1 TGCATCGGTGCATG
826990 CCTTTGAATA
Statistics
Matches: 124, Mismatches: 11, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
62 3 0.02
63 7 0.06
64 52 0.42
65 60 0.48
66 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (65 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGAGTGCATCGATGCATGGACTGA
Found at i:832972 original size:37 final size:38
Alignment explanation
Indices: 832886--832998 Score: 115
Period size: 37 Copynumber: 3.0 Consensus size: 38
832876 AAGATTGGGG
* * *
832886 CAAAGCCAAGTCTTCACCAAAGAGTAGTGAAGCAAATC
1 CAAAGCTAAGCCTTCACTAAAGAGTAGTGAAGCAAATC
*** *
832924 C-ATTTTGAGCCTTCACTAAAGAGTAGTGAAGCAAA-C
1 CAAAGCTAAGCCTTCACTAAAGAGTAGTGAAGCAAATC
* *
832960 CAAAGCTAAGCCTTCA-TCGAAGAGTAGTGAAGCATATC
1 CAAAGCTAAGCCTTCACT-AAAGAGTAGTGAAGCAAATC
832998 C
1 C
832999 TTTTTAAACC
Statistics
Matches: 59, Mismatches: 13, Indels: 6
0.76 0.17 0.08
Matches are distributed among these distances:
36 3 0.05
37 53 0.90
38 3 0.05
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.20
Consensus pattern (38 bp):
CAAAGCTAAGCCTTCACTAAAGAGTAGTGAAGCAAATC
Found at i:833020 original size:74 final size:74
Alignment explanation
Indices: 832886--833035 Score: 176
Period size: 74 Copynumber: 2.0 Consensus size: 74
832876 AAGATTGGGG
* * * *
832886 CAAAGCCAAGTCTTCACCAAAGAGTAGTGAAGCAAATCCATTTTGAGCCTTCACTAAAGAGTAG-
1 CAAAGCCAAGCCTTCACCAAAGAGTAGTGAAGCAAATCCATTTTAAACCTTCACGAAAGAGT-GT
832950 TGAAGCAAAC
65 TGAAGCAAAC
* * * * * * *
832960 CAAAGCTAAGCCTTCATCGAAGAGTAGTGAAGCATATCCTTTTTAAACCTTCTCGGAAGAGTGTT
1 CAAAGCCAAGCCTTCACCAAAGAGTAGTGAAGCAAATCCATTTTAAACCTTCACGAAAGAGTGTT
*
833025 GGAGCAAAC
66 GAAGCAAAC
833034 CA
1 CA
833036 TCAGACTATC
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
73 1 0.02
74 62 0.98
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (74 bp):
CAAAGCCAAGCCTTCACCAAAGAGTAGTGAAGCAAATCCATTTTAAACCTTCACGAAAGAGTGTT
GAAGCAAAC
Found at i:833821 original size:54 final size:54
Alignment explanation
Indices: 833398--833802 Score: 657
Period size: 54 Copynumber: 7.5 Consensus size: 54
833388 GTAGTAAAGC
*
833398 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGATAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* * *
833452 AGAAGAAGATATTCGAGTTTCATACTCCCTAGAGAAAGAGGGAGCGAACCTGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* * *
833506 AGAAGAATATGTTTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCTGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* * *
833560 AGAAGAATATGTTTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCAGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* *
833614 AGAAGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGGACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
833668 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* *
833722 AGAAGAAGATGTTAGAGTTCCATACTCCTTAGAGAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* * *
833776 AGAAGAAGACGTTTGAGTTACATACTC
1 AGAAGAAGATGTTCGAGTTCCATACTC
833803 TCTGAAGCAA
Statistics
Matches: 330, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 330 1.00
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.20
Consensus pattern (54 bp):
AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
Found at i:853568 original size:38 final size:38
Alignment explanation
Indices: 853497--853569 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
853487 CTCTATTAAC
* **
853497 CTCCCTTGATCCATCCCTTTGATTGTTCATGTGTTCAA
1 CTCCCTTGATCCATCCCTGTGAACGTTCATGTGTTCAA
*
853535 CTCCCTCTG-TCCATCCCTGTGAACGTTCCTGTGTT
1 CTCCCT-TGATCCATCCCTGTGAACGTTCATGTGTT
853570 TTTTAAACTC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
38 28 0.93
39 2 0.07
ACGTcount: A:0.12, C:0.33, G:0.15, T:0.40
Consensus pattern (38 bp):
CTCCCTTGATCCATCCCTGTGAACGTTCATGTGTTCAA
Found at i:853592 original size:37 final size:37
Alignment explanation
Indices: 853550--853624 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
853540 TCTGTCCATC
*
853550 CCTGTGAACGTTCCTGTGTTTTTTAAACTCCAATTTT
1 CCTGTGAACGGTCCTGTGTTTTTTAAACTCCAATTTT
*
853587 CCTGTGAACGGTCCTGTGTTTTTTAGACTCCAATTTT
1 CCTGTGAACGGTCCTGTGTTTTTTAAACTCCAATTTT
853624 C
1 C
853625 TCATTTGCTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.44
Consensus pattern (37 bp):
CCTGTGAACGGTCCTGTGTTTTTTAAACTCCAATTTT
Found at i:854522 original size:22 final size:23
Alignment explanation
Indices: 854497--854548 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
854487 AAAAACCGGT
854497 TTGACCCGACCCAACC-CGACCG
1 TTGACCCGACCCAACCGCGACCG
* *
854519 TTGACCCGACCCGACCGTTGACCG
1 TTGACCCGACCCAACCG-CGACCG
854543 TTGACC
1 TTGACC
854549 GTTGACCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 15 0.58
24 11 0.42
ACGTcount: A:0.19, C:0.44, G:0.21, T:0.15
Consensus pattern (23 bp):
TTGACCCGACCCAACCGCGACCG
Found at i:854530 original size:17 final size:17
Alignment explanation
Indices: 854504--854541 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
854494 GGTTTGACCC
854504 GACCCAACCCGACCGTT
1 GACCCAACCCGACCGTT
*
854521 GACCCGACCCGACCGTT
1 GACCCAACCCGACCGTT
854538 GACC
1 GACC
854542 GTTGACCGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.21, C:0.47, G:0.21, T:0.11
Consensus pattern (17 bp):
GACCCAACCCGACCGTT
Found at i:854541 original size:7 final size:7
Alignment explanation
Indices: 854531--854561 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
854521 GACCCGACCC
854531 GACCGTT
1 GACCGTT
854538 GACCGTT
1 GACCGTT
854545 GACCGTT
1 GACCGTT
*
854552 GACCATT
1 GACCGTT
854559 GAC
1 GAC
854562 TTTATTTGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.19, C:0.29, G:0.26, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:860541 original size:17 final size:17
Alignment explanation
Indices: 860519--860557 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
860509 TGAACCGGTC
860519 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
860536 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
860553 TGACC
1 TGACC
860558 GTTGATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.13
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:866089 original size:20 final size:20
Alignment explanation
Indices: 866066--866112 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
866056 AAGTTTATAT
*
866066 ATATTATTTATAAT-TTAAAA
1 ATATTATTTA-AATACTAAAA
*
866086 ATA-TAATTAAATACTAAAA
1 ATATTATTTAAATACTAAAA
866105 ATATTATT
1 ATATTATT
866113 ATATCAATCC
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
18 3 0.14
19 13 0.59
20 6 0.27
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATTATTTAAATACTAAAA
Found at i:879370 original size:44 final size:44
Alignment explanation
Indices: 879302--879388 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
879292 TCCCTTAAGC
* *
879302 AAGGTTAGAGGTTCGAATCTTGATGTTTACGAATAGAGGAAACA
1 AAGGTTAGAGGTTCGAATCCTGATGTTTACGAATAGAGCAAACA
* **
879346 AAGGTTAGGGGTTCGAATCCTGATGTTTGTGAATAGAGCAAAC
1 AAGGTTAGAGGTTCGAATCCTGATGTTTACGAATAGAGCAAAC
879389 TGGGTTAGGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (44 bp):
AAGGTTAGAGGTTCGAATCCTGATGTTTACGAATAGAGCAAACA
Done.