Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 146 of 190
Found at i:23732607 original size:21 final size:22
Alignment explanation
Indices: 23732583--23732625 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
23732573 AACAGACAAA
23732583 AAATTATAAATAT-TGAAATTT
1 AAATTATAAATATATGAAATTT
* *
23732604 AAATTCTAAATATATTAAATTT
1 AAATTATAAATATATGAAATTT
23732626 TATATTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
AAATTATAAATATATGAAATTT
Found at i:23735991 original size:20 final size:20
Alignment explanation
Indices: 23735923--23736001 Score: 54
Period size: 20 Copynumber: 3.9 Consensus size: 20
23735913 AAATGGTCAC
* *
23735923 AAAAGTAAATTTTTTATCGGT
1 AAAAGTAAA-ATTTCATCGGT
* * *
23735944 AACAA-TAAAAATTCCATTGAT
1 AA-AAGT-AAAATTTCATCGGT
*
23735965 AATAGTAAAATTTCATCGGT
1 AAAAGTAAAATTTCATCGGT
23735985 AAAAGTATAAA-TTCATC
1 AAAAGTA-AAATTTCATC
23736002 AATAATTAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
20 24 0.55
21 15 0.34
22 5 0.11
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (20 bp):
AAAAGTAAAATTTCATCGGT
Found at i:23737250 original size:14 final size:14
Alignment explanation
Indices: 23737231--23737258 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23737221 TTATTTAGAA
23737231 ATCCAAAATCAACT
1 ATCCAAAATCAACT
23737245 ATCCAAAATCAACT
1 ATCCAAAATCAACT
23737259 TGGATCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (14 bp):
ATCCAAAATCAACT
Found at i:23737692 original size:137 final size:140
Alignment explanation
Indices: 23737471--23737728 Score: 310
Period size: 137 Copynumber: 1.9 Consensus size: 140
23737461 GCTTTTTTAT
* ** * * *
23737471 TTTATAATATTTCATGATTTTGGTGTATTTAAAATCACAGCAGTACCCCAAGAAGCATGAAATTA
1 TTTATAATATTTCATAATTTTGGTAAATTTAAAACCACAGCAGTACCCCAAGAAGCATAAAAATA
* * *
23737536 TCAAAATACCCTTATAAGGGAATTTTCA-TAATTT-GGCTTCTCGAGCTT-GAATTGATAGGCCA
66 CCAAAATACCCTTATAAGGGAATTTTCAGTAATTTAGCCTTATCGAGCTTGGAATTGATAGGCCA
23737598 AATTTTACTA
131 AATTTTACTA
* * * **
23737608 TTTATAATATTTCATAATTTTTGGTAAATTTGAAACCACAGTAGTA-CCCGAGAAGGGTAAAAAT
1 TTTATAATATTTCATAA-TTTTGGTAAATTTAAAACCACAGCAGTACCCCAAGAAGCATAAAAAT
** *
23737672 ACCAAAATACCCTT-TAAAGGGGTTTTTTAGTAATTTAGCCTTATCGAGCTTGGAATT
65 ACCAAAATACCCTTAT-AAGGGAATTTTCAGTAATTTAGCCTTATCGAGCTTGGAATT
23737729 TCACGAAACC
Statistics
Matches: 99, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
136 1 0.01
137 52 0.53
138 29 0.29
139 12 0.12
140 5 0.05
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (140 bp):
TTTATAATATTTCATAATTTTGGTAAATTTAAAACCACAGCAGTACCCCAAGAAGCATAAAAATA
CCAAAATACCCTTATAAGGGAATTTTCAGTAATTTAGCCTTATCGAGCTTGGAATTGATAGGCCA
AATTTTACTA
Found at i:23747498 original size:39 final size:41
Alignment explanation
Indices: 23747424--23747502 Score: 108
Period size: 39 Copynumber: 2.0 Consensus size: 41
23747414 AAAAAGACAT
*
23747424 TTGCATTTACATCATAAGAGAGACATTCGTATTTGCATCAC
1 TTGCATTTACATCATAAGAGAGACATTCGCATTTGCATCAC
* * *
23747465 TTGCATTTGCATCAT-ATA-AGACATTTGCATTTGCATCA
1 TTGCATTTACATCATAAGAGAGACATTCGCATTTGCATCA
23747503 TGTTATCTGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 18 0.53
40 2 0.06
41 14 0.41
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (41 bp):
TTGCATTTACATCATAAGAGAGACATTCGCATTTGCATCAC
Found at i:23747628 original size:18 final size:18
Alignment explanation
Indices: 23747599--23747652 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
23747589 TTTGCATCAA
*
23747599 GCATTCACATTTGCATTC
1 GCATTGACATTTGCATTC
* *
23747617 GTATTGACATTTCCATTC
1 GCATTGACATTTGCATTC
*
23747635 GCATTGACATTTGTATTC
1 GCATTGACATTTGCATTC
23747653 TTATCATTGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (18 bp):
GCATTGACATTTGCATTC
Found at i:23748477 original size:35 final size:35
Alignment explanation
Indices: 23748438--23748748 Score: 179
Period size: 35 Copynumber: 8.9 Consensus size: 35
23748428 GTTCAATTTC
**
23748438 GATCATCATTATCCTCTGACTCATGGTTTAATCTT
1 GATCATCATTATTTTCTGACTCATGGTTTAATCTT
* *
23748473 GATCAT-TTTATTTTCTGACTCATGGTTTGAT-TCT
1 GATCATCATTATTTTCTGACTCATGGTTTAATCT-T
* * *
23748507 AATCGTCATTACTTTCTGACTCATGGTTTAATC-T
1 GATCATCATTATTTTCTGACTCATGGTTTAATCTT
* * ** * * *
23748541 CAGT-TTTTTTATTTTTTGACTCACGGTTCAAT-TT
1 GA-TCATCATTATTTTCTGACTCATGGTTTAATCTT
* * * *
23748575 CGATCATTATTATCTTCTGACTTATGGTTTAATTTT
1 -GATCATCATTATTTTCTGACTCATGGTTTAATCTT
* * ** * * *
23748611 GTTCGTTTTTATTTTCTGACTCATAGTTTATTTTT
1 GATCATCATTATTTTCTGACTCATGGTTTAATCTT
* ** * * *
23748646 TATTTTCATTATTCTCTAACTCATGGTTTAATCCT
1 GATCATCATTATTTTCTGACTCATGGTTTAATCTT
** * * *
23748681 GATCATTTTTATTTTTTGAC-CTGTGGTTCAAT-TT
1 GATCATCATTATTTTCTGACTC-ATGGTTTAATCTT
*
23748715 CAATCATCATTATTCTT-TGACTCATGGTTTAATC
1 -GATCATCATTATT-TTCTGACTCATGGTTTAATC
23748749 CCAATCATTT
Statistics
Matches: 203, Mismatches: 60, Indels: 25
0.70 0.21 0.09
Matches are distributed among these distances:
33 1 0.00
34 53 0.26
35 144 0.71
36 5 0.02
ACGTcount: A:0.21, C:0.17, G:0.11, T:0.51
Consensus pattern (35 bp):
GATCATCATTATTTTCTGACTCATGGTTTAATCTT
Found at i:23748525 original size:69 final size:69
Alignment explanation
Indices: 23748362--23748850 Score: 341
Period size: 70 Copynumber: 7.0 Consensus size: 69
23748352 CTTGTGATTT
* ** * * * * * * *
23748362 AATTTCAATTATTTTTATTCTCTGACTCGTAGTTTATTCCTAATCGTTTTCATTTTCTAACT--T
1 AATTTCAATCATCATTATTCTCTGACTCATGGTTTAATCCTGATCATTTT-ATTTTTTGACTCAT
23748425 GCAGTTC
65 G--GTTC
* * * *
23748432 AATTTCGATCATCATTATCCTCTGACTCATGGTTTAATCTTGATCATTTTATTTTCTGACTCATG
1 AATTTCAATCATCATTATTCTCTGACTCATGGTTTAATCCTGATCATTTTATTTTTTGACTCATG
*
23748497 GTTT
66 GTTC
* * * **
23748501 GA-TTCTAATCGTCATTACTT-TCTGACTCATGGTTTAAT-CTCAGTTTTTTTATTTTTTGACTC
1 AATTTC-AATCATCATTA-TTCTCTGACTCATGGTTTAATCCTGA-TCATTTTATTTTTTGACTC
*
23748563 ACGGTTC
63 ATGGTTC
* * * ** * * *
23748570 AATTTCGATCATTATTA-TCTTCTGACTTATGGTTTAATTTTGTTCGTTTTTATTTTCTGACTCA
1 AATTTCAATCATCATTATTC-TCTGACTCATGGTTTAATCCTGATC-ATTTTATTTTTTGACTCA
* *
23748634 TAGTTT
64 TGGTTC
* ** ** * *
23748640 ATTTTTTATTTTCATTATTCTCTAACTCATGGTTTAATCCTGATCATTTTTATTTTTTGAC-CTG
1 AATTTCAATCATCATTATTCTCTGACTCATGGTTTAATCCTGATCA-TTTTATTTTTTGACTC-A
23748704 TGGTTC
64 TGGTTC
* **
23748710 AATTTCAATCATCATTATTCTTTGACTCATGGTTTAATCCCAATCATTTTTATTTTTTGACT-A-
1 AATTTCAATCATCATTATTCTCTGACTCATGGTTTAATCCTGATCA-TTTTATTTTTTGACTCAT
23748773 GTGTTC
65 G-GTTC
* * * * * * * * *
23748779 AATTTCGATCAT-TTTTTTCTCTAACTCATAGTTTAATCTTGATCGTTTTTATTTTTTTACTCGT
1 AATTTCAATCATCATTATTCTCTGACTCATGGTTTAATCCTGATC-ATTTTATTTTTTGACTCAT
23748843 GGTTC
65 GGTTC
23748848 AAT
1 AAT
23748851 CCCTATTATC
Statistics
Matches: 326, Mismatches: 75, Indels: 37
0.74 0.17 0.08
Matches are distributed among these distances:
67 1 0.00
68 44 0.13
69 112 0.34
70 165 0.51
71 4 0.01
ACGTcount: A:0.21, C:0.17, G:0.10, T:0.52
Consensus pattern (69 bp):
AATTTCAATCATCATTATTCTCTGACTCATGGTTTAATCCTGATCATTTTATTTTTTGACTCATG
GTTC
Found at i:23748593 original size:104 final size:103
Alignment explanation
Indices: 23748454--23748640 Score: 241
Period size: 104 Copynumber: 1.8 Consensus size: 103
23748444 CATTATCCTC
* * * *
23748454 TGACTCATGGTTTAATCTTGATCATTTTATTTTCTGACTCATGGTTTGATTCTAATCGTCATTAC
1 TGACTCACGGTTCAATCTTGATCATTTTATCTTCTGACTCATGGTTTAATTCTAATCGTCATTAC
*
23748519 TTTCTGACTCATGGTTTAATCTCAGTTTTTTTATTTTT
66 TTTCTGACTCATAGTTTAATCTCAGTTTTTTTATTTTT
* * ** **
23748557 TGACTCACGGTTCAAT-TTCGATCATTATTATCTTCTGACTTATGGTTTAATTTTGTTCGTTTTT
1 TGACTCACGGTTCAATCTT-GATCATT-TTATCTTCTGACTCATGGTTTAATTCTAATCGTCATT
*
23748621 ATTTTCTGACTCATAGTTTA
64 ACTTTCTGACTCATAGTTTA
23748641 TTTTTTATTT
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
102 2 0.03
103 21 0.30
104 47 0.67
ACGTcount: A:0.20, C:0.16, G:0.13, T:0.52
Consensus pattern (103 bp):
TGACTCACGGTTCAATCTTGATCATTTTATCTTCTGACTCATGGTTTAATTCTAATCGTCATTAC
TTTCTGACTCATAGTTTAATCTCAGTTTTTTTATTTTT
Found at i:23748754 original size:35 final size:35
Alignment explanation
Indices: 23748651--23748771 Score: 100
Period size: 35 Copynumber: 3.5 Consensus size: 35
23748641 TTTTTTATTT
* * **
23748651 TCATTATTCTCTAACTCATGGTTTAATCCTGATCA
1 TCATTATTCTTTGACTCATGGTTTAATCCCAATCA
** * * * **
23748686 TTTTTATTTTTTGAC-CTGTGGTTCAATTTCAATCA
1 TCATTATTCTTTGACTC-ATGGTTTAATCCCAATCA
23748721 TCATTATTCTTTGACTCATGGTTTAATCCCAATCA
1 TCATTATTCTTTGACTCATGGTTTAATCCCAATCA
** *
23748756 TTTTTATTTTTTGACT
1 TCATTATTCTTTGACT
23748772 AGTGTTCAAT
Statistics
Matches: 63, Mismatches: 21, Indels: 4
0.72 0.24 0.05
Matches are distributed among these distances:
34 1 0.02
35 61 0.97
36 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.09, T:0.50
Consensus pattern (35 bp):
TCATTATTCTTTGACTCATGGTTTAATCCCAATCA
Found at i:23748795 original size:35 final size:35
Alignment explanation
Indices: 23748682--23748794 Score: 124
Period size: 35 Copynumber: 3.3 Consensus size: 35
23748672 TTTAATCCTG
23748682 ATCATTTTTATTTTTTGACCT-GTGGTTCAATTTCA
1 ATCATTTTTATTTTTTGA-CTAGTGGTTCAATTTCA
** * * **
23748717 ATCATCATTATTCTTTGACTCA-TGGTTTAATCCCA
1 ATCATTTTTATTTTTTGACT-AGTGGTTCAATTTCA
*
23748752 ATCATTTTTATTTTTTGACTAGT-GTTCAATTTCG
1 ATCATTTTTATTTTTTGACTAGTGGTTCAATTTCA
23748786 ATCATTTTT
1 ATCATTTTT
23748795 TTCTCTAACT
Statistics
Matches: 62, Mismatches: 13, Indels: 7
0.76 0.16 0.09
Matches are distributed among these distances:
34 19 0.31
35 43 0.69
ACGTcount: A:0.22, C:0.16, G:0.10, T:0.52
Consensus pattern (35 bp):
ATCATTTTTATTTTTTGACTAGTGGTTCAATTTCA
Found at i:23748988 original size:35 final size:35
Alignment explanation
Indices: 23748893--23748972 Score: 99
Period size: 35 Copynumber: 2.3 Consensus size: 35
23748883 AATCCTGGCC
* *
23748893 TCTTTATTTTTTGACTCA-CAATTCAATCCCTATTG
1 TCTTTAGTTTTTGACT-AGCGATTCAATCCCTATTG
* *
23748928 TCTTTAGTTTTTGACTAGCGATTCAATCCTTGTTG
1 TCTTTAGTTTTTGACTAGCGATTCAATCCCTATTG
*
23748963 TTTTTAGTTT
1 TCTTTAGTTT
23748973 CTTACTTGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 1 0.03
35 38 0.97
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (35 bp):
TCTTTAGTTTTTGACTAGCGATTCAATCCCTATTG
Found at i:23749210 original size:35 final size:34
Alignment explanation
Indices: 23749104--23749211 Score: 80
Period size: 35 Copynumber: 3.1 Consensus size: 34
23749094 CTCGTAGTTC
* **
23749104 AATTTTGATTGTCATTATCCTCTGACTTGTGGTTT
1 AATTTTG-TTGTCATTATCCTTTGACTCATGGTTT
* *
23749139 AATTATGGTCGTTTTCATT-T--TTTGACTCACT-ATTT
1 AATT-T--T-GTTGTCATTATCCTTTGACTCA-TGGTTT
23749174 AATTTTAGTTGTCATTATCCTTTGACTCATGGTTT
1 AATTTT-GTTGTCATTATCCTTTGACTCATGGTTT
23749209 AAT
1 AAT
23749212 CCCTATCATT
Statistics
Matches: 56, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
32 9 0.16
33 1 0.02
34 2 0.04
35 32 0.57
36 2 0.04
37 1 0.02
38 8 0.14
39 1 0.02
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.52
Consensus pattern (34 bp):
AATTTTGTTGTCATTATCCTTTGACTCATGGTTT
Found at i:23749423 original size:70 final size:70
Alignment explanation
Indices: 23749048--23750437 Score: 296
Period size: 70 Copynumber: 19.8 Consensus size: 70
23749038 ATTTTCTAAT
* * * * * * *
23749048 TTATTCTCTGACTCATGATTTAATCTCGAT-AGTTTTCATTTTCTAACTCG-TAGTTCAATTTTG
1 TTATCCTCTGACTCATGGTTTAATCTCGGTCA-TTTTTATTTTTTGACTTGCT-GTTCAATTTTG
*
23749111 ATTGTCA
64 ATCGTCA
** * * * ** * *
23749118 TTATCCTCTGACTTGTGGTTTAAT-TATGGTCGTTTTCATTTTTTGACTCACTATTTAATTTT-A
1 TTATCCTCTGACTCATGGTTTAATCT-CGGTCATTTTTATTTTTTGACTTGCTGTTCAATTTTGA
*
23749181 GTTGTCA
65 -TCGTCA
* * ** * * **
23749188 TTATCCTTTGACTCATGGTTTAATCCCTATCATTTTTATTTTCTGACTTAC-GATTCAATTTCAA
1 TTATCCTCTGACTCATGGTTTAATCTCGGTCATTTTTATTTTTTGACTTGCTG-TTCAATTTTGA
*
23749252 TCGTTA
65 TCGTCA
** * * * *
23749258 TTATTTTTTAACTCATAGTTTAATCAT-GGTCATTTTTATTTTTTCTGACTTG-TAGTTAAATTT
1 TTATCCTCTGACTCATGGTTTAATC-TCGGTCATTTTTA-TTTTT-TGACTTGCT-GTTCAATTT
* * **
23749321 CGGTTATCA
62 TGATCGTCA
* * * * *
23749330 TTATCCTTTTACTCGTAGTTTAATCTCGGTCATTTTTATTTTTTGACTTGCTGTTCAATTTTGGT
1 TTATCCTCTGACTCATGGTTTAATCTCGGTCATTTTTATTTTTTGACTTGCTGTTCAATTTTGAT
23749395 CGTCA
66 CGTCA
* * * * * * * *
23749400 TTGTTCTCTAACTTATGGTTTAATATCAGTCATTTTCATTTTTTAACTTG-TAGTTCAATTTTGA
1 TTATCCTCTGACTCATGGTTTAATCTCGGTCATTTTTATTTTTTGACTTGCT-GTTCAATTTTGA
* *
23749464 TCAT-T
65 TCGTCA
* ** ** * ** * * **
23749469 TTGTTATCTGACTCATGGTTTAATCTTAGTCATTTTTATTTTTTAACTCACAGTTTAATCCATG-
1 TTATCCTCTGACTCATGGTTTAATCTCGGTCATTTTTATTTTTTGACTTGCTGTTCAAT-TTTGA
* *
23749533 TTGTCT
65 TCGTCA
* ** * ** * * ** * **
23749539 TTAGT-CTTTGACTTGTAGTTTAATCTTAG-CCTTTTTTTTTTTTGACTCCCGGTTCAATCCCT-
1 TTA-TCCTCTGACTCATGGTTTAATCTCGGTCATTTTTATTTTTTGACTTGCTGTTCAAT-TTTG
23749601 ATCGT-A
64 ATCGTCA
* * * ** * * * * *
23749607 TTTAGT-TTTTGACTTACAGTTCAATC-CTTGTCATCTTTAGTTTTTGAC-T-CATGGTTTAA-T
1 -TTA-TCCTCTGACTCATGGTTTAATCTC-GGTCATTTTTATTTTTTGACTTGC-T-GTTCAATT
*
23749667 TTCAGTCGTCA
61 TTGA-TCGTCA
* * * * * * * * * * *
23749678 TTATTCTCTAACTCGTAGTTTAATCCCAGTCATTTTTATTCTCTAACTTG-TAGTTAAATTTTGG
1 TTATCCTCTGACTCATGGTTTAATCTCGGTCATTTTTATTTTTTGACTTGCT-GTTCAATTTTGA
23749742 TCGTCA
65 TCGTCA
* * * ** * * * * *
23749748 TTATTCTCTGACTCATGATTTAATCCCAATCGTTTTCATTTTCTAACTTG-TGATTCAATTTTGG
1 TTATCCTCTGACTCATGGTTTAATCTCGGTCATTTTTATTTTTTGACTTGCTG-TTCAATTTTGA
23749812 TCGTCA
65 TCGTCA
* ** ** *
23749818 TTATCCTATGACTGGTGGTTTAATCAT-AATCATTTTTATTTTTT-ATTTTCTAACTCGCGGTTC
1 TTATCCTCTGACTCATGGTTTAATC-TCGGTCATTTTTATTTTTTGA----CT---T-GCTGTTC
* * *
23749881 AAATTCGATTGTCA
57 AATTTTGATCGTCA
* * * * ** * * *
23749895 TTATTCTTTGACTCGTGGTTTAACCTCGGTTGTTTTCATTTTATGAC-T-CAGTTCAATTTTGAT
1 TTATCCTCTGACTCATGGTTTAATCTCGGTCATTTTTATTTTTTGACTTGCTGTTCAATTTTGAT
**
23749958 CGTTT
66 CGTCA
* ** * * * *
23749963 TTATTCTCTGACTCATAATTTAATCTTGATCATTTTCATTTTTTGACTCG-TGATTCAATCTTT-
1 TTATCCTCTGACTCATGGTTTAATCTCGGTCATTTTTATTTTTTGACTTGCTG-TTCAAT-TTTG
** *
23750026 ATTATCT
64 ATCGTCA
* ** * * ** **
23750033 TTAGT-ATCTGACTTGTGGTTTAATC-CTGATC-TCTTTATTTTTTGACTAAC-GATTCAATCCC
1 TTA-TCCTCTGACTCATGGTTTAATCTC-GGTCATTTTTATTTTTTGACTTGCTG-TTCAAT-TT
* **
23750094 TG-TCATTT
62 TGATCGTCA
* * ** * ** * * ** **
23750102 TTAGT-TTCTGACTTACAGTTTAATCT-GTGTCGTTTTTGGTTTCTAACTCACAATTCAATTTTG
1 TTA-TCCTCTGACTCATGGTTTAATCTCG-GTCATTTTTATTTTTTGACTTGCTGTTCAATTTTG
* *
23750165 GTCATCA
64 ATCGTCA
* * * *
23750172 TTATTCTCTGACTCATGGTTTAATTTCGATCATTTTTATTTTTTGAC-T-CATAGTTTAATTTTG
1 TTATCCTCTGACTCATGGTTTAATCTCGGTCATTTTTATTTTTTGACTTGC-T-GTTCAATTTTG
* *
23750235 GTCATCA
64 ATCGTCA
* * * *
23750242 TTGTCCT-TAACTCGTGGTTTAATC-C--TAATGTTTTTAATTTTTT-ACTTG-TAGTTCAA-TT
1 TTATCCTCTGACTCATGGTTTAATCTCGGTCA--TTTTT-ATTTTTTGACTTGCT-GTTCAATTT
*
23750300 TCAGTCGTCA
62 TGA-TCGTCA
** * * * * *
23750310 TTATCCTCTGACTTGTGATTTAATCTCGATTATTTTTATTTTCTGACTTG-TGGTTCAATTTCGA
1 TTATCCTCTGACTCATGGTTTAATCTCGGTCATTTTTATTTTTTGACTTGCT-GTTCAATTTTGA
*
23750374 TCATCA
65 TCGTCA
* ** * * **
23750380 TTATTCTCTGACTTGTGGTTTATTTTTAGTCATTTTTATTTTTTGACTTG-TGGTTCAA
1 TTATCCTCTGACTCATGGTTTAATCTCGGTCATTTTTATTTTTTGACTTGCT-GTTCAA
23750438 CCCCTATTAG
Statistics
Matches: 991, Mismatches: 254, Indels: 150
0.71 0.18 0.11
Matches are distributed among these distances:
66 2 0.00
67 3 0.00
68 81 0.08
69 205 0.21
70 567 0.57
71 28 0.03
72 51 0.05
73 3 0.00
74 1 0.00
76 2 0.00
77 46 0.05
78 2 0.00
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (70 bp):
TTATCCTCTGACTCATGGTTTAATCTCGGTCATTTTTATTTTTTGACTTGCTGTTCAATTTTGAT
CGTCA
Found at i:23749500 original size:69 final size:70
Alignment explanation
Indices: 23749347--23749516 Score: 218
Period size: 69 Copynumber: 2.4 Consensus size: 70
23749337 TTTACTCGTA
* * * * *
23749347 GTTTAATCTCGGTCATTTTTATTTTTTGACTTGCTGTTCAATTTTGGTCGTCATTGTTCTCTAAC
1 GTTTAATCTCAGTCATTTTTATTTTTTAACTTGCTGTTCAATTTTGATCATCATTGTTATCTAAC
*
23749412 TTATG
66 TCATG
* * * *
23749417 GTTTAATATCAGTCATTTTCATTTTTTAACTTG-TAGTTCAATTTTGATCAT-TTTGTTATCTGA
1 GTTTAATCTCAGTCATTTTTATTTTTTAACTTGCT-GTTCAATTTTGATCATCATTGTTATCTAA
23749480 CTCATG
65 CTCATG
*
23749486 GTTTAATCTTAGTCATTTTTATTTTTTAACT
1 GTTTAATCTCAGTCATTTTTATTTTTTAACT
23749517 CACAGTTTAA
Statistics
Matches: 86, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
69 43 0.50
70 43 0.50
ACGTcount: A:0.20, C:0.14, G:0.12, T:0.54
Consensus pattern (70 bp):
GTTTAATCTCAGTCATTTTTATTTTTTAACTTGCTGTTCAATTTTGATCATCATTGTTATCTAAC
TCATG
Found at i:23749618 original size:35 final size:35
Alignment explanation
Indices: 23749577--23749657 Score: 99
Period size: 35 Copynumber: 2.3 Consensus size: 35
23749567 GCCTTTTTTT
* * *
23749577 TTTTTGACTCCCGGTTCAATCCCTATCGTATTTAG
1 TTTTTGACTCACAGTTCAATCCCTATCATATTTAG
* * * *
23749612 TTTTTGACTTACAGTTCAATCCTTGTCATCTTTAG
1 TTTTTGACTCACAGTTCAATCCCTATCATATTTAG
23749647 TTTTTGACTCA
1 TTTTTGACTCA
23749658 TGGTTTAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.19, C:0.22, G:0.12, T:0.47
Consensus pattern (35 bp):
TTTTTGACTCACAGTTCAATCCCTATCATATTTAG
Found at i:23749618 original size:69 final size:70
Alignment explanation
Indices: 23749486--23749657 Score: 168
Period size: 69 Copynumber: 2.5 Consensus size: 70
23749476 CTGACTCATG
* * * *
23749486 GTTTAATCTTAGTCATTTTTATTTTTTAACTCACAGTTTAATCCATGTTGTCTTTAGTCTTTGAC
1 GTTTAATCTTAGTCATTTTTATTTTTTAACTCACAGTTCAATCCATATCGTATTTAGTCTTTGAC
23749551 TTGTA
66 TTGTA
* * * * * * *
23749556 GTTTAATCTTAG-CCTTTTTTTTTTTTGACTCCCGGTTCAATCCCTATCGTATTTAGTTTTTGAC
1 GTTTAATCTTAGTCATTTTTATTTTTTAACTCACAGTTCAATCCATATCGTATTTAGTCTTTGAC
**
23749620 TTACA
66 TTGTA
* * * *
23749625 GTTCAATCCTT-GTCATCTTTAGTTTTTGACTCA
1 GTTTAAT-CTTAGTCATTTTTATTTTTTAACTCA
23749658 TGGTTTAATT
Statistics
Matches: 81, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
69 51 0.63
70 30 0.37
ACGTcount: A:0.19, C:0.18, G:0.12, T:0.51
Consensus pattern (70 bp):
GTTTAATCTTAGTCATTTTTATTTTTTAACTCACAGTTCAATCCATATCGTATTTAGTCTTTGAC
TTGTA
Found at i:23749699 original size:35 final size:35
Alignment explanation
Indices: 23749660--23749761 Score: 114
Period size: 35 Copynumber: 2.9 Consensus size: 35
23749650 TTGACTCATG
23749660 GTTTAATTTCAGTCGTCATTATTCTCTAACTCGTA
1 GTTTAATTTCAGTCGTCATTATTCTCTAACTCGTA
** * ** *
23749695 GTTTAATCCCAGTCATTTTTATTCTCTAACTTGTA
1 GTTTAATTTCAGTCGTCATTATTCTCTAACTCGTA
* ** *
23749730 GTTAAATTTTGGTCGTCATTATTCTCTGACTC
1 GTTTAATTTCAGTCGTCATTATTCTCTAACTC
23749762 ATGATTTAAT
Statistics
Matches: 51, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
35 51 1.00
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.47
Consensus pattern (35 bp):
GTTTAATTTCAGTCGTCATTATTCTCTAACTCGTA
Found at i:23750023 original size:35 final size:34
Alignment explanation
Indices: 23749927--23750024 Score: 90
Period size: 35 Copynumber: 2.9 Consensus size: 34
23749917 ACCTCGGTTG
* * *
23749927 TTTTCATTTTATGACTCAG-TTCAATTTTGATCG
1 TTTTCATTTTATGACTCTGATTCAATCTTGATCA
* * * * *
23749960 TTTTTATTCTCTGACTCATAATTTAATCTTGATCA
1 TTTTCATTTTATGACTC-TGATTCAATCTTGATCA
*
23749995 TTTTCATTTTTTGACTCGTGATTCAATCTT
1 TTTTCATTTTATGACTC-TGATTCAATCTT
23750025 TATTATCTTT
Statistics
Matches: 49, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
33 14 0.29
35 35 0.71
ACGTcount: A:0.21, C:0.16, G:0.09, T:0.53
Consensus pattern (34 bp):
TTTTCATTTTATGACTCTGATTCAATCTTGATCA
Found at i:23750076 original size:494 final size:491
Alignment explanation
Indices: 23749451--23750351 Score: 1035
Period size: 494 Copynumber: 1.8 Consensus size: 491
23749441 TTTAACTTGT
* ** *
23749451 AGTTCAATTTTGATCATTTTGTTATCTGACTCATGGTTTAATCTTAGTCATTTTTATTTTTTAAC
1 AGTTCAATTTTGATCATTTTATTATCTGACTCATAATTTAATCTTAGTCATTTTCATTTTTTAAC
* * * * * * * *
23749516 TCACAGTTTAATCCATGTTGTCTTTAGTCTTTGACTTGTAGTTTAATCTTAGCCTTTTTTTTTTT
66 TCACAGTTCAATCCATATTATCTTTAGTATCTGACTTGTAGTTTAATCTGAGCCTCTTTATTTTT
** * * *
23749581 TGACTCCCGGTTCAATCCCTATCGTATTTAGTTTTTGACTTACAGTTCAATCCT-TGTCATCTTT
131 TGACTAACGATTCAATCCCTATCATATTTAGTTTCTGACTTACAGTTCAAT-CTGTGTCATCTTT
* * *** * * *
23749645 AGTTTTTGACTCATGGTTTAATTTCAGTCGTCATTATTCTCTAACTCGTAGTTTAATCCC-AGTC
195 AGTTTCTAACTCACAATTCAATTTCAGTCATCATTATTCTCTAACTCATAGTTTAATCCCGA-TC
** * * *
23749709 ATTTTTATTCTCTAACTTGTAGTTAAATTTTGGTCGTCATTATTCTCTGACTCATGATTTAATCC
259 ATTTTTATTCTCTAACTCATAGTTAAATTTTGGTCATCATTATCCT-TAACTCATGATTTAATCC
* ** *
23749774 CAATCG-TTTTCATTTTCTAACTTGT-GATTCAATTTTGGTCGTCATTATCCTATGACTGGTGGT
323 CAAT-GTTTTTAATTTT-TAACTTGTAG-TTCAATTTCAGTCGTCATTATCCTATGACTGGTGAT
23749837 TTAATCAT-AATCATTTTTATTTTTTATTTTCTAACTCGCGGTTCAAATTCGATTGTCATTATTC
385 TTAATC-TCAATCATTTTTATTTTTTATTTTCTAACTCGCGGTTCAAATTCGATTGTCATTATTC
23749901 TTTGACTCGTGGTTTAACCTCGGTTGTTTTCATTTTATGACTC
449 TTTGACTCGTGGTTTAACCTCGGTTGTTTTCATTTTATGACTC
* * *
23749944 AGTTCAATTTTGATCGTTTTTATTCTCTGACTCATAATTTAATCTT-GATCATTTTCATTTTTTG
1 AGTTCAATTTTGATC-ATTTTATTATCTGACTCATAATTTAATCTTAG-TCATTTTCATTTTTTA
** ** * *
23750008 ACTC-GTGATTCAATCTTTATTATCTTTAGTATCTGACTTGTGGTTTAATCCTGA-TCTCTTTAT
64 ACTCACAG-TTCAATCCATATTATCTTTAGTATCTGACTTGTAGTTTAAT-CTGAGCCTCTTTAT
* * * * *
23750071 TTTTTGACTAACGATTCAATCCCTGTCATTTTTAGTTTCTGACTTACAGTTTAATCTGTGTCGTT
127 TTTTTGACTAACGATTCAATCCCTATCATATTTAGTTTCTGACTTACAGTTCAATCTGTGTCATC
* ** * * **
23750136 TTTGGTTTCTAACTCACAATTCAATTTTGGTCATCATTATTCTCTGACTCATGGTTTAATTTCGA
192 TTTAGTTTCTAACTCACAATTCAATTTCAGTCATCATTATTCTCTAACTCATAGTTTAATCCCGA
* * * * * * *
23750201 TCATTTTTATTTTTTGACTCATAGTTTAATTTTGGTCATCATTGTCCTTAACTCGTGGTTTAATC
257 TCATTTTTATTCTCTAACTCATAGTTAAATTTTGGTCATCATTATCCTTAACTCATGATTTAATC
* * * *
23750266 CTAATGTTTTTAATTTTTTACTTGTAGTTCAATTTCAGTCGTCATTATCCTCTGACTTGTGATTT
322 CCAATGTTTTTAATTTTTAACTTGTAGTTCAATTTCAGTCGTCATTATCCTATGACTGGTGATTT
* *
23750331 AATCTCGATTATTTTTATTTT
387 AATCTCAATCATTTTTATTTT
23750352 CTGACTTGTG
Statistics
Matches: 331, Mismatches: 68, Indels: 19
0.79 0.16 0.05
Matches are distributed among these distances:
491 1 0.00
492 58 0.18
493 47 0.14
494 221 0.67
495 4 0.01
ACGTcount: A:0.21, C:0.17, G:0.12, T:0.50
Consensus pattern (491 bp):
AGTTCAATTTTGATCATTTTATTATCTGACTCATAATTTAATCTTAGTCATTTTCATTTTTTAAC
TCACAGTTCAATCCATATTATCTTTAGTATCTGACTTGTAGTTTAATCTGAGCCTCTTTATTTTT
TGACTAACGATTCAATCCCTATCATATTTAGTTTCTGACTTACAGTTCAATCTGTGTCATCTTTA
GTTTCTAACTCACAATTCAATTTCAGTCATCATTATTCTCTAACTCATAGTTTAATCCCGATCAT
TTTTATTCTCTAACTCATAGTTAAATTTTGGTCATCATTATCCTTAACTCATGATTTAATCCCAA
TGTTTTTAATTTTTAACTTGTAGTTCAATTTCAGTCGTCATTATCCTATGACTGGTGATTTAATC
TCAATCATTTTTATTTTTTATTTTCTAACTCGCGGTTCAAATTCGATTGTCATTATTCTTTGACT
CGTGGTTTAACCTCGGTTGTTTTCATTTTATGACTC
Found at i:23750197 original size:35 final size:35
Alignment explanation
Indices: 23750158--23750243 Score: 109
Period size: 35 Copynumber: 2.5 Consensus size: 35
23750148 CTCACAATTC
*
23750158 AATTTTGGTCATCATTATTCTCTGACTCATGGTTT
1 AATTTTGGTCATCATTATTCTCTGACTCATAGTTT
* * ** * *
23750193 AATTTCGATCATTTTTATTTTTTGACTCATAGTTT
1 AATTTTGGTCATCATTATTCTCTGACTCATAGTTT
23750228 AATTTTGGTCATCATT
1 AATTTTGGTCATCATT
23750244 GTCCTTAACT
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.22, C:0.14, G:0.12, T:0.52
Consensus pattern (35 bp):
AATTTTGGTCATCATTATTCTCTGACTCATAGTTT
Found at i:23750419 original size:35 final size:35
Alignment explanation
Indices: 23750316--23750437 Score: 120
Period size: 35 Copynumber: 3.5 Consensus size: 35
23750306 GTCATTATCC
* * * * *
23750316 TCTGACTTGTGATTTAATCTCGATTATTTTTATTT
1 TCTGACTTGTGGTTCAATTTAGATCATTTTTATTT
* ** *
23750351 TCTGACTTGTGGTTCAATTTCGATCATCATTATTC
1 TCTGACTTGTGGTTCAATTTAGATCATTTTTATTT
* *
23750386 TCTGACTTGTGGTTTATTTTTAG-TCATTTTTATTT
1 TCTGACTTGTGGTTCA-ATTTAGATCATTTTTATTT
*
23750421 TTTGACTTGTGGTTCAA
1 TCTGACTTGTGGTTCAA
23750438 CCCCTATTAG
Statistics
Matches: 70, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
35 66 0.94
36 4 0.06
ACGTcount: A:0.18, C:0.13, G:0.15, T:0.54
Consensus pattern (35 bp):
TCTGACTTGTGGTTCAATTTAGATCATTTTTATTT
Found at i:23750523 original size:35 final size:35
Alignment explanation
Indices: 23750345--23750528 Score: 121
Period size: 35 Copynumber: 5.3 Consensus size: 35
23750335 TCGATTATTT
*
23750345 TTATT-TTCTGACTTGTGGTTCAA-TTTCGATCATCA
1 TTATTCTT-TGACTTGTGGTTCAATTTTAG-TCATCA
* * * **
23750380 TTATTCTCTGACTTGTGGTTTATTTTTAGTCATTT
1 TTATTCTTTGACTTGTGGTTCAATTTTAGTCATCA
* *
23750415 TTATTTTTTGACTTGTGGTTCAACCCCTATTAGT--T--
1 TTATTCTTTGACTTGTGGTTCAA----TTTTAGTCATCA
* * * * * *
23750450 TTAGTCTTTAACTTGTGATTTAATTCTAGTC-TCT
1 TTATTCTTTGACTTGTGGTTCAATTTTAGTCATCA
* *
23750484 TTATTTTTTGACTCGTGGTTCAATTTTAGTCATCA
1 TTATTCTTTGACTTGTGGTTCAATTTTAGTCATCA
23750519 TTATTCTTTG
1 TTATTCTTTG
23750529 CCTCGTAATT
Statistics
Matches: 112, Mismatches: 27, Indels: 20
0.70 0.17 0.13
Matches are distributed among these distances:
31 5 0.04
32 1 0.01
34 24 0.21
35 70 0.62
36 5 0.04
37 1 0.01
39 6 0.05
ACGTcount: A:0.18, C:0.15, G:0.14, T:0.54
Consensus pattern (35 bp):
TTATTCTTTGACTTGTGGTTCAATTTTAGTCATCA
Found at i:23750540 original size:69 final size:69
Alignment explanation
Indices: 23750155--23750542 Score: 270
Period size: 70 Copynumber: 5.6 Consensus size: 69
23750145 TAACTCACAA
* * * *
23750155 TTCAATTTTGGTCATCATTATTCTCTGACTCATGGTTTAATT-TCGATCATTTTTATTTTTTGAC
1 TTCAATTTTAGTCATCATTATTCTCTGACTCGTGATTTAATTCTAG-TC-TTTTTATTTTTTGAC
** *
23750219 TCATAG
64 TTGTGG
* * * * * * * * *
23750225 TTTAATTTTGGTCATCATTGTCCT-TAACTCGTGGTTTAATCCTAATGTTTTTAATTTTTT-ACT
1 TTCAATTTTAGTCATCATTATTCTCTGACTCGTGATTTAATTCTAGTCTTTTT-ATTTTTTGACT
*
23750288 TGTAG
65 TGTGG
* * * * * * * *
23750293 TTCAATTTCAGTCGTCATTATCCTCTGACTTGTGATTTAATCTCGATTATTTTTATTTTCTGACT
1 TTCAATTTTAGTCATCATTATTCTCTGACTCGTGATTTAAT-TCTAGTCTTTTTATTTTTTGACT
23750358 TGTGG
65 TGTGG
* * * * *
23750363 TTCAA-TTTCGATCATCATTATTCTCTGACTTGTGGTTTATTTTTAGTCATTTTTATTTTTTGAC
1 TTCAATTTTAG-TCATCATTATTCTCTGACTCGTGATTTAATTCTAGTC-TTTTTATTTTTTGAC
23750427 TTGTGG
64 TTGTGG
* * * * * *
23750433 TTCAACCCCTATTAGT--T--TTAGTCTTTAACTTGTGATTTAATTCTAGTCTCTTTATTTTTTG
1 TTCAA----TTTTAGTCATCATTATTCTCTGACTCGTGATTTAATTCTAGTCTTTTTATTTTTTG
*
23750494 ACTCGTGG
62 ACTTGTGG
* * *
23750502 TTCAATTTTAGTCATCATTATTCTTTGCCTCGTAATTTAAT
1 TTCAATTTTAGTCATCATTATTCTCTGACTCGTGATTTAAT
23750543 CCTGGTTATT
Statistics
Matches: 250, Mismatches: 52, Indels: 33
0.75 0.16 0.10
Matches are distributed among these distances:
65 6 0.02
67 1 0.00
68 30 0.12
69 90 0.36
70 118 0.47
72 1 0.00
74 1 0.00
75 3 0.01
ACGTcount: A:0.20, C:0.15, G:0.13, T:0.52
Consensus pattern (69 bp):
TTCAATTTTAGTCATCATTATTCTCTGACTCGTGATTTAATTCTAGTCTTTTTATTTTTTGACTT
GTGG
Found at i:23750770 original size:12 final size:12
Alignment explanation
Indices: 23750749--23750797 Score: 62
Period size: 13 Copynumber: 3.9 Consensus size: 12
23750739 GATGTTGCCA
23750749 AAAAAAAAAAAC
1 AAAAAAAAAAAC
*
23750761 AAAAACAAAAAC
1 AAAAAAAAAAAC
*
23750773 AAACAAAAAAAATG
1 AAA-AAAAAAAA-C
23750787 AAAAAAAAAAA
1 AAAAAAAAAAA
23750798 GAGAGAAGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
12 14 0.44
13 15 0.47
14 3 0.09
ACGTcount: A:0.88, C:0.08, G:0.02, T:0.02
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:23750776 original size:16 final size:14
Alignment explanation
Indices: 23750748--23750797 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
23750738 TGATGTTGCC
23750748 AAAAAAAAAAAACA
1 AAAAAAAAAAAACA
23750762 AAAACAAAAACAAACA
1 AAAA-AAAAA-AAACA
23750778 AAAAAAATGAAAAA-A
1 AAAAAAA--AAAAACA
23750793 AAAAA
1 AAAAA
23750798 GAGAGAAGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
14 4 0.12
15 14 0.44
16 12 0.38
17 2 0.06
ACGTcount: A:0.88, C:0.08, G:0.02, T:0.02
Consensus pattern (14 bp):
AAAAAAAAAAAACA
Found at i:23751599 original size:145 final size:146
Alignment explanation
Indices: 23751244--23751758 Score: 403
Period size: 145 Copynumber: 3.6 Consensus size: 146
23751234 TTTATAAGGA
* * * * * *
23751244 GTATTTTCGTAATTTGACC-TTTTTGAGCTCAAATTTTCATGAAACATTTCAAATTTTAATTTTA
1 GTATTTTAGTAATTTG-CCATTCTCGAGCTCAGATTTTCATGAAACTTTTCAAATCTTAATTTTA
* * * * * * * * ** * *
23751308 TAATATTTCATGA--CTTTGGTGCATTTAAAATCATAGTAGTA-CCATAAAA-AAGTCAAATTAC
65 TAATATTTCATTATGTTTTGGTGCATATGAAACCACAGCAATACCCCGAAAAGTA-TGAAATTAC
* * *
23751369 CAAAATACTCTTATAAAA
129 CAAAATACTCTTAGAGAG
*** * * * * * *
23751387 GTAATTTT-GTAATTTGGTTTTTTCAAGCTCATATTGTT-GTGAAACTATTCAAATTTTAATTTT
1 GT-ATTTTAGTAATTTGCCATTCTCGAGCTCAGATT-TTCATGAAACTTTTCAAATCTTAATTTT
* * *
23751450 ATAATATTTCATTATGTTTT-GTG-AGTATGAAACCACAGTAATACCCCGGAAA-TGGTGAAATT
64 ATAATATTTCATTATGTTTTGGTGCA-TATGAAACCACAGCAATACCCCGAAAAGT-ATGAAATT
23751512 ACCAAAATACTCTCTAGA-AG
127 ACCAAAATACTCT-TAGAGAG
* * * *
23751532 GTATTTTAGTAATTTGCCCTTCTCGAGCTC-GAATTTTCATGATACTTTTTATATCTT-ATTTTC
1 GTATTTTAGTAATTTGCCATTCTCGAGCTCAG-ATTTTCATGAAACTTTTCAAATCTTAATTTT-
* * * * * * * *
23751595 ATAATATTTTATGAT-TTTTGGTGCATTTGAAATCATAGCAATTCTCCGAAAAGTATGAAATTGC
64 ATAATATTTCATTATGTTTTGGTGCATATGAAACCACAGCAATACCCCGAAAAGTATGAAATTAC
*
23751659 CAAAATACTCTTATAGAG
129 CAAAATACTCTTAGAGAG
* * *
23751677 GTATTTTTGTAATTTGGCATTTTCGAGCTCAGATTTTCATGAAACTTTTCAAATCTTAATTTTAT
1 GTATTTTAGTAATTTGCCATTCTCGAGCTCAGATTTTCATGAAACTTTTCAAATCTTAATTTTAT
23751742 AATATTTCATTA-GTTTT
66 AATATTTCATTATGTTTT
23751759 AGTATTTTAA
Statistics
Matches: 296, Mismatches: 56, Indels: 38
0.76 0.14 0.10
Matches are distributed among these distances:
143 59 0.20
144 42 0.14
145 184 0.62
146 11 0.04
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (146 bp):
GTATTTTAGTAATTTGCCATTCTCGAGCTCAGATTTTCATGAAACTTTTCAAATCTTAATTTTAT
AATATTTCATTATGTTTTGGTGCATATGAAACCACAGCAATACCCCGAAAAGTATGAAATTACCA
AAATACTCTTAGAGAG
Found at i:23751738 original size:290 final size:288
Alignment explanation
Indices: 23751218--23751758 Score: 678
Period size: 290 Copynumber: 1.9 Consensus size: 288
23751208 GAGAACGGCA
* * * * * *
23751218 AAATTACTAAAATACCTTTATAAGGAGTATTTTCGTAATTTGACCTTTTTGAGCTCAAATTTTCA
1 AAATTACCAAAATACCTCTAGAAGGAGTATTTTAGTAATTTGACCTTCTCGAGCTCAAATTTTCA
* * *
23751283 TGAAACATTTCAAATTTTAATTTTATAATATTTCATGACTTTGGTGCATTTAAAATCATAGTAGT
66 TGAAACATTTCAAATCTTAATTTTATAATATTTCATGACTTTGGTGCATTTAAAATCATAGCAAT
* **
23751348 ACCATAAAAAAGTCAAATTACCAAAATACTCTTATAAAAGTAATTTTGTAATTTGGTTTTTTCAA
131 ACCAGAAAAAAGTCAAATTACCAAAATACTCTTATAAAAGTAATTTTGTAATTTGGCATTTTCAA
* * *
23751413 GCTCATATTGTTGTGAAACTATTCAAATTTTAATTTTATAATATTTCATTATGTTTTGTGAGTAT
196 GCTCAGATTGTTATGAAACTATTCAAATCTTAATTTTATAATATTTCATTA-GTTTTGTGAGTAT
23751478 GAAACCACAGTAATACCCCGGAAATGGTG
260 GAAACCACAGTAATACCCCGGAAATGGTG
* *
23751507 AAATTACCAAAATACTCTCTAGAA-G-GTATTTTAGTAATTTGCCCTTCTCGAGCTCGAATTTTC
1 AAATTACCAAAATAC-CTCTAGAAGGAGTATTTTAGTAATTTGACCTTCTCGAGCTCAAATTTTC
* * * * * * *
23751570 ATGATACTTTTTATATCTT-ATTTTCATAATATTTTATGATTTTTGGTGCATTTGAAATCATAGC
65 ATGAAACATTTCAAATCTTAATTTT-ATAATATTTCATGA-CTTTGGTGCATTTAAAATCATAGC
* * * * * * * *
23751634 AATTCTCCGAAAAGTA-TGAAATTGCCAAAATACTCTTATAGAGGTATTTTTGTAATTTGGCATT
128 AATAC-CAGAAAA-AAGTCAAATTACCAAAATACTCTTATAAAAGTAATTTTGTAATTTGGCATT
* *
23751698 TTCGAGCTCAGATT-TTCATGAAACTTTTCAAATCTTAATTTTATAATATTTCATTAGTTTT
191 TTCAAGCTCAGATTGTT-ATGAAACTATTCAAATCTTAATTTTATAATATTTCATTAGTTTT
23751759 AGTATTTTAA
Statistics
Matches: 212, Mismatches: 34, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
287 5 0.02
288 60 0.28
289 46 0.22
290 100 0.47
291 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (288 bp):
AAATTACCAAAATACCTCTAGAAGGAGTATTTTAGTAATTTGACCTTCTCGAGCTCAAATTTTCA
TGAAACATTTCAAATCTTAATTTTATAATATTTCATGACTTTGGTGCATTTAAAATCATAGCAAT
ACCAGAAAAAAGTCAAATTACCAAAATACTCTTATAAAAGTAATTTTGTAATTTGGCATTTTCAA
GCTCAGATTGTTATGAAACTATTCAAATCTTAATTTTATAATATTTCATTAGTTTTGTGAGTATG
AAACCACAGTAATACCCCGGAAATGGTG
Found at i:23752243 original size:45 final size:46
Alignment explanation
Indices: 23752191--23752277 Score: 167
Period size: 45 Copynumber: 1.9 Consensus size: 46
23752181 GAGGGGGTCT
23752191 TAAGACAGGGGAGAGCTATTGGTCTTCTG-AAAAGAAAGAGGTTCA
1 TAAGACAGGGGAGAGCTATTGGTCTTCTGAAAAAGAAAGAGGTTCA
23752236 TAAGACAGGGGAGAGCTATTGGTCTTCTGAAAAAGAAAGAGG
1 TAAGACAGGGGAGAGCTATTGGTCTTCTGAAAAAGAAAGAGG
23752278 AGCTGAAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 29 0.71
46 12 0.29
ACGTcount: A:0.37, C:0.10, G:0.32, T:0.21
Consensus pattern (46 bp):
TAAGACAGGGGAGAGCTATTGGTCTTCTGAAAAAGAAAGAGGTTCA
Found at i:23754222 original size:2 final size:2
Alignment explanation
Indices: 23754215--23754242 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
23754205 TTTATAATGC
23754215 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
23754243 GTTTGTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23759974 original size:80 final size:81
Alignment explanation
Indices: 23759867--23760026 Score: 196
Period size: 80 Copynumber: 2.0 Consensus size: 81
23759857 ACCCTCGTTA
* * ** * * * *
23759867 AGCCTTCATTGAAATATGCCCATCAGTGGAAATTTTGAATT-TATCATCCCATCCACATATATTC
1 AGCCTTCATTGAAATATGCCCACCAGTGAAAAAATTGAATTCCATCATCACATCCACAAACATTC
23759931 CAAATAGTAATCATCG
66 CAAATAGTAATCATCG
* * * *
23759947 AGCCTTCTTTGGAATATGCCCACCAGTGAAAAAATTGAATTGCCATCATGACATCCATAAACATT
1 AGCCTTCATTGAAATATGCCCACCAGTGAAAAAATTGAATT-CCATCATCACATCCACAAACATT
23760012 CCAAATAGTAATCAT
65 CCAAATAGTAATCAT
23760027 GAATTTATAA
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
80 35 0.53
82 31 0.47
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.30
Consensus pattern (81 bp):
AGCCTTCATTGAAATATGCCCACCAGTGAAAAAATTGAATTCCATCATCACATCCACAAACATTC
CAAATAGTAATCATCG
Found at i:23760313 original size:12 final size:12
Alignment explanation
Indices: 23760296--23760321 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23760286 AAAAAAAGTC
23760296 TCCACATTTGCA
1 TCCACATTTGCA
23760308 TCCACATTTGCA
1 TCCACATTTGCA
23760320 TC
1 TC
23760322 ACTTGTATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.35, G:0.08, T:0.35
Consensus pattern (12 bp):
TCCACATTTGCA
Found at i:23760533 original size:24 final size:24
Alignment explanation
Indices: 23760504--23760552 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
23760494 TTTGCACTTG
*
23760504 TATAAGACATTTCCATTTGTATCA
1 TATAAGACATTTCCATTTGCATCA
23760528 TATAAGACATTTCCATTTGCATCA
1 TATAAGACATTTCCATTTGCATCA
23760552 T
1 T
23760553 TGTATCTGCG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (24 bp):
TATAAGACATTTCCATTTGCATCA
Found at i:23760702 original size:18 final size:18
Alignment explanation
Indices: 23760648--23760702 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
23760638 TTTGCATCAA
*
23760648 GCATTGGCATTTGCATTC
1 GCATTGACATTTGCATTC
** *
23760666 ATATTGACATTTGTATTC
1 GCATTGACATTTGCATTC
23760684 GCATTGACATTTGCATTC
1 GCATTGACATTTGCATTC
23760702 G
1 G
23760703 TATCATTGGA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (18 bp):
GCATTGACATTTGCATTC
Found at i:23761434 original size:35 final size:35
Alignment explanation
Indices: 23761395--23761648 Score: 118
Period size: 35 Copynumber: 7.3 Consensus size: 35
23761385 CTTTAGTTTT
* *
23761395 TGACTTACGATTCAATTTCGATCATTATTATTCTC
1 TGACTTATGATTCAATTTCGATCGTTATTATTCTC
* * * * *
23761430 TGACTTATGGTTTAA-TCCTGGTCGTT-TTCATTTTC
1 TGACTTATGATTCAATTTC-GATCGTTATT-ATTCTC
* ** ** * *
23761465 TAACTTGCGATTCAATTTCGATAATCATTATCCTC
1 TGACTTATGATTCAATTTCGATCGTTATTATTCTC
* * * * * * *
23761500 TAACTTATGGTTTAATCTCGATTGTTTTTATTTTC
1 TGACTTATGATTCAATTTCGATCGTTATTATTCTC
* * * *
23761535 TGACTTATGATTCAATTGCAATTGTCATTATTCTC
1 TGACTTATGATTCAATTTCGATCGTTATTATTCTC
* * * * * *
23761570 TGACTCATGATTTAATCTT-GATTGTTTTTATTTTT
1 TGACTTATGATTCAAT-TTCGATCGTTATTATTCTC
*** * * * *
23761605 TGACTCGCGGTTCAATTTCGGTCATTATTATCCTC
1 TGACTTATGATTCAATTTCGATCGTTATTATTCTC
23761640 TGACTTATG
1 TGACTTATG
23761649 GTTTCATTTT
Statistics
Matches: 152, Mismatches: 61, Indels: 12
0.68 0.27 0.05
Matches are distributed among these distances:
34 6 0.04
35 141 0.93
36 5 0.03
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (35 bp):
TGACTTATGATTCAATTTCGATCGTTATTATTCTC
Found at i:23761447 original size:70 final size:69
Alignment explanation
Indices: 23761373--23761883 Score: 324
Period size: 70 Copynumber: 7.3 Consensus size: 69
23761363 CTCGAAGTTC
* *
23761373 AATCCTTGTCATCTTTAGTTTTTGACTTACGATTCAATTTCGATCATTATTATTCTCTGACTTAT
1 AATCCTTGTCAT-TTTATTTTTTGACTTACGATTCAATTTCGATCATCATTATTCTCTGACTTAT
23761438 GGTTT
65 GGTTT
* * * * * * * *
23761443 AATCCTGGTCGTTTTCATTTTCTAACTTGCGATTCAATTTCGATAATCATTATCCTCTAACTTAT
1 AATCCTTGTCATTTT-ATTTTTTGACTTACGATTCAATTTCGATCATCATTATTCTCTGACTTAT
23761508 GGTTT
65 GGTTT
* * * * ** *
23761513 AATCTCGATTGT--TTTTATTTTCTGACTTATGATTCAATTGCAATTGTCATTATTCTCTGACTC
1 AATC-C--TTGTCATTTTATTTTTTGACTTACGATTCAATTTCGATCATCATTATTCTCTGACTT
*
23761576 ATGATTT
63 ATGGTTT
** ** * * * *
23761583 AAT-CTTGATTGTTTTTATTTTTTGACTCGCGGTTCAATTTCGGTCATTATTATCCTCTGACTTA
1 AATCCTTG--TCATTTTATTTTTTGACTTACGATTCAATTTCGATCATCATTATTCTCTGACTTA
23761647 TGGTTT
64 TGGTTT
* * ** * * * * * *
23761653 CAT-TTTGGTTGTTTTCATTTTTTCACTTAC-AGTTTAATTTTGATCGTCATTATTCTTTGACTG
1 AATCCTT-GTCATTTT-ATTTTTTGACTTACGA-TTCAATTTCGATCATCATTATTCTCTGACTT
23761716 ATGGTTT
63 ATGGTTT
* * * *
23761723 AATCC-TGATCATTTTTATTTTTTGATCTGT--GGTTCAATGTCGATCATCATTATTTTTTGA-T
1 AATCCTTG-TCA-TTTTATTTTTTGA-CT-TACGATTCAATTTCGATCATCATTATTCTCTGACT
23761784 TCATGGTTT
62 T-ATGGTTT
* * * * * ** *
23761793 AATTCTGGTCATTTTTATTTTTTGAC-TAGCAATTCAATTTTGGTCATTTTTATTCTCTGACTCA
1 AATCCTTGTCA-TTTTATTTTTTGACTTA-CGATTCAATTTCGATCATCATTATTCTCTGACTTA
*
23761857 TGATTT
64 TGGTTT
*
23761863 AAT-CTCAGTCATTTTTATTTT
1 AATCCT-TGTCA-TTTTATTTT
23761884 CCAACTCGCG
Statistics
Matches: 339, Mismatches: 78, Indels: 48
0.73 0.17 0.10
Matches are distributed among these distances:
66 3 0.01
67 1 0.00
68 2 0.01
69 13 0.04
70 302 0.89
71 14 0.04
72 1 0.00
73 3 0.01
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (69 bp):
AATCCTTGTCATTTTATTTTTTGACTTACGATTCAATTTCGATCATCATTATTCTCTGACTTATG
GTTT
Found at i:23761647 original size:140 final size:138
Alignment explanation
Indices: 23761386--23761900 Score: 419
Period size: 140 Copynumber: 3.7 Consensus size: 138
23761376 CCTTGTCATC
* * * *
23761386 TTTAGTTTTTGACTTACGATTCAATTTCGATCATTATTATTCTCTGACTTATGGTTTAATCCTGG
1 TTTA-TTTTTGACTTA-GATTCAATTTCGATCGTCATTATTCTCTGACTCATGGTTTAATCCTGA
* * * * * *
23761451 TCGTTTTCATTTTCTAACTTGCGATTCAATTTCGATAATCATTATCCTCTAACTTATGGTTTAAT
64 TCGTTTTTATTTTTTGACTCGCGGTTCAATTTCGATCATCATTATCCTCTAACTTATGGTTTAAT
23761516 CTCGATTGTT
129 CTCGATTGTT
* * * * *
23761526 TTTATTTTCTGACTTATGATTCAATTGCAATTGTCATTATTCTCTGACTCATGATTTAATCTTGA
1 TTTATTTT-TGACTTA-GATTCAATTTCGATCGTCATTATTCTCTGACTCATGGTTTAATCCTGA
* * * * *
23761591 TTGTTTTTATTTTTTGACTCGCGGTTCAATTTCGGTCATTATTATCCTCTGACTTATGGTTTCAT
64 TCGTTTTTATTTTTTGACTCGCGGTTCAATTTCGATCATCATTATCCTCTAACTTATGGTTTAAT
* * *
23761656 TTTGGTTGTT
129 CTCGATTGTT
* * * * * * *
23761666 TTCATTTTTTCACTTACAGTTTAATTTTGATCGTCATTATTCTTTGACTGATGGTTTAATCCTGA
1 TTTA-TTTTTGACTTAGA-TTCAATTTCGATCGTCATTATTCTCTGACTCATGGTTTAATCCTGA
* * * ** * *
23761731 TCATTTTTATTTTTTGA-TCTGTGGTTCAATGTCGATCATCATTATTTTTTGA-TTCATGGTTTA
64 TCGTTTTTATTTTTTGACTC-GCGGTTCAATTTCGATCATCATTATCCTCTAACTT-ATGGTTTA
* **
23761794 AT-TCTGGTCATT
127 ATCTC-GATTGTT
* * * ** * *
23761806 TTTATTTTTTGAC-TAGCAATTCAATTTTGGTCATTTTTATTCTCTGACTCATGATTTAAT-CTC
1 TTTA-TTTTTGACTTAG--ATTCAATTTCGATCGTCATTATTCTCTGACTCATGGTTTAATCCTG
* ***
23761869 AGTCATTTTTATTTTCCAACTCGCGGTTCAAT
63 A-TCGTTTTTATTTTTTGACTCGCGGTTCAAT
23761901 CTCTATTGTC
Statistics
Matches: 300, Mismatches: 65, Indels: 20
0.78 0.17 0.05
Matches are distributed among these distances:
139 15 0.05
140 278 0.93
141 7 0.02
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.51
Consensus pattern (138 bp):
TTTATTTTTGACTTAGATTCAATTTCGATCGTCATTATTCTCTGACTCATGGTTTAATCCTGATC
GTTTTTATTTTTTGACTCGCGGTTCAATTTCGATCATCATTATCCTCTAACTTATGGTTTAATCT
CGATTGTT
Found at i:23761723 original size:35 final size:35
Alignment explanation
Indices: 23761684--23761819 Score: 121
Period size: 35 Copynumber: 3.9 Consensus size: 35
23761674 TTCACTTACA
* *
23761684 GTTTAATTTTGATCGTCATTATTCTTTGACTGATG
1 GTTTAATTTTGATCATCATTATTTTTTGACTGATG
** **
23761719 GTTTAATCCTGATCATTTTTATTTTTTGATCTG-TG
1 GTTTAATTTTGATCATCATTATTTTTTGA-CTGATG
* * * * *
23761754 GTTCAATGTCGATCATCATTATTTTTTGATTCATG
1 GTTTAATTTTGATCATCATTATTTTTTGACTGATG
* * **
23761789 GTTTAATTCTGGTCATTTTTATTTTTTGACT
1 GTTTAATTTTGATCATCATTATTTTTTGACT
23761820 AGCAATTCAA
Statistics
Matches: 77, Mismatches: 22, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
34 1 0.01
35 73 0.95
36 3 0.04
ACGTcount: A:0.19, C:0.12, G:0.15, T:0.54
Consensus pattern (35 bp):
GTTTAATTTTGATCATCATTATTTTTTGACTGATG
Found at i:23761920 original size:70 final size:69
Alignment explanation
Indices: 23761846--23761985 Score: 163
Period size: 69 Copynumber: 2.0 Consensus size: 69
23761836 TCATTTTTAT
* * * *
23761846 TCTCTGACTCATGATTTAATCTCAGTCATTTTTATTTTCCAACTCGCGGTTCAATCTCTATTGTC
1 TCTCTAACTCATGATTTAATCTCAG-CATTTTTATTTTCCAACTCACAGTTCAATCCCTATTGTC
23761911 TCTAG
65 TCTAG
** * * * * *
23761916 TCTCTAACTTGTGGTTTAATCTTAGCCTTTTTATTTTCTAACTCACAGTTCAATCCCTGTTGTCT
1 TCTCTAACTCATGATTTAATCTCAGCATTTTTATTTTCCAACTCACAGTTCAATCCCTATTGTCT
*
23761981 TTAG
66 CTAG
23761985 T
1 T
23761986 TTTTGACTAG
Statistics
Matches: 58, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
69 38 0.66
70 20 0.34
ACGTcount: A:0.19, C:0.23, G:0.11, T:0.46
Consensus pattern (69 bp):
TCTCTAACTCATGATTTAATCTCAGCATTTTTATTTTCCAACTCACAGTTCAATCCCTATTGTCT
CTAG
Found at i:23762124 original size:47 final size:47
Alignment explanation
Indices: 23762051--23762141 Score: 119
Period size: 47 Copynumber: 1.9 Consensus size: 47
23762041 TTGGTCATCA
*
23762051 TTATCCTTTAACTCATGATTTAATCTCAATCGTTTCCATTTTTTAAT
1 TTATCCTTTAACTCATGAGTTAATCTCAATCGTTTCCATTTTTTAAT
* * * * * *
23762098 TTATTCTTTGACTCGTGAGTTAATCTCGATTGTTTTCATTTTTT
1 TTATCCTTTAACTCATGAGTTAATCTCAATCGTTTCCATTTTTT
23762142 GACTTACAGT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 37 1.00
ACGTcount: A:0.21, C:0.16, G:0.09, T:0.54
Consensus pattern (47 bp):
TTATCCTTTAACTCATGAGTTAATCTCAATCGTTTCCATTTTTTAAT
Found at i:23762275 original size:70 final size:71
Alignment explanation
Indices: 23762130--23762507 Score: 224
Period size: 70 Copynumber: 5.4 Consensus size: 71
23762120 ATCTCGATTG
* * * * **
23762130 TTTTCATTTTTTGACTTA-CAGTTCAA-TTTCGGTCATCATTAT-CTCTGACTTGT-GATTTAAT
1 TTTTCATTTTTTGAC-TAGCAATTCAATTTTCGATTATCATTATCCTTTGACTCATAG-TTTAAT
** *
23762191 CTTGGTCG
64 CCCGGTCA
* *
23762199 TTTTCATTTTTTGACTAGCAATTCAATTTTAG-TTGTCATTATCCTTTGACTCATAGTTTAATCC
1 TTTTCATTTTTTGACTAGCAATTCAATTTTCGATTATCATTATCCTTTGACTCATAGTTTAATCC
23762263 CGGTCA
66 CGGTCA
* * * ** ** *
23762269 TTTTCATTTTTTGACTCA-TAATTCAA-TTTCGATTGTTATTATTTTTTGACTTGTGGTTTAATC
1 TTTTCATTTTTTGACT-AGCAATTCAATTTTCGATTATCATTATCCTTTGACTCATAGTTTAATC
*** **
23762332 CTAATTG
65 CCGGTCA
* * * * * *
23762339 TTTTTATTTTCTAACT--CATGGTTCAA-TTTCGGTTATCATTATCCTCTT-ACTCGTAGTTTAA
1 TTTTCATTTTTTGACTAGCA--ATTCAATTTTCGATTATCATTATCCT-TTGACTCATAGTTTAA
23762400 TCCCGGTCA
63 TCCCGGTCA
* * * * * * * *
23762409 TTTTCATTTTTTGACTCGCTATTCAA-TTTCGATCATCATTGTTCTCTAACGT-ATGGTTTAATC
1 TTTTCATTTTTTGACTAGCAATTCAATTTTCGATTATCATTATCCTTTGAC-TCATAGTTTAATC
* *
23762472 TCAGTCA
65 CCGGTCA
* *
23762479 TTTTCATTTTTTGACTTGCAGTTCAATTT
1 TTTTCATTTTTTGACTAGCAATTCAATTT
23762508 CAACTATTTT
Statistics
Matches: 238, Mismatches: 57, Indels: 26
0.74 0.18 0.08
Matches are distributed among these distances:
68 3 0.01
69 35 0.15
70 192 0.81
71 7 0.03
72 1 0.00
ACGTcount: A:0.21, C:0.17, G:0.12, T:0.50
Consensus pattern (71 bp):
TTTTCATTTTTTGACTAGCAATTCAATTTTCGATTATCATTATCCTTTGACTCATAGTTTAATCC
CGGTCA
Found at i:23762503 original size:140 final size:138
Alignment explanation
Indices: 23762130--23762509 Score: 392
Period size: 140 Copynumber: 2.7 Consensus size: 138
23762120 ATCTCGATTG
* * * * *
23762130 TTTTCATTTTTTGACTTAC-AGTTCAATTTCGGTCATCATTATCTCTGACTTGTGATTTAATCTT
1 TTTTCATTTTTTGAC-TCCTA-TTCAATTTCGATCATCATTTTCTCTGACTTGTGGTTTAATCTC
* * * * *
23762194 GGTCGTTTTCATTTTTTGACTAGCAATTCAATTTTAGTTGTCATTATCCTTTGACTCATAGTTTA
64 AGTCGTTTTCATTTTTTGACTTGCAGTTCAATTTCAGTTATCATTATCCTTTGACTCATAGTTTA
23762259 ATCCCGGTCA
129 ATCCCGGTCA
* ** * * *
23762269 TTTTCATTTTTTGACTCATAATTCAATTTCGATTGTTATTATTTTTTGACTTGTGGTTTAATC-C
1 TTTTCATTTTTTGACTCCT-ATTCAATTTCGATCATCATT-TTCTCTGACTTGTGGTTTAATCTC
* * * * * * *
23762333 TAATTGTTTTTATTTTCTAAC-T-CATGGTTCAATTTCGGTTATCATTATCCTCTT-ACTCGTAG
64 -AGTCGTTTTCATTTTTTGACTTGCA--GTTCAATTTCAGTTATCATTATCCT-TTGACTCATAG
23762395 TTTAATCCCGGTCA
125 TTTAATCCCGGTCA
* * *
23762409 TTTTCATTTTTTGACTCGCTATTCAATTTCGATCATCATTGTTCTCTAACGTATGGTTTAATCTC
1 TTTTCATTTTTTGACTC-CTATTCAATTTCGATCATCATT-TTCTCTGACTTGTGGTTTAATCTC
*
23762474 AGTCATTTTCATTTTTTGACTTGCAGTTCAATTTCA
64 AGTCGTTTTCATTTTTTGACTTGCAGTTCAATTTCA
23762510 ACTATTTTTA
Statistics
Matches: 190, Mismatches: 40, Indels: 21
0.76 0.16 0.08
Matches are distributed among these distances:
138 3 0.02
139 30 0.16
140 150 0.79
141 5 0.03
142 2 0.01
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.50
Consensus pattern (138 bp):
TTTTCATTTTTTGACTCCTATTCAATTTCGATCATCATTTTCTCTGACTTGTGGTTTAATCTCAG
TCGTTTTCATTTTTTGACTTGCAGTTCAATTTCAGTTATCATTATCCTTTGACTCATAGTTTAAT
CCCGGTCA
Found at i:23762534 original size:70 final size:70
Alignment explanation
Indices: 23762394--23762542 Score: 167
Period size: 70 Copynumber: 2.1 Consensus size: 70
23762384 CTTACTCGTA
* * * * *
23762394 GTTTAATCCCGGTCATTTTCATTTTTTGACTCGCTATTCAATTTCGATCATCATTGTTCTCTAAC
1 GTTTAATCTCAGTCATTTTCATTTTTTGACTCGCTATTCAATTTCAATCATCATTATTATCTAAC
23762459 GTATG
66 GTATG
* ** *
23762464 GTTTAATCTCAGTCATTTTCATTTTTTGACTTGC-AGTTCAATTTCAA-CTATTTTTATTATCTG
1 GTTTAATCTCAGTCATTTTCATTTTTTGACTCGCTA-TTCAATTTCAATC-ATCATTATTATCTA
* *
23762527 CCTTATG
64 ACGTATG
23762534 GTTTAATCT
1 GTTTAATCT
23762543 TGGTTGTTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
69 2 0.03
70 64 0.97
ACGTcount: A:0.21, C:0.19, G:0.11, T:0.49
Consensus pattern (70 bp):
GTTTAATCTCAGTCATTTTCATTTTTTGACTCGCTATTCAATTTCAATCATCATTATTATCTAAC
GTATG
Found at i:23762909 original size:70 final size:71
Alignment explanation
Indices: 23762697--23762996 Score: 225
Period size: 70 Copynumber: 4.3 Consensus size: 71
23762687 TCATCTTTAG
* * * * * * * * * * *
23762697 TTTCTGACTCATGGTTCAATTTTGGTTATCATTATTCTTTAACTCATAGTTTAATCCCGA-TCGT
1 TTTCTGACTCGTAGTTCAATTTCGATCATCATTATTCTTTGACTCATGGTTTAATCACTAGTTGG
*
23762761 TTTAAT
66 TTTCAT
* * * * * * **
23762767 TTTTTTACTTGTAGTTCAATTTCGATCGTCATTA-TCTTATGACTCATGGCTTAATCAC-AATCA
1 TTTCTGACTCGTAGTTCAATTTCGATCATCATTATTCTT-TGACTCATGGTTTAATCACTAGTTG
* *
23762830 TTTTTAT
65 GTTTCAT
* *
23762837 TTTCTAACTCGTAGTTCAATTTCGATCATCAATATTCTTTGACTCATGGTTTAA-CACTAGTTGG
1 TTTCTGACTCGTAGTTCAATTTCGATCATCATTATTCTTTGACTCATGGTTTAATCACTAGTTGG
23762901 TTTCAT
66 TTTCAT
* * * * * ** ** *
23762907 TTTTTGACTCATAGTTTAATTTTGATTATTTTTATTCTTTGACTCATAATTTAATC-TTAG-TGG
1 TTTCTGACTCGTAGTTCAATTTCGATCATCATTATTCTTTGACTCATGGTTTAATCACTAGTTGG
23762970 TTTTCAT
66 -TTTCAT
*
23762977 TTTCTGACTCGTAATTCAAT
1 TTTCTGACTCGTAGTTCAAT
23762997 CCTTGTTGTC
Statistics
Matches: 182, Mismatches: 42, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
69 11 0.06
70 166 0.91
71 5 0.03
ACGTcount: A:0.24, C:0.16, G:0.11, T:0.49
Consensus pattern (71 bp):
TTTCTGACTCGTAGTTCAATTTCGATCATCATTATTCTTTGACTCATGGTTTAATCACTAGTTGG
TTTCAT
Found at i:23762964 original size:19 final size:19
Alignment explanation
Indices: 23762909--23762964 Score: 55
Period size: 17 Copynumber: 3.1 Consensus size: 19
23762899 GGTTTCATTT
*
23762909 TTTGACTCATAGTTTAAT-
1 TTTGACTCATAATTTAATC
* * *
23762927 TTTGA-TTAT-TTTTATTC
1 TTTGACTCATAATTTAATC
23762944 TTTGACTCATAATTTAATC
1 TTTGACTCATAATTTAATC
23762963 TT
1 TT
23762965 AGTGGTTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
16 5 0.17
17 8 0.28
18 8 0.28
19 8 0.28
ACGTcount: A:0.25, C:0.11, G:0.07, T:0.57
Consensus pattern (19 bp):
TTTGACTCATAATTTAATC
Found at i:23762985 original size:35 final size:35
Alignment explanation
Indices: 23762901--23762997 Score: 90
Period size: 35 Copynumber: 2.7 Consensus size: 35
23762891 CACTAGTTGG
* * *
23762901 TTTCATTTTTTGACTCATAGTTTAAT-TTTGATTAT
1 TTTCA-TTTTTGACTCATAATTTAATCTTAGATGAT
* *
23762936 TTTTATTCTTTGACTCATAATTTAATCTTAG-TGGT
1 TTTCATT-TTTGACTCATAATTTAATCTTAGATGAT
* *
23762971 TTTCATTTTCTGACTCGTAATTCAATC
1 TTTCATTTT-TGACTCATAATTTAATC
23762998 CTTGTTGTCT
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
34 4 0.08
35 44 0.86
36 3 0.06
ACGTcount: A:0.23, C:0.13, G:0.09, T:0.55
Consensus pattern (35 bp):
TTTCATTTTTGACTCATAATTTAATCTTAGATGAT
Found at i:23763203 original size:70 final size:70
Alignment explanation
Indices: 23763122--23763413 Score: 270
Period size: 70 Copynumber: 4.2 Consensus size: 70
23763112 TTAATTTCTA
* * * * **
23763122 ACTCATGGTTCAAATTT-GGTCAACATTATTTTTTAACTCGTGGTTTAATTTTGGTCATTTTTAT
1 ACTCATGGTTC-AATTTCAGTCATCATTATTCTTTAACTCGTGATTTAATCCTGGTCATTTTTAT
23763186 TTTTTG
65 TTTTTG
* * * *
23763192 ACTCATAGTTCAATTTCAGT-ATCATTA-TCCTTAACTCGTGGTTTAATCCTAGTCATTTTTATT
1 ACTCATGGTTCAATTTCAGTCATCATTATTCTTTAACTCGTGATTTAATCCTGGTCATTTTTATT
*
23763255 TTCTG
66 TTTTG
** * * * * * * * *
23763260 ACTTGTGGTTCAGTTTTAGTCATCATTATCCTTTGATTCATGATTTAAT-CTCGATCATTTTCAT
1 ACTCATGGTTCAATTTCAGTCATCATTATTCTTTAACTCGTGATTTAATCCT-GGTCATTTTTAT
23763324 TTTTTG
65 TTTTTG
** * *
23763330 ACTCGCGGTTCAATTTC-GATCATCATTATTCTCTAACTTGTGATTTAATCCTGGTCATTTTTAT
1 ACTCATGGTTCAATTTCAG-TCATCATTATTCTTTAACTCGTGATTTAATCCTGGTCATTTTTA-
23763394 TTTTTTG
64 TTTTTTG
**
23763401 ACTTGTGGTTCAA
1 ACTCATGGTTCAA
23763414 CCCTTATTGC
Statistics
Matches: 177, Mismatches: 38, Indels: 13
0.78 0.17 0.06
Matches are distributed among these distances:
68 50 0.28
69 21 0.12
70 86 0.49
71 20 0.11
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.50
Consensus pattern (70 bp):
ACTCATGGTTCAATTTCAGTCATCATTATTCTTTAACTCGTGATTTAATCCTGGTCATTTTTATT
TTTTG
Found at i:23763207 original size:35 final size:35
Alignment explanation
Indices: 23763120--23763207 Score: 104
Period size: 35 Copynumber: 2.5 Consensus size: 35
23763110 CTTTAATTTC
*
23763120 TAACTCATGGTTCAAATTTGGTCAACATTATTTTT
1 TAACTCATGGTTCAATTTTGGTCAACATTATTTTT
* * ***
23763155 TAACTCGTGGTTTAATTTTGGTCATTTTTATTTTT
1 TAACTCATGGTTCAATTTTGGTCAACATTATTTTT
* *
23763190 TGACTCATAGTTCAATTT
1 TAACTCATGGTTCAATTT
23763208 CAGTATCATT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.51
Consensus pattern (35 bp):
TAACTCATGGTTCAATTTTGGTCAACATTATTTTT
Found at i:23763233 original size:68 final size:69
Alignment explanation
Indices: 23763154--23763413 Score: 274
Period size: 70 Copynumber: 3.7 Consensus size: 69
23763144 ACATTATTTT
* ** * *
23763154 TTAACTCGTGGTTTAATTTTGGTCATTTTTATTTTTTGACTCATAGTTCAATTTCAGT-ATCATT
1 TTAACTCGTGATTTAATCCTGGTCATTTTTATTTTTTGACTCGTGGTTCAATTTCAGTCATCATT
23763218 ATCC
66 ATCC
* * * * * *
23763222 TTAACTCGTGGTTTAATCCTAGTCATTTTTATTTTCTGACTTGTGGTTCAGTTTTAGTCATCATT
1 TTAACTCGTGATTTAATCCTGGTCATTTTTATTTTTTGACTCGTGGTTCAATTTCAGTCATCATT
23763287 ATCC
66 ATCC
* * * * * *
23763291 TTTGATTCATGATTTAAT-CTCGATCATTTTCATTTTTTGACTCGCGGTTCAATTTC-GATCATC
1 -TTAACTCGTGATTTAATCCT-GGTCATTTTTATTTTTTGACTCGTGGTTCAATTTCAG-TCATC
*
23763354 ATTATTC
63 ATTATCC
* *
23763361 TCTAACTTGTGATTTAATCCTGGTCATTTTTATTTTTTTGACTTGTGGTTCAA
1 T-TAACTCGTGATTTAATCCTGGTCATTTTTA-TTTTTTGACTCGTGGTTCAA
23763414 CCCTTATTGC
Statistics
Matches: 155, Mismatches: 30, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
68 49 0.32
69 14 0.09
70 72 0.46
71 20 0.13
ACGTcount: A:0.20, C:0.16, G:0.13, T:0.50
Consensus pattern (69 bp):
TTAACTCGTGATTTAATCCTGGTCATTTTTATTTTTTGACTCGTGGTTCAATTTCAGTCATCATT
ATCC
Found at i:23763287 original size:138 final size:141
Alignment explanation
Indices: 23763140--23763412 Score: 338
Period size: 138 Copynumber: 2.0 Consensus size: 141
23763130 TTCAAATTTG
** * * * * * * *
23763140 GTCAACATTATTTTTTAACTCGTGGTTTAATTTTGGTCATTTTTATTTTTTGACTCATAGTTCAA
1 GTCAACATTATCCTTTAACTCATGATTTAATCTCGATCATTTTCATTTTTTGACTCACAGTTCAA
*
23763205 TTTC-AGT-ATCATTATCCT-TAACTCGTGGTTTAATCCTAGTCATTTTTA-TTTTCTGACTTGT
66 TTTCGA-TCATCATTATCCTCTAACTCGTGATTTAATCCTAGTCATTTTTATTTTTCTGACTTGT
23763266 GGTTCAGTTTTA
130 GGTTCAGTTTTA
* * * * *
23763278 GTCATCATTATCCTTTGATTCATGATTTAATCTCGATCATTTTCATTTTTTGACTCGCGGTTCAA
1 GTCAACATTATCCTTTAACTCATGATTTAATCTCGATCATTTTCATTTTTTGACTCACAGTTCAA
* * * *
23763343 TTTCGATCATCATTATTCTCTAACTTGTGATTTAATCCTGGTCATTTTTATTTTTTTGACTTGTG
66 TTTCGATCATCATTATCCTCTAACTCGTGATTTAATCCTAGTCATTTTTATTTTTCTGACTTGTG
23763408 GTTCA
131 GTTCA
23763413 ACCCTTATTG
Statistics
Matches: 112, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
138 56 0.50
139 11 0.10
140 27 0.24
141 18 0.16
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.51
Consensus pattern (141 bp):
GTCAACATTATCCTTTAACTCATGATTTAATCTCGATCATTTTCATTTTTTGACTCACAGTTCAA
TTTCGATCATCATTATCCTCTAACTCGTGATTTAATCCTAGTCATTTTTATTTTTCTGACTTGTG
GTTCAGTTTTA
Found at i:23763567 original size:34 final size:33
Alignment explanation
Indices: 23763518--23763649 Score: 108
Period size: 34 Copynumber: 3.9 Consensus size: 33
23763508 CATAATTTAA
* *
23763518 TCTTGGTTATTTTTGACTTGTGGTTTAATCCTTG
1 TCTT-GTTATTTTTGACTTGTGGTTTAATCATGG
** *
23763552 TCTTGTTATTCTTTGACTCATGGTTCAATCATGG
1 TCTTGTTATT-TTTGACTTGTGGTTTAATCATGG
23763586 TCTCT-TTATTTTCTGACTTGTGGTTTAATC-T-G
1 TCT-TGTTATTTT-TGACTTGTGGTTTAATCATGG
* * *
23763618 TCATTTTTATGTTTCTAACTCGTGGTTTAATC
1 TC-TTGTTAT-TTT-TGACTTGTGGTTTAATC
23763650 CCTATCGTTT
Statistics
Matches: 82, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
32 4 0.05
33 14 0.17
34 63 0.77
35 1 0.01
ACGTcount: A:0.15, C:0.15, G:0.17, T:0.53
Consensus pattern (33 bp):
TCTTGTTATTTTTGACTTGTGGTTTAATCATGG
Found at i:23763753 original size:5 final size:6
Alignment explanation
Indices: 23763734--23763776 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
23763724 AAAAAAGTAC
* *
23763734 AAACAA AAACAA AAACAA AAAC-A AAACAA AAAAAA AAAGAA AA
1 AAACAA AAACAA AAACAA AAACAA AAACAA AAACAA AAACAA AA
23763777 GAGAGAAGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (6 bp):
AAACAA
Found at i:23764710 original size:145 final size:142
Alignment explanation
Indices: 23764253--23764725 Score: 457
Period size: 144 Copynumber: 3.3 Consensus size: 142
23764243 CAAATTTTTG
* * **
23764253 TGAAACTTTTTAAATTTTAATTTTATAATATTTCATGA-TTTTGGTGCATTTAAAATCACAATAG
1 TGAAACTTTTCAAATCTTAATTTTATAATATTTCATGATTTTTGGTGCATTTAAAATCACAGCAG
* *
23764317 TACCTCGAAAA-A--AAATTACCAAAATACCCTTCT-AGAGGT-TATTTTGTAATTTCGCTTTTT
66 TACCT-GAAAAGATGAAATTACCAAAATACCCTTCTAAGA-GTAT-TTTTGTAATTTAG-TTTTC
* *
23764377 TGAG-TTCATATTGTT-G
127 TGAGCTT-AGATT-TTCA
* * * * *
23764393 TGAAACTTTTCAAATTTTAATTTTGTAACATTTCATGATTTTTGGTG-AGTTTGAAACCACAGCA
1 TGAAACTTTTCAAATCTTAATTTTATAATATTTCATGATTTTTGGTGCA-TTTAAAATCACAGCA
* * * * *
23764457 GTACACCGGAAAGGATGAAATTACCAAAATACCC--CTAAGTGGTATTTTAGTAATTTAGCCTTT
65 GT--ACCTGAAAAGATGAAATTACCAAAATACCCTTCTAAG-AGTATTTTTGTAATTTAG-TTTT
* *
23764520 CTAAGCTT-GAAATTTCA
126 CTGAGCTTAG-ATTTTCA
* * * * *
23764537 TGATACTTTTCATATCTTAATTTCATAATATTTCATTATTTTTGGTGCATCTAAAATCACAGCAG
1 TGAAACTTTTCAAATCTTAATTTTATAATATTTCATGATTTTTGGTGCATTTAAAATCACAGCAG
* * *
23764602 TACTCTGAAAAGTATGAAATTATCAAAATACCCTTATAAGAGTATTTTTGTAATTTAGTATTTCG
66 TAC-CTGAAAAG-ATGAAATTACCAAAATACCCTTCTAAGAGTATTTTTGTAATTTAGT-TTTCT
23764667 GAGCTTAGATTTTCA
128 GAGCTTAGATTTTCA
* *
23764682 CGAAACTTTTCAAATCTTAATTTTATAATATTTCATTATTTTTG
1 TGAAACTTTTCAAATCTTAATTTTATAATATTTCATGATTTTTG
23764726 ATATTTTAAA
Statistics
Matches: 271, Mismatches: 42, Indels: 35
0.78 0.12 0.10
Matches are distributed among these distances:
140 36 0.13
141 21 0.08
142 6 0.02
143 14 0.05
144 97 0.36
145 92 0.34
146 5 0.02
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (142 bp):
TGAAACTTTTCAAATCTTAATTTTATAATATTTCATGATTTTTGGTGCATTTAAAATCACAGCAG
TACCTGAAAAGATGAAATTACCAAAATACCCTTCTAAGAGTATTTTTGTAATTTAGTTTTCTGAG
CTTAGATTTTCA
Found at i:23766088 original size:16 final size:16
Alignment explanation
Indices: 23766067--23766097 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23766057 ATATAAAGAT
*
23766067 TAAAGTTTGTTTTTAA
1 TAAAGTTTATTTTTAA
23766083 TAAAGTTTATTTTTA
1 TAAAGTTTATTTTTA
23766098 TGTTTATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (16 bp):
TAAAGTTTATTTTTAA
Found at i:23771523 original size:59 final size:58
Alignment explanation
Indices: 23771460--23771590 Score: 149
Period size: 59 Copynumber: 2.2 Consensus size: 58
23771450 ACCAAAACCT
* *
23771460 AAATAAATTTCGATAAACATAA-AACCAACAAAAACTCAATAAATTGGTAACCAAAGTCC
1 AAATAAATTTCAAT-AA-ATAATAACCAACAAAAACTCAACAAATTGGTAACCAAAGTCC
* * * *
23771519 AAATAAATTTTAATAAATAATTAACTAACAAAAACTCAACATATTGGTAACCAAA-ACC
1 AAATAAATTTCAATAAATAA-TAACCAACAAAAACTCAACAAATTGGTAACCAAAGTCC
*
23771577 TAAACAAATTTCAA
1 -AAATAAATTTCAA
23771591 CAAACTTATA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
57 4 0.07
58 4 0.07
59 53 0.87
ACGTcount: A:0.55, C:0.17, G:0.05, T:0.24
Consensus pattern (58 bp):
AAATAAATTTCAATAAATAATAACCAACAAAAACTCAACAAATTGGTAACCAAAGTCC
Found at i:23773829 original size:17 final size:18
Alignment explanation
Indices: 23773794--23773837 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
23773784 TTGAAATTTT
*
23773794 TTTATTATCTTTTTATTA
1 TTTATTTTCTTTTTATTA
*
23773812 TTTATTTTC-TTTTGTTA
1 TTTATTTTCTTTTTATTA
23773829 TTTAGTTTT
1 TTTA-TTTT
23773838 ATTCAAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.75
Consensus pattern (18 bp):
TTTATTTTCTTTTTATTA
Found at i:23774943 original size:22 final size:21
Alignment explanation
Indices: 23774884--23774950 Score: 57
Period size: 22 Copynumber: 3.2 Consensus size: 21
23774874 TGGATAGTTA
*
23774884 TTTT-TGTGGGTTCTCTCATT
1 TTTTATGTGGGTTCTTTCATT
** *
23774904 TTTTATAG-GTTTTTTTTCATT
1 TTTTAT-GTGGGTTCTTTCATT
*
23774925 TTTATATGTGGGTTCTTTCATC
1 TTT-TATGTGGGTTCTTTCATT
23774947 TTTT
1 TTTT
23774951 CTTGCAAGAA
Statistics
Matches: 35, Mismatches: 8, Indels: 7
0.70 0.16 0.14
Matches are distributed among these distances:
20 4 0.11
21 15 0.43
22 16 0.46
ACGTcount: A:0.10, C:0.10, G:0.15, T:0.64
Consensus pattern (21 bp):
TTTTATGTGGGTTCTTTCATT
Found at i:23786685 original size:18 final size:17
Alignment explanation
Indices: 23786658--23786691 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
23786648 GTATGTGAAA
*
23786658 TTTTTTTTTTTTATTTG
1 TTTTTTTTTTTGATTTG
23786675 TTTTTTATTTTTGATTT
1 TTTTTT-TTTTTGATTT
23786692 TTGATTAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.85
Consensus pattern (17 bp):
TTTTTTTTTTTGATTTG
Found at i:23787903 original size:22 final size:22
Alignment explanation
Indices: 23787878--23787925 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
23787868 TTACAAATTT
*
23787878 TTTTTATTATTTTTATTAATAA
1 TTTTTACTATTTTTATTAATAA
**
23787900 TTTTTACTATTTTTATTTTTAA
1 TTTTTACTATTTTTATTAATAA
23787922 TTTT
1 TTTT
23787926 AAAATTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTTTACTATTTTTATTAATAA
Found at i:23788190 original size:22 final size:21
Alignment explanation
Indices: 23788165--23788228 Score: 51
Period size: 22 Copynumber: 3.1 Consensus size: 21
23788155 AATTTTAATG
**
23788165 ATAAAATTTTAAAATAACAAAA
1 ATAAAATTAAAAAATAA-AAAA
* *
23788187 ATAATATTAAAAAATAAATAA
1 ATAAAATTAAAAAATAAAAAA
* *
23788208 AT-AAATTCAAAGA-AAAAAA
1 ATAAAATTAAAAAATAAAAAA
23788227 AT
1 AT
23788229 TTTTTTACCT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
19 7 0.21
20 8 0.24
21 5 0.15
22 14 0.41
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (21 bp):
ATAAAATTAAAAAATAAAAAA
Found at i:23789311 original size:3 final size:3
Alignment explanation
Indices: 23789305--23789349 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
23789295 GAAAAAAAAG
23789305 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23789350 AATGGGTGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:23789728 original size:2 final size:2
Alignment explanation
Indices: 23789682--23789715 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
23789672 TTCATGCTTT
23789682 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23789716 AAATTTTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23794956 original size:27 final size:27
Alignment explanation
Indices: 23794913--23794968 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
23794903 ATGAATCAGC
* *
23794913 TACTAGCCATAACAGTGAGACCTACCT
1 TACTAGCCACAACAGTGAAACCTACCT
* *
23794940 TACTAGCCACAATAGTGAAACTTACCT
1 TACTAGCCACAACAGTGAAACCTACCT
23794967 TA
1 TA
23794969 TCTTGATCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (27 bp):
TACTAGCCACAACAGTGAAACCTACCT
Found at i:23801263 original size:15 final size:15
Alignment explanation
Indices: 23801243--23801276 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
23801233 GATATTGATT
23801243 TTAAGTGGATCATCA
1 TTAAGTGGATCATCA
*
23801258 TTAAGTGGATCTTCA
1 TTAAGTGGATCATCA
23801273 TTAA
1 TTAA
23801277 TGCCTCAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (15 bp):
TTAAGTGGATCATCA
Found at i:23802587 original size:30 final size:30
Alignment explanation
Indices: 23802553--23802647 Score: 100
Period size: 30 Copynumber: 3.2 Consensus size: 30
23802543 CTACAATAGT
*
23802553 AATGGTTACACCACAAGCAATTACAAAAAC
1 AATGGTTACACCACAAGCAATTACAACAAC
* * * * *
23802583 AATGGCTATACCACCAGTAATTACAACAAT
1 AATGGTTACACCACAAGCAATTACAACAAC
* * * *
23802613 AATGGTTACACTACAAACAAGTACAACAGC
1 AATGGTTACACCACAAGCAATTACAACAAC
23802643 AATGG
1 AATGG
23802648 CTATAGTAGC
Statistics
Matches: 50, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.46, C:0.22, G:0.13, T:0.19
Consensus pattern (30 bp):
AATGGTTACACCACAAGCAATTACAACAAC
Found at i:23804280 original size:14 final size:15
Alignment explanation
Indices: 23804263--23804291 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
23804253 TGTTTTTTGT
23804263 TTTAGGAA-AGAGAG
1 TTTAGGAAGAGAGAG
23804277 TTTAGGAAGAGAGAG
1 TTTAGGAAGAGAGAG
23804292 GAGAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.41, C:0.00, G:0.38, T:0.21
Consensus pattern (15 bp):
TTTAGGAAGAGAGAG
Found at i:23804450 original size:7 final size:7
Alignment explanation
Indices: 23804440--23804482 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
23804430 AAGTTTTTCC
23804440 TTTTCTA
1 TTTTCTA
23804447 TTTT-T-
1 TTTTCTA
*
23804452 TATT-TA
1 TTTTCTA
23804458 TTTTCTA
1 TTTTCTA
23804465 TTTTCTA
1 TTTTCTA
23804472 TTTTCTA
1 TTTTCTA
23804479 TTTT
1 TTTT
23804483 GATTTTGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 4 0.12
6 4 0.12
7 24 0.75
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTCTA
Found at i:23804463 original size:18 final size:18
Alignment explanation
Indices: 23804440--23804474 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
23804430 AAGTTTTTCC
*
23804440 TTTTCTATTTTTTATTTA
1 TTTTCTATTTTCTATTTA
23804458 TTTTCTATTTTCTATTT
1 TTTTCTATTTTCTATTT
23804475 TCTATTTTGA
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:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTCTATTTTCTATTTA
Found at i:23805354 original size:7 final size:8
Alignment explanation
Indices: 23805329--23805367 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
23805319 ATATATTTTC
*
23805329 AATATAAG
1 AATATAAA
23805337 AATATAAA
1 AATATAAA
23805345 AATA-AAA
1 AATATAAA
*
23805352 AATATGAA
1 AATATAAA
23805360 AATATAAA
1 AATATAAA
23805368 TAAAACACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (8 bp):
AATATAAA
Found at i:23805417 original size:17 final size:17
Alignment explanation
Indices: 23805390--23805447 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
23805380 AAAAATTTAA
23805390 AAAAATCAAATAAATAAT
1 AAAAAT-AAATAAATAAT
* *
23805408 AAAAATAAATCAATAGT
1 AAAAATAAATAAATAAT
** *
23805425 AAATTTAAAAAAATAA-
1 AAAAATAAATAAATAAT
23805441 AAAAATA
1 AAAAATA
23805448 CTAATTAGCT
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
16 5 0.16
17 20 0.65
18 6 0.19
ACGTcount: A:0.72, C:0.03, G:0.02, T:0.22
Consensus pattern (17 bp):
AAAAATAAATAAATAAT
Found at i:23806375 original size:28 final size:24
Alignment explanation
Indices: 23806304--23806363 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 24
23806294 ATTTTAAATA
*
23806304 TATTTTTAAAATTA-TATAT-ATT
1 TATTTTTAAAAATATTATATAATT
*
23806326 TATTTTTAAAAATGTTA-A-AATT
1 TATTTTTAAAAATATTATATAATT
23806348 TATTTTTATAAAATAT
1 TATTTTTA-AAAATAT
23806364 CATTATATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
22 24 0.75
23 8 0.25
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TATTTTTAAAAATATTATATAATT
Found at i:23808650 original size:49 final size:49
Alignment explanation
Indices: 23808595--23808692 Score: 153
Period size: 49 Copynumber: 2.0 Consensus size: 49
23808585 TTTTTTTCTT
* * *
23808595 AGAATTTGTATCCTAAGGATTATCTATGTGAA-TTTTTTCCTTGTATGTA
1 AGAATTTGTATCCTAAGGATTACCTATGTGAACTTTATT-CTTCTATGTA
23808644 AGAATTTGTATCCTAAGGATTACCTATGTGAACTTTATTCTTCTATGTA
1 AGAATTTGTATCCTAAGGATTACCTATGTGAACTTTATTCTTCTATGTA
23808693 TCGTCTTTCC
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
49 40 0.89
50 5 0.11
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (49 bp):
AGAATTTGTATCCTAAGGATTACCTATGTGAACTTTATTCTTCTATGTA
Found at i:23810611 original size:12 final size:12
Alignment explanation
Indices: 23810594--23810619 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23810584 TTGGCTGCTA
23810594 CATTTGTTAATG
1 CATTTGTTAATG
23810606 CATTTGTTAATG
1 CATTTGTTAATG
23810618 CA
1 CA
23810620 GGGTTTGGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (12 bp):
CATTTGTTAATG
Found at i:23811281 original size:2 final size:2
Alignment explanation
Indices: 23811274--23811299 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
23811264 CAGGTATACA
23811274 TC 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
23811300 CCCCCTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:23817317 original size:36 final size:36
Alignment explanation
Indices: 23817270--23817342 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
23817260 TACTTTTTTC
23817270 ATCAAATAACAGAATCTCAAACTTAGGCATAGACAT
1 ATCAAATAACAGAATCTCAAACTTAGGCATAGACAT
23817306 ATCAAATAACAGAATCTCAAACTTAGGCATAGACAT
1 ATCAAATAACAGAATCTCAAACTTAGGCATAGACAT
23817342 A
1 A
23817343 CTAGACATAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.48, C:0.19, G:0.11, T:0.22
Consensus pattern (36 bp):
ATCAAATAACAGAATCTCAAACTTAGGCATAGACAT
Found at i:23821773 original size:20 final size:19
Alignment explanation
Indices: 23821750--23821788 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
23821740 AAAAGTTTTC
23821750 AAAATCTAAAAAATTCAAAA
1 AAAATCTAAAAAATT-AAAA
* *
23821770 AAAATTTAAATAATTAAAA
1 AAAATCTAAAAAATTAAAA
23821789 TATAAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAATCTAAAAAATTAAAA
Found at i:23821778 original size:38 final size:38
Alignment explanation
Indices: 23821680--23821779 Score: 103
Period size: 38 Copynumber: 2.6 Consensus size: 38
23821670 CATAAAAAAG
* ** *
23821680 AAAAATTCAAAAAAAAATCTCAAAACTTTTTTAAAATTAC
1 AAAAATTC-AAAAAAAAT-TTAAAAAGTTTTCAAAATTAC
* * *
23821720 AAAATTTTAAAAAAATTTTAAAAAGTTTTCAAAATCTA-
1 AAAAATTCAAAAAAAATTTAAAAAGTTTTCAAAAT-TAC
23821758 AAAAATTCAAAAAAAATTTAAA
1 AAAAATTCAAAAAAAATTTAAA
23821780 TAATTAAAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
38 33 0.67
39 10 0.20
40 6 0.12
ACGTcount: A:0.60, C:0.08, G:0.01, T:0.31
Consensus pattern (38 bp):
AAAAATTCAAAAAAAATTTAAAAAGTTTTCAAAATTAC
Found at i:23821838 original size:9 final size:10
Alignment explanation
Indices: 23821817--23821873 Score: 53
Period size: 10 Copynumber: 5.5 Consensus size: 10
23821807 AAAATTTTTC
23821817 AAAATTATAA
1 AAAATTATAA
23821827 AAAATTATAA
1 AAAATTATAA
* *
23821837 AAAAATATTTA
1 AAAATTA-TAA
*
23821848 AAAATTCAAAA
1 AAAATT-ATAA
23821859 AATAATT-TAA
1 AA-AATTATAA
23821869 AAAAT
1 AAAAT
23821874 CTAACAACTT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
9 3 0.08
10 20 0.53
11 10 0.26
12 5 0.13
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (10 bp):
AAAATTATAA
Found at i:23821841 original size:21 final size:21
Alignment explanation
Indices: 23821817--23821873 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 21
23821807 AAAATTTTTC
23821817 AAAATTATAAAAAATT-ATAAA
1 AAAATTATAAAAAATTCA-AAA
*
23821838 AAAA-TATTTAAAAATTCAAAA
1 AAAATTA-TAAAAAATTCAAAA
23821859 AATAATT-TAAAAAAT
1 AA-AATTATAAAAAAT
23821874 CTAACAACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
20 2 0.07
21 24 0.80
22 3 0.10
23 1 0.03
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAATTATAAAAAATTCAAAA
Found at i:23821850 original size:20 final size:20
Alignment explanation
Indices: 23821834--23821871 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23821824 TAAAAAATTA
23821834 TAAAAAAAT-ATTTAAAAAT
1 TAAAAAAATAATTTAAAAAT
*
23821853 TCAAAAAATAATTTAAAAA
1 TAAAAAAATAATTTAAAAA
23821872 ATCTAACAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (20 bp):
TAAAAAAATAATTTAAAAAT
Found at i:23821873 original size:31 final size:31
Alignment explanation
Indices: 23821806--23821872 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
23821796 TATAAAATGT
* * *
23821806 AAAAATTTTTCAAAATTATAAAAAATTATAA
1 AAAAATATTTAAAAATTAAAAAAAATTATAA
23821837 AAAAATATTTAAAAATTCAAAAAATAATT-TAA
1 AAAAATATTTAAAAATT-AAAAAA-AATTATAA
23821869 AAAA
1 AAAA
23821873 TCTAACAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 15 0.48
32 12 0.39
33 4 0.13
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (31 bp):
AAAAATATTTAAAAATTAAAAAAAATTATAA
Found at i:23821889 original size:70 final size:68
Alignment explanation
Indices: 23821729--23821914 Score: 173
Period size: 70 Copynumber: 2.7 Consensus size: 68
23821719 CAAAATTTTA
* * * * *
23821729 AAAAAATTTTAAAAAGTTTTCAAAA-TCTAAAAAATTCAAAAAAAATTTAAATAATTAAAATATA
1 AAAAAA-TCTAAAAACTTCTCAAAATTATAAAAAATTCAAAAAAAATTTAAATAATTAAAAAATA
23821793 AAAT
65 AAAT
* * * * *
23821797 ATAAAATGTAAAAATTTTTCAAAATTATAAAAAATTATAAAAAAATATTTAAA-AATTCAAAAAA
1 AAAAAATCTAAAAACTTCTCAAAATTATAAAAAATT-CAAAAAAA-ATTTAAATAATT-AAAAAA
**
23821861 TAATTT
63 TAAAAT
*
23821867 AAAAAATCTAACAACTTCTC-AAATTATCAAAAAA-TCAAAAAATAATTT
1 AAAAAATCTAAAAACTTCTCAAAATTAT-AAAAAATTCAAAAAA-AATTT
23821915 CAAAATATTT
Statistics
Matches: 98, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
67 16 0.16
68 25 0.26
69 20 0.20
70 37 0.38
ACGTcount: A:0.61, C:0.06, G:0.01, T:0.31
Consensus pattern (68 bp):
AAAAAATCTAAAAACTTCTCAAAATTATAAAAAATTCAAAAAAAATTTAAATAATTAAAAAATAA
AAT
Found at i:23821973 original size:20 final size:20
Alignment explanation
Indices: 23821944--23822003 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
23821934 TCAAACAAAT
23821944 AAAA-TTTAAAAATTTTGAA
1 AAAACTTTAAAAATTTTGAA
*
23821963 AAAACTTTAAAAATTCT--A
1 AAAACTTTAAAAATTTTGAA
*
23821981 AAAACTTCTAAAACATTTAGAA
1 AAAACTT-TAAAA-ATTTTGAA
23822003 A
1 A
23822004 TTTTAAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
18 8 0.24
19 9 0.27
20 14 0.42
22 2 0.06
ACGTcount: A:0.57, C:0.08, G:0.03, T:0.32
Consensus pattern (20 bp):
AAAACTTTAAAAATTTTGAA
Found at i:23821975 original size:28 final size:27
Alignment explanation
Indices: 23821944--23822117 Score: 120
Period size: 28 Copynumber: 6.2 Consensus size: 27
23821934 TCAAACAAAT
23821944 AAAATT-TAAAAATTTTGAAAAAACTTTA
1 AAAATTCTAAAAATTTT-AAAAAA-TTTA
* *
23821972 AAAATTCTAAAAACTTCTAAAACATTTA
1 AAAATTCTAAAAA-TTTTAAAAAATTTA
* * * *
23822000 GAAATT-TTAAAATTCTAAAAAATCTAA
1 AAAATTCTAAAAATTTTAAAAAAT-TTA
*
23822027 AAAACTTCTAAAGACTTTTAAAAAATTATA
1 AAAA-TTCTAAA-AATTTTAAAAAATT-TA
* *
23822057 AAAGTTTTAAAAAGTTTT-AAAAATTCTA
1 AAAATTCTAAAAA-TTTTAAAAAATT-TA
* * * *
23822085 AAAATTATACAAAATTTAAAAAAAATAA
1 AAAATTCTA-AAAATTTTAAAAAATTTA
23822113 AAAAT
1 AAAAT
23822118 AATTAAGGAA
Statistics
Matches: 116, Mismatches: 20, Indels: 20
0.74 0.13 0.13
Matches are distributed among these distances:
26 10 0.09
27 10 0.09
28 43 0.37
29 35 0.30
30 18 0.16
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (27 bp):
AAAATTCTAAAAATTTTAAAAAATTTA
Found at i:23821984 original size:10 final size:10
Alignment explanation
Indices: 23821971--23822107 Score: 76
Period size: 10 Copynumber: 14.5 Consensus size: 10
23821961 AAAAAACTTT
23821971 AAAAATTCTA
1 AAAAATTCTA
*
23821981 AAAACTTCTA
1 AAAAATTCTA
*
23821991 AAACATT-T-
1 AAAAATTCTA
*
23821999 AGAAATT-T-
1 AAAAATTCTA
*
23822007 TAAAATTCTA
1 AAAAATTCTA
23822017 AAAAA-TCTA
1 AAAAATTCTA
23822026 AAAAACTTCTA
1 AAAAA-TTCTA
* * *
23822037 AAGACTTTTA
1 AAAAATTCTA
*
23822047 AAAAATTAT-
1 AAAAATTCTA
* *
23822056 AAAAGTTTTA
1 AAAAATTCTA
* *
23822066 AAAAGTT-TT
1 AAAAATTCTA
23822075 AAAAATTCT-
1 AAAAATTCTA
*
23822084 AAAAATTATA
1 AAAAATTCTA
*
23822094 CAAAATT-TA
1 AAAAATTCTA
23822103 AAAAA
1 AAAAA
23822108 AATAAAAAAT
Statistics
Matches: 99, Mismatches: 21, Indels: 15
0.73 0.16 0.11
Matches are distributed among these distances:
8 11 0.11
9 39 0.39
10 42 0.42
11 7 0.07
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (10 bp):
AAAAATTCTA
Found at i:23822107 original size:9 final size:9
Alignment explanation
Indices: 23821944--23822117 Score: 86
Period size: 9 Copynumber: 18.6 Consensus size: 9
23821934 TCAAACAAAT
23821944 AAAATTTAA
1 AAAATTTAA
*
23821953 AAATTTTGAA
1 AAAATTT-AA
23821963 AAAACTTT-A
1 AAAA-TTTAA
23821972 AAAATTCTAA
1 AAAATT-TAA
*
23821982 AAACTTCTAA
1 AAAATT-TAA
*
23821992 AACATTT-A
1 AAAATTTAA
* *
23822000 GAAATTT-T
1 AAAATTTAA
23822008 AAAATTCTAA
1 AAAATT-TAA
*
23822018 AAAATCTAA
1 AAAATTTAA
23822027 AAAACTTCTAA
1 AAAA-TT-TAA
**
23822038 AGACTTTTAA
1 A-AAATTTAA
23822048 AAAATTATAA
1 AAAATT-TAA
**
23822058 AAGTTTTAA
1 AAAATTTAA
* *
23822067 AAAGTTTTA
1 AAAATTTAA
23822076 AAAATTCT-A
1 AAAATT-TAA
*
23822085 AAAATTATAC
1 AAAATT-TAA
23822095 AAAATTTAA
1 AAAATTTAA
**
23822104 AAAAAATAA
1 AAAATTTAA
23822113 AAAAT
1 AAAAT
23822118 AATTAAGGAA
Statistics
Matches: 125, Mismatches: 28, Indels: 24
0.71 0.16 0.14
Matches are distributed among these distances:
8 13 0.10
9 59 0.47
10 43 0.34
11 9 0.07
12 1 0.01
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (9 bp):
AAAATTTAA
Found at i:23822107 original size:19 final size:18
Alignment explanation
Indices: 23821944--23822107 Score: 77
Period size: 19 Copynumber: 8.7 Consensus size: 18
23821934 TCAAACAAAT
*
23821944 AAAATTT-AAAAATTTTGAA
1 AAAATTTAAAAAATTAT--A
*
23821963 AAAACTTT-AAAAATTCTA
1 AAAA-TTTAAAAAATTATA
*
23821981 AAAACTTCTAAAACATT-TA
1 AAAA-TT-TAAAAAATTATA
* * *
23822000 GAAATTT-TAAAATTCTAA
1 AAAATTTAAAAAATTAT-A
* *
23822018 AAAATCTAAAAAACTTCTA
1 AAAATTTAAAAAA-TTATA
*
23822037 AAGACTTTTAAAAAATTATA
1 AA-A-ATTTAAAAAATTATA
* * *
23822057 AAAGTTTTAAAAAGTTTTA
1 AAA-ATTTAAAAAATTATA
23822076 AAAATTCT-AAAAATTATA
1 AAAATT-TAAAAAATTATA
23822094 CAAAATTTAAAAAA
1 -AAAATTTAAAAAA
23822108 AATAAAAAAT
Statistics
Matches: 116, Mismatches: 17, Indels: 24
0.74 0.11 0.15
Matches are distributed among these distances:
16 5 0.04
17 2 0.02
18 27 0.23
19 46 0.40
20 28 0.24
21 8 0.07
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.34
Consensus pattern (18 bp):
AAAATTTAAAAAATTATA
Found at i:23822190 original size:17 final size:17
Alignment explanation
Indices: 23822168--23822205 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
23822158 TTTTTAAAAA
*
23822168 TTTTATAGAATTGT-ATT
1 TTTTATAAAATT-TAATT
23822185 TTTTATAAAATTTAATT
1 TTTTATAAAATTTAATT
23822202 TTTT
1 TTTT
23822206 TTATTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (17 bp):
TTTTATAAAATTTAATT
Found at i:23822273 original size:18 final size:17
Alignment explanation
Indices: 23822210--23822273 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 17
23822200 TTTTTTTTAT
23822210 TTTA-AAAATTTTTAGAA
1 TTTATAAAATTTTTA-AA
23822227 TTCT-TAAAATTTTTGAAA
1 TT-TATAAAATTTTT-AAA
*
23822245 -TTATGATAATTTTTATAA
1 TTTAT-AAAATTTTTA-AA
23822263 TTTATAAAATT
1 TTTATAAAATT
23822274 ATTTCACATT
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
16 1 0.03
17 5 0.13
18 27 0.71
19 5 0.13
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (17 bp):
TTTATAAAATTTTTAAA
Found at i:23822446 original size:9 final size:9
Alignment explanation
Indices: 23822426--23822507 Score: 58
Period size: 9 Copynumber: 8.6 Consensus size: 9
23822416 GAGAATTTTT
23822426 TTTTTAGCAA
1 TTTTTAG-AA
23822436 TTTTTAGAA
1 TTTTTAGAA
23822445 TTTTTTA-AA
1 -TTTTTAGAA
*
23822454 GTTTTTAAAA
1 -TTTTTAGAA
*
23822464 TTTTTGGAA
1 TTTTTAGAA
*
23822473 TTTTTGAAAA
1 TTTTT-AGAA
*
23822483 TTTTATTAAAA
1 -TTT-TTAGAA
*
23822494 ATTTTAGAA
1 TTTTTAGAA
23822503 TTTTT
1 TTTTT
23822508 TTTACAAGTT
Statistics
Matches: 59, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
9 31 0.53
10 19 0.32
11 7 0.12
12 2 0.03
ACGTcount: A:0.34, C:0.01, G:0.09, T:0.56
Consensus pattern (9 bp):
TTTTTAGAA
Found at i:23822545 original size:17 final size:18
Alignment explanation
Indices: 23822507--23822562 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 18
23822497 TTAGAATTTT
**
23822507 TTTTACAAGTTTTTTATTA
1 TTTTACAAG-TTTTTAAAA
*
23822526 TTTTAGAA-TTTTTAAAA
1 TTTTACAAGTTTTTAAAA
*
23822543 TTTTACAAGTTTTTGAAA
1 TTTTACAAGTTTTTAAAA
23822561 TT
1 TT
23822563 AAATTTTTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 14 0.45
18 10 0.32
19 7 0.23
ACGTcount: A:0.32, C:0.04, G:0.07, T:0.57
Consensus pattern (18 bp):
TTTTACAAGTTTTTAAAA
Found at i:23822610 original size:20 final size:20
Alignment explanation
Indices: 23822587--23822661 Score: 141
Period size: 20 Copynumber: 3.8 Consensus size: 20
23822577 ATTTAAAAAA
*
23822587 TTTTAAAAAAATTTTATATT
1 TTTTAAAAATATTTTATATT
23822607 TTTTAAAAATATTTTATATT
1 TTTTAAAAATATTTTATATT
23822627 TTTTAAAAATATTTTATATT
1 TTTTAAAAATATTTTATATT
23822647 TTTTAAAAATATTTT
1 TTTTAAAAATATTTT
23822662 CAAATTGTTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTAAAAATATTTTATATT
Found at i:23822753 original size:18 final size:18
Alignment explanation
Indices: 23822710--23822752 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
23822700 TTGTTAAAGT
23822710 TTTTAAAATTTTTAGAAA
1 TTTTAAAATTTTTAGAAA
* *
23822728 ATGTAAAATTTTTAG-AA
1 TTTTAAAATTTTTAGAAA
23822745 TTTTAAAA
1 TTTTAAAA
23822753 AAAATTTTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (18 bp):
TTTTAAAATTTTTAGAAA
Found at i:23822755 original size:27 final size:27
Alignment explanation
Indices: 23822704--23822755 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
23822694 AATTTTTTGT
* * *
23822704 TAAAGTTTTTAAAATTTTTAGAAAATG
1 TAAAATTTTTAAAATTTTAAAAAAATG
*
23822731 TAAAATTTTTAGAATTTTAAAAAAA
1 TAAAATTTTTAAAATTTTAAAAAAA
23822756 ATTTTAGTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (27 bp):
TAAAATTTTTAAAATTTTAAAAAAATG
Found at i:23822760 original size:20 final size:20
Alignment explanation
Indices: 23822732--23822809 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 20
23822722 TAGAAAATGT
*
23822732 AAAATTTTTAGAATTTTAAA
1 AAAAATTTTAGAATTTTAAA
** *
23822752 AAAAATTTTAGTAAAATTATA
1 AAAAATTTTAG-AATTTTAAA
* * *
23822773 AAAAATGTTAAAATTTTTAA
1 AAAAATTTTAGAATTTTAAA
* *
23822793 AAAACTTTTATAATTTT
1 AAAAATTTTAGAATTTT
23822810 TTTATAATTT
Statistics
Matches: 44, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
20 29 0.66
21 15 0.34
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (20 bp):
AAAAATTTTAGAATTTTAAA
Found at i:23822812 original size:11 final size:11
Alignment explanation
Indices: 23822798--23822834 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
23822788 TTTAAAAAAC
23822798 TTTTATAATTT
1 TTTTATAATTT
23822809 TTTTATAATTT
1 TTTTATAATTT
23822820 TTTTGA-AATTT
1 TTTT-ATAATTT
23822831 TTTT
1 TTTT
23822835 TTTTATGCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 24 0.96
12 1 0.04
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:23825719 original size:2 final size:2
Alignment explanation
Indices: 23825712--23825834 Score: 67
Period size: 2 Copynumber: 63.5 Consensus size: 2
23825702 AACATTTTCA
* * * * *
23825712 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AC AC AC AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
23825754 AT AT AT AT CAT CT AT -T AT CT AA AT -T TT TT A- 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
* * * * *
23825794 AT AT AT AT AC AC AT AT AT -T AT CT AT -T AT CT AT TT 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
23825834 A
1 A
23825835 AAAGTGTGAA
Statistics
Matches: 98, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
1 5 0.05
2 91 0.93
3 2 0.02
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:23828974 original size:121 final size:121
Alignment explanation
Indices: 23828838--23829062 Score: 330
Period size: 121 Copynumber: 1.9 Consensus size: 121
23828828 ATAGAGAAGA
* * *
23828838 TGATTGGTATCAAAATATAAAAAA-GATCATTTTGGATGATGATAATACGAATGAAGTAACAATT
1 TGATTAGTATCAAAATATAAAAAATG-TCATTTTGAATGATGATAATAAGAATGAAGTAACAATT
*
23828902 AAAAATATA-CAATCTTTTCATTTTAATAG-AAGAAATTTTTGGTTCAAATGGAAAATT
65 AAAAATATATC-ATCTTTTCA-TTTAATAGAAAAAAATTTTTGGTTCAAATGGAAAATT
* *
23828959 TGATTAGTATCAAAATATAAAAAATGTCATTTTGAATGATGGTAATAATAATGAAGTAACAATTA
1 TGATTAGTATCAAAATATAAAAAATGTCATTTTGAATGATGATAATAAGAATGAAGTAACAATTA
* *
23829024 AAAATATATCATTTTTTCATTTAGTAGAAAAAAATTTTT
66 AAAATATATCATCTTTTCATTTAATAGAAAAAAATTTTT
23829063 TTATGAAAAA
Statistics
Matches: 93, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
120 7 0.08
121 84 0.90
122 2 0.02
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.36
Consensus pattern (121 bp):
TGATTAGTATCAAAATATAAAAAATGTCATTTTGAATGATGATAATAAGAATGAAGTAACAATTA
AAAATATATCATCTTTTCATTTAATAGAAAAAAATTTTTGGTTCAAATGGAAAATT
Found at i:23829914 original size:22 final size:22
Alignment explanation
Indices: 23829875--23830350 Score: 93
Period size: 22 Copynumber: 21.9 Consensus size: 22
23829865 TAGTAATCAT
* * *
23829875 TGATAATTTAGTAATAAATTAA
1 TGATAACTTAATAGTAAATTAA
*
23829897 TGATAACTTAATAGTAAATAAA
1 TGATAACTTAATAGTAAATTAA
* * * *
23829919 TAATAATTTAGTAATAAA-TAA
1 TGATAACTTAATAGTAAATTAA
** *
23829940 TTGATAACTTTTTAGTAAATTAG
1 -TGATAACTTAATAGTAAATTAA
* * * * **
23829963 TAATAA-TATAACAATATATGCA
1 TGATAACT-TAATAGTAAATTAA
* * *
23829985 TAATACCTTAAT-GATAAATCAA
1 TGATAACTTAATAG-TAAATTAA
* * *
23830007 TTATAA-TGTAGTTGTAAA-TACA
1 TGATAACT-TAATAGTAAATTA-A
** * *
23830029 AAATAACATAATACTAAATTAA
1 TGATAACTTAATAGTAAATTAA
* * * * *
23830051 GGATAACTTAA-CGAAAAAATAGG
1 TGATAACTTAATAG-TAAATTA-A
* *
23830074 TGATAACTTAATAGTTAATTAT
1 TGATAACTTAATAGTAAATTAA
* * * *
23830096 TGATAACATAGTAATAAATCAA
1 TGATAACTTAATAGTAAATTAA
* *
23830118 TGATAAGTTAATAATAAATTAA
1 TGATAACTTAATAGTAAATTAA
** * * *
23830140 AAATAATTTAATAGTAAATCAG
1 TGATAACTTAATAGTAAATTAA
* **
23830162 T-TTCAGTTTAATAGT-AATTAA
1 TGAT-AACTTAATAGTAAATTAA
23830183 TTGATAA--T-A-A-TAAATT-A
1 -TGATAACTTAATAGTAAATTAA
* * *
23830200 TAAATAACTTAGTAGTAAATCAA
1 T-GATAACTTAATAGTAAATTAA
* * *
23830223 TGATAAATTAGTAGTAAA-CAA
1 TGATAACTTAATAGTAAATTAA
* * * *
23830244 TTGATAATTTAGTAGTTAATTAT
1 -TGATAACTTAATAGTAAATTAA
* * *
23830267 TGAAAACTTAAAAGTAAATCAA
1 TGATAACTTAATAGTAAATTAA
* * * *
23830289 T-ATAATTTAGTAATAAATTAT
1 TGATAACTTAATAGTAAATTAA
* * * * *
23830310 TGATAACATAATAATTAATCAG
1 TGATAACTTAATAGTAAATTAA
* *
23830332 TGATAATTTAATAATAAAT
1 TGATAACTTAATAGTAAAT
23830351 CATGTAATTT
Statistics
Matches: 318, Mismatches: 109, Indels: 54
0.66 0.23 0.11
Matches are distributed among these distances:
16 1 0.00
17 6 0.02
18 5 0.02
19 2 0.01
20 1 0.00
21 28 0.09
22 250 0.79
23 24 0.08
24 1 0.00
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (22 bp):
TGATAACTTAATAGTAAATTAA
Found at i:23829926 original size:44 final size:44
Alignment explanation
Indices: 23829877--23829969 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 44
23829867 GTAATCATTG
23829877 ATAATTTAGTAATAAATTAA-TGATAACTTAATAGTAAATAAATA
1 ATAATTTAGTAATAAA-TAATTGATAACTTAATAGTAAATAAATA
** * *
23829921 ATAATTTAGTAATAAATAATTGATAACTTTTTAGTAAATTAGTA
1 ATAATTTAGTAATAAATAATTGATAACTTAATAGTAAATAAATA
23829965 ATAAT
1 ATAAT
23829970 ATAACAATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 3 0.07
44 41 0.93
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.40
Consensus pattern (44 bp):
ATAATTTAGTAATAAATAATTGATAACTTAATAGTAAATAAATA
Found at i:23829933 original size:11 final size:11
Alignment explanation
Indices: 23829886--23829937 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
23829876 GATAATTTAG
23829886 TAATAAATTAA
1 TAATAAATTAA
* *
23829897 TGATAACTTAA
1 TAATAAATTAA
* *
23829908 TAGTAAATAAA
1 TAATAAATTAA
* *
23829919 TAATAATTTAG
1 TAATAAATTAA
23829930 TAATAAAT
1 TAATAAAT
23829938 AATTGATAAC
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.37
Consensus pattern (11 bp):
TAATAAATTAA
Found at i:23830134 original size:11 final size:11
Alignment explanation
Indices: 23830107--23830158 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
23830097 GATAACATAG
*
23830107 TAATAAATCAA
1 TAATAAATTAA
* *
23830118 TGATAAGTTAA
1 TAATAAATTAA
23830129 TAATAAATTAA
1 TAATAAATTAA
* *
23830140 AAATAATTTAA
1 TAATAAATTAA
*
23830151 TAGTAAAT
1 TAATAAAT
23830159 CAGTTTCAGT
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.35
Consensus pattern (11 bp):
TAATAAATTAA
Found at i:23830238 original size:61 final size:61
Alignment explanation
Indices: 23830126--23830251 Score: 146
Period size: 61 Copynumber: 2.1 Consensus size: 61
23830116 AATGATAAGT
* * * ** **
23830126 TAATAATAAATTAAAAATAATTTAATAGTAAATCAGTTTCAGTTTAATAGTAATTAATTGA
1 TAATAATAAATTAAAAATAACTTAATAGTAAATCAATATCAAATTAATAGTAAACAATTGA
* * *
23830187 TAATAATAAATTATAAATAACTTAGTAGTAAATCAATGAT-AAATTAGTAGTAAACAATTGA
1 TAATAATAAATTAAAAATAACTTAATAGTAAATCAAT-ATCAAATTAATAGTAAACAATTGA
23830248 TAAT
1 TAAT
23830252 TTAGTAGTTA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
61 53 0.98
62 1 0.02
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.37
Consensus pattern (61 bp):
TAATAATAAATTAAAAATAACTTAATAGTAAATCAATATCAAATTAATAGTAAACAATTGA
Found at i:23830308 original size:43 final size:44
Alignment explanation
Indices: 23830237--23830350 Score: 126
Period size: 43 Copynumber: 2.6 Consensus size: 44
23830227 AAATTAGTAG
* * *
23830237 TAAA-CAATTGATAATTTAGTAGTTAATTATTGAAAACTTAA-AA
1 TAAATCAA-TGATAATTTAGTAATAAATTATTGAAAACATAATAA
*
23830280 GTAAATCAAT-ATAATTTAGTAATAAATTATTGATAACATAATAA
1 -TAAATCAATGATAATTTAGTAATAAATTATTGAAAACATAATAA
* * *
23830324 TTAATCAGTGATAATTTAATAATAAAT
1 TAAATCAATGATAATTTAGTAATAAAT
23830351 CATGTAATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
43 34 0.57
44 23 0.38
45 3 0.05
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (44 bp):
TAAATCAATGATAATTTAGTAATAAATTATTGAAAACATAATAA
Found at i:23830351 original size:22 final size:21
Alignment explanation
Indices: 23830281--23830369 Score: 74
Period size: 22 Copynumber: 4.1 Consensus size: 21
23830271 AACTTAAAAG
*
23830281 TAAATCAAT-ATAATTTAGTAA
1 TAAATC-ATGATAATTTAATAA
* **
23830302 TAAATTATTGATAACATAATAA
1 TAAATCA-TGATAATTTAATAA
*
23830324 TTAATCAGTGATAATTTAATAA
1 TAAATCA-TGATAATTTAATAA
23830346 TAAATCATG-TAATTTCATATAA
1 TAAATCATGATAATTT-A-ATAA
23830368 TA
1 TA
23830370 TATGTAATAA
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
20 7 0.13
21 9 0.17
22 38 0.70
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (21 bp):
TAAATCATGATAATTTAATAA
Found at i:23830420 original size:19 final size:18
Alignment explanation
Indices: 23830397--23830438 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
23830387 GTGAATCATC
*
23830397 AATAATTTAGTGGTAAAT
1 AATAATTTAGTAGTAAAT
*
23830415 AGATAATTTTGTAGTAAAT
1 A-ATAATTTAGTAGTAAAT
23830434 AATAA
1 AATAA
23830439 AAAATTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.38
Consensus pattern (18 bp):
AATAATTTAGTAGTAAAT
Found at i:23830454 original size:22 final size:20
Alignment explanation
Indices: 23830429--23830505 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 20
23830419 AATTTTGTAG
23830429 TAAATAATAAAAAATTAAATAA
1 TAAATAATAAAAAA-T-AATAA
* *
23830451 TAAATCAATGACAACATAATAA
1 TAAAT-AAT-AAAAAATAATAA
*
23830473 TAAATATATAAAAATATAATAG
1 TAAATA-ATAAAAA-ATAATAA
23830495 TAAATTAATAA
1 TAAA-TAATAA
23830506 CTTAATAGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
21 4 0.09
22 31 0.69
23 6 0.13
24 4 0.09
ACGTcount: A:0.65, C:0.04, G:0.03, T:0.29
Consensus pattern (20 bp):
TAAATAATAAAAAATAATAA
Found at i:23830511 original size:19 final size:19
Alignment explanation
Indices: 23830488--23830542 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 19
23830478 ATATAAAAAT
23830488 ATAATAGTAAATTAATAAC
1 ATAATAGTAAATTAATAAC
*
23830507 TTAATAGTAAATCATTAATAAC
1 ATAATAGT-AA--ATTAATAAC
*
23830529 ATAATAATAAATTA
1 ATAATAGTAAATTA
23830543 CTAATAACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 11 0.37
20 2 0.07
21 2 0.07
22 15 0.50
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (19 bp):
ATAATAGTAAATTAATAAC
Found at i:23830523 original size:22 final size:22
Alignment explanation
Indices: 23830498--23830647 Score: 90
Period size: 22 Copynumber: 7.0 Consensus size: 22
23830488 ATAATAGTAA
*
23830498 ATTAATAACTTAATAGTAAATC
1 ATTAATAACTTAATAATAAATC
* *
23830520 ATTAATAACATAATAATAAATT
1 ATTAATAACTTAATAATAAATC
* ** * *
23830542 ACTAATAACTTAATTTTAAGTT
1 ATTAATAACTTAATAATAAATC
* *
23830564 ATTGATAATTTAATAAT-AA--
1 ATTAATAACTTAATAATAAATC
* * * * * * *
23830583 ATTAATAATTTGACAGTGATTT
1 ATTAATAACTTAATAATAAATC
* *
23830605 ATTAATAACGTAATAATAAATT
1 ATTAATAACTTAATAATAAATC
* *
23830627 ACTAATAACTTAATTATAAAT
1 ATTAATAACTTAATAATAAAT
23830648 TAATGATAAT
Statistics
Matches: 96, Mismatches: 29, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
19 13 0.14
20 1 0.01
21 1 0.01
22 81 0.84
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (22 bp):
ATTAATAACTTAATAATAAATC
Found at i:23830578 original size:85 final size:85
Alignment explanation
Indices: 23830489--23830670 Score: 247
Period size: 85 Copynumber: 2.1 Consensus size: 85
23830479 TATAAAAATA
* *
23830489 TAATAGTAAATTAATAACTTAATAGTAAATCATTAATAACATAATAATAAATTACTAATAACTTA
1 TAATAATAAATTAATAACTTAACAGTAAATCATTAATAACATAATAATAAATTACTAATAACTTA
* * *
23830554 ATTTTAAGTTATTGATAATT
66 ATTATAAATTAATGATAATT
* * * * * *
23830574 TAATAATAAATTAATAATTTGACAGTGATTTATTAATAACGTAATAATAAATTACTAATAACTTA
1 TAATAATAAATTAATAACTTAACAGTAAATCATTAATAACATAATAATAAATTACTAATAACTTA
23830639 ATTATAAATTAATGATAATT
66 ATTATAAATTAATGATAATT
* *
23830659 CAGTAATAAATT
1 TAATAATAAATT
23830671 GGTTCATCAT
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.40
Consensus pattern (85 bp):
TAATAATAAATTAATAACTTAACAGTAAATCATTAATAACATAATAATAAATTACTAATAACTTA
ATTATAAATTAATGATAATT
Found at i:23830722 original size:22 final size:22
Alignment explanation
Indices: 23830697--23830926 Score: 108
Period size: 22 Copynumber: 10.5 Consensus size: 22
23830687 TTTTTTAGTG
*
23830697 AATCATTAATAAATTAATAATA
1 AATCATTAATAACTTAATAATA
* *
23830719 AATCAATT-ATAATTTTATAAT-
1 AATC-ATTAATAACTTAATAATA
* * ** *
23830740 ATTCATCAATAACTTAATGGTC
1 AATCATTAATAACTTAATAATA
** * * *
23830762 AATCACCAACAATTTAAT-AGA
1 AATCATTAATAACTTAATAATA
*
23830783 AATCATTCATAACTTAATAATA
1 AATCATTAATAACTTAATAATA
* * **
23830805 AATCATTTATAATTTAATGCTA
1 AATCATTAATAACTTAATAATA
** * *
23830827 AATCATTTTTAAATTAAAAATA
1 AATCATTAATAACTTAATAATA
* * * * *
23830849 AATCATTGATGATTTATTATTA
1 AATCATTAATAACTTAATAATA
* * *
23830871 AATTATTGACAACTTAATAATA
1 AATCATTAATAACTTAATAATA
* ** *
23830893 AATAAATT-ATAACTTAATTGTC
1 AAT-CATTAATAACTTAATAATA
23830915 AATCATTAATAA
1 AATCATTAATAA
23830927 TTTTCTTATA
Statistics
Matches: 153, Mismatches: 49, Indels: 12
0.71 0.23 0.06
Matches are distributed among these distances:
20 2 0.01
21 28 0.18
22 117 0.76
23 6 0.04
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.39
Consensus pattern (22 bp):
AATCATTAATAACTTAATAATA
Found at i:23830757 original size:43 final size:43
Alignment explanation
Indices: 23830697--23830910 Score: 112
Period size: 43 Copynumber: 4.9 Consensus size: 43
23830687 TTTTTTAGTG
* * *
23830697 AATCATTAATAAATTAATAATAAATCAATTATAATTTTATA-A
1 AATCATCAATAACTTAATAATAAATCAATTATAATTTAATAGA
* ** * *** *
23830739 TATTCATCAATAACTTAATGGTCAATCACCAACAATTTAATAGA
1 -AATCATCAATAACTTAATAATAAATCAATTATAATTTAATAGA
*
23830783 AATCATTC-ATAACTTAATAATAAATCATTTATAATTTAAT-GCTA
1 AATCA-TCAATAACTTAATAATAAATCAATTATAATTTAATAG--A
*** * * * * *
23830827 AATCATTTTTAAATTAAAAATAAATC-ATTGATGATTTATTATTA
1 AATCATCAATAACTTAATAATAAATCAATT-ATAATTTAATA-GA
* ** * * *
23830871 AATTATTGACAACTTAATAATAAATAAATTATAACTTAAT
1 AATCATCAATAACTTAATAATAAATCAATTATAATTTAAT
23830911 TGTCAATCAT
Statistics
Matches: 125, Mismatches: 37, Indels: 17
0.70 0.21 0.09
Matches are distributed among these distances:
42 1 0.01
43 62 0.50
44 59 0.47
45 3 0.02
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.39
Consensus pattern (43 bp):
AATCATCAATAACTTAATAATAAATCAATTATAATTTAATAGA
Found at i:23831248 original size:22 final size:22
Alignment explanation
Indices: 23831223--23831265 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
23831213 TTAATCATTG
*
23831223 ATAACTTAATAGTAAAATAGTA
1 ATAACTTAATAATAAAATAGTA
*
23831245 ATAACTTAATAATAAATTAGT
1 ATAACTTAATAATAAAATAGT
23831266 TTTAGTTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (22 bp):
ATAACTTAATAATAAAATAGTA
Found at i:23831254 original size:66 final size:65
Alignment explanation
Indices: 23831184--23831370 Score: 155
Period size: 66 Copynumber: 2.8 Consensus size: 65
23831174 CAATGATAGG
23831184 TTAATAAAAAACAAGTGATAATTTAATAGTTAATCATTGATAACTTAATAGTAAAATAGT-AATA
1 TTAATAAAAAACAAGT-ATAATTTAATAGTTAATCATTGATAACTTAATAGTAAAATA-TAAATA
23831248 AC
64 AC
* ** * * * * * * * * *
23831250 TTAATAATAAATTAGTTTTAGTTTAGTAATTATTAATTGATAAACTTAGTAATAAATTATAAATA
1 TTAATAAAAAACAAG-TATAATTTAATAGTTAATCATTGAT-AACTTAATAGTAAAATATAAATA
23831315 AC
64 AC
* * * *
23831317 TTAATAGTAAATCAA-TATAATTTAATTGTTAATCATTGA-AACCTTAAAAGTAAA
1 TTAATA-AAAAACAAGTATAATTTAATAGTTAATCATTGATAA-CTTAATAGTAAA
23831371 TCAATGTAAT
Statistics
Matches: 89, Mismatches: 27, Indels: 11
0.70 0.21 0.09
Matches are distributed among these distances:
64 2 0.02
65 9 0.10
66 48 0.54
67 27 0.30
68 3 0.03
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (65 bp):
TTAATAAAAAACAAGTATAATTTAATAGTTAATCATTGATAACTTAATAGTAAAATATAAATAAC
Found at i:23831341 original size:21 final size:21
Alignment explanation
Indices: 23831312--23831433 Score: 58
Period size: 22 Copynumber: 5.8 Consensus size: 21
23831302 TAAATTATAA
23831312 ATAACTTAATAGTAAATCAAT
1 ATAACTTAATAGTAAATCAAT
* * * *
23831333 ATAATTTAATTGTTAATCATT
1 ATAACTTAATAGTAAATCAAT
*
23831354 GA-AACCTTAAAAGTAAATCAAT
1 -ATAA-CTTAATAGTAAATCAAT
* * * * *
23831376 GTAATTTCGTAGTAGTTAATCATT
1 ATAA---CTTAATAGTAAATCAAT
23831400 AATAACTTAATAGT---T-AA-
1 -ATAACTTAATAGTAAATCAAT
23831417 ATAACTTAATAGTAAAT
1 ATAACTTAATAGTAAAT
23831434 TATATATTAT
Statistics
Matches: 72, Mismatches: 20, Indels: 20
0.64 0.18 0.18
Matches are distributed among these distances:
16 13 0.18
18 1 0.01
19 2 0.03
21 19 0.26
22 22 0.31
24 12 0.17
25 3 0.04
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (21 bp):
ATAACTTAATAGTAAATCAAT
Found at i:23831409 original size:15 final size:16
Alignment explanation
Indices: 23831400--23831433 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
23831390 GTTAATCATT
23831400 AATAACTTAATAGTTA
1 AATAACTTAATAGTTA
23831416 AATAACTTAATAG-TA
1 AATAACTTAATAGTTA
23831431 AAT
1 AAT
23831434 TATATATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (16 bp):
AATAACTTAATAGTTA
Found at i:23831413 original size:22 final size:22
Alignment explanation
Indices: 23831311--23831416 Score: 72
Period size: 22 Copynumber: 4.8 Consensus size: 22
23831301 ATAAATTATA
* *
23831311 AATAACTTAATAGTAAATCAAT
1 AATAACTTAATAGTTAATCATT
* *
23831333 -ATAATTTAATTGTTAATCATT
1 AATAACTTAATAGTTAATCATT
* * *
23831354 GAA-ACCTTAAAAGTAAATCAATGT
1 -AATAACTTAATAGTTAATC-AT-T
** * *
23831378 AATTTCGTAGTAGTTAATCATT
1 AATAACTTAATAGTTAATCATT
23831400 AATAACTTAATAGTTAA
1 AATAACTTAATAGTTAA
23831417 ATAACTTAAT
Statistics
Matches: 60, Mismatches: 19, Indels: 10
0.67 0.21 0.11
Matches are distributed among these distances:
21 17 0.28
22 25 0.42
23 7 0.12
24 11 0.18
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.38
Consensus pattern (22 bp):
AATAACTTAATAGTTAATCATT
Found at i:23831559 original size:22 final size:22
Alignment explanation
Indices: 23831534--23831585 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
23831524 AAAAATCAAG
* *
23831534 TAGTAAATTAATAAT-AATATAA
1 TAGTAAATGAACAATGAA-ATAA
23831556 TAGTAAATGAACAATGAAATAA
1 TAGTAAATGAACAATGAAATAA
*
23831578 TAATAAAT
1 TAGTAAAT
23831586 CATCGATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.31
Consensus pattern (22 bp):
TAGTAAATGAACAATGAAATAA
Found at i:23831635 original size:22 final size:22
Alignment explanation
Indices: 23831610--23831883 Score: 113
Period size: 22 Copynumber: 12.1 Consensus size: 22
23831600 ATAAAATTAT
* *
23831610 TAATAGTTTAGTAGTAAATCAC
1 TAATAATTTAGTAGTAAATCAA
* * *
23831632 TAATAACTTAGTTGTAAATTAA
1 TAATAATTTAGTAGTAAATCAA
*
23831654 TAATAATTTAGTAGTGAATTAGTTAA
1 TAATAATTTAGTAGT-AA--A-TCAA
* * * *
23831680 TCATTGATAACTTTGTAGTAAATTAT
1 T-A---ATAATTTAGTAGTAAATCAA
* * *
23831706 TGATAAATTAATAGTAAATCAA
1 TAATAATTTAGTAGTAAATCAA
* * *
23831728 TTATAACTTTA-TAATAAAT-TA
1 TAATAA-TTTAGTAGTAAATCAA
* *
23831749 TCAATAATTTAGTAATAAATCAT
1 T-AATAATTTAGTAGTAAATCAA
* *
23831772 TCATAATTTAATAGTAAAT-AA
1 TAATAATTTAGTAGTAAATCAA
* **
23831793 TTAATAAATTAGTAGTAAATCGT
1 -TAATAATTTAGTAGTAAATCAA
* * * * *
23831816 TGATAATTTAGCAATATATCAT
1 TAATAATTTAGTAGTAAATCAA
* * * **
23831838 TAATAGTTTTGTAATAAATTGA
1 TAATAATTTAGTAGTAAATCAA
* *
23831860 TAATAATATAATAGTAAATCAA
1 TAATAATTTAGTAGTAAATCAA
23831882 TA
1 TA
23831884 TCAACTTAAT
Statistics
Matches: 185, Mismatches: 53, Indels: 28
0.70 0.20 0.11
Matches are distributed among these distances:
21 7 0.04
22 147 0.79
23 6 0.03
25 1 0.01
26 9 0.05
27 2 0.01
29 2 0.01
30 11 0.06
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (22 bp):
TAATAATTTAGTAGTAAATCAA
Found at i:23831822 original size:44 final size:44
Alignment explanation
Indices: 23831673--23831825 Score: 168
Period size: 44 Copynumber: 3.5 Consensus size: 44
23831663 AGTAGTGAAT
* * * *
23831673 TAGTTAATCATTGATAACTTTGTAGTAAATTATTGATAAATTAA
1 TAGTAAATCATTGATAACTTTATAGTAAATTATTAATAAATTAG
* * *
23831717 TAGTAAATCAATT-ATAACTTTATAATAAATTATCAATAATTTAG
1 TAGTAAATC-ATTGATAACTTTATAGTAAATTATTAATAAATTAG
* * *
23831761 TAATAAATCATTCATAA-TTTAATAGTAAATAATTAATAAATTAG
1 TAGTAAATCATTGATAACTTT-ATAGTAAATTATTAATAAATTAG
*
23831805 TAGTAAATCGTTGATAA-TTTA
1 TAGTAAATCATTGATAACTTTA
23831826 GCAATATATC
Statistics
Matches: 91, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
43 7 0.08
44 81 0.89
45 3 0.03
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (44 bp):
TAGTAAATCATTGATAACTTTATAGTAAATTATTAATAAATTAG
Done.