Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 82 of 121
Found at i:13984423 original size:13 final size:13
Alignment explanation
Indices: 13984405--13984429 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13984395 TGTGAATGAC
13984405 ATCTCAAAATTAA
1 ATCTCAAAATTAA
13984418 ATCTCAAAATTA
1 ATCTCAAAATTA
13984430 TTGTTATGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (13 bp):
ATCTCAAAATTAA
Found at i:13985846 original size:23 final size:23
Alignment explanation
Indices: 13985819--13985897 Score: 86
Period size: 23 Copynumber: 3.2 Consensus size: 23
13985809 TAGGTATGAG
13985819 ATGATGCATAGAATGAAATGATA
1 ATGATGCATAGAATGAAATGATA
* *
13985842 ATGATGCACAAAATGAAATGATATGATA
1 ATGATG--C-ATA-G-AATGAAATGATA
*
13985870 ATGATGCATAGAATGAAATGAAA
1 ATGATGCATAGAATGAAATGATA
13985893 ATGAT
1 ATGAT
13985898 ACAAGTGCAC
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
23 21 0.46
24 1 0.02
25 3 0.07
26 3 0.07
27 1 0.02
28 17 0.37
ACGTcount: A:0.49, C:0.05, G:0.20, T:0.25
Consensus pattern (23 bp):
ATGATGCATAGAATGAAATGATA
Found at i:13985861 original size:28 final size:28
Alignment explanation
Indices: 13985830--13985912 Score: 105
Period size: 28 Copynumber: 2.9 Consensus size: 28
13985820 TGATGCATAG
13985830 AATGAAATGATAATGATGCACAAAATGA
1 AATGAAATGATAATGATGCACAAAATGA
* * *
13985858 AATGATATGATAATGATGCATAGAATGA
1 AATGAAATGATAATGATGCACAAAATGA
*
13985886 AATGAAAATGATACAAG-TGCACAAAAT
1 AATG-AAATGATA-ATGATGCACAAAAT
13985913 CAAGCAAACA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
28 29 0.63
29 15 0.33
30 2 0.04
ACGTcount: A:0.52, C:0.07, G:0.18, T:0.23
Consensus pattern (28 bp):
AATGAAATGATAATGATGCACAAAATGA
Found at i:13987136 original size:61 final size:59
Alignment explanation
Indices: 13986946--13987130 Score: 270
Period size: 61 Copynumber: 3.2 Consensus size: 59
13986936 GCTTTTATAT
* * * *
13986946 AAGGAAAATTAATGCTTTTAACTTTTCCTT--AAATTTTTTTTTGAAAATTTTATTTTG
1 AAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATTTTTTTTTGAAAATTTTATTTTC
*
13987003 AAGGAAAATTGATACTTTCAATTTTTCCTTAAAAATGTTTTTTTATGAAAATTTTATTTTC
1 AAGGAAAATTGATACTTTCAACTTTTCCTTAAAAAT-TTTTTTT-TGAAAATTTTATTTTC
13987064 AAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTGAAAATTTTATTTT-
1 AAGGAAAATTGATACTTTCAACTTTTCCTTAAAAAT-TTTTTTTTGAAAATTTTATTTTC
13987123 AA-GAAAAT
1 AAGGAAAAT
13987131 CATTGACAAA
Statistics
Matches: 117, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
57 26 0.22
58 6 0.05
59 6 0.05
60 22 0.19
61 57 0.49
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.49
Consensus pattern (59 bp):
AAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATTTTTTTTTGAAAATTTTATTTTC
Found at i:13987211 original size:3 final size:3
Alignment explanation
Indices: 13987203--13987228 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13987193 AATAAGCAGA
13987203 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
13987229 ATGAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13988421 original size:44 final size:44
Alignment explanation
Indices: 13988367--13988477 Score: 204
Period size: 44 Copynumber: 2.5 Consensus size: 44
13988357 GGCAAAGATG
*
13988367 AATTTGCTTAGATTTAAAGGTTATAAATGATTTGATTTTATTTA
1 AATTTCCTTAGATTTAAAGGTTATAAATGATTTGATTTTATTTA
13988411 AATTTCCTTAGATTTAAAGGTTATAAATGATTTGATTTTATTTA
1 AATTTCCTTAGATTTAAAGGTTATAAATGATTTGATTTTATTTA
*
13988455 AGTTTCCTTAGATTTAAAGGTTA
1 AATTTCCTTAGATTTAAAGGTTA
13988478 AAACATTCTA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
44 65 1.00
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.49
Consensus pattern (44 bp):
AATTTCCTTAGATTTAAAGGTTATAAATGATTTGATTTTATTTA
Found at i:13989873 original size:29 final size:30
Alignment explanation
Indices: 13989815--13989874 Score: 77
Period size: 33 Copynumber: 1.9 Consensus size: 30
13989805 TGTGTAACTT
13989815 TCTTGTTGATACAATAAATATACAAAGAAAATA
1 TCTTGTTGATACAATAAATAT---AAGAAAATA
*
13989848 TCTTGTTGATATAATAAATAT-AGAAAA
1 TCTTGTTGATACAATAAATATAAGAAAA
13989875 GCATATACCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 6 0.23
33 20 0.77
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (30 bp):
TCTTGTTGATACAATAAATATAAGAAAATA
Found at i:13990081 original size:5 final size:5
Alignment explanation
Indices: 13990073--13990170 Score: 87
Period size: 5 Copynumber: 19.2 Consensus size: 5
13990063 ATTACCATAC
13990073 TATAT TATAT TATTAT TATA- T-TAT TATTAT TATAT GT-TA- TATAT
1 TATAT TATAT TA-TAT TATAT TATAT TA-TAT TATAT -TATAT TATAT
* * *
13990117 TATAT TATTAT TACAT TACTAT TATAT TATAT TATTGT TATAA TATAT
1 TATAT TA-TAT TATAT TA-TAT TATAT TATAT TA-TAT TATAT TATAT
13990165 TATAT T
1 TATAT T
13990171 TTTTTTTTTT
Statistics
Matches: 77, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
3 3 0.04
4 4 0.05
5 46 0.60
6 24 0.31
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:13990088 original size:3 final size:3
Alignment explanation
Indices: 13990075--13990167 Score: 72
Period size: 3 Copynumber: 32.0 Consensus size: 3
13990065 TACCATACTA
*
13990075 TAT TA- TAT TAT TAT TA- TAT TAT TAT TAT TAT ATGT TAT ATAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT -TAT TAT
* * * *
13990119 TAT TAT TAT TA- CAT TAC TAT TA- TAT TA- TAT TAT TGT TAT AAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
13990165 TAT
1 TAT
13990168 ATTTTTTTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
2 11 0.15
3 53 0.75
4 7 0.10
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:13990091 original size:11 final size:10
Alignment explanation
Indices: 13990073--13990170 Score: 87
Period size: 11 Copynumber: 9.6 Consensus size: 10
13990063 ATTACCATAC
13990073 TATATTATAT
1 TATATTATAT
13990083 TATTATTATA-
1 TA-TATTATAT
13990093 T-TATTATTAT
1 TATATTA-TAT
13990103 TATATGT-TA-
1 TATAT-TATAT
13990112 TATATTATAT
1 TATATTATAT
*
13990122 TATTATTACAT
1 TA-TATTATAT
13990133 TACTATTATAT
1 TA-TATTATAT
*
13990144 TATATTATTGT
1 TATATTA-TAT
*
13990155 TATAATATAT
1 TATATTATAT
13990165 TATATT
1 TATATT
13990171 TTTTTTTTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
8 6 0.08
9 9 0.12
10 20 0.28
11 36 0.50
12 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (10 bp):
TATATTATAT
Found at i:13990099 original size:14 final size:14
Alignment explanation
Indices: 13990080--13990167 Score: 85
Period size: 14 Copynumber: 6.4 Consensus size: 14
13990070 TACTATATTA
13990080 TATTATTATTATAT
1 TATTATTATTATAT
13990094 TATTATTATTATA-
1 TATTATTATTATAT
*
13990107 TGTTATATATTATAT
1 TATTAT-TATTATAT
* *
13990122 TATTATTA-CATTAC
1 TATTATTATTA-TAT
13990136 TATTA-TATTATAT
1 TATTATTATTATAT
* *
13990149 TATTGTTATAATA-
1 TATTATTATTATAT
13990162 TATTAT
1 TATTAT
13990168 ATTTTTTTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
13 19 0.32
14 36 0.60
15 5 0.08
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (14 bp):
TATTATTATTATAT
Found at i:13990570 original size:40 final size:41
Alignment explanation
Indices: 13990526--13990602 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 41
13990516 TTTCAAGAAT
13990526 TTTGGATTTAGATTTATAG-GGTT-GATTTGAAGTTTTTGGA
1 TTTGGATTTAGATTTATAGAGGTTGGA-TTGAAGTTTTTGGA
* * *
13990566 TTTGGATTTAGGTTTCTAGAGTTTGGATTGAAGTTTT
1 TTTGGATTTAGATTTATAGAGGTTGGATTGAAGTTTT
13990603 AGTAGATTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
40 17 0.53
41 13 0.41
42 2 0.06
ACGTcount: A:0.21, C:0.01, G:0.27, T:0.51
Consensus pattern (41 bp):
TTTGGATTTAGATTTATAGAGGTTGGATTGAAGTTTTTGGA
Found at i:13990601 original size:21 final size:20
Alignment explanation
Indices: 13990552--13990601 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
13990542 TAGGGTTGAT
* *
13990552 TTGAAGTTTTTGGATTTGGA
1 TTGAAGTTTCTAGATTTGGA
* *
13990572 TTTAGGTTTCTAGAGTTTGGA
1 TTGAAGTTTCTAGA-TTTGGA
13990593 TTGAAGTTT
1 TTGAAGTTT
13990602 TAGTAGATTT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.20, C:0.02, G:0.28, T:0.50
Consensus pattern (20 bp):
TTGAAGTTTCTAGATTTGGA
Found at i:13991003 original size:19 final size:19
Alignment explanation
Indices: 13990979--13991071 Score: 77
Period size: 19 Copynumber: 4.9 Consensus size: 19
13990969 TCGCAGGTTT
13990979 TTTTTTCATTTTATTTTTA
1 TTTTTTCATTTTATTTTTA
*
13990998 TTTTTTCATTTTACTTTTA
1 TTTTTTCATTTTATTTTTA
* **
13991017 TTTATTTATATTTTA-AATT-
1 TTT-TTT-CATTTTATTTTTA
*
13991036 TTTTTTAATTTTATTTTTA
1 TTTTTTCATTTTATTTTTA
13991055 GTTTTGTT-A-TTTATTTT
1 -TTTT-TTCATTTTATTTT
13991072 GCTGACTTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
17 6 0.10
18 5 0.08
19 32 0.52
20 10 0.16
21 8 0.13
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.75
Consensus pattern (19 bp):
TTTTTTCATTTTATTTTTA
Found at i:13991059 original size:22 final size:22
Alignment explanation
Indices: 13991006--13991068 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
13990996 TATTTTTTCA
*
13991006 TTTTACTTTTATTTATTTATAT
1 TTTTAATTTTATTTATTTATAT
* *
13991028 TTTAAATTTTTTTTAATTT-TAT
1 TTTTAATTTTATTT-ATTTATAT
* *
13991050 TTTTAGTTTT-GTTATTTAT
1 TTTTAATTTTATTTATTTAT
13991069 TTTGCTGACT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
20 4 0.12
21 3 0.09
22 22 0.67
23 4 0.12
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.73
Consensus pattern (22 bp):
TTTTAATTTTATTTATTTATAT
Found at i:13991148 original size:21 final size:21
Alignment explanation
Indices: 13991124--13991163 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13991114 ATTTTTATTT
13991124 AAAAAAAAGAAAAATAAAAAC
1 AAAAAAAAGAAAAATAAAAAC
* *
13991145 AAAAAAAGGAATAATAAAA
1 AAAAAAAAGAAAAATAAAA
13991164 TAAATAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.82, C:0.03, G:0.07, T:0.07
Consensus pattern (21 bp):
AAAAAAAAGAAAAATAAAAAC
Found at i:13996833 original size:87 final size:87
Alignment explanation
Indices: 13996664--13996834 Score: 198
Period size: 87 Copynumber: 2.0 Consensus size: 87
13996654 GTTGGTTATG
* * * *
13996664 AAACATTTGCAAATCTAGAACCTTTGCGAAACTCAAAATGTTATGAACCTTTCATTCTTGCAAAT
1 AAACATTTGCAAATCTAAAACCTCTGCGAAACTCAAAATCTTATGAACCTTCCATTCTTGCAAAT
* ** *
13996729 TTGAAAGTCTTTGCGAATCCGA
66 TTAAAAACCTTTACGAATCCGA
* * * * * * **
13996751 AAACCTTTGCAAATCTAAAACCTCTGTGAAACTTAGAATCTTGTGAATCTTCCATTCTTGTGAAT
1 AAACATTTGCAAATCTAAAACCTCTGCGAAACTCAAAATCTTATGAACCTTCCATTCTTGCAAAT
13996816 TTAAAAACCTTTACGAATC
66 TTAAAAACCTTTACGAATC
13996835 TTGAATCTTT
Statistics
Matches: 68, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
87 68 1.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (87 bp):
AAACATTTGCAAATCTAAAACCTCTGCGAAACTCAAAATCTTATGAACCTTCCATTCTTGCAAAT
TTAAAAACCTTTACGAATCCGA
Found at i:13997095 original size:55 final size:55
Alignment explanation
Indices: 13996982--13997237 Score: 253
Period size: 55 Copynumber: 4.6 Consensus size: 55
13996972 CAATCTCGAA
* ** * **
13996982 CATCTGATCTTGGCTTAGTCCATCTCATTTTTTCAGACTTACGGTTTCATCCTGGT
1 CATCTGATCTTGGCTCAGTCCAAATCATTTTTTC-GACTTATGGTTTCATCCCAGT
* *
13997038 CATCTGATCTTGGCTCAGTCCAAATCATTTTTTCGACCTATAGTTTCATCCCAGT
1 CATCTGATCTTGGCTCAGTCCAAATCATTTTTTCGACTTATGGTTTCATCCCAGT
**** * * * * *
13997093 CATCTGATCTTGGCTCAGTTTGGATCATTTTTTTGACTTGTGATTCCATCCTAGT
1 CATCTGATCTTGGCTCAGTCCAAATCATTTTTTCGACTTATGGTTTCATCCCAGT
* * * * * *
13997148 CATCTGATCTTAGCTCAATCTAGATCATTTTTCTAGACTTATGGTTTCGTCCC-GAT
1 CATCTGATCTTGGCTCAGTCCAAATCATTTTT-TCGACTTATGGTTTCATCCCAG-T
**
13997204 CATCCAATCTTGGCTCAGTCCAAATCATTTTTTC
1 CATCTGATCTTGGCTCAGTCCAAATCATTTTTTC
13997238 TTGACTTGTG
Statistics
Matches: 162, Mismatches: 36, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
55 90 0.56
56 72 0.44
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (55 bp):
CATCTGATCTTGGCTCAGTCCAAATCATTTTTTCGACTTATGGTTTCATCCCAGT
Found at i:13997234 original size:111 final size:110
Alignment explanation
Indices: 13996988--13997247 Score: 261
Period size: 111 Copynumber: 2.3 Consensus size: 110
13996978 CGAACATCTG
* ** * ** * * * *
13996988 ATCTTGGCTTAGTCCATCTCATTTTTTCAGACTTACGGTTTCATCCTGGTCATCTGATCTTGGCT
1 ATCTTGGCTCAGTCCAAATCATTTTTT-TGACTTGTGATTCCATCCTAGTCATCTGATCTTAGCT
* * **
13997053 CAGTCCAAATCATTTTTTCGACCTATAGTTTCATCCCAGTCATCTG
65 CAATCCAAATCATTTTTTAGACCTATAGTTTCATCCCAGTCATCCA
****
13997099 ATCTTGGCTCAGTTTGGATCATTTTTTTGACTTGTGATTCCATCCTAGTCATCTGATCTTAGCTC
1 ATCTTGGCTCAGTCCAAATCATTTTTTTGACTTGTGATTCCATCCTAGTCATCTGATCTTAGCTC
* * * * *
13997164 AATCTAGATCATTTTTCTAGACTTATGGTTTCGTCCC-GATCATCCA
66 AATCCAAATCATTTTT-TAGACCTATAGTTTCATCCCAG-TCATCCA
13997210 ATCTTGGCTCAGTCCAAATCATTTTTTCTTGACTTGTG
1 ATCTTGGCTCAGTCCAAATCA-TTTTT-TTGACTTGTG
13997248 GCATAGTTTT
Statistics
Matches: 119, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
110 45 0.38
111 59 0.50
112 5 0.04
113 10 0.08
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (110 bp):
ATCTTGGCTCAGTCCAAATCATTTTTTTGACTTGTGATTCCATCCTAGTCATCTGATCTTAGCTC
AATCCAAATCATTTTTTAGACCTATAGTTTCATCCCAGTCATCCA
Found at i:13997327 original size:57 final size:56
Alignment explanation
Indices: 13997153--13997369 Score: 170
Period size: 57 Copynumber: 3.9 Consensus size: 56
13997143 CTAGTCATCT
* * * * * * * *
13997153 GATCTTAGCTCAATCTAGATCATTTTT-CTAGACTTATGGTTTCGTCCCGATCATCC
1 GATCTTGGCTCAATCTAAATCATTTTTCCT-GACTTGTGGCTTAGTCTCGGTCATTC
* * * * * * * *
13997209 AATCTTGGCTCAGTCCAAATCATTTTTTCTTGACTTGTGGCATAGTTTTGGTTA-TC
1 GATCTTGGCTCAATCTAAATCA-TTTTTCCTGACTTGTGGCTTAGTCTCGGTCATTC
* * *
13997265 TGATCTAGGCTCAGTCTAGATCATTTTTTCCTGACTTGTGGCTTAGTCTCGGTCATTC
1 -GATCTTGGCTCAATCTAAATCA-TTTTTCCTGACTTGTGGCTTAGTCTCGGTCATTC
** * *
13997323 GATCTTGGCTCAATGAAAATCA-TTTTCCTGACTTGTAGCTCAGTCTC
1 GATCTTGGCTCAATCTAAATCATTTTTCCTGACTTGTGGCTTAGTCTC
13997370 AATCATTTAT
Statistics
Matches: 125, Mismatches: 32, Indels: 9
0.75 0.19 0.05
Matches are distributed among these distances:
55 23 0.18
56 18 0.14
57 81 0.65
58 3 0.02
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.41
Consensus pattern (56 bp):
GATCTTGGCTCAATCTAAATCATTTTTCCTGACTTGTGGCTTAGTCTCGGTCATTC
Found at i:13997753 original size:5 final size:5
Alignment explanation
Indices: 13997745--13997849 Score: 83
Period size: 5 Copynumber: 20.4 Consensus size: 5
13997735 ATTACTATCC
13997745 TATAT TATAT TACTAT TATTAT TATA- T-TAT TATAT GT-TA- TATAT
1 TATAT TATAT TA-TAT TA-TAT TATAT TATAT TATAT -TATAT TATAT
** * *
13997789 TATAT TATTAT TGCAT TACTAT TATAT TATAT TATTAT TACAG TATAT
1 TATAT TA-TAT TATAT TA-TAT TATAT TATAT TA-TAT TATAT TATAT
13997837 TATAT TATTAT TA
1 TATAT TA-TAT TA
13997850 CTACTACTAC
Statistics
Matches: 81, Mismatches: 9, Indels: 19
0.74 0.08 0.17
Matches are distributed among these distances:
3 3 0.04
4 4 0.05
5 45 0.56
6 29 0.36
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:13997756 original size:18 final size:17
Alignment explanation
Indices: 13997729--13997900 Score: 131
Period size: 18 Copynumber: 10.1 Consensus size: 17
13997719 ATTATTTTCG
*
13997729 TATTACATTACTATCCTA-
1 TATTATATTACTAT--TAT
13997747 TATTATATTACTATTAT
1 TATTATATTACTATTAT
* *
13997764 TATTATATTATTATATGT
1 TATTATATTACTAT-TAT
13997782 TA-TATATTA-TATTAT
1 TATTATATTACTATTAT
**
13997797 TATTGCATTACTATTA-
1 TATTATATTACTATTAT
*
13997813 TATTATATTATTATTA-
1 TATTATATTACTATTAT
* *
13997829 CAGTATATTA-TATTAT
1 TATTATATTACTATTAT
* *
13997845 TATTACTACTACTACTAT
1 TATTA-TATTACTATTAT
*
13997863 TATTACTACTACTTATTAT
1 TATTA-TATTAC-TATTAT
*
13997882 TATTATTATTATTATTAT
1 TATTA-TATTACTATTAT
13997900 T
1 T
13997901 GTTTTTTATT
Statistics
Matches: 127, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
15 9 0.07
16 34 0.27
17 29 0.23
18 41 0.32
19 14 0.11
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (17 bp):
TATTATATTACTATTAT
Found at i:13997766 original size:3 final size:3
Alignment explanation
Indices: 13997747--13997900 Score: 108
Period size: 3 Copynumber: 52.3 Consensus size: 3
13997737 TACTATCCTA
* *
13997747 TAT TA- TAT TAC TAT TAT TAT TA- TAT TAT TAT ATGT TAT ATAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT -TAT TAT
* * *
13997791 TAT TAT TAT TGCAT TAC TAT TA- TAT TA- TAT TAT TAT TA- CAG TA-
1 TAT TAT TAT T--AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
13997834 TAT TA- TAT TAT TAT TAC TAC TAC TAC TAT TAT TAC TAC TACT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
13997879 TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
13997901 GTTTTTTATT
Statistics
Matches: 126, Mismatches: 12, Indels: 26
0.77 0.07 0.16
Matches are distributed among these distances:
2 15 0.12
3 101 0.80
4 7 0.06
5 3 0.02
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:13997786 original size:7 final size:7
Alignment explanation
Indices: 13997758--13997799 Score: 50
Period size: 8 Copynumber: 5.9 Consensus size: 7
13997748 ATTATATTAC
13997758 TATTAT-
1 TATTATA
13997764 TATTATA
1 TATTATA
13997771 TTATTATA
1 -TATTATA
*
13997779 TGTTATA
1 TATTATA
13997786 TATTATA
1 TATTATA
13997793 TTATTAT
1 -TATTAT
13997800 TGCATTACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 6 0.19
7 12 0.39
8 13 0.42
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (7 bp):
TATTATA
Found at i:13997818 original size:55 final size:53
Alignment explanation
Indices: 13997747--13997900 Score: 139
Period size: 48 Copynumber: 3.0 Consensus size: 53
13997737 TACTATCCTA
13997747 TATTA-TATTACTATTATTATTATATTATTATATGTTATATATTATATTATTAT
1 TATTACTATTACTATTATTA-TATATTATTATATGTTATATATTATATTATTAT
*
13997800 TGCATTACTATTA-TATTA-TAT-TATTATTACA-G---TATATTATATTATTAT
1 T--ATTACTATTACTATTATTATATATTATTATATGTTATATATTATATTATTAT
* * *
13997848 TACTACTACTACTATTATTACTACTACTTATTAT-TATTAT-TATTATTATTATT
1 TATTACTATTACTATTATTA-TA-TA-TTATTATATGTTATATATTA-TATTATT
13997901 GTTTTTTATT
Statistics
Matches: 82, Mismatches: 5, Indels: 26
0.73 0.04 0.23
Matches are distributed among these distances:
46 8 0.10
47 5 0.06
48 19 0.23
49 1 0.01
51 3 0.04
52 15 0.18
53 2 0.02
54 7 0.09
55 17 0.21
56 5 0.06
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.56
Consensus pattern (53 bp):
TATTACTATTACTATTATTATATATTATTATATGTTATATATTATATTATTAT
Found at i:13998685 original size:13 final size:13
Alignment explanation
Indices: 13998664--13998709 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
13998654 TGATCGCAGG
* *
13998664 TTTTCTTTTTCTA
1 TTTTATTTTTATA
13998677 TTTTATTTTTATA
1 TTTTATTTTTATA
13998690 TTTTGA-TTTTAT-
1 TTTT-ATTTTTATA
13998702 TTTTATTT
1 TTTTATTT
13998710 ATTTTATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
11 1 0.03
12 6 0.21
13 21 0.72
14 1 0.03
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.78
Consensus pattern (13 bp):
TTTTATTTTTATA
Found at i:13998732 original size:28 final size:28
Alignment explanation
Indices: 13998669--13998743 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 28
13998659 GCAGGTTTTC
* *
13998669 TTTTTCTATTTTATTTTTATATTTTGATT
1 TTTTTTTATTTTA-TTTTATATTTTGAAT
13998698 TTATTTTTA-TTTATTTTATATTTTGAAAT
1 TT-TTTTTATTTTATTTTATATTTTG-AAT
*
13998727 TTTTTTAATTTTATTTT
1 TTTTTTTATTTTATTTT
13998744 CAATTTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 17 0.43
29 18 0.45
30 5 0.12
ACGTcount: A:0.21, C:0.01, G:0.03, T:0.75
Consensus pattern (28 bp):
TTTTTTTATTTTATTTTATATTTTGAAT
Found at i:13998750 original size:29 final size:29
Alignment explanation
Indices: 13998676--13998743 Score: 86
Period size: 28 Copynumber: 2.3 Consensus size: 29
13998666 TTCTTTTTCT
* *
13998676 ATTTTATTTTTATATTTTGATTTTATTTTT
1 ATTTTA-TTTTATATTTTGAATTTATTTTA
13998706 A-TTTATTTTATATTTTGAAATTT-TTTTA
1 ATTTTATTTTATATTTTG-AATTTATTTTA
13998734 ATTTTATTTT
1 ATTTTATTTT
13998744 CAATTTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 17 0.50
29 16 0.47
30 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (29 bp):
ATTTTATTTTATATTTTGAATTTATTTTA
Found at i:13998758 original size:19 final size:21
Alignment explanation
Indices: 13998682--13998762 Score: 69
Period size: 22 Copynumber: 3.8 Consensus size: 21
13998672 TTCTATTTTA
*
13998682 TTTTTATATTTTGATTTT-ATTT
1 TTTTTA-ATTTT-ATTTTCAATT
* *
13998704 TTATTTATTTTATATTTTGAAATT
1 TT-TTTAATTT-TATTTT-CAATT
13998728 TTTTTAATTTTATTTTCAATT
1 TTTTTAATTTTATTTTCAATT
13998749 TTTTT-A-TTTATTTT
1 TTTTTAATTTTATTTT
13998763 ACTTACTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
19 8 0.16
20 1 0.02
21 9 0.18
22 16 0.31
23 12 0.24
24 5 0.10
ACGTcount: A:0.22, C:0.01, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTTTAATTTTATTTTCAATT
Found at i:14003946 original size:24 final size:27
Alignment explanation
Indices: 14003918--14003974 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 27
14003908 TGACTTTGTG
14003918 CATTTGCATTATCA-TGT-C-ATGCAT
1 CATTTGCATTATCATTGTGCAATGCAT
* *
14003942 CATTTTCATTGTCATTGTGCATATGCAT
1 CATTTGCATTATCATTGTGCA-ATGCAT
14003970 CATTT
1 CATTT
14003975 TCATGTTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 12 0.44
25 3 0.11
26 1 0.04
28 11 0.41
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (27 bp):
CATTTGCATTATCATTGTGCAATGCAT
Found at i:14006491 original size:21 final size:20
Alignment explanation
Indices: 14006465--14006541 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 20
14006455 TAATGGATGG
* *
14006465 AAAAAATAGAAAAAATGAAAA
1 AAAAAAAAG-AAAAAGGAAAA
*
14006486 AAAAAAAAGAGAAAGGAAAA
1 AAAAAAAAGAAAAAGGAAAA
14006506 AAAGAAAAA-AAAATAGGAAAA
1 AAA-AAAAAGAAAA-AGGAAAA
14006527 ATGAAAAAAA-AAAAA
1 A--AAAAAAAGAAAAA
14006542 ACTTAAACTG
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
20 15 0.31
21 22 0.46
22 9 0.19
23 2 0.04
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (20 bp):
AAAAAAAAGAAAAAGGAAAA
Found at i:14006532 original size:28 final size:28
Alignment explanation
Indices: 14006466--14006542 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
14006456 AATGGATGGA
*
14006466 AAAAATAGAAAAAATGAAAAAAAAAAAAG
1 AAAAAT-GAAAAAAAGAAAAAAAAAAAAG
* * * *
14006495 AGAAAGGAAAAAAAGAAAAAAAAATAGG
1 AAAAATGAAAAAAAGAAAAAAAAAAAAG
14006523 AAAAATGAAAAAAA-AAAAAA
1 AAAAATGAAAAAAAGAAAAAA
14006543 CTTAAACTGA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 6 0.15
28 31 0.76
29 4 0.10
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (28 bp):
AAAAATGAAAAAAAGAAAAAAAAAAAAG
Found at i:14007330 original size:63 final size:63
Alignment explanation
Indices: 14007196--14007358 Score: 166
Period size: 63 Copynumber: 2.6 Consensus size: 63
14007186 TAGATTAGTG
* * * * *
14007196 GACAAAATTTATTCTGAAATGGCTAATGCTAAGAAACCTATGAGTGGTGACCAAGTGATGGAT
1 GACAAAATTTGTTCTGAAATGCCTAATGCTAAGAAACCTATGAGCGGTGACCAAGTGATAGAA
* * * ** *
14007259 GACGAAATTTGTTCTGAAATGCCTAGTGCTGAGAAGTCTATGAGCGGTGATCAAGT-ATTAGAA
1 GACAAAATTTGTTCTGAAATGCCTAATGCTAAGAAACCTATGAGCGGTGACCAAGTGA-TAGAA
* ** * *
14007322 GACAAAATTTGTTATGAGGTGGCTAGTGCTAAGAAAC
1 GACAAAATTTGTTCTGAAATGCCTAATGCTAAGAAAC
14007359 TCAAAATGGT
Statistics
Matches: 80, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
62 1 0.01
63 79 0.99
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (63 bp):
GACAAAATTTGTTCTGAAATGCCTAATGCTAAGAAACCTATGAGCGGTGACCAAGTGATAGAA
Found at i:14007735 original size:21 final size:22
Alignment explanation
Indices: 14007698--14007778 Score: 139
Period size: 21 Copynumber: 3.8 Consensus size: 22
14007688 GTGAATCCTT
14007698 AAATGAGAATCTTTGAGTTTTC
1 AAATGAGAATCTTTGAGTTTTC
14007720 AAATGAGAAT-TTTGAGTTTTC
1 AAATGAGAATCTTTGAGTTTTC
*
14007741 AAATGAGAATATTTGAG-TTTC
1 AAATGAGAATCTTTGAGTTTTC
14007762 AAATGAGAATCTTTGAG
1 AAATGAGAATCTTTGAG
14007779 ATGTGAAACT
Statistics
Matches: 57, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
21 41 0.72
22 16 0.28
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (22 bp):
AAATGAGAATCTTTGAGTTTTC
Found at i:14008359 original size:44 final size:42
Alignment explanation
Indices: 14008290--14008519 Score: 207
Period size: 44 Copynumber: 5.4 Consensus size: 42
14008280 GTTATGGAGC
* *
14008290 ATTTATTTTCCTAAGTCGTTGAGCCTTTGTTTAGAGGAGCTT
1 ATTTATTTTCCAAAGTCGTTAAGCCTTTGTTTAGAGGAGCTT
* * *
14008332 GATTTATTTTTCCAAAGTTGTTAAGCCTTTATTTAGAAGAGC--
1 -ATTTA-TTTTCCAAAGTCGTTAAGCCTTTGTTTAGAGGAGCTT
**
14008374 ATTTATTTTTTAAAGTCGTTAAGCCTTTGTTTAGAGGAGCTT
1 ATTTATTTTCCAAAGTCGTTAAGCCTTTGTTTAGAGGAGCTT
** * * * *
14008416 GATTTATTTCTTGTAAAAGTCATTGAGCCTCTGTTTAGAAGAGC--
1 -ATTTA-TT-TT-CCAAAGTCGTTAAGCCTTTGTTTAGAGGAGCTT
* * *
14008460 ATTTATTTTCCAAAATCATTTAAGCCTCTGTTTAGAGGAGCTTT
1 ATTTATTTTCCAAAGTC-GTTAAGCCTTTGTTTAGAGGAGC-TT
*
14008504 ATTTATTTTCGAAAGT
1 ATTTATTTTCCAAAGT
14008520 TATGAAACCT
Statistics
Matches: 153, Mismatches: 23, Indels: 21
0.78 0.12 0.11
Matches are distributed among these distances:
40 35 0.23
41 27 0.18
42 2 0.01
43 15 0.10
44 46 0.30
45 2 0.01
46 26 0.17
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.44
Consensus pattern (42 bp):
ATTTATTTTCCAAAGTCGTTAAGCCTTTGTTTAGAGGAGCTT
Found at i:14008391 original size:84 final size:84
Alignment explanation
Indices: 14008286--14008538 Score: 303
Period size: 84 Copynumber: 3.0 Consensus size: 84
14008276 GAAAGTTATG
* *
14008286 GAGCATTTATTTTCCT-AAGTCGTTGAGCCTTTGTTTAGAGGAGCTTGATTTATTTTTCCAAAGT
1 GAGCATTTATTTT-CTAAAGTCGTTAAGCCTTTGTTTAGAGGAGCTTGATTTATTTTTCAAAAGT
* *
14008350 TGTTAAGCCTTTATTTAGAA
65 TATTAAGCCTCTATTTAGAA
* *
14008370 GAGCATTTATTTTTTAAAGTCGTTAAGCCTTTGTTTAGAGGAGCTTGATTTATTTCTTGTAAAAG
1 GAGCATTTATTTTCTAAAGTCGTTAAGCCTTTGTTTAGAGGAGCTTGATTTATTT-TT-CAAAAG
* * *
14008435 TCATTGAGCCTCTGTTTAGAA
64 TTATTAAGCCTCTATTTAGAA
* * * * * *
14008456 GAGCATTTATTTTCCAAAATCATTTAAGCCTCTGTTTAGAGGAGCTTTATTTA-TTTTCGAAAGT
1 GAGCATTTATTTTCTAAAGTC-GTTAAGCCTTTGTTTAGAGGAGCTTGATTTATTTTTCAAAAGT
* *
14008520 TATGAAACCTCTATTTAGA
65 TATTAAGCCTCTATTTAGA
14008539 GGAGTTTTTA
Statistics
Matches: 143, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
83 1 0.01
84 70 0.49
85 4 0.03
86 40 0.28
87 28 0.20
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (84 bp):
GAGCATTTATTTTCTAAAGTCGTTAAGCCTTTGTTTAGAGGAGCTTGATTTATTTTTCAAAAGTT
ATTAAGCCTCTATTTAGAA
Found at i:14008398 original size:40 final size:41
Alignment explanation
Indices: 14008286--14008507 Score: 191
Period size: 40 Copynumber: 5.3 Consensus size: 41
14008276 GAAAGTTATG
* * *
14008286 GAGCATTTATTTTCCT-AAGTCGTTGAGCCTTTGTTTAGAG
1 GAGCATTTATTTTTCTAAAGTCGTTAAGCCTTTGTTTAGAA
* * *
14008326 GAGCTTGATTTATTTTTCCAAAGTTGTTAAGCCTTTATTTAGAA
1 GAGC---ATTTATTTTTCTAAAGTCGTTAAGCCTTTGTTTAGAA
*
14008370 GAGCATTTATTTTT-TAAAGTCGTTAAGCCTTTGTTTAGAG
1 GAGCATTTATTTTTCTAAAGTCGTTAAGCCTTTGTTTAGAA
* * * *
14008410 GAGCTTGATTTATTTCTTGTAAAAGTCATTGAGCCTCTGTTTAGAA
1 GAGC---ATTTATTT-TTCT-AAAGTCGTTAAGCCTTTGTTTAGAA
* * * * *
14008456 GAGCATTTA-TTTTCCAAAATCATTTAAGCCTCTGTTTAGAG
1 GAGCATTTATTTTTCTAAAGTC-GTTAAGCCTTTGTTTAGAA
14008497 GAGC-TTTATTT
1 GAGCATTTATTT
14008508 ATTTTCGAAA
Statistics
Matches: 150, Mismatches: 20, Indels: 23
0.78 0.10 0.12
Matches are distributed among these distances:
40 39 0.26
41 34 0.23
42 2 0.01
43 23 0.15
44 26 0.17
45 1 0.01
46 25 0.17
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.43
Consensus pattern (41 bp):
GAGCATTTATTTTTCTAAAGTCGTTAAGCCTTTGTTTAGAA
Found at i:14009534 original size:18 final size:18
Alignment explanation
Indices: 14009503--14009557 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
14009493 GAGCCGTTTC
**
14009503 ATTTTTTTGGTTTTTTTT
1 ATTTTTTTATTTTTTTTT
*
14009521 ATTTTTTTATTTTTTATT
1 ATTTTTTTATTTTTTTTT
* * *
14009539 ATGTGTTTATTTATTTTT
1 ATTTTTTTATTTTTTTTT
14009557 A
1 A
14009558 GGGGTATTTT
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:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (18 bp):
ATTTTTTTATTTTTTTTT
Found at i:14026770 original size:28 final size:29
Alignment explanation
Indices: 14026705--14026771 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 29
14026695 TTACAATCAG
*
14026705 TTAAA-TTTTAAATATTTATTTTATCTAA
1 TTAAATTTTTAAATATATATTTTATCTAA
* *
14026733 ATAATTTTTTAAATATATA-TTTA-CTCAA
1 TTAAATTTTTAAATATATATTTTATCT-AA
14026761 TTAAATTTTTA
1 TTAAATTTTTA
14026772 TTAGATAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
27 2 0.06
28 18 0.56
29 12 0.38
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (29 bp):
TTAAATTTTTAAATATATATTTTATCTAA
Found at i:14028863 original size:94 final size:94
Alignment explanation
Indices: 14028702--14028892 Score: 346
Period size: 94 Copynumber: 2.0 Consensus size: 94
14028692 AACACACTCT
*
14028702 TATAAATGGCTAACAGGAATCTGTAGGTGGCTGTAAAACCTAGAATTTATAGTTTTAGCGTAGTG
1 TATAAATGGCTAACAGAAATCTGTAGGTGGCTGTAAAACCTAGAATTTATAGTTTTAGCGTAGTG
* *
14028767 TCAATTACAGTGATTAGGTAGTATTTTCC
66 TCAATTACAGTGATCAGGTAGGATTTTCC
14028796 TATAAATGGCTAACAGAAATCTGTAGGTGGCTGTAAAACCTAGAATTTATAGTTTTAGCGTAGTG
1 TATAAATGGCTAACAGAAATCTGTAGGTGGCTGTAAAACCTAGAATTTATAGTTTTAGCGTAGTG
*
14028861 TCAATTACAGTGGTCAGGTAGGATTTTCC
66 TCAATTACAGTGATCAGGTAGGATTTTCC
14028890 TAT
1 TAT
14028893 TGGTATTCCG
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 93 1.00
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.35
Consensus pattern (94 bp):
TATAAATGGCTAACAGAAATCTGTAGGTGGCTGTAAAACCTAGAATTTATAGTTTTAGCGTAGTG
TCAATTACAGTGATCAGGTAGGATTTTCC
Found at i:14031541 original size:22 final size:22
Alignment explanation
Indices: 14031498--14031542 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
14031488 TTTTTATTCG
**
14031498 AAATTTTTAAAAAATTTTAATT
1 AAATTTTTAAAAAATTAAAATT
**
14031520 AAATTTTTAATTAATTAAAATT
1 AAATTTTTAAAAAATTAAAATT
14031542 A
1 A
14031543 TCTAACTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AAATTTTTAAAAAATTAAAATT
Found at i:14031883 original size:20 final size:19
Alignment explanation
Indices: 14031858--14031907 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
14031848 ATTATTTGCA
**
14031858 TATATTTTTATTAAAAATTT
1 TATATTTTTA-TAAAAAAAT
*
14031878 TATATTTATATAAAAAAAT
1 TATATTTTTATAAAAAAAT
14031897 TATTATTTTTA
1 TA-TATTTTTA
14031908 ATAATTTGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTTTTATAAAAAAAT
Found at i:14031896 original size:21 final size:21
Alignment explanation
Indices: 14031870--14031911 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
14031860 TATTTTTATT
14031870 AAAAATT-TTATATTTATATAA
1 AAAAATTATTATATTTA-ATAA
*
14031891 AAAAATTATTATTTTTAATAA
1 AAAAATTATTATATTTAATAA
14031912 TTTGATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AAAAATTATTATATTTAATAA
Found at i:14032202 original size:18 final size:19
Alignment explanation
Indices: 14032165--14032207 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
14032155 TATGAAATTC
*
14032165 TTTTAAAAGCATTTTAAAT
1 TTTTAAAAGAATTTTAAAT
* *
14032184 TTTTAAAATAATTTTAATT
1 TTTTAAAAGAATTTTAAAT
14032203 TTTTA
1 TTTTA
14032208 TAGTCTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
TTTTAAAAGAATTTTAAAT
Found at i:14038225 original size:22 final size:22
Alignment explanation
Indices: 14038182--14038226 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
14038172 TTTTTATTCG
**
14038182 AAATTTTTAAAAAATTTTAATT
1 AAATTTTTAAAAAATTAAAATT
**
14038204 AAATTTTTAATTAATTAAAATT
1 AAATTTTTAAAAAATTAAAATT
14038226 A
1 A
14038227 TCTAACTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AAATTTTTAAAAAATTAAAATT
Found at i:14038566 original size:20 final size:19
Alignment explanation
Indices: 14038541--14038590 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
14038531 ATTATTTGCA
**
14038541 TATATTTTTATTAAAAATTT
1 TATATTTTTA-TAAAAAAAT
*
14038561 TATATTTATATAAAAAAAT
1 TATATTTTTATAAAAAAAT
14038580 TATTATTTTTA
1 TA-TATTTTTA
14038591 ATAATTTGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTTTTATAAAAAAAT
Found at i:14038579 original size:21 final size:21
Alignment explanation
Indices: 14038553--14038594 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
14038543 TATTTTTATT
14038553 AAAAATT-TTATATTTATATAA
1 AAAAATTATTATATTTA-ATAA
*
14038574 AAAAATTATTATTTTTAATAA
1 AAAAATTATTATATTTAATAA
14038595 TTTGATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AAAAATTATTATATTTAATAA
Found at i:14038871 original size:19 final size:19
Alignment explanation
Indices: 14038797--14038889 Score: 62
Period size: 19 Copynumber: 4.8 Consensus size: 19
14038787 TTTTATTTAA
** *
14038797 AATTTTAAATTGGTATAA-
1 AATTTTAAATTTTTAAAAG
* *
14038815 AATTTTATATTTTTTAAAAT
1 AATTTTA-AATTTTTAAAAG
* *
14038835 AATATGAAATTCTTTTAAAAG
1 AATTTTAAA-T-TTTTAAAAG
* *
14038856 CATTTTAAATTTTTAAAAT
1 AATTTTAAATTTTTAAAAG
*
14038875 AATTTTAATTTTTTA
1 AATTTTAAATTTTTA
14038890 TAGTCTATTT
Statistics
Matches: 57, Mismatches: 14, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
18 7 0.12
19 29 0.51
20 7 0.12
21 14 0.25
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (19 bp):
AATTTTAAATTTTTAAAAG
Found at i:14042676 original size:7 final size:7
Alignment explanation
Indices: 14042664--14042688 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14042654 TAGAAAATAG
14042664 TTTTTGT
1 TTTTTGT
14042671 TTTTTGT
1 TTTTTGT
14042678 TTTTTGT
1 TTTTTGT
14042685 TTTT
1 TTTT
14042689 AAAAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (7 bp):
TTTTTGT
Found at i:14048925 original size:17 final size:19
Alignment explanation
Indices: 14048898--14048935 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
14048888 CGTGGATGAA
*
14048898 AAAAAATTTACTAAT-TAT
1 AAAAAATTTACAAATATAT
14048916 AAAAAA-TTACAAATATAT
1 AAAAAATTTACAAATATAT
14048934 AA
1 AA
14048936 TTCATATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAAATTTACAAATATAT
Found at i:14054410 original size:21 final size:22
Alignment explanation
Indices: 14054369--14054410 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
14054359 AATTACTAAT
* *
14054369 AAAAATCATTTTCTTACTTTTA
1 AAAAATCATATTCTTAATTTTA
14054391 AAAAATCATATT-TTAATTTT
1 AAAAATCATATTCTTAATTTT
14054411 TTTAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (22 bp):
AAAAATCATATTCTTAATTTTA
Found at i:14054411 original size:22 final size:22
Alignment explanation
Indices: 14054369--14054438 Score: 52
Period size: 23 Copynumber: 3.0 Consensus size: 22
14054359 AATTACTAAT
* *
14054369 AAAAATCAT-TTTCTTACTTTTA
1 AAAAATCATATTT-TAATTTTTA
*
14054391 AAAAATCATATTTTAATTTTTTT
1 AAAAATCATATTTTAA-TTTTTA
*
14054414 AAAAATAAATATTTTGAAATTTTTA
1 AAAAAT-CATATTTT--AATTTTTA
14054439 GAATATTTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
22 11 0.29
23 13 0.34
24 7 0.18
25 5 0.13
26 2 0.05
ACGTcount: A:0.43, C:0.06, G:0.01, T:0.50
Consensus pattern (22 bp):
AAAAATCATATTTTAATTTTTA
Found at i:14054412 original size:23 final size:25
Alignment explanation
Indices: 14054386--14054438 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 25
14054376 ATTTTCTTAC
* *
14054386 TTTTAAAAAAT-CATATTTT-AATT
1 TTTTAAAAAATAAATATTTTGAAAT
*
14054409 TTTTTAAAAATAAATATTTTGAAAT
1 TTTTAAAAAATAAATATTTTGAAAT
14054434 TTTTA
1 TTTTA
14054439 GAATATTTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 10 0.42
24 7 0.29
25 7 0.29
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (25 bp):
TTTTAAAAAATAAATATTTTGAAAT
Found at i:14054512 original size:41 final size:39
Alignment explanation
Indices: 14054398--14054543 Score: 114
Period size: 41 Copynumber: 3.5 Consensus size: 39
14054388 TTAAAAAATC
* *
14054398 ATATTTTAATTTTTTTAAAAATAAATATTTTGAAA-TTTTTAGA
1 ATATTTTAA-TTTTTT-AAAAT--ATAATTT-AAATTTTTTAAA
* * *
14054441 ATATTTTCATATTTTAAAATATTAAATTTAATTTTTTTAAA
1 ATATTTTAATTTTTTAAAATA-T-AATTTAAATTTTTTAAA
*
14054482 ATATTTTAATTTTTTATAAATCATACTTTAAAATTTTTTAAA
1 ATATTTTAATTTTTTA-AAAT-ATAATTT-AAATTTTTTAAA
*
14054524 ATCATATTTTATTTTTTAAA
1 AT-AT-TTTAATTTTTTAAA
14054544 TTCAATACTT
Statistics
Matches: 85, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
39 1 0.01
40 3 0.04
41 34 0.40
42 23 0.27
43 13 0.15
44 11 0.13
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.55
Consensus pattern (39 bp):
ATATTTTAATTTTTTAAAATATAATTTAAATTTTTTAAA
Found at i:14054525 original size:23 final size:24
Alignment explanation
Indices: 14054489--14054534 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
14054479 AAAATATTTT
14054489 AATTTTTTATAAATCATACTTTAA
1 AATTTTTTATAAATCATACTTTAA
*
14054513 AATTTTTTA-AAATCATATTTTA
1 AATTTTTTATAAATCATACTTTA
14054535 TTTTTTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (24 bp):
AATTTTTTATAAATCATACTTTAA
Found at i:14055340 original size:28 final size:27
Alignment explanation
Indices: 14055299--14055357 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 27
14055289 AACTCTTTTT
14055299 AAAAATTAAAATATAAAAAATTTCT-TA
1 AAAAATTAAAATATAAAAAATTT-TATA
*
14055326 AAAACATTAAAATATAGAAAATTTTATA
1 AAAA-ATTAAAATATAAAAAATTTTATA
14055354 AAAA
1 AAAA
14055358 TCCAAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (27 bp):
AAAAATTAAAATATAAAAAATTTTATA
Found at i:14055555 original size:22 final size:21
Alignment explanation
Indices: 14055514--14055571 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
14055504 ATCAAAATAT
14055514 TGATTTTATTAAAAAAAAAATC
1 TGATTTTA-TAAAAAAAAAATC
* *
14055536 TGATTTTAAAATAAATAAAAATA
1 TGATTTTATAA-AAA-AAAAATC
*
14055559 TTATTTT-TAAAAA
1 TGATTTTATAAAAA
14055572 TTAAAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
21 5 0.17
22 13 0.43
23 12 0.40
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (21 bp):
TGATTTTATAAAAAAAAAATC
Found at i:14055576 original size:22 final size:21
Alignment explanation
Indices: 14055507--14055581 Score: 62
Period size: 23 Copynumber: 3.4 Consensus size: 21
14055497 GCTAACTATC
14055507 AAAATATTGATTTTATTAAAAA-A
1 AAAATATT-A-TTT-TTAAAAATA
* * *
14055530 AAAATCTGATTTTAAAATAAATA
1 AAAATATTATTTT-TAA-AAATA
*
14055553 AAAATATTATTTTTAAAAATT
1 AAAATATTATTTTTAAAAATA
14055574 AAAATATT
1 AAAATATT
14055582 TAGAAAATGC
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
20 1 0.02
21 17 0.40
22 6 0.14
23 18 0.43
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (21 bp):
AAAATATTATTTTTAAAAATA
Found at i:14056383 original size:15 final size:14
Alignment explanation
Indices: 14056350--14056389 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
14056340 GTCAATTAAA
14056350 TTATTTATTTACTT
1 TTATTTATTTACTT
14056364 TTATTTATATTA-TCT
1 TTATTTAT-TTACT-T
14056379 TTATTTATTTA
1 TTATTTATTTA
14056390 ATTATTCCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATTTATTTACTT
Found at i:14056780 original size:4 final size:4
Alignment explanation
Indices: 14056771--14056795 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
14056761 GAAAAATGTC
14056771 TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA T
14056796 TTTACGTCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:14058202 original size:26 final size:26
Alignment explanation
Indices: 14058173--14058222 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
14058163 ATTATAAAAA
14058173 AATTTGAAA-TTAAGTCCTTGTACTAT
1 AATTTGAAATTTAAGTCCTT-TACTAT
*
14058199 AATTTGAAATTTAATTCCTTTACT
1 AATTTGAAATTTAAGTCCTTTACT
14058223 CATTTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.46
Consensus pattern (26 bp):
AATTTGAAATTTAAGTCCTTTACTAT
Found at i:14064083 original size:3 final size:3
Alignment explanation
Indices: 14064075--14064129 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
14064065 GTTTCTTCCC
14064075 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14064123 TT- TTA TT
1 TTA TTA TT
14064130 CTAACTTTAA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 49 0.96
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:14064312 original size:20 final size:20
Alignment explanation
Indices: 14064263--14064313 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
14064253 TATTTTCACT
*
14064263 TTTTATCATCTTTTTTTGTTA
1 TTTTATCAT-TTTTTATGTTA
14064284 -TTTATTCATTTATTTAT-TTA
1 TTTTA-TCATTT-TTTATGTTA
14064304 TTTTATCATT
1 TTTTATCATT
14064314 ATTAAGTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTTATCATTTTTTATGTTA
Found at i:14066412 original size:18 final size:19
Alignment explanation
Indices: 14066391--14066433 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
14066381 AATTTGGATT
* *
14066391 TTAATATAAAA-TTGGGCC
1 TTAATACAAAACTAGGGCC
*
14066409 TTAATACAAAACTAGGGCT
1 TTAATACAAAACTAGGGCC
14066428 TTAATA
1 TTAATA
14066434 ATTAGCCCAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.33
Consensus pattern (19 bp):
TTAATACAAAACTAGGGCC
Found at i:14068296 original size:18 final size:17
Alignment explanation
Indices: 14068269--14068303 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14068259 TAGTATGAAA
*
14068269 TTATAGGATACAATAAAT
1 TTATAAGATACAA-AAAT
14068287 TTATAAGATACAAAAAT
1 TTATAAGATACAAAAAT
14068304 AATGTGGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.54, C:0.06, G:0.09, T:0.31
Consensus pattern (17 bp):
TTATAAGATACAAAAAT
Found at i:14069344 original size:18 final size:19
Alignment explanation
Indices: 14069307--14069344 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
14069297 ATTTAAACAA
14069307 ATATGACAAACATCAAATG
1 ATATGACAAACATCAAATG
* *
14069326 ATATGA-AAATATCACATG
1 ATATGACAAACATCAAATG
14069344 A
1 A
14069345 CAAATACCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.53, C:0.13, G:0.11, T:0.24
Consensus pattern (19 bp):
ATATGACAAACATCAAATG
Found at i:14070196 original size:3 final size:3
Alignment explanation
Indices: 14070188--14070238 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
14070178 AATCTCAATA
14070188 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14070235 AAT A
1 AAT A
14070239 GTTTTTCAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:14071643 original size:21 final size:23
Alignment explanation
Indices: 14071617--14071670 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 23
14071607 GTTTTTAATC
14071617 ATTTTAATATTAAAAA-AA-TAA
1 ATTTTAATATTAAAAATAATTAA
*
14071638 ATTTTAATA-TAAAAATAATTAT
1 ATTTTAATATTAAAAATAATTAA
14071660 ATTTTATATAT
1 ATTTTA-ATAT
14071671 ATTAAATCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 6 0.21
21 11 0.39
22 8 0.29
23 3 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTTAATATTAAAAATAATTAA
Found at i:14073757 original size:16 final size:17
Alignment explanation
Indices: 14073738--14073776 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
14073728 AGTAATTTTT
*
14073738 AAAATTTTTTTA-AATA
1 AAAATTATTTTATAATA
*
14073754 AAAAATATTTTATAATA
1 AAAATTATTTTATAATA
14073771 AAAATT
1 AAAATT
14073777 CAAAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATTATTTTATAATA
Found at i:14074702 original size:24 final size:23
Alignment explanation
Indices: 14074649--14074702 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
14074639 AATAGAAAAT
* *
14074649 AAATTTTTAAAAAAATGATATGC
1 AAATTTTTAAAAAAAGGATATGA
* * *
14074672 AATTTTTTAAAAGAAGGAATTTGA
1 AAATTTTTAAAAAAAGG-ATATGA
14074696 AAATTTT
1 AAATTTT
14074703 AATTTAATTT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (23 bp):
AAATTTTTAAAAAAAGGATATGA
Found at i:14076242 original size:20 final size:20
Alignment explanation
Indices: 14076219--14076256 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14076209 TTCAAAAAAA
14076219 TTTT-AAAATATATAAAATAT
1 TTTTCAAAAT-TATAAAATAT
14076239 TTTTCAAAATTATAAAAT
1 TTTTCAAAATTATAAAAT
14076257 TAAAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTTCAAAATTATAAAATAT
Found at i:14076277 original size:17 final size:16
Alignment explanation
Indices: 14076244--14076280 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
14076234 AATATTTTTC
*
14076244 AAAATTATAAAATTAA
1 AAAATTATAAAACTAA
14076260 AAAATTATGAAAACTAA
1 AAAATTAT-AAAACTAA
14076277 AAAA
1 AAAA
14076281 ATTCAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (16 bp):
AAAATTATAAAACTAA
Found at i:14076355 original size:9 final size:9
Alignment explanation
Indices: 14076332--14076456 Score: 67
Period size: 9 Copynumber: 13.3 Consensus size: 9
14076322 AAAAATATAT
14076332 TTTTGAAAAA
1 TTTT-AAAAA
*
14076342 ATTTAAAAA
1 TTTTAAAAA
14076351 TTTTAAAAA
1 TTTTAAAAA
*
14076360 -TCT-AAAA
1 TTTTAAAAA
14076367 TTTTAAAAAA
1 TTTT-AAAAA
* *
14076377 ATCTAAAAA
1 TTTTAAAAA
**
14076386 TTAAAAAAA
1 TTTTAAAAA
14076395 TTATTAAAAA
1 TT-TTAAAAA
**
14076405 AATTAAAAA
1 TTTTAAAAA
14076414 TATTCTAAAAGA
1 T-TT-TAAAA-A
*
14076426 -TTAAAAAA
1 TTTTAAAAA
14076434 TTTTAAAAAA
1 TTTT-AAAAA
*
14076444 TTCTTAAACA
1 TT-TTAAAAA
14076454 TTT
1 TTT
14076457 AATTAAAGTT
Statistics
Matches: 87, Mismatches: 18, Indels: 21
0.69 0.14 0.17
Matches are distributed among these distances:
7 4 0.05
8 5 0.06
9 40 0.46
10 30 0.34
11 7 0.08
12 1 0.01
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:14076358 original size:18 final size:18
Alignment explanation
Indices: 14076332--14076473 Score: 71
Period size: 19 Copynumber: 7.6 Consensus size: 18
14076322 AAAAATATAT
14076332 TTTTGAAAAAATTTAAAAA
1 TTTT-AAAAAATTTAAAAA
*
14076351 TTTT-AAAAATCT-AAAA
1 TTTTAAAAAATTTAAAAA
*
14076367 TTTTAAAAAAATCTAAAAA
1 TTTT-AAAAAATTTAAAAA
*
14076386 -TTAAAAAAATTATTAAAAA
1 TTTTAAAAAA-T-TTAAAAA
**
14076405 AATTAAAAATATTCTAAAAGA
1 TTTTAAAAA-ATT-TAAAA-A
14076426 --TTAAAAAATTTTAAAAAA
1 TTTTAAAAAA-TTT-AAAAA
*
14076444 TTCTT-AAACATTTAATTAAA
1 TT-TTAAAAAATTTAA--AAA
*
14076464 GTTTAAAAAA
1 TTTTAAAAAA
14076474 AAATGCATAA
Statistics
Matches: 98, Mismatches: 8, Indels: 33
0.71 0.06 0.24
Matches are distributed among these distances:
16 8 0.08
17 13 0.13
18 16 0.16
19 33 0.34
20 24 0.24
21 4 0.04
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (18 bp):
TTTTAAAAAATTTAAAAA
Found at i:14076402 original size:12 final size:12
Alignment explanation
Indices: 14076385--14076409 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14076375 AAATCTAAAA
14076385 ATTAAAAAAATT
1 ATTAAAAAAATT
14076397 ATTAAAAAAATT
1 ATTAAAAAAATT
14076409 A
1 A
14076410 AAAATATTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATTAAAAAAATT
Found at i:14076442 original size:19 final size:19
Alignment explanation
Indices: 14076381--14076443 Score: 74
Period size: 19 Copynumber: 3.2 Consensus size: 19
14076371 AAAAAAATCT
14076381 AAAAATTAAAAAAATTATTAA
1 AAAAATT-AAAAAATT-TTAA
*
14076402 AAAAATTAAAAATATTCT-A
1 AAAAATTAAAAA-ATTTTAA
*
14076421 AAAGATTAAAAAATTTTAA
1 AAAAATTAAAAAATTTTAA
14076440 AAAA
1 AAAA
14076444 TTCTTAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 4 0.11
19 16 0.44
20 6 0.17
21 10 0.28
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAAATTAAAAAATTTTAA
Found at i:14077406 original size:17 final size:17
Alignment explanation
Indices: 14077381--14077416 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14077371 TGAATTATCA
*
14077381 AATTGATATATATATAT
1 AATTGATATAAATATAT
*
14077398 AATTTATATAAATATAT
1 AATTGATATAAATATAT
14077415 AA
1 AA
14077417 ATTAATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
AATTGATATAAATATAT
Found at i:14077488 original size:23 final size:24
Alignment explanation
Indices: 14077441--14077488 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
14077431 ATCATTTGTA
14077441 AAATAAATAAGTTATAAAAATATT
1 AAATAAATAAGTTATAAAAATATT
* *
14077465 AAATAAATAA-TTTTATAAATATT
1 AAATAAATAAGTTATAAAAATATT
14077488 A
1 A
14077489 CGTATATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATAAATAAGTTATAAAAATATT
Found at i:14086136 original size:20 final size:21
Alignment explanation
Indices: 14086111--14086172 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 21
14086101 ATTTAAATTG
*
14086111 ATTTTTATTTAAAATTTAA-A
1 ATTTTTATATAAAATTTAATA
*
14086131 ATTTTT-TATATAATTTAATA
1 ATTTTTATATAAAATTTAATA
*
14086151 ATTTTTA-ATAAACTTTTAATA
1 ATTTTTATATAAA-ATTTAATA
14086172 A
1 A
14086173 ATAATTTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 10 0.29
20 17 0.49
21 8 0.23
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTTTATATAAAATTTAATA
Found at i:14086137 original size:22 final size:21
Alignment explanation
Indices: 14086091--14086157 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 21
14086081 GATAAAGAAA
*
14086091 TTTTATTTGAATTTAAATTGAT
1 TTTTATTTAAATTTAAATT-AT
*
14086113 TTTTATTTAAAATTTAAAAT-T
1 TTTTATTT-AAATTTAAATTAT
* *
14086134 TTTTATAT-AATTT-AATAAT
1 TTTTATTTAAATTTAAATTAT
14086153 TTTTA
1 TTTTA
14086158 ATAAACTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
18 2 0.05
19 11 0.29
21 8 0.21
22 8 0.21
23 9 0.24
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (21 bp):
TTTTATTTAAATTTAAATTAT
Found at i:14087366 original size:26 final size:24
Alignment explanation
Indices: 14087329--14087402 Score: 94
Period size: 25 Copynumber: 3.0 Consensus size: 24
14087319 ATAATATTAC
*
14087329 AAAATACGAAATACAAAAAAACCAAA
1 AAAATACAAAATACAAAAAAA--AAA
14087355 AAAATACAAAATACAAAACAAAAAA
1 AAAATACAAAATACAAAA-AAAAAA
* *
14087380 AAAAAAAAAAATACAAAAAAAAA
1 AAAATACAAAATACAAAAAAAAA
14087403 GAACAGAAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
24 5 0.11
25 19 0.43
26 17 0.39
27 3 0.07
ACGTcount: A:0.81, C:0.11, G:0.01, T:0.07
Consensus pattern (24 bp):
AAAATACAAAATACAAAAAAAAAA
Found at i:14087385 original size:20 final size:19
Alignment explanation
Indices: 14087343--14087421 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 19
14087333 TACGAAATAC
*
14087343 AAAAAAACCAAAAAAATACAA
1 AAAAAAAACAAAAAAA-A-AA
*
14087364 AATACAAAACAAAAAAAAAA
1 AA-AAAAAACAAAAAAAAAA
14087384 AAAAAAATACAAAAAAAAAGA
1 AAAAAAA-ACAAAAAAAAA-A
* * *
14087405 ACAGAAGACAAAAAAAA
1 AAAAAAAACAAAAAAAA
14087422 TTAAGGATGT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
19 4 0.08
20 25 0.51
21 8 0.16
22 12 0.24
ACGTcount: A:0.82, C:0.10, G:0.04, T:0.04
Consensus pattern (19 bp):
AAAAAAAACAAAAAAAAAA
Found at i:14087421 original size:32 final size:32
Alignment explanation
Indices: 14087326--14087397 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 32
14087316 ACAATAATAT
**
14087326 TACAAAATACGAAATAC-AAAAAAACCAAAAAAA
1 TACAAAATAC-AAA-ACAAAAAAAAAAAAAAAAA
14087359 TACAAAATACAAAACAAAAAAAAAAAAAAAAA
1 TACAAAATACAAAACAAAAAAAAAAAAAAAAA
14087391 TACAAAA
1 TACAAAA
14087398 AAAAAGAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
31 2 0.06
32 24 0.67
33 10 0.28
ACGTcount: A:0.78, C:0.12, G:0.01, T:0.08
Consensus pattern (32 bp):
TACAAAATACAAAACAAAAAAAAAAAAAAAAA
Found at i:14088432 original size:22 final size:23
Alignment explanation
Indices: 14088406--14088448 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
14088396 TTTTTTATGC
*
14088406 ATAAATGTTTAAAT-TTATTAGG
1 ATAAATATTTAAATGTTATTAGG
*
14088428 ATAAATATTTAATTGTTATTA
1 ATAAATATTTAAATGTTATTA
14088449 ATAATAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (23 bp):
ATAAATATTTAAATGTTATTAGG
Found at i:14100017 original size:1 final size:1
Alignment explanation
Indices: 14100011--14100091 Score: 108
Period size: 1 Copynumber: 81.0 Consensus size: 1
14100001 TGTTTTGCTT
* * *
14100011 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAATAAAAAAAATAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* **
14100076 TAAATGAAAAAAAAAA
1 AAAAAAAAAAAAAAAA
14100092 TGAGAAAGGA
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
1 69 1.00
ACGTcount: A:0.93, C:0.00, G:0.02, T:0.05
Consensus pattern (1 bp):
A
Found at i:14101166 original size:35 final size:35
Alignment explanation
Indices: 14101127--14102180 Score: 480
Period size: 35 Copynumber: 29.6 Consensus size: 35
14101117 TATATAATTT
*
14101127 TTTGACTTGCGGTTCAATCCCAGTCATCTTTAATC
1 TTTGACTTGCGGTTTAATCCCAGTCATCTTTAATC
* * * * *
14101162 TTTGACTCGTGGTTTAATCCGA-TCAT-TTCATTC
1 TTTGACTTGCGGTTTAATCCCAGTCATCTTTAATC
* * *
14101195 TCTGACTTGCGGTTCAATCTCAGTCATCTTTAATC
1 TTTGACTTGCGGTTTAATCCCAGTCATCTTTAATC
* * * * *
14101230 TTTGACTCGTGGTTTAATCTC-GATCATTTCATTAGTTC
1 TTTGACTTGCGGTTTAATCCCAG-TCA--TCTTTA-ATC
* * * *
14101268 TCTGACTTACGATTTAGTCCCAGTCATCTTTAATC
1 TTTGACTTGCGGTTTAATCCCAGTCATCTTTAATC
* * * * * *
14101303 TTTGACTCGTGGTTTAAT--CTGTCAT-TTCATTA
1 TTTGACTTGCGGTTTAATCCCAGTCATCTTTAATC
* * *
14101335 TTCTGACTTACGATTTAGTCCCAGTCATCTTTAATC
1 TT-TGACTTGCGGTTTAATCCCAGTCATCTTTAATC
* * *
14101371 TTTGACTCGTGGTTTAATCCCA-TCATTTCATTAAT-
1 TTTGACTTGCGGTTTAATCCCAGTCA--TCTTTAATC
*
14101406 TTTGACTTGCGGTTTAGTCCCAGTCATCTTTAATC
1 TTTGACTTGCGGTTTAATCCCAGTCATCTTTAATC
* *
14101441 TTTGAC-TGC-GTTTAATCCC-GATCATTTCATTAATT
1 TTTGACTTGCGGTTTAATCCCAG-TCA--TCTTTAATC
*
14101476 TCTTGACTT--GGTTCAATCCCAGTCATCTTTAATC
1 T-TTGACTTGCGGTTTAATCCCAGTCATCTTTAATC
* * * *
14101510 TTTGACTCGTGGTTTAATCCC-GATCATTTCATTAATT
1 TTTGACTTGCGGTTTAATCCCAG-TCA--TCTTTAATC
* *
14101547 TTCTGACTTAC-GTTCAATCCCAGTCATCTTTAATC
1 TT-TGACTTGCGGTTTAATCCCAGTCATCTTTAATC
* * * *
14101582 TTTGACTCGTCGGTTTAATCCGA-TCATTTCATTAATTT
1 TTTGACTTG-CGGTTTAATCCCAGTCA--TCTTTAA-TC
* *
14101620 TTTGACTTACGGTTTAGTCCCAGTCATCTTTAATC
1 TTTGACTTGCGGTTTAATCCCAGTCATCTTTAATC
* *
14101655 TTTGAC-T-C-GTTTAATCCC-GATCATTTCATTATTTC
1 TTTGACTTGCGGTTTAATCCCAG-TCA--TCTTTA-ATC
* *
14101690 TCT-ACTTGCGGTTCAATCCCAGTCATCTTTAATC
1 TTTGACTTGCGGTTTAATCCCAGTCATCTTTAATC
* * * * *
14101724 TTTGACTCGTGATTTAATCTC-GATCATTTCATTAATTTC
1 TTTGACTTGCGGTTTAATCCCAG-TCA--TCTTTAA--TC
* * * *
14101763 TCTGACTTACAGTTCAATCCCAGTCATCTTTAATC
1 TTTGACTTGCGGTTTAATCCCAGTCATCTTTAATC
* ** * * *
14101798 -CTGACTCACAGTTTAATCCC-GATCATTTCATTATTC
1 TTTGACTTGCGGTTTAATCCCAG-TCA--TCTTTAATC
* * * * * *
14101834 CTCGACTTACAGTTTTAAATCCTAATCATCTTTAATC
1 TTTGACTTGC-GGTTT-AATCCCAGTCATCTTTAATC
* * * *
14101871 -TTGACTCGTGATTTAATCCC-GATCATTTCATTAAT-
1 TTTGACTTGCGGTTTAATCCCAG-TCA--TCTTTAATC
** * *
14101906 TTCCTGACTTGCAATTTAGTCCTAGTCATCTTTAATC
1 TT--TGACTTGCGGTTTAATCCCAGTCATCTTTAATC
* * * *
14101943 ATTGACTCGCGATTTAATCCCAGTCATTTCATTAATTC
1 TTTGACTTGCGGTTTAATCCCAGTCA--TCTTTAA-TC
* * * * *
14101981 TCTGACTTGTGGTTCAGTCCCAGTCATCTTTAATA
1 TTTGACTTGCGGTTTAATCCCAGTCATCTTTAATC
* * * *
14102016 TTTGACTCGTGGTTT-ATCCC-GATTATTTCATTAATTTC
1 TTTGACTTGCGGTTTAATCCCAG-TCA--TCTTTAA--TC
* *
14102054 TTTGACTTGCGGTTT-GTCTCAGTC-TCTTTAATC
1 TTTGACTTGCGGTTTAATCCCAGTCATCTTTAATC
* * * *
14102087 TTTGACTCGTGGTTTAATTCTC-GATCATTTCTTAATTC
1 TTTGACTTGCGGTTTAA-TCCCAG-TCATCT-TTAA-TC
* * * * *
14102125 TCTCGACTTGCGGTTTAGTCCTAGTCATCGTTAATA
1 T-TTGACTTGCGGTTTAATCCCAGTCATCTTTAATC
* *
14102161 TTTGATTTGTGGTTTAATCC
1 TTTGACTTGCGGTTTAATCC
14102181 TGATTTTCTT
Statistics
Matches: 756, Mismatches: 181, Indels: 164
0.69 0.16 0.15
Matches are distributed among these distances:
31 1 0.00
32 19 0.03
33 74 0.10
34 85 0.11
35 235 0.31
36 97 0.13
37 97 0.13
38 105 0.14
39 42 0.06
40 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.44
Consensus pattern (35 bp):
TTTGACTTGCGGTTTAATCCCAGTCATCTTTAATC
Found at i:14101310 original size:73 final size:73
Alignment explanation
Indices: 14101129--14102180 Score: 1236
Period size: 73 Copynumber: 14.7 Consensus size: 73
14101119 TATAATTTTT
* *
14101129 TGACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAAT-CCGATCATTTC--
1 TGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
14101191 --ATTCTC
66 TAATTCTC
* * * *
14101197 TGACTTGCGGTTCAATCTCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCTCGATCATTTCAT
1 TGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
*
14101262 TAGTTCTC
66 TAATTCTC
* * *
14101270 TGACTTACGATTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAAT-CTG-TCATTTCAT
1 TGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
14101333 T-A-T-TC
66 TAATTCTC
* *
14101338 TGACTTACGATTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCC-ATCATTTCAT
1 TGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
14101402 TAATT-T-
66 TAATTCTC
*
14101408 TGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACT-G-CGTTTAATCCCGATCATTTCAT
1 TGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
14101471 TAATT-TC
66 TAATTCTC
* *
14101478 TTGACTT--GGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
1 -TGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
*
14101541 TTAATTTTC
65 TTAATTCTC
* * *
14101550 TGACTTAC-GTTCAATCCCAGTCATCTTTAATCTTTGACTCGTCGGTTTAAT-CCGATCATTTCA
1 TGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGT-GGTTTAATCCCGATCATTTCA
* *
14101613 TTAATTTTT
65 TTAATTCTC
*
14101622 TGACTTACGGTTTAGTCCCAGTCATCTTTAATCTTTGACTC---GTTTAATCCCGATCATTTCAT
1 TGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
*
14101684 TATTTCTC
66 TAATTCTC
* * * *
14101692 T-ACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGATTTAATCTCGATCATTTCAT
1 TGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
14101756 TAATTTCTC
66 TAA-TTCTC
* * * * * ***
14101765 TGACTTACAGTTCAATCCCAGTCATCTTTAATC-CTGACTCACAGTTTAATCCCGATCATTTCAT
1 TGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
14101829 T-ATTC-C
66 TAATTCTC
* * * * * *
14101835 TCGACTTACAGTTTTAAATCCTAATCATCTTTAATC-TTGACTCGTGATTTAATCCCGATCATTT
1 T-GACTTGC-GGTTT-AGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTT
14101899 CATTAATT-TCC
63 CATTAATTCT-C
** * * * *
14101910 TGACTTGCAATTTAGTCCTAGTCATCTTTAATCATTGACTCGCGATTTAATCCC-AGTCATTTCA
1 TGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGA-TCATTTCA
14101974 TTAATTCTC
65 TTAATTCTC
* * * *
14101983 TGACTTGTGGTTCAGTCCCAGTCATCTTTAATATTTGACTCGTGGTTT-ATCCCGATTATTTCAT
1 TGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
*
14102047 TAATTTCTT
66 TAA-TTCTC
* *
14102056 TGACTTGCGGTTT-GTCTCAGTC-TCTTTAATCTTTGACTCGTGGTTTAATTCTCGATCATTTC-
1 TGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAA-TCCCGATCATTTCA
14102118 TTAATTCTC
65 TTAATTCTC
* * * * *
14102127 TCGACTTGCGGTTTAGTCCTAGTCATCGTTAATATTTGATTTGTGGTTTAATCC
1 T-GACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCC
14102181 TGATTTTCTT
Statistics
Matches: 864, Mismatches: 79, Indels: 77
0.85 0.08 0.08
Matches are distributed among these distances:
68 113 0.13
69 112 0.13
70 61 0.07
71 88 0.10
72 149 0.17
73 278 0.32
74 61 0.07
75 2 0.00
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.44
Consensus pattern (73 bp):
TGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
TAATTCTC
Found at i:14101802 original size:34 final size:34
Alignment explanation
Indices: 14101764--14101876 Score: 93
Period size: 34 Copynumber: 3.2 Consensus size: 34
14101754 ATTAATTTCT
*
14101764 CTGACTTACAGTTCAATCCCAGTCATCTTTAATC
1 CTGACTTACAGTTAAATCCCAGTCATCTTTAATC
* * * *
14101798 CTGACTCACAGTTTAATCCC-GATCATTTCATTATTC
1 CTGACTTACAGTTAAATCCCAG-TCA--TCTTTAATC
* *
14101834 CTCGACTTACAGTTTTAAATCCTAATCATCTTTAATC
1 CT-GACTTACAG--TTAAATCCCAGTCATCTTTAATC
*
14101871 TTGACT
1 CTGACT
14101877 CGTGATTTAA
Statistics
Matches: 61, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
33 1 0.02
34 21 0.34
36 13 0.21
37 16 0.26
39 10 0.16
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.39
Consensus pattern (34 bp):
CTGACTTACAGTTAAATCCCAGTCATCTTTAATC
Found at i:14101933 original size:145 final size:145
Alignment explanation
Indices: 14101130--14102180 Score: 1167
Period size: 145 Copynumber: 7.4 Consensus size: 145
14101120 ATAATTTTTT
* *
14101130 GACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAAT-CCGATCATTTCA-T
1 GACTTACGTTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATT
* * * * *
14101193 --TCT-CTGACTTGCGGTTCAATCTCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCTCGATC
66 AATTTCCTGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
*
14101255 ATTTCATTAGTTCTC
131 ATTTCATTAATTCTC
* *
14101270 TGACTTACGATTT-AGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAAT-CTG-TCATTTCA
1 -GACTTACG-TTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
* *
14101332 TT-A-TT-CTGACTTACGATTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCC-A
64 TTAATTTCCTGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGA
*
14101393 TCATTTCATTAATT-TT
129 TCATTTCATTAATTCTC
* * *
14101409 GACTTGCGGTTT-AGTCCCAGTCATCTTTAATCTTTGACT-G-CGTTTAATCCCGATCATTTCAT
1 GACTTAC-GTTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
* * *
14101471 TAATTTCTTGACTT--GGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGAT
65 TAATTTCCTGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGAT
*
14101534 CATTTCATTAATTTTC
130 CATTTCATTAATTCTC
14101550 TGACTTACG-TTCAATCCCAGTCATCTTTAATCTTTGACTCGTCGGTTTAAT-CCGATCATTTCA
1 -GACTTACGTTTCAATCCCAGTCATCTTTAATCTTTGACTCGT-GGTTTAATCCCGATCATTTCA
** *
14101613 TTAATTTTTTGACTTACGGTTTAGTCCCAGTCATCTTTAATCTTTGACTC---GTTTAATCCCGA
64 TTAATTTCCTGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGA
*
14101675 TCATTTCATTATTTCTC
129 TCATTTCATTAATTCTC
* * * * *
14101692 TACTTGCGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGATTTAATCTCGATCATTTCATT
1 GACTTACGTTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATT
* * * * * ***
14101757 AATTTCTCTGACTTACAGTTCAATCCCAGTCATCTTTAATC-CTGACTCACAGTTTAATCCCGAT
66 AATTTC-CTGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGAT
14101821 CATTTCATT-ATTCCTC
130 CATTTCATTAATT-CTC
* * * *
14101837 GACTTACAGTTTTAAATCCTAATCATCTTTAATC-TTGACTCGTGATTTAATCCCGATCATTTCA
1 GACTTAC-G-TTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
** * * * *
14101901 TTAATTTCCTGACTTGCAATTTAGTCCTAGTCATCTTTAATCATTGACTCGCGATTTAATCCC-A
64 TTAATTTCCTGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGA
14101965 GTCATTTCATTAATTCTC
129 -TCATTTCATTAATTCTC
** * * * *
14101983 TGACTTGTGGTTCAGTCCCAGTCATCTTTAATATTTGACTCGTGGTTT-ATCCCGATTATTTCAT
1 -GACTTACGTTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
* * *
14102047 TAATTTCTTTGACTTGCGGTTT-GTCTCAGTC-TCTTTAATCTTTGACTCGTGGTTTAATTCTCG
65 TAATTTC-CTGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAA-TCCCG
14102110 ATCATTTC-TTAATTCTCTC
128 ATCATTTCATTAA-T-TCTC
* * * * * * *
14102129 GACTTGCGGTTT-AGTCCTAGTCATCGTTAATATTTGATTTGTGGTTTAATCC
1 GACTTAC-GTTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCC
14102181 TGATTTTCTT
Statistics
Matches: 790, Mismatches: 81, Indels: 73
0.84 0.09 0.08
Matches are distributed among these distances:
136 7 0.01
137 3 0.00
138 46 0.06
139 46 0.06
140 41 0.05
141 144 0.18
142 93 0.12
143 56 0.07
144 36 0.05
145 186 0.24
146 104 0.13
147 28 0.04
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.44
Consensus pattern (145 bp):
GACTTACGTTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATT
AATTTCCTGACTTGCGGTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
ATTTCATTAATTCTC
Found at i:14103427 original size:22 final size:23
Alignment explanation
Indices: 14103401--14103443 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
14103391 TTTTTTATGC
*
14103401 ATAAATGTTTAAAT-TTATTAGG
1 ATAAATATTTAAATATTATTAGG
*
14103423 ATAAATATTTAATTATTATTA
1 ATAAATATTTAAATATTATTA
14103444 ATAATAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (23 bp):
ATAAATATTTAAATATTATTAGG
Found at i:14104877 original size:16 final size:16
Alignment explanation
Indices: 14104856--14104886 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
14104846 ATTGTTGGTG
14104856 ATGATTTATGATGATA
1 ATGATTTATGATGATA
14104872 ATGATTTATGATGAT
1 ATGATTTATGATGAT
14104887 TTTTAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.45
Consensus pattern (16 bp):
ATGATTTATGATGATA
Found at i:14105037 original size:27 final size:27
Alignment explanation
Indices: 14104983--14105038 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
14104973 ATATTGGTTT
*
14104983 ATGATTTACGAAATGTTTTACATAATG
1 ATGATTTACGAAATGTTTGACATAATG
** * *
14105010 ATGATTTTTGAAATGTTTGATATTATG
1 ATGATTTACGAAATGTTTGACATAATG
14105037 AT
1 AT
14105039 TTGACATGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.46
Consensus pattern (27 bp):
ATGATTTACGAAATGTTTGACATAATG
Found at i:14105047 original size:22 final size:22
Alignment explanation
Indices: 14105016--14105057 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
14105006 AATGATGATT
14105016 TTTGAAATG-TTTGATATTATGA
1 TTTGAAATGTTTTGA-ATTATGA
*
14105038 TTTGACATGTTTTGAATTAT
1 TTTGAAATGTTTTGAATTAT
14105058 CTATATGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.29, C:0.02, G:0.17, T:0.52
Consensus pattern (22 bp):
TTTGAAATGTTTTGAATTATGA
Found at i:14106563 original size:14 final size:16
Alignment explanation
Indices: 14106546--14106577 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14106536 TAAATAATAA
14106546 AATA-TAAT-TATATT
1 AATATTAATATATATT
14106560 AATATTAATATATATT
1 AATATTAATATATATT
14106576 AA
1 AA
14106578 AACATATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 4 0.25
16 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATATTAATATATATT
Found at i:14106579 original size:32 final size:30
Alignment explanation
Indices: 14106518--14106579 Score: 70
Period size: 32 Copynumber: 2.0 Consensus size: 30
14106508 TTATGTAATT
* *
14106518 TATAATAATTAATTTTCATAAATAATAAAA
1 TATAATAATTAATATTAATAAATAATAAAA
* *
14106548 TATAATTATATTAATATTAATATATATTAAAA
1 TATAA-TA-ATTAATATTAATAAATAATAAAA
14106580 CATATAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
30 5 0.19
31 2 0.08
32 19 0.73
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (30 bp):
TATAATAATTAATATTAATAAATAATAAAA
Found at i:14106958 original size:27 final size:27
Alignment explanation
Indices: 14106933--14106995 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
14106923 CAATTTATAA
14106933 TTTAATAATTCAATCATAAAACTATACAT
1 TTTAA-AATT-AATCATAAAACTATACAT
* * *
14106962 TTTAAAATTTATCAT-AAACTACAAAT
1 TTTAAAATTAATCATAAAACTATACAT
14106988 TTTAAAAT
1 TTTAAAAT
14106996 ATAAAATTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 17 0.55
27 5 0.16
28 4 0.13
29 5 0.16
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (27 bp):
TTTAAAATTAATCATAAAACTATACAT
Found at i:14106989 original size:26 final size:27
Alignment explanation
Indices: 14106945--14106995 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
14106935 TAATAATTCA
* *
14106945 ATCATAAAACTATACATTTTAAAATTT
1 ATCATAAAACTACAAATTTTAAAATTT
14106972 ATCAT-AAACTACAAATTTTAAAAT
1 ATCATAAAACTACAAATTTTAAAAT
14106996 ATAAAATTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (27 bp):
ATCATAAAACTACAAATTTTAAAATTT
Found at i:14107425 original size:16 final size:16
Alignment explanation
Indices: 14107395--14107444 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
14107385 TAATTAATTA
14107395 TTTTTATTAATATTTTAT
1 TTTTTATT-A-ATTTTAT
14107413 TTTTTATTAATTTTAT
1 TTTTTATTAATTTTAT
* *
14107429 ATATTATTAATTTTAT
1 TTTTTATTAATTTTAT
14107445 AGTTATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 21 0.70
17 1 0.03
18 8 0.27
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTATTAATTTTAT
Found at i:14107487 original size:16 final size:17
Alignment explanation
Indices: 14107468--14107501 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
14107458 TATGATATCA
14107468 ATTA-ATAAAATTTTTT
1 ATTAGATAAAATTTTTT
*
14107484 ATTAGATAAATTTTTTT
1 ATTAGATAAAATTTTTT
14107501 A
1 A
14107502 AATTGCTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTAGATAAAATTTTTT
Found at i:14107827 original size:17 final size:17
Alignment explanation
Indices: 14107797--14107835 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
14107787 CACAACGATT
*
14107797 TAAAA-TAATTTAATTA
1 TAAAATTAATATAATTA
14107813 TAAAATTAATATAATTA
1 TAAAATTAATATAATTA
14107830 TAAAAT
1 TAAAAT
14107836 CAAATCGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAAATTAATATAATTA
Found at i:14108862 original size:18 final size:18
Alignment explanation
Indices: 14108835--14108871 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
14108825 TTATTTTATA
*
14108835 AAAAATTAAAAAAAATAT
1 AAAAACTAAAAAAAATAT
*
14108853 AAAAACTAAAAAATATAT
1 AAAAACTAAAAAAAATAT
14108871 A
1 A
14108872 TAATTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAAACTAAAAAAAATAT
Found at i:14108964 original size:24 final size:26
Alignment explanation
Indices: 14108914--14108964 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
14108904 TCATCTCTTA
*
14108914 ATCTGAAATTAATATATATATTTAAT
1 ATCTGAAATTAATATATATATTAAAT
*
14108940 ATCTGAATTTAATATA-A-ATTAAAT
1 ATCTGAAATTAATATATATATTAAAT
14108964 A
1 A
14108965 AAAAAAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 7 0.30
25 1 0.04
26 15 0.65
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (26 bp):
ATCTGAAATTAATATATATATTAAAT
Found at i:14112162 original size:23 final size:24
Alignment explanation
Indices: 14112131--14112191 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 24
14112121 GGGTTTTGAA
*
14112131 TTTTAAGGTTTCAA-GCTTTTAAGG
1 TTTT-AGGTTTCAATGCTTTCAAGG
* *
14112155 TTTTAGGTTT-AATGGTTTCGAGG
1 TTTTAGGTTTCAATGCTTTCAAGG
14112178 TTTTAGGGTTTCAA
1 TTTTA-GGTTTCAA
14112192 AGTTTTAGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 2 0.06
23 18 0.58
24 9 0.29
25 2 0.06
ACGTcount: A:0.21, C:0.07, G:0.25, T:0.48
Consensus pattern (24 bp):
TTTTAGGTTTCAATGCTTTCAAGG
Found at i:14112187 original size:16 final size:16
Alignment explanation
Indices: 14112131--14112198 Score: 68
Period size: 16 Copynumber: 4.3 Consensus size: 16
14112121 GGGTTTTGAA
*
14112131 TTTTAAGGTTTCAAGC
1 TTTTAAGGTTTCAAGG
*
14112147 TTTTAAGGTTT-TAGG
1 TTTTAAGGTTTCAAGG
*
14112162 -TTTAATGGTTTCGAGG
1 TTTTAA-GGTTTCAAGG
* *
14112178 TTTTAGGGTTTCAAAG
1 TTTTAAGGTTTCAAGG
14112194 TTTTA
1 TTTTA
14112199 GGATTTTGGA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
14 5 0.12
15 7 0.16
16 27 0.63
17 4 0.09
ACGTcount: A:0.22, C:0.06, G:0.24, T:0.49
Consensus pattern (16 bp):
TTTTAAGGTTTCAAGG
Found at i:14117573 original size:23 final size:25
Alignment explanation
Indices: 14117543--14117588 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
14117533 TGTTGCGCCT
*
14117543 GAAGCAATA-ATCACAA-CAATACA
1 GAAGCAATAGATAACAATCAATACA
14117566 GAAGCAATAGATAACAATCAATA
1 GAAGCAATAGATAACAATCAATA
14117589 ATAAAATACG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 6 0.30
25 5 0.25
ACGTcount: A:0.57, C:0.17, G:0.11, T:0.15
Consensus pattern (25 bp):
GAAGCAATAGATAACAATCAATACA
Found at i:14119317 original size:35 final size:34
Alignment explanation
Indices: 14119277--14119390 Score: 83
Period size: 34 Copynumber: 3.3 Consensus size: 34
14119267 AAATCAGGAA
14119277 ATAAAAACGACTAAGATTAAACCATAAGTCGAAG
1 ATAAAAACGACTAAGATTAAACCATAAGTCGAAG
* * *
14119311 AGT-AAAATGAC-AACGATTAAATCACAAGTCAGAA-
1 A-TAAAAACGACTAA-GATTAAACCATAAGTC-GAAG
* * *
14119345 ATAAAAGACGA-TCGAGATTGAGCCATAAGTCGAAG
1 ATAAAA-ACGACT-AAGATTAAACCATAAGTCGAAG
*
14119380 AATAAAGACGA
1 -ATAAAAACGA
14119391 TCGAGACTAA
Statistics
Matches: 61, Mismatches: 10, Indels: 17
0.69 0.11 0.19
Matches are distributed among these distances:
33 3 0.05
34 29 0.48
35 23 0.38
36 6 0.10
ACGTcount: A:0.51, C:0.14, G:0.18, T:0.17
Consensus pattern (34 bp):
ATAAAAACGACTAAGATTAAACCATAAGTCGAAG
Found at i:14120729 original size:22 final size:22
Alignment explanation
Indices: 14120704--14120819 Score: 81
Period size: 22 Copynumber: 5.2 Consensus size: 22
14120694 CAGTGCTAGA
*
14120704 TAATTTAAGCTTGGATGCCAAC
1 TAATTTAGGCTTGGATGCCAAC
* * *
14120726 TAATATAGGCTTGAAATGCTAAC
1 TAATTTAGGCTTG-GATGCCAAC
**
14120749 TAACCTAGGCTT-GAGTGCCAAC
1 TAATTTAGGCTTGGA-TGCCAAC
* * *
14120771 TAATTTGGGCTTGATATGCTAAC
1 TAATTTAGGCTTG-GATGCCAAC
* * * *
14120794 TAATATGGGCATGGGTGCCAAC
1 TAATTTAGGCTTGGATGCCAAC
14120816 TAAT
1 TAAT
14120820 ATGGGCTTAA
Statistics
Matches: 72, Mismatches: 18, Indels: 8
0.73 0.18 0.08
Matches are distributed among these distances:
21 1 0.01
22 36 0.50
23 34 0.47
24 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (22 bp):
TAATTTAGGCTTGGATGCCAAC
Found at i:14120749 original size:23 final size:23
Alignment explanation
Indices: 14120718--14120827 Score: 89
Period size: 23 Copynumber: 4.9 Consensus size: 23
14120708 TTAAGCTTGG
14120718 ATGCCAACTAATATAGGCTTGAA
1 ATGCCAACTAATATAGGCTTGAA
* **
14120741 ATGCTAACTAACCTAGGCTTG-A
1 ATGCCAACTAATATAGGCTTGAA
* * * *
14120763 GTGCCAACTAATTTGGGCTTGAT
1 ATGCCAACTAATATAGGCTTGAA
* * * *
14120786 ATGCTAACTAATATGGGCATG-G
1 ATGCCAACTAATATAGGCTTGAA
* *
14120808 GTGCCAACTAATATGGGCTT
1 ATGCCAACTAATATAGGCTT
14120828 AAGTGCTAGC
Statistics
Matches: 69, Mismatches: 17, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
22 34 0.49
23 35 0.51
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (23 bp):
ATGCCAACTAATATAGGCTTGAA
Found at i:14120768 original size:45 final size:45
Alignment explanation
Indices: 14120719--14120840 Score: 147
Period size: 45 Copynumber: 2.7 Consensus size: 45
14120709 TAAGCTTGGA
* * *
14120719 TGCCAACTAATATAGGCTTGAAATGCTAACTAACCTAGGCTTGAG
1 TGCCAACTAATATGGGCTTGAAATGCTAACTAACATAGGCATGAG
* * * * *
14120764 TGCCAACTAATTTGGGCTTGATATGCTAACTAATATGGGCATGGG
1 TGCCAACTAATATGGGCTTGAAATGCTAACTAACATAGGCATGAG
* *
14120809 TGCCAACTAATATGGGCTT-AAGTGCTAGCTAA
1 TGCCAACTAATATGGGCTTGAAATGCTAACTAA
14120841 TCTGGTCTTA
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
44 10 0.15
45 55 0.85
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (45 bp):
TGCCAACTAATATGGGCTTGAAATGCTAACTAACATAGGCATGAG
Found at i:14120833 original size:22 final size:22
Alignment explanation
Indices: 14120719--14120869 Score: 97
Period size: 22 Copynumber: 6.8 Consensus size: 22
14120709 TAAGCTTGGA
* *
14120719 TGCCAACTAATATAGGCTTGAAA
1 TGCCAACTAATATGGGCTT-AAG
* ** * *
14120742 TGCTAACTAACCTAGGCTTGAG
1 TGCCAACTAATATGGGCTTAAG
*
14120764 TGCCAACTAATTTGGGCTTGATA-
1 TGCCAACTAATATGGGCTT-A-AG
* * **
14120787 TGCTAACTAATATGGGCATGGG
1 TGCCAACTAATATGGGCTTAAG
14120809 TGCCAACTAATATGGGCTTAAG
1 TGCCAACTAATATGGGCTTAAG
* * * * *
14120831 TGCTAGCTAATCTGGTCTTAAA
1 TGCCAACTAATATGGGCTTAAG
* *
14120853 TGCCAGCTAATCTGGGC
1 TGCCAACTAATATGGGC
14120870 ATAAATCTCA
Statistics
Matches: 99, Mismatches: 26, Indels: 7
0.75 0.20 0.05
Matches are distributed among these distances:
22 66 0.67
23 32 0.32
24 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (22 bp):
TGCCAACTAATATGGGCTTAAG
Found at i:14125610 original size:40 final size:40
Alignment explanation
Indices: 14125560--14125638 Score: 115
Period size: 39 Copynumber: 2.0 Consensus size: 40
14125550 ACATATGCAT
*
14125560 TATCTAATTAAGATGTGCATGAGATGGAATGCATATATTAC
1 TATCTAATTAAGATGTGCATGA-ATGAAATGCATATATTAC
* *
14125601 TATCT-ATTAATATGTGCATGAATGAAATGCATGTATTA
1 TATCTAATTAAGATGTGCATGAATGAAATGCATATATTA
14125639 TCTTATTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
39 15 0.43
40 15 0.43
41 5 0.14
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.37
Consensus pattern (40 bp):
TATCTAATTAAGATGTGCATGAATGAAATGCATATATTAC
Found at i:14128109 original size:16 final size:16
Alignment explanation
Indices: 14128076--14128136 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
14128066 GTGTTTTAAT
* * *
14128076 GTTTTAGCATTCTAAG
1 GTTTTAGGATTTTGAG
*
14128092 GTTTTAGGGTTTTGAG
1 GTTTTAGGATTTTGAG
* *
14128108 GTTTCAAGATTTTGAGG
1 GTTTTAGGATTTTGA-G
*
14128125 GTTTTTGGATTT
1 GTTTTAGGATTT
14128137 GGAATTTTAG
Statistics
Matches: 34, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
16 24 0.71
17 10 0.29
ACGTcount: A:0.18, C:0.05, G:0.28, T:0.49
Consensus pattern (16 bp):
GTTTTAGGATTTTGAG
Found at i:14128324 original size:8 final size:8
Alignment explanation
Indices: 14128243--14128370 Score: 61
Period size: 8 Copynumber: 16.4 Consensus size: 8
14128233 AGATTTTAGC
14128243 TTTAGGG-
1 TTTAGGGT
14128250 TTT-GGTGT
1 TTTAGG-GT
14128258 TTTAGGGT
1 TTTAGGGT
* *
14128266 CTTAAGGT
1 TTTAGGGT
* *
14128274 TTTAAGAT
1 TTTAGGGT
* *
14128282 TATAGTGT
1 TTTAGGGT
14128290 TTTGAGGGT
1 TTT-AGGGT
*
14128299 TTTAGCGT
1 TTTAGGGT
*
14128307 TTT-GGAT
1 TTTAGGGT
14128314 TTTAGGGT
1 TTTAGGGT
**
14128322 TTTA-TAT
1 TTTAGGGT
14128329 TTTAGGG-
1 TTTAGGGT
*
14128336 TTTGGGAGT
1 TTTAGG-GT
*
14128345 TTTAAGGT
1 TTTAGGGT
*
14128353 TTT-GGAT
1 TTTAGGGT
*
14128360 TTTAGGAT
1 TTTAGGGT
14128368 TTT
1 TTT
14128371 GTATTTTAAG
Statistics
Matches: 89, Mismatches: 23, Indels: 17
0.69 0.18 0.13
Matches are distributed among these distances:
6 2 0.02
7 24 0.27
8 50 0.56
9 13 0.15
ACGTcount: A:0.17, C:0.02, G:0.30, T:0.52
Consensus pattern (8 bp):
TTTAGGGT
Found at i:14128353 original size:16 final size:15
Alignment explanation
Indices: 14128305--14128481 Score: 84
Period size: 15 Copynumber: 11.8 Consensus size: 15
14128295 GGGTTTTAGC
*
14128305 GTTTTGGATTTTAGG
1 GTTTTGGATTTTAAG
** *
14128320 GTTTTATATTTTAGG
1 GTTTTGGATTTTAAG
*
14128335 GTTTGGGAGTTTTAAG
1 GTTTTGGA-TTTTAAG
14128351 GTTTTGGATTTT-AG
1 GTTTTGGATTTTAAG
*
14128365 GATTTTGTATTTTAA-
1 G-TTTTGGATTTTAAG
14128380 -----GG-TTTTAAG
1 GTTTTGGATTTTAAG
*
14128389 AGTTTTGAATTTTAAG
1 -GTTTTGGATTTTAAG
*
14128405 GTTTTGAGGTTTTAA-
1 GTTTTG-GATTTTAAG
** **
14128420 AATTTCAAGTTTTAAG
1 GTTTTGGA-TTTTAAG
*
14128436 GTTTCGAGATTTTAACG
1 GTTTTG-GATTTTAA-G
*
14128453 TTTTTGGAGTTTTAAG
1 GTTTTGGA-TTTTAAG
14128469 GTTTTGGAATTTT
1 GTTTTGG-ATTTT
14128482 TCTTCATGAG
Statistics
Matches: 119, Mismatches: 25, Indels: 35
0.66 0.14 0.20
Matches are distributed among these distances:
8 6 0.05
9 1 0.01
14 3 0.03
15 48 0.40
16 48 0.40
17 13 0.11
ACGTcount: A:0.22, C:0.02, G:0.24, T:0.52
Consensus pattern (15 bp):
GTTTTGGATTTTAAG
Found at i:14128355 original size:46 final size:46
Alignment explanation
Indices: 14128297--14128384 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
14128287 TGTTTTGAGG
* *
14128297 GTTTTAGCGTTTTGGATTTTAGGGTTTTATATTTTAGGGTTTGGGA
1 GTTTTAGCGTTTTGGATTTTAGGATTTTATATTTTAAGGTTTGGGA
*
14128343 GTTTTAAG-GTTTTGGATTTTAGGATTTTGTATTTTAAGGTTT
1 GTTTT-AGCGTTTTGGATTTTAGGATTTTATATTTTAAGGTTT
14128385 TAAGAGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
46 36 0.95
47 2 0.05
ACGTcount: A:0.17, C:0.01, G:0.27, T:0.55
Consensus pattern (46 bp):
GTTTTAGCGTTTTGGATTTTAGGATTTTATATTTTAAGGTTTGGGA
Found at i:14128385 original size:8 final size:8
Alignment explanation
Indices: 14128374--14128473 Score: 62
Period size: 8 Copynumber: 12.5 Consensus size: 8
14128364 GGATTTTGTA
14128374 TTTTAAGG
1 TTTTAAGG
14128382 TTTTAAGAG
1 TTTTAAG-G
14128391 TTTTGAA--
1 TTTT-AAGG
14128398 TTTTAAGG
1 TTTTAAGG
*
14128406 TTTTGAGG
1 TTTTAAGG
**
14128414 TTTTAAAA
1 TTTTAAGG
*
14128422 TTTCAA-G
1 TTTTAAGG
14128429 TTTTAAGG
1 TTTTAAGG
** *
14128437 TTTCGAGA
1 TTTTAAGG
*
14128445 TTTTAACG
1 TTTTAAGG
**
14128453 TTTTTGGAG
1 TTTTAAG-G
14128462 TTTTAAGG
1 TTTTAAGG
14128470 TTTT
1 TTTT
14128474 GGAATTTTTC
Statistics
Matches: 67, Mismatches: 19, Indels: 12
0.68 0.19 0.12
Matches are distributed among these distances:
6 2 0.03
7 9 0.13
8 43 0.64
9 11 0.16
10 2 0.03
ACGTcount: A:0.25, C:0.03, G:0.21, T:0.51
Consensus pattern (8 bp):
TTTTAAGG
Found at i:14128395 original size:24 final size:24
Alignment explanation
Indices: 14128359--14128465 Score: 87
Period size: 24 Copynumber: 4.5 Consensus size: 24
14128349 AGGTTTTGGA
* *
14128359 TTTTAGGA-TTTTGTATTTTAAGG
1 TTTTAAGAGTTTTGAATTTTAAGG
14128382 TTTTAAGAGTTTTGAATTTTAAGG
1 TTTTAAGAGTTTTGAATTTTAAGG
* * *
14128406 TTTTGAG-GTTTTAAAATTTCAA-G
1 TTTTAAGAGTTTT-GAATTTTAAGG
* *
14128429 TTTTAAG-GTTTCGAGATTTTAACG
1 TTTTAAGAGTTTTGA-ATTTTAAGG
**
14128453 TTTTTGGAGTTTT
1 TTTTAAGAGTTTT
14128466 AAGGTTTTGG
Statistics
Matches: 67, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
22 1 0.01
23 29 0.43
24 33 0.49
25 4 0.06
ACGTcount: A:0.24, C:0.03, G:0.21, T:0.52
Consensus pattern (24 bp):
TTTTAAGAGTTTTGAATTTTAAGG
Found at i:14134032 original size:32 final size:34
Alignment explanation
Indices: 14133994--14134077 Score: 104
Period size: 32 Copynumber: 2.6 Consensus size: 34
14133984 AATATAATAA
* * *
14133994 TATTAATATAATAATGTCT-TTAATATATTA-TT
1 TATTAATATAATAATGTATATAAAAATATTATTT
*
14134026 TATTAATATAAT-ATTTATATAAAAATATTATTT
1 TATTAATATAATAATGTATATAAAAATATTATTT
14134059 TATTAATATAATAAT-TATA
1 TATTAATATAATAATGTATA
14134078 GCGTTATTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
31 4 0.09
32 21 0.47
33 18 0.40
34 2 0.04
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (34 bp):
TATTAATATAATAATGTATATAAAAATATTATTT
Found at i:14134946 original size:23 final size:23
Alignment explanation
Indices: 14134920--14134966 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
14134910 CCCAAAATCA
*
14134920 GAAAACCCT-TACTCATCTCTCTT
1 GAAAACCCTCT-CCCATCTCTCTT
*
14134943 GAAATCCCTCTCCCATCTCTCTT
1 GAAAACCCTCTCCCATCTCTCTT
14134966 G
1 G
14134967 GTTTTCCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.21, C:0.38, G:0.06, T:0.34
Consensus pattern (23 bp):
GAAAACCCTCTCCCATCTCTCTT
Found at i:14138063 original size:2 final size:2
Alignment explanation
Indices: 14138056--14138080 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14138046 TTGTTTTATT
14138056 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
14138081 GATTTGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.