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 45 of 190
Found at i:7630686 original size:23 final size:23
Alignment explanation
Indices: 7630634--7630755 Score: 92
Period size: 23 Copynumber: 5.3 Consensus size: 23
7630624 TAGTTAACTA
* *
7630634 TATTACTATATTATTAT-ATT-G
1 TATTATTATATTATTATCATTAT
7630655 TAGTATATTATATTATTATCATTAT
1 TA-T-TATTATATTATTATCATTAT
* *
7630680 TATTATTGTTATCATTATCATTAT
1 TATTATT-ATATTATTATCATTAT
* * *
7630704 TATTA-TATTATCATTATTATTAC
1 TATTATTA-TATTATTATCATTAT
*
7630727 T-TTATTACTATTATTATTATTAT
1 TATTATTA-TATTATTATCATTAT
7630750 T-TTATT
1 TATTATT
7630756 TTCCTTTTCA
Statistics
Matches: 84, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
21 2 0.02
22 4 0.05
23 53 0.63
24 23 0.27
25 2 0.02
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (23 bp):
TATTATTATATTATTATCATTAT
Found at i:7631576 original size:24 final size:23
Alignment explanation
Indices: 7631538--7631587 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
7631528 TTTTGTCCAT
*
7631538 TTTCATTTTCATTTTATTTTTTGA
1 TTTCATTTTCATTTTATTATTT-A
7631562 TTTCATTTT-ATTTTTATTATTTA
1 TTTCATTTTCA-TTTTATTATTTA
7631585 TTT
1 TTT
7631588 TTATTATCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.74
Consensus pattern (23 bp):
TTTCATTTTCATTTTATTATTTA
Found at i:7631604 original size:16 final size:13
Alignment explanation
Indices: 7631568--7631644 Score: 59
Period size: 13 Copynumber: 5.8 Consensus size: 13
7631558 TTGATTTCAT
7631568 TTTATTTTTATTA
1 TTTATTTTTATTA
7631581 TTTATTTTTATTA
1 TTTATTTTTATTA
7631594 TCTTAAGTTTTTATT-
1 T-TT-A-TTTTTATTA
* * *
7631609 CTCAGTTTT-TTA
1 TTTATTTTTATTA
* *
7631621 TTTAATTTTACTA
1 TTTATTTTTATTA
7631634 TTTTATTTTTA
1 -TTTATTTTTA
7631645 AAAAAATCTT
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
11 2 0.04
12 10 0.20
13 17 0.34
14 12 0.24
15 1 0.02
16 8 0.16
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (13 bp):
TTTATTTTTATTA
Found at i:7631759 original size:16 final size:18
Alignment explanation
Indices: 7631728--7631764 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
7631718 AAAAAAATAA
*
7631728 AAAAATCTTTTTC-AAAT
1 AAAAATCTTTTACAAAAT
7631745 AAAAATC-TTTACAAAAT
1 AAAAATCTTTTACAAAAT
7631762 AAA
1 AAA
7631765 TTCACGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAATCTTTTACAAAAT
Found at i:7632581 original size:7 final size:7
Alignment explanation
Indices: 7632569--7632616 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
7632559 GATGTTAAGG
7632569 AAATATT
1 AAATATT
7632576 AAATATT
1 AAATATT
*
7632583 AAATAAT
1 AAATATT
* *
7632590 AAAAATA
1 AAATATT
*
7632597 AAATAATA
1 AAAT-ATT
7632605 AAATATT
1 AAATATT
7632612 AAATA
1 AAATA
7632617 ATAATAATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
7 27 0.79
8 7 0.21
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
AAATATT
Found at i:7632592 original size:14 final size:14
Alignment explanation
Indices: 7632569--7632620 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
7632559 GATGTTAAGG
*
7632569 AAATATTAAATATT
1 AAATAATAAATATT
* *
7632583 AAATAATAAAAATA
1 AAATAATAAATATT
7632597 AAATAATAAAATATT
1 AAATAAT-AAATATT
7632612 AAATAATAA
1 AAATAATAA
7632621 TAATAATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 20 0.62
15 12 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATAATAAATATT
Found at i:7632601 original size:21 final size:22
Alignment explanation
Indices: 7632576--7632630 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
7632566 AGGAAATATT
7632576 AAATATTAAATAATAAA-AATA
1 AAATATTAAATAATAAATAATA
* *
7632597 AAATAATAAAATATTAAATAATA
1 AAAT-ATTAAATAATAAATAATA
*
7632620 ATAATAATAAA
1 A-AATATTAAA
7632631 ATTTTAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 4 0.15
22 11 0.41
23 9 0.33
24 3 0.11
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (22 bp):
AAATATTAAATAATAAATAATA
Found at i:7632604 original size:3 final size:3
Alignment explanation
Indices: 7632584--7632629 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
7632574 TTAAATATTA
* *
7632584 AAT AAT AAA AAT AA- AAT AAT AA- AAT ATT AAAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
7632628 AA
1 AA
7632630 AATTTTAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
2 4 0.11
3 30 0.83
4 2 0.06
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:7632625 original size:24 final size:20
Alignment explanation
Indices: 7632592--7632643 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
7632582 TAAATAATAA
*
7632592 AAATAAAATAATAAAATATT
1 AAATAAAATAATAAAAAATT
7632612 AAATAATAATAATAATAAAATTT
1 AAATAA-AATAATAA-AAAA-TT
*
7632635 TAATAAAAT
1 AAATAAAAT
7632644 GAAAATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 6 0.22
21 8 0.30
22 6 0.22
23 7 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATAAAATAATAAAAAATT
Found at i:7632900 original size:19 final size:19
Alignment explanation
Indices: 7632860--7632925 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
7632850 GTGCAACTCG
***
7632860 AAATCTTAAATGAAATAAA
1 AAATCTTAAATGAAACCCA
**
7632879 AAATCTTAGGTGAAACCCA
1 AAATCTTAAATGAAACCCA
* **
7632898 AAACCTTAAATGAAGTCCA
1 AAATCTTAAATGAAACCCA
7632917 AAATCTTAA
1 AAATCTTAA
7632926 TTCATTCAAA
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.52, C:0.15, G:0.09, T:0.24
Consensus pattern (19 bp):
AAATCTTAAATGAAACCCA
Found at i:7633212 original size:29 final size:28
Alignment explanation
Indices: 7633178--7633232 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
7633168 TTGCATTTAT
*
7633178 TGTTTATATATATTTATTTTAATTATTGA
1 TGTTTATATATAGTTA-TTTAATTATTGA
*
7633207 TGTTTATGTATAGTTATTTAATTATT
1 TGTTTATATATAGTTATTTAATTATT
7633233 TAATTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 10 0.42
29 14 0.58
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (28 bp):
TGTTTATATATAGTTATTTAATTATTGA
Found at i:7635310 original size:17 final size:17
Alignment explanation
Indices: 7635290--7635322 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7635280 GGGAGAAAGT
7635290 AAAAATGAAA-AAAAATG
1 AAAAA-GAAATAAAAATG
7635307 AAAAAGAAATAAAAAT
1 AAAAAGAAATAAAAAT
7635323 TTTCATTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (17 bp):
AAAAAGAAATAAAAATG
Found at i:7636147 original size:12 final size:12
Alignment explanation
Indices: 7636126--7636155 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
7636116 ACATCAGCTT
*
7636126 TAAAAGAAATTC
1 TAAAAAAAATTC
7636138 TAAAAAAAATTC
1 TAAAAAAAATTC
7636150 TAAAAA
1 TAAAAA
7636156 TTTTCAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.67, C:0.07, G:0.03, T:0.23
Consensus pattern (12 bp):
TAAAAAAAATTC
Found at i:7636157 original size:222 final size:223
Alignment explanation
Indices: 7635735--7636185 Score: 791
Period size: 222 Copynumber: 2.0 Consensus size: 223
7635725 ACTTTAAAAA
* *
7635735 ATAAAATTATTAATTTGGTACTTTAAATTTTATTTTGTCATTCACTTTGATATCTAAAACTAATG
1 ATAAAATTATTAATTTGGTACTCTAAATTTTATTTTGTCATTCACTCTGATATCTAAAACTAATG
* * *
7635800 TTATCAGTCAATTTACTGATATGACATAACGTACAATAAGATGCTAAAATGTATAAAAAAAATGT
66 CTATCAATCAATTTACTGATATGACATAACGTACAATAAGATGCTAAAATGTATAAAAAAAAAGT
* *
7635865 CCAGTCAATCCCACATAATCAATTTTCACATCAGCTTTAAAAGAAAATTCTAAAATAAATTCTAA
131 CCAGTCAATCCCACATAATCAATTTCCACATCAGCTTTAAAAGAAAATTCTAAAAAAAATTCTAA
7635930 AAAA-TTTCAAACAATATTTAAAAAATT
196 AAAATTTTCAAACAATATTTAAAAAATT
7635957 ATAAAATTATTAATTTGGTACTCTAAATTTTATTTTGTCATTCACTCTGATATCTAAAACTAATG
1 ATAAAATTATTAATTTGGTACTCTAAATTTTATTTTGTCATTCACTCTGATATCTAAAACTAATG
*
7636022 CTATCAATCAATTTACTGATATGACATAACGTACAATAAGATGCTGAAATGTATAAAAAAAAAAA
66 CTATCAATCAATTTACTGATATGACATAACGTACAATAAGATGCTAAAATGTAT--AAAAAAAAA
7636087 GTCCAGTCAATCCCACATAATCAATTTCCACATCAGCTTTAAAAG-AAATTCTAAAAAAAATTCT
129 GTCCAGTCAATCCCACATAATCAATTTCCACATCAGCTTTAAAAGAAAATTCTAAAAAAAATTCT
7636151 -AAAAATTTTCAAACAATATTTAAAAAATT
194 AAAAAATTTTCAAACAATATTTAAAAAATT
7636180 ATAAAA
1 ATAAAA
7636186 AAAAATTAAA
Statistics
Matches: 218, Mismatches: 8, Indels: 5
0.94 0.03 0.02
Matches are distributed among these distances:
222 119 0.55
223 47 0.22
224 52 0.24
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (223 bp):
ATAAAATTATTAATTTGGTACTCTAAATTTTATTTTGTCATTCACTCTGATATCTAAAACTAATG
CTATCAATCAATTTACTGATATGACATAACGTACAATAAGATGCTAAAATGTATAAAAAAAAAGT
CCAGTCAATCCCACATAATCAATTTCCACATCAGCTTTAAAAGAAAATTCTAAAAAAAATTCTAA
AAAATTTTCAAACAATATTTAAAAAATT
Found at i:7636256 original size:24 final size:27
Alignment explanation
Indices: 7636229--7636290 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 27
7636219 TCAAAAAATT
*
7636229 AAAATTTTTATA-AAATT-AAAA-AAA
1 AAAATTTTTAAAGAAATTGAAAATAAA
* *
7636253 AAAA-CTTTAAAGAAATTGAAAATAAG
1 AAAATTTTTAAAGAAATTGAAAATAAA
7636279 AAAATTTTTAAA
1 AAAATTTTTAAA
7636291 TTTTTTGACA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
23 5 0.17
24 9 0.30
25 4 0.13
26 6 0.20
27 6 0.20
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (27 bp):
AAAATTTTTAAAGAAATTGAAAATAAA
Found at i:7636456 original size:9 final size:9
Alignment explanation
Indices: 7636438--7636516 Score: 72
Period size: 9 Copynumber: 8.6 Consensus size: 9
7636428 AATATTTTAG
7636438 TTTTTATAAA
1 TTTTT-TAAA
7636448 TTTTTTAAA
1 TTTTTTAAA
* *
7636457 TGTTTCAAA
1 TTTTTTAAA
*
7636466 ATTTTTAAA
1 TTTTTTAAA
7636475 TTTTTT-AA
1 TTTTTTAAA
7636483 TTTTTCATAAA
1 TTTTT--TAAA
*
7636494 ATTTTT-AA
1 TTTTTTAAA
7636502 TTTTTTAAAA
1 TTTTTT-AAA
7636512 TTTTT
1 TTTTT
7636517 CAAAAAAGTT
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
8 14 0.25
9 23 0.41
10 13 0.23
11 6 0.11
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:7636474 original size:27 final size:27
Alignment explanation
Indices: 7636439--7636521 Score: 107
Period size: 27 Copynumber: 3.0 Consensus size: 27
7636429 ATATTTTAGT
*
7636439 TTTTATAAATTTTTTAAATGTTTCAAAA
1 TTTT-TAAATTTTTTAAATTTTTCAAAA
7636467 TTTTTAAATTTTTT-AATTTTTCATAAAA
1 TTTTTAAATTTTTTAAATTTTTC--AAAA
7636495 TTTTT-AATTTTTTAAAATTTTTCAAAA
1 TTTTTAAATTTTTT-AAATTTTTCAAAA
7636522 AAGTTTTGAT
Statistics
Matches: 50, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
26 7 0.14
27 22 0.44
28 13 0.26
29 8 0.16
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (27 bp):
TTTTTAAATTTTTTAAATTTTTCAAAA
Found at i:7636498 original size:19 final size:17
Alignment explanation
Indices: 7636467--7636516 Score: 73
Period size: 19 Copynumber: 2.8 Consensus size: 17
7636457 TGTTTCAAAA
*
7636467 TTTTTAAATTTTTTAAT
1 TTTTTAAAATTTTTAAT
7636484 TTTTCATAAAATTTTTAAT
1 TTTT--TAAAATTTTTAAT
7636503 TTTTTAAAATTTTT
1 TTTTTAAAATTTTT
7636517 CAAAAAAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 14 0.47
19 16 0.53
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTAAAATTTTTAAT
Found at i:7636542 original size:28 final size:28
Alignment explanation
Indices: 7636446--7636544 Score: 94
Period size: 29 Copynumber: 3.6 Consensus size: 28
7636436 AGTTTTTATA
* * *
7636446 AATTTTTTAAATGTTTC--AAAATTTTT
1 AATTTTTTTAATTTTTCAAAAAAGTTTT
* * *
7636472 AAATTTTTTAATTTTTCATAAAATTTTT
1 AATTTTTTTAATTTTTCAAAAAAGTTTT
*
7636500 AATTTTTTAAAATTTTTCAAAAAAGTTTT
1 AATTTTTT-TAATTTTTCAAAAAAGTTTT
* *
7636529 GATTTTTTTTATTTTT
1 AATTTTTTTAATTTTT
7636545 AATTTTTTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 14 0.23
28 22 0.37
29 24 0.40
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (28 bp):
AATTTTTTTAATTTTTCAAAAAAGTTTT
Found at i:7636549 original size:16 final size:16
Alignment explanation
Indices: 7636525--7636555 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7636515 TTCAAAAAAG
*
7636525 TTTTGATTTTTTTTAT
1 TTTTAATTTTTTTTAT
7636541 TTTTAATTTTTTTTA
1 TTTTAATTTTTTTTA
7636556 ACTTTTGTGA
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:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTTAATTTTTTTTAT
Found at i:7636663 original size:29 final size:29
Alignment explanation
Indices: 7636606--7636661 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
7636596 TTTATTAAAT
*
7636606 TTAAAATTTTTAAATTTTTATGATTTTTA
1 TTAAAATTTTTAAATTTTTATAATTTTTA
*
7636635 TTAAAATTTTTAGATTTTT-TAATTTTT
1 TTAAAATTTTTAAATTTTTATAATTTTT
7636662 TAATTTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (29 bp):
TTAAAATTTTTAAATTTTTATAATTTTTA
Found at i:7637125 original size:16 final size:16
Alignment explanation
Indices: 7637104--7637136 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7637094 AGAAACAATG
7637104 AAATATATATAAATAT
1 AAATATATATAAATAT
*
7637120 AAATATATATATATAT
1 AAATATATATAAATAT
7637136 A
1 A
7637137 TGATGAGGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATATATATAAATAT
Found at i:7637831 original size:20 final size:19
Alignment explanation
Indices: 7637783--7637836 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
7637773 CATTCTTTTT
*
7637783 ATTTTTTAATATTTAATAA
1 ATTTTTTAAAATTTAATAA
*
7637802 ATTGTTTAAAATTATAA-AA
1 ATTTTTTAAAATT-TAATAA
7637821 ATGTTTTTAAAGATTT
1 AT-TTTTTAAA-ATTT
7637837 TATTTTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 15 0.52
20 11 0.38
21 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.52
Consensus pattern (19 bp):
ATTTTTTAAAATTTAATAA
Found at i:7637894 original size:9 final size:8
Alignment explanation
Indices: 7637869--7637906 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
7637859 CTTATACCAA
7637869 TTTTT-CT
1 TTTTTCCT
7637876 TCTTTTCCT
1 T-TTTTCCT
7637885 TTTTTACCT
1 TTTTT-CCT
7637894 TTTTTCCT
1 TTTTTCCT
7637902 TTTTT
1 TTTTT
7637907 AAAATATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 1 0.04
8 16 0.57
9 11 0.39
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTCCT
Found at i:7640237 original size:3 final size:3
Alignment explanation
Indices: 7640229--7640327 Score: 107
Period size: 3 Copynumber: 34.3 Consensus size: 3
7640219 TCTTATATCG
* * * * *
7640229 TAT TAT TAT CAT CAT TAT TAT TGT TGT TAT TAT TAT TAT CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
7640277 TA- TAT TAT CAT TAT TAT TAT TAC TAT TAT TAT TAT T-T TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7640322 T-T TAT T
1 TAT TAT T
7640328 TTTCTTTCCA
Statistics
Matches: 82, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
2 8 0.10
3 74 0.90
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:7645655 original size:15 final size:15
Alignment explanation
Indices: 7645616--7645657 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
7645606 TTTTCTTGAC
7645616 AAATGAATAAAATGAA
1 AAATGAA-AAAATGAA
*
7645632 AAGA-AAAAAAATGAA
1 AA-ATGAAAAAATGAA
7645647 AAATGAAAAAA
1 AAATGAAAAAA
7645658 CAAAAGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
14 1 0.05
15 16 0.73
16 4 0.18
17 1 0.05
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (15 bp):
AAATGAAAAAATGAA
Found at i:7646935 original size:66 final size:66
Alignment explanation
Indices: 7646848--7646972 Score: 153
Period size: 66 Copynumber: 1.9 Consensus size: 66
7646838 TTAGTCTAGA
* * * * *
7646848 TCATTTTTTTGACTCACGATTTTATCTTGGTCATTTAACTTCAACCTCGA-TTCGGTCCTAGTTG
1 TCATTTTCTTGACTCACGATTTCATCATAGCCATTTAACTTCAACCTCGACTT-GGTCCTAGTTG
7646912 CT
65 CT
** * *
7646914 TCATTTTCTTGACTCGTGATTTCATCATAGCCATTTATCTTCAATCTCGACTTGGTCCT
1 TCATTTTCTTGACTCACGATTTCATCATAGCCATTTAACTTCAACCTCGACTTGGTCCT
7646973 GATCATTTTA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 47 0.96
67 2 0.04
ACGTcount: A:0.18, C:0.24, G:0.13, T:0.45
Consensus pattern (66 bp):
TCATTTTCTTGACTCACGATTTCATCATAGCCATTTAACTTCAACCTCGACTTGGTCCTAGTTGC
T
Found at i:7647238 original size:122 final size:122
Alignment explanation
Indices: 7647084--7647358 Score: 318
Period size: 122 Copynumber: 2.3 Consensus size: 122
7647074 TTCAACCATA
* * * * * * * **
7647084 ACTCGATCTTGATCACTTTATCTTTTAGACTCGTGGTTTTTGTTTCGATTATCTGATCTCGACT-
1 ACTCGATCCTGATCGCTTTATCTTTTAGACTCGTGGGTTTCGTCTCAATCATCCAATCTCGACTA
* * * * *
7647148 CGGTCTAGATCATTTTTTTGACTCACAATTTTATCTTAGTCATTAATCTTCAACATGG
66 AGTTC-AAATCATTTTTTTGACTCACAATTTTATCTCAGTCATTAATCTTCAACATCG
* *
7647206 ACTCGATCCTGGTCGCTTTATCTTTTAGACTCGTGGGTTTCGTCTCAATCATCCAATTTCGACTA
1 ACTCGATCCTGATCGCTTTATCTTTTAGACTCGTGGGTTTCGTCTCAATCATCCAATCTCGACTA
** * * ** *
7647271 AGTTCAAATCATTTTTTTGACTTGCAATTTTATCTCGGTCATTCATCTTTGACCTCG
66 AGTTCAAATCATTTTTTTGACTCACAATTTTATCTCAGTCATTAATCTTCAACATCG
*
7647328 ACTCGATCCTGATTGCTTTATCTTTTAGACT
1 ACTCGATCCTGATCGCTTTATCTTTTAGACT
7647359 AGCAGCTCAA
Statistics
Matches: 127, Mismatches: 25, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
122 124 0.98
123 3 0.02
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (122 bp):
ACTCGATCCTGATCGCTTTATCTTTTAGACTCGTGGGTTTCGTCTCAATCATCCAATCTCGACTA
AGTTCAAATCATTTTTTTGACTCACAATTTTATCTCAGTCATTAATCTTCAACATCG
Found at i:7647814 original size:31 final size:31
Alignment explanation
Indices: 7647776--7647849 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
7647766 TATAGTTTGA
7647776 TATATTATTATATTATAGT-TAACTATATTAC
1 TATATTATTATATTATAGTAT-ACTATATTAC
* * *
7647807 TATATTATTATATTGTAGTATATTATATTAT
1 TATATTATTATATTATAGTATACTATATTAC
7647838 TATCATTATTAT
1 TAT-ATTATTAT
7647850 TATTGTTATC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 29 0.76
32 9 0.24
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (31 bp):
TATATTATTATATTATAGTATACTATATTAC
Found at i:7647840 original size:3 final size:3
Alignment explanation
Indices: 7647827--7647922 Score: 101
Period size: 3 Copynumber: 33.3 Consensus size: 3
7647817 TATTGTAGTA
* * * *
7647827 TAT TA- TAT TAT TAT CAT TAT TAT TAT TGT TAT CAT TAT CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
7647874 TA- TAT TAT CAT TAT TAT TAC T-T TAT TAC TAT TAT TAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7647919 TAT T
1 TAT T
7647923 TTCCTTTTCA
Statistics
Matches: 75, Mismatches: 14, Indels: 8
0.77 0.14 0.08
Matches are distributed among these distances:
2 7 0.09
3 68 0.91
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:7647853 original size:23 final size:23
Alignment explanation
Indices: 7647801--7647922 Score: 92
Period size: 23 Copynumber: 5.3 Consensus size: 23
7647791 TAGTTAACTA
* *
7647801 TATTACTATATTATTAT-ATT-G
1 TATTATTATATTATTATCATTAT
7647822 TAGTATATTATATTATTATCATTAT
1 TA-T-TATTATATTATTATCATTAT
* *
7647847 TATTATTGTTATCATTATCATTAT
1 TATTATT-ATATTATTATCATTAT
* * *
7647871 TATTA-TATTATCATTATTATTAC
1 TATTATTA-TATTATTATCATTAT
*
7647894 T-TTATTACTATTATTATTATTAT
1 TATTATTA-TATTATTATCATTAT
7647917 T-TTATT
1 TATTATT
7647923 TTCCTTTTCA
Statistics
Matches: 84, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
21 2 0.02
22 4 0.05
23 53 0.63
24 23 0.27
25 2 0.02
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (23 bp):
TATTATTATATTATTATCATTAT
Found at i:7648727 original size:18 final size:19
Alignment explanation
Indices: 7648706--7648753 Score: 73
Period size: 18 Copynumber: 2.6 Consensus size: 19
7648696 CCATTTTCAT
7648706 TTTCATTTTATTTTT-TGA
1 TTTCATTTTATTTTTATGA
*
7648724 TTTCATTTTATTTTTATTA
1 TTTCATTTTATTTTTATGA
7648743 TTT-ATTTTATT
1 TTTCATTTTATT
7648754 ATCTTAAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 23 0.82
19 5 0.18
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (19 bp):
TTTCATTTTATTTTTATGA
Found at i:7648738 original size:24 final size:23
Alignment explanation
Indices: 7648700--7648749 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
7648690 TTTTGTCCAT
*
7648700 TTTCATTTTCATTTTATTTTTTGA
1 TTTCATTTTCATTTTATTATTT-A
7648724 TTTCATTTT-ATTTTTATTATTTA
1 TTTCATTTTCA-TTTTATTATTTA
7648747 TTT
1 TTT
7648750 TATTATCTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.74
Consensus pattern (23 bp):
TTTCATTTTCATTTTATTATTTA
Found at i:7648911 original size:17 final size:17
Alignment explanation
Indices: 7648889--7648925 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
7648879 AAAAAAATAA
7648889 AAAAATCTTTTAC-AAAT
1 AAAAATC-TTTACAAAAT
7648906 AAAAATCTTTACAAAAT
1 AAAAATCTTTACAAAAT
7648923 AAA
1 AAA
7648926 TTCACGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAAATCTTTACAAAAT
Found at i:7650043 original size:19 final size:19
Alignment explanation
Indices: 7650003--7650068 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
7649993 GTGCAACTCG
***
7650003 AAATCTTAAATGAAATAAA
1 AAATCTTAAATGAAACCCA
**
7650022 AAATCTTAGGTGAAACCCA
1 AAATCTTAAATGAAACCCA
* **
7650041 AAACCTTAAATGAAGTCCA
1 AAATCTTAAATGAAACCCA
7650060 AAATCTTAA
1 AAATCTTAA
7650069 TTCATTCAAA
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.52, C:0.15, G:0.09, T:0.24
Consensus pattern (19 bp):
AAATCTTAAATGAAACCCA
Found at i:7650354 original size:29 final size:28
Alignment explanation
Indices: 7650320--7650374 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
7650310 TTGCATTTAT
*
7650320 TGTTTATATATATTTATTTTAATTATTGA
1 TGTTTATATATAGTTA-TTTAATTATTGA
*
7650349 TGTTTATGTATAGTTATTTAATTATT
1 TGTTTATATATAGTTATTTAATTATT
7650375 TAATTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 10 0.42
29 14 0.58
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (28 bp):
TGTTTATATATAGTTATTTAATTATTGA
Found at i:7651925 original size:13 final size:12
Alignment explanation
Indices: 7651902--7651954 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 12
7651892 TTGCCTTGAG
7651902 TATTTATAATTA
1 TATTTATAATTA
7651914 TATTTAATAATTAA
1 TATTT-ATAATT-A
* *
7651928 TAATTATATTTTA
1 TATTTATA-ATTA
7651941 TATTTATATATTA
1 TATTTATA-ATTA
7651954 T
1 T
7651955 TATATTAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
12 5 0.15
13 22 0.65
14 7 0.21
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TATTTATAATTA
Found at i:7651932 original size:20 final size:20
Alignment explanation
Indices: 7651907--7651965 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
7651897 TTGAGTATTT
7651907 ATAATTATATTTAATAATTA
1 ATAATTATATTTAATAATTA
* *
7651927 ATAATTATATTTTAT-ATTT
1 ATAATTATATTTAATAATTA
7651946 ATATATTATTATATTAATAA
1 ATA-ATTA-TAT-TTAATAA
7651966 AATTATTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
19 6 0.19
20 18 0.56
21 3 0.09
22 4 0.12
23 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATAATTATATTTAATAATTA
Found at i:7654994 original size:35 final size:34
Alignment explanation
Indices: 7654954--7655031 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
7654944 TTTACCAAAT
*
7654954 ATATTTTTTAGAAAACAAAAAATAGAAAATAAAAA
1 ATATTTTTTAGAAAA-AAAAAATAAAAAATAAAAA
* * **
7654989 CTATTTTCTAGAAAATGAAAATAAAAAATAAAAA
1 ATATTTTTTAGAAAAAAAAAATAAAAAATAAAAA
*
7655023 ATATATTTT
1 ATATTTTTT
7655032 CAAATCAAAC
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
34 22 0.63
35 13 0.37
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (34 bp):
ATATTTTTTAGAAAAAAAAAATAAAAAATAAAAA
Found at i:7655109 original size:3 final size:3
Alignment explanation
Indices: 7655101--7655132 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
7655091 AGTGTTTGAA
7655101 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
7655133 AGCTAACAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:7655302 original size:23 final size:23
Alignment explanation
Indices: 7655255--7655303 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
7655245 AAATGGTTCG
* **
7655255 ATTTTAAATTAATATGAATTTAA
1 ATTTTAAATTAATAGGAATCCAA
7655278 ATTTTAAATTAATAGGAATCCAA
1 ATTTTAAATTAATAGGAATCCAA
7655301 ATT
1 ATT
7655304 ATCAAAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (23 bp):
ATTTTAAATTAATAGGAATCCAA
Found at i:7656242 original size:16 final size:18
Alignment explanation
Indices: 7656204--7656238 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7656194 ATTTATTTTT
7656204 TAAA-ATTACACTCATAA
1 TAAATATTACACTCATAA
*
7656221 TAAATATTACATTCATAA
1 TAAATATTACACTCATAA
7656239 AATAAACTAA
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:0.51, C:0.14, G:0.00, T:0.34
Consensus pattern (18 bp):
TAAATATTACACTCATAA
Found at i:7657508 original size:18 final size:17
Alignment explanation
Indices: 7657487--7657589 Score: 59
Period size: 18 Copynumber: 5.8 Consensus size: 17
7657477 GACTAAATTA
7657487 AGGTTTAAGGTTTAGTTT
1 AGGTTT-AGGTTTAGTTT
* *
7657505 AGGTTT-GGTTCAATTT
1 AGGTTTAGGTTTAGTTT
* *
7657521 AGGGTTTAAAGTTTTGTTT
1 A-GGTTT-AGGTTTAGTTT
*
7657540 AGGGTTAGGGTTT-GATTT
1 AGGTTTA-GGTTTAG-TTT
* *
7657558 AGGGTTAGCGTTTGGTTT
1 AGGTTTAG-GTTTAGTTT
7657576 AAGG-TTAGGTTTAG
1 -AGGTTTAGGTTTAG
7657590 GGTTTGACCT
Statistics
Matches: 68, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
16 9 0.13
17 13 0.19
18 35 0.51
19 11 0.16
ACGTcount: A:0.19, C:0.02, G:0.32, T:0.47
Consensus pattern (17 bp):
AGGTTTAGGTTTAGTTT
Found at i:7657696 original size:18 final size:19
Alignment explanation
Indices: 7657673--7657747 Score: 68
Period size: 18 Copynumber: 4.1 Consensus size: 19
7657663 GTTTTGATTA
7657673 GGGTTTAGAGTTA-GGTTT
1 GGGTTTAGAGTTAGGGTTT
*
7657691 GGGTTTTAG-TTTAGGGTTT
1 GGG-TTTAGAGTTAGGGTTT
*
7657710 -GGTTTAGGGTTAGGGTTT
1 GGGTTTAGAGTTAGGGTTT
* *
7657728 -GGTTTAAGATTTAAGGTTT
1 GGGTTT-AGAGTTAGGGTTT
7657747 G
1 G
7657748 ACCTAGGATT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
17 5 0.11
18 22 0.47
19 20 0.43
ACGTcount: A:0.16, C:0.00, G:0.37, T:0.47
Consensus pattern (19 bp):
GGGTTTAGAGTTAGGGTTT
Found at i:7657708 original size:19 final size:18
Alignment explanation
Indices: 7657686--7657747 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 18
7657676 TTTAGAGTTA
7657686 GGTTTGGGTTTTAGTTTAG
1 GGTTT-GGTTTTAGTTTAG
*
7657705 GGTTTGG-TTTAGGGTTAG
1 GGTTTGGTTTTA-GTTTAG
* *
7657723 GGTTTGGTTTAAGATTTAA
1 GGTTTGGTTTTAG-TTTAG
7657742 GGTTTG
1 GGTTTG
7657748 ACCTAGGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 4 0.11
18 15 0.42
19 17 0.47
ACGTcount: A:0.15, C:0.00, G:0.37, T:0.48
Consensus pattern (18 bp):
GGTTTGGTTTTAGTTTAG
Found at i:7657714 original size:12 final size:12
Alignment explanation
Indices: 7657610--7657720 Score: 64
Period size: 12 Copynumber: 9.2 Consensus size: 12
7657600 AGTGTTTGGT
* *
7657610 TTTGGGTTAGGA
1 TTTGGTTTAGGG
*
7657622 TTTGGTTTAAGG
1 TTTGGTTTAGGG
* *
7657634 TTTGGTTAAAGG
1 TTTGGTTTAGGG
* *
7657646 TTTAGGGTTAGGA
1 TTT-GGTTTAGGG
* *
7657659 TTTGGTTT-TGA
1 TTTGGTTTAGGG
* *
7657670 TTAGGGTTTAGAG
1 TT-TGGTTTAGGG
*
7657683 TTAGGTTT-GGG
1 TTTGGTTTAGGG
*
7657694 TTTTAGTTTAGGG
1 -TTTGGTTTAGGG
7657707 TTTGGTTTAGGG
1 TTTGGTTTAGGG
7657719 TT
1 TT
7657721 AGGGTTTGGT
Statistics
Matches: 75, Mismatches: 19, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
11 6 0.08
12 56 0.75
13 13 0.17
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (12 bp):
TTTGGTTTAGGG
Found at i:7657733 original size:30 final size:31
Alignment explanation
Indices: 7657603--7657733 Score: 85
Period size: 30 Copynumber: 4.3 Consensus size: 31
7657593 TTGACCTAGT
* * *
7657603 GTTTGGTTTTGGG-TTAGGATTT-GGTTTAAG
1 GTTTGGTTTAGGGTTTAGG-TTTAGGGTTAGG
* * * * *
7657633 GTTTGGTTAAAGGTTTAGGGTTAGGATT-TG
1 GTTTGGTTTAGGGTTTAGGTTTAGGGTTAGG
* * *
7657663 GTTTTGATTAGGGTTTAGAG-TTA-GGTTTGG
1 GTTTGGTTTAGGGTTTAG-GTTTAGGGTTAGG
*
7657693 GTTTTAGTTTAGGGTTT-GGTTTAGGGTTAGG
1 G-TTTGGTTTAGGGTTTAGGTTTAGGGTTAGG
7657724 GTTTGGTTTA
1 GTTTGGTTTA
7657734 AGATTTAAGG
Statistics
Matches: 78, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
29 4 0.05
30 44 0.56
31 30 0.38
ACGTcount: A:0.15, C:0.00, G:0.37, T:0.48
Consensus pattern (31 bp):
GTTTGGTTTAGGGTTTAGGTTTAGGGTTAGG
Found at i:7660738 original size:17 final size:17
Alignment explanation
Indices: 7660712--7660745 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
7660702 ATACTTGTTG
7660712 AATTTAAATTTT-TAAA
1 AATTTAAATTTTATAAA
7660728 AATTATAAATTTTATAAA
1 AATT-TAAATTTTATAAA
7660746 TAAACTTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 8 0.50
18 4 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTTAAATTTTATAAA
Found at i:7673162 original size:15 final size:17
Alignment explanation
Indices: 7673136--7673167 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7673126 AAATATATTT
7673136 TAAAATTATTTT-ATAA
1 TAAAATTATTTTCATAA
7673152 TAAAA-TATTTTCATAA
1 TAAAATTATTTTCATAA
7673168 ATCAAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAAATTATTTTCATAA
Found at i:7674038 original size:20 final size:18
Alignment explanation
Indices: 7674000--7674040 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
7673990 AAATATATAT
*
7674000 TTTTATTATTAATTTTAA
1 TTTTATCATTAATTTTAA
7674018 TTTTATCATATAATATTTAA
1 TTTTATCAT-TAAT-TTTAA
7674038 TTT
1 TTT
7674041 CACGATTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 4 0.20
20 8 0.40
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTATCATTAATTTTAA
Found at i:7678525 original size:20 final size:20
Alignment explanation
Indices: 7678500--7678540 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
7678490 GCGTTGTTTT
7678500 GTTCTTGAGTTTGTCCAGTA
1 GTTCTTGAGTTTGTCCAGTA
7678520 GTTCTTGAGTTTGTCCAGTA
1 GTTCTTGAGTTTGTCCAGTA
7678540 G
1 G
7678541 AGGAAAGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.27, T:0.44
Consensus pattern (20 bp):
GTTCTTGAGTTTGTCCAGTA
Found at i:7680286 original size:33 final size:32
Alignment explanation
Indices: 7680227--7680288 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
7680217 TAAATTTTTA
*
7680227 TTAAAATTTTAAATTATATTATTATATTATAT
1 TTAAAATTTTAAATTATATTAATATATTATAT
7680259 TTAAAATTATTAAATT-TAATTAATATATTA
1 TTAAAATT-TTAAATTAT-ATTAATATATTA
7680289 AAATTAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 9 0.33
33 18 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (32 bp):
TTAAAATTTTAAATTATATTAATATATTATAT
Found at i:7681762 original size:16 final size:15
Alignment explanation
Indices: 7681737--7681769 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
7681727 TTGAAATTTG
7681737 ATTAAATAAAAAATA
1 ATTAAATAAAAAATA
7681752 ATTATAATAAAAAATA
1 ATTA-AATAAAAAATA
7681768 AT
1 AT
7681770 GATATTAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATTAAATAAAAAATA
Found at i:7684616 original size:22 final size:20
Alignment explanation
Indices: 7684587--7684661 Score: 98
Period size: 22 Copynumber: 3.6 Consensus size: 20
7684577 ACCCGAAATT
7684587 AATA-AAATATTATTTTATAA
1 AATATAAATATTATTTT-TAA
7684607 AATATCAAATATTATTTTTTAA
1 AATAT-AAATATTA-TTTTTAA
*
7684629 AATATAAAATATTATTTTTTA
1 AATAT-AAATATTATTTTTAA
7684650 AATATAAATATT
1 AATATAAATATT
7684662 TAAAAATATC
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
20 11 0.22
21 11 0.22
22 24 0.48
23 4 0.08
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (20 bp):
AATATAAATATTATTTTTAA
Found at i:7684669 original size:30 final size:30
Alignment explanation
Indices: 7684634--7684690 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
7684624 TTTAAAATAT
* * *
7684634 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATCATTATATAAATATAAATATTTA
*
7684664 AAAATATCATTATATAAATATATATAT
1 AAAATATCATTATATAAATATAAATAT
7684691 AAATAATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (30 bp):
AAAATATCATTATATAAATATAAATATTTA
Found at i:7695273 original size:11 final size:11
Alignment explanation
Indices: 7695241--7695277 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
7695231 TATATTTTTT
7695241 ATTTTTATTAA
1 ATTTTTATTAA
*
7695252 ATTTATA-TAA
1 ATTTTTATTAA
7695262 ATTTTTATTAA
1 ATTTTTATTAA
7695273 ATTTT
1 ATTTT
7695278 AAAACATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
ATTTTTATTAA
Found at i:7700943 original size:19 final size:19
Alignment explanation
Indices: 7700904--7700943 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
7700894 TGCTTACTTT
*
7700904 AAACTTAATTCATCAATAA
1 AAACTTAATTCATCAACAA
7700923 AAACTTAATTCA-CTAACAA
1 AAACTTAATTCATC-AACAA
7700942 AA
1 AA
7700944 TAAATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (19 bp):
AAACTTAATTCATCAACAA
Found at i:7706206 original size:30 final size:29
Alignment explanation
Indices: 7706132--7706206 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 29
7706122 TTTTGTTCAA
* *
7706132 TTTAAAATTCAATTAAGTAACAATAGATT
1 TTTAAAATTCAATTGAGTAACAATAGATG
7706161 TTTAAATATTCAATTGAGTTAA-AATAGATG
1 TTTAAA-ATTCAATTGAG-TAACAATAGATG
*
7706191 TTTAAAGACTCAATTG
1 TTTAAA-ATTCAATTG
7706207 GATGAAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 6 0.15
30 31 0.77
31 3 0.08
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.39
Consensus pattern (29 bp):
TTTAAAATTCAATTGAGTAACAATAGATG
Found at i:7706215 original size:30 final size:30
Alignment explanation
Indices: 7706132--7706216 Score: 77
Period size: 30 Copynumber: 2.9 Consensus size: 30
7706122 TTTTGTTCAA
* * *
7706132 TTTAAA-ATTCAATTAAGT-AACAATAGATT
1 TTTAAAGACTCAATTGAGTGAA-AATAGATG
* * *
7706161 TTTAAATATTCAATTGAGTTAAAATAGATG
1 TTTAAAGACTCAATTGAGTGAAAATAGATG
7706191 TTTAAAGACTCAATTG-GATGAAAATA
1 TTTAAAGACTCAATTGAG-TGAAAATA
7706217 AATAGGAGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
29 7 0.15
30 39 0.81
31 2 0.04
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (30 bp):
TTTAAAGACTCAATTGAGTGAAAATAGATG
Found at i:7706630 original size:18 final size:19
Alignment explanation
Indices: 7706591--7706630 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
7706581 GTAACAATGT
*
7706591 AAAAACAAATAAAGAAGGA
1 AAAAACAAATAAAGAAGCA
*
7706610 AAAAACAAA-AAAGAATCA
1 AAAAACAAATAAAGAAGCA
7706628 AAA
1 AAA
7706631 TAACTGGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.78, C:0.07, G:0.10, T:0.05
Consensus pattern (19 bp):
AAAAACAAATAAAGAAGCA
Found at i:7711068 original size:19 final size:20
Alignment explanation
Indices: 7711044--7711083 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
7711034 GAATGCAATA
7711044 TGGATT-AAGATTTAGGGTT
1 TGGATTAAAGATTTAGGGTT
*
7711063 TGGATTAAAGGTTTAGGGTT
1 TGGATTAAAGATTTAGGGTT
7711083 T
1 T
7711084 AATTTAAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.42
Consensus pattern (20 bp):
TGGATTAAAGATTTAGGGTT
Found at i:7711094 original size:19 final size:20
Alignment explanation
Indices: 7711048--7711101 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
7711038 GCAATATGGA
* *
7711048 TTAAGATTTAGGGTTTGGAT
1 TTAAGGTTTAGGGTTTGAAT
*
7711068 TAAAGGTTTAGGGTTT-AAT
1 TTAAGGTTTAGGGTTTGAAT
*
7711087 TTAAGGTTTAAGGTT
1 TTAAGGTTTAGGGTT
7711102 AACTTTAGGA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (20 bp):
TTAAGGTTTAGGGTTTGAAT
Found at i:7711096 original size:7 final size:7
Alignment explanation
Indices: 7711070--7711150 Score: 50
Period size: 7 Copynumber: 12.4 Consensus size: 7
7711060 GTTTGGATTA
7711070 AAGGTTT
1 AAGGTTT
*
7711077 AGGGTTT
1 AAGGTTT
7711084 AA--TTT
1 AAGGTTT
7711089 AAGGTTT
1 AAGGTTT
7711096 AAGG-TT
1 AAGGTTT
*
7711102 AA-CTTT
1 AAGGTTT
*
7711108 -AGGATT
1 AAGGTTT
* *
7711114 ATGATTT
1 AAGGTTT
7711121 AAGG-TT
1 AAGGTTT
7711127 AAGGTTTT
1 AAGG-TTT
7711135 AAGGTTT
1 AAGGTTT
*
7711142 -TGGTTT
1 AAGGTTT
7711148 AAG
1 AAG
7711151 AGTTAAGCCT
Statistics
Matches: 54, Mismatches: 12, Indels: 16
0.66 0.15 0.20
Matches are distributed among these distances:
5 6 0.11
6 19 0.35
7 23 0.43
8 6 0.11
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.44
Consensus pattern (7 bp):
AAGGTTT
Found at i:7711108 original size:19 final size:19
Alignment explanation
Indices: 7711070--7711141 Score: 58
Period size: 19 Copynumber: 3.7 Consensus size: 19
7711060 GTTTGGATTA
*
7711070 AAGGTTTAGGGTTTAATTT
1 AAGGTTTAAGGTTTAATTT
7711089 AAGGTTTAAGG-TTAACTTT
1 AAGGTTTAAGGTTTAA-TTT
* * * *
7711108 -AGGATTATGATTTAAGGTT
1 AAGGTTTAAGGTTTAA-TTT
7711127 AAGGTTTTAAGGTTT
1 AAGG-TTTAAGGTTT
7711142 TGGTTTAAGA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
18 11 0.28
19 19 0.47
20 3 0.08
21 7 0.17
ACGTcount: A:0.29, C:0.01, G:0.25, T:0.44
Consensus pattern (19 bp):
AAGGTTTAAGGTTTAATTT
Found at i:7711578 original size:21 final size:21
Alignment explanation
Indices: 7711549--7711595 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
7711539 GATAGGTTTT
*
7711549 GATAAAATTTT-AGTAACCTTC
1 GATATAATTTTGA-TAACCTTC
*
7711570 GATATAATTTTGATAACCTTT
1 GATATAATTTTGATAACCTTC
7711591 GATAT
1 GATAT
7711596 TAGCTTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.43
Consensus pattern (21 bp):
GATATAATTTTGATAACCTTC
Found at i:7711662 original size:33 final size:33
Alignment explanation
Indices: 7711625--7711692 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
7711615 ATAATTTGGT
*
7711625 AACCATTTATTCAAATGT-GGTAATCTTTGATAA
1 AACCATTTATAC-AATGTAGGTAATCTTTGATAA
* *
7711658 AACCATTTATACAGTTTAGGTAATCTTTGATAA
1 AACCATTTATACAATGTAGGTAATCTTTGATAA
7711691 AA
1 AA
7711693 TTTAAGTAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 3 0.10
33 28 0.90
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (33 bp):
AACCATTTATACAATGTAGGTAATCTTTGATAA
Found at i:7711754 original size:21 final size:21
Alignment explanation
Indices: 7711705--7711765 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
7711695 TAAGTAACCT
* *
7711705 TTTGATGTAATTTTGGTAACA
1 TTTGATATAATTTTGATAACA
*
7711726 TTTCATATAATTTTGATAAC-
1 TTTGATATAATTTTGATAACA
*
7711746 TTATGATATACTTTTGATAA
1 TT-TGATATAATTTTGATAA
7711766 TAGTTAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 2 0.06
21 32 0.94
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.49
Consensus pattern (21 bp):
TTTGATATAATTTTGATAACA
Found at i:7712059 original size:22 final size:22
Alignment explanation
Indices: 7712034--7712276 Score: 125
Period size: 22 Copynumber: 11.0 Consensus size: 22
7712024 AGAATTGACA
*
7712034 ATTAAATTATTATTGATTTACT
1 ATTAAATTATTAATGATTTACT
** * * *
7712056 ATTATGTTATCAGTGATTTATT
1 ATTAAATTATTAATGATTTACT
* ** *
7712078 ATTAAACTACAAATGACTTACT
1 ATTAAATTATTAATGATTTACT
* * *
7712100 ATTAAATTATCATTTATTTACT
1 ATTAAATTATTAATGATTTACT
* * *
7712122 -TCTAATTTATGAATGATTTGCT
1 AT-TAAATTATTAATGATTTACT
* * ** *
7712144 TTTAAGTTAGGAAT-AGTTTTCT
1 ATTAAATTATTAATGA-TTTACT
* *
7712166 ACTAAATTATTGATGATTTACT
1 ATTAAATTATTAATGATTTACT
* * *
7712188 ATTAAGTTATTGATGATTTATT
1 ATTAAATTATTAATGATTTACT
* *
7712210 A-TAAAGTCA-TAATTGATTTATT
1 ATTAAA-TTATTAA-TGATTTACT
* * *
7712232 ATTAATTTATCAATAATTTACT
1 ATTAAATTATTAATGATTTACT
* *
7712254 ATAAAATTATTAATGATTAACT
1 ATTAAATTATTAATGATTTACT
7712276 A
1 A
7712277 ATTTATTACT
Statistics
Matches: 163, Mismatches: 50, Indels: 16
0.71 0.22 0.07
Matches are distributed among these distances:
21 7 0.04
22 149 0.91
23 7 0.04
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.48
Consensus pattern (22 bp):
ATTAAATTATTAATGATTTACT
Found at i:7712271 original size:44 final size:44
Alignment explanation
Indices: 7712015--7712276 Score: 152
Period size: 44 Copynumber: 6.0 Consensus size: 44
7712005 AGTATAAAAA
* * * * *
7712015 AAGTTATCAAGAATTGACAATTAAATTATTATTGATTTACTATT
1 AAGTTATCAATAATTTACTATAAAATTATTAATGATTTACTATT
* * * * * * ** *
7712059 ATGTTATCAGTGATTTATTATTAAACTACAAATGACTTACTATT
1 AAGTTATCAATAATTTACTATAAAATTATTAATGATTTACTATT
* * * * * * * *
7712103 AAATTATCATTTATTTACT-TCTAATTTATGAATGATTTGCTTTT
1 AAGTTATCAATAATTTACTAT-AAAATTATTAATGATTTACTATT
** * * *
7712147 AAGTTAGGAATAGTTTTCTACT-AAATTATTGATGATTTACTATT
1 AAGTTATCAATAATTTACTA-TAAAATTATTAATGATTTACTATT
** * * * * *
7712191 AAGTTATTGATGATTTATTATAAAGTCA-TAATTGATTTATTATT
1 AAGTTATCAATAATTTACTATAAAATTATTAA-TGATTTACTATT
* *
7712235 AATTTATCAATAATTTACTATAAAATTATTAATGATTAACTA
1 AAGTTATCAATAATTTACTATAAAATTATTAATGATTTACTA
7712277 ATTTATTACT
Statistics
Matches: 156, Mismatches: 56, Indels: 12
0.70 0.25 0.05
Matches are distributed among these distances:
43 4 0.03
44 148 0.95
45 3 0.02
46 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.47
Consensus pattern (44 bp):
AAGTTATCAATAATTTACTATAAAATTATTAATGATTTACTATT
Found at i:7717670 original size:9 final size:9
Alignment explanation
Indices: 7717656--7717731 Score: 66
Period size: 9 Copynumber: 8.1 Consensus size: 9
7717646 ATGGATGAAA
7717656 AAAAAAAAG
1 AAAAAAAAG
7717665 AAAAAAAAAG
1 -AAAAAAAAG
**
7717675 TAAAAAATGG
1 -AAAAAAAAG
*
7717685 AAAAAAGAG
1 AAAAAAAAG
7717694 AAAAAAAAG
1 AAAAAAAAG
7717703 AAGAAAAAA-
1 AA-AAAAAAG
7717712 AAGAAAAAA-
1 AA-AAAAAAG
7717721 AAAAGAAAAG
1 AAAA-AAAAG
7717731 A
1 A
7717732 TGTAGAGAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
8 2 0.04
9 32 0.56
10 23 0.40
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:7717670 original size:11 final size:11
Alignment explanation
Indices: 7717654--7717729 Score: 80
Period size: 11 Copynumber: 6.4 Consensus size: 11
7717644 TAATGGATGA
7717654 AAAAAAAAAAG
1 AAAAAAAAAAG
*
7717665 AAAAAAAAAGTAA
1 AAAAAAAAA--AG
7717678 AAAATGGAAAAAAG
1 AAAA---AAAAAAG
*
7717692 AGAAAAAAAAG
1 AAAAAAAAAAG
7717703 AAGAAAAAAAAG
1 AA-AAAAAAAAG
7717715 AAAAAAAAAAG
1 AAAAAAAAAAG
7717726 AAAA
1 AAAA
7717730 GATGTAGAGA
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
11 30 0.55
12 11 0.20
13 5 0.09
14 4 0.07
16 5 0.09
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:7717729 original size:41 final size:41
Alignment explanation
Indices: 7717652--7717729 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
7717642 ACTAATGGAT
* **
7717652 GAAAAAAAAAAAGAAAAAAAAAGTAAAAAATGGAAAAAAGA
1 GAAAAAAAAAAAGAAAAAAAAAGAAAAAAAAAGAAAAAAGA
*
7717693 GAAAAAAAAGAAG-AAAAAAAAGAAAAAAAAAAGAAAA
1 GAAAAAAAAAAAGAAAAAAAAAG-AAAAAAAAAGAAAA
7717730 GATGTAGAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 9 0.28
41 23 0.72
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (41 bp):
GAAAAAAAAAAAGAAAAAAAAAGAAAAAAAAAGAAAAAAGA
Found at i:7719003 original size:46 final size:46
Alignment explanation
Indices: 7718945--7719199 Score: 271
Period size: 46 Copynumber: 5.4 Consensus size: 46
7718935 CTTTAAAACA
*
7718945 TTTGAGTCTTAAATAAGAATCTTTAAGATATTTTCAAATGAGAATC
1 TTTGAGTCTTAAATAAGAATCTTTAAGATGTTTTCAAATGAGAATC
* * *
7718991 TTTGAGTTTTAAAGGAA-AATCTTTAAGATGTTTTCAAATGAGAACC
1 TTTGAGTCTTAAA-TAAGAATCTTTAAGATGTTTTCAAATGAGAATC
* * * *** * *
7719037 TTTAAGTTTTAAATGAGAATCTTTAAGGAATCCAAAATTCAAATAAGAATA
1 TTTGAGTCTTAAATAAGAATCTTTAA-G-AT---GTTTTCAAATGAGAATC
* * *
7719088 TTTGAGTTTTAAATAAGAATATTTAAGATGTTTTCAAATGAAAATC
1 TTTGAGTCTTAAATAAGAATCTTTAAGATGTTTTCAAATGAGAATC
* *
7719134 TTTGAGTCTTAAATGAGAATCTTTAAGATGTTTTCAAATAAGAA-C
1 TTTGAGTCTTAAATAAGAATCTTTAAGATGTTTTCAAATGAGAATC
*
7719179 TTTTGAGTCTTAAATGAGAAT
1 -TTTGAGTCTTAAATAAGAAT
7719200 TTTTTTATAG
Statistics
Matches: 174, Mismatches: 27, Indels: 16
0.80 0.12 0.07
Matches are distributed among these distances:
45 2 0.01
46 130 0.75
47 3 0.02
48 2 0.01
49 2 0.01
50 1 0.01
51 34 0.20
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.38
Consensus pattern (46 bp):
TTTGAGTCTTAAATAAGAATCTTTAAGATGTTTTCAAATGAGAATC
Found at i:7719061 original size:21 final size:21
Alignment explanation
Indices: 7718953--7719063 Score: 105
Period size: 21 Copynumber: 4.9 Consensus size: 21
7718943 CATTTGAGTC
*
7718953 TTAAATAAGAATCTTTAAGATATT
1 TTAAATGAGAATCTTTAAG---TT
*
7718977 TTCAAATGAGAATCTTTGAGTT
1 TT-AAATGAGAATCTTTAAGTT
* *
7718999 TTAAAGGAAAATCTTTAAGATGTT
1 TTAAATGAGAATCTTT-A-A-GTT
*
7719023 TTCAAATGAGAACCTTTAAGTT
1 TT-AAATGAGAATCTTTAAGTT
7719045 TTAAATGAGAATCTTTAAG
1 TTAAATGAGAATCTTTAAG
7719064 GAATCCAAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
21 28 0.38
22 9 0.12
23 2 0.03
24 8 0.11
25 26 0.36
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.39
Consensus pattern (21 bp):
TTAAATGAGAATCTTTAAGTT
Found at i:7719101 original size:21 final size:21
Alignment explanation
Indices: 7719077--7719199 Score: 88
Period size: 21 Copynumber: 5.5 Consensus size: 21
7719067 TCCAAAATTC
7719077 AAATAAGAATATTTGAGTTTT
1 AAATAAGAATATTTGAGTTTT
7719098 AAATAAGAATATTTAAGATGTTTT
1 AAATAAGAATATTT--GA-GTTTT
* *
7719122 CAAATGAA-AATCTTTGAGTCTT
1 -AAAT-AAGAATATTTGAGTTTT
* *
7719144 AAATGAGAATCTTTAAGATGTTTT
1 AAATAAGAATATTT--GA-GTTTT
*
7719168 CAAATAAGAACT-TTTGAGTCTT
1 -AAATAAGAA-TATTTGAGTTTT
*
7719190 AAATGAGAAT
1 AAATAAGAAT
7719200 TTTTTTATAG
Statistics
Matches: 84, Mismatches: 7, Indels: 23
0.74 0.06 0.20
Matches are distributed among these distances:
20 2 0.02
21 33 0.39
22 8 0.10
23 8 0.10
24 9 0.11
25 21 0.25
26 3 0.04
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (21 bp):
AAATAAGAATATTTGAGTTTT
Found at i:7719113 original size:97 final size:97
Alignment explanation
Indices: 7718977--7719160 Score: 280
Period size: 97 Copynumber: 1.9 Consensus size: 97
7718967 TTAAGATATT
* * * *
7718977 TTCAAATGAGAATCTTTGAGTTTTAAAGGAAAATCTTTAAGATGTTTTCAAATGAGAACCTTTAA
1 TTCAAATAAGAATATTTGAGTTTTAAAGGAAAATATTTAAGATGTTTTCAAATGAAAACCTTTAA
*
7719042 GTTTTAAATGAGAATCTTTAAGGAATCCAAAA
66 GTCTTAAATGAGAATCTTTAAGGAATCCAAAA
* * *
7719074 TTCAAATAAGAATATTTGAGTTTTAAA-TAAGAATATTTAAGATGTTTTCAAATGAAAATCTTTG
1 TTCAAATAAGAATATTTGAGTTTTAAAGGAA-AATATTTAAGATGTTTTCAAATGAAAACCTTTA
7719138 AGTCTTAAATGAGAATCTTTAAG
65 AGTCTTAAATGAGAATCTTTAAG
7719161 ATGTTTTCAA
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
96 2 0.03
97 76 0.97
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.37
Consensus pattern (97 bp):
TTCAAATAAGAATATTTGAGTTTTAAAGGAAAATATTTAAGATGTTTTCAAATGAAAACCTTTAA
GTCTTAAATGAGAATCTTTAAGGAATCCAAAA
Found at i:7719439 original size:15 final size:14
Alignment explanation
Indices: 7719415--7719464 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
7719405 GTATATCTAC
7719415 AATTTTGTGAATCA
1 AATTTTGTGAATCA
*
7719429 AATTCTTGTGAGACTAA
1 AATT-TTGTGA-A-TCA
*
7719446 AATTTTGAGAATCA
1 AATTTTGTGAATCA
7719460 AATTT
1 AATTT
7719465 CAGTGAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 11 0.37
15 7 0.23
16 6 0.20
17 6 0.20
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (14 bp):
AATTTTGTGAATCA
Found at i:7719679 original size:41 final size:41
Alignment explanation
Indices: 7719592--7719757 Score: 142
Period size: 41 Copynumber: 4.1 Consensus size: 41
7719582 CGTGATTGTT
* * * *
7719592 GAGGAGCCTTTTATTTTTCAAAGTTGTTGA-ACTCCTAATTA
1 GAGGAGCTTTTTATTTTTCAAAGTTATTGAGCCT-CTATTTA
*
7719633 GAGGAGCTTTTTATTTTTCAAAGTTGTTGAGCCTCTATTTA
1 GAGGAGCTTTTTATTTTTCAAAGTTATTGAGCCTCTATTTA
* * * * * *
7719674 AAGGAGC--ATTATTTTCCAAAGTTATTGAAACAT-TGTTTA
1 GAGGAGCTTTTTATTTTTCAAAGTTATTG-AGCCTCTATTTA
* * * *
7719713 GAGGAGCTTTATTTTTTTTAAAAGTCATTGAGCCTCTGTTTA
1 GAGGAGCTTT-TTATTTTTCAAAGTTATTGAGCCTCTATTTA
7719755 GAG
1 GAG
7719758 AAATTTTTAT
Statistics
Matches: 101, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
39 28 0.28
40 3 0.03
41 44 0.44
42 26 0.26
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (41 bp):
GAGGAGCTTTTTATTTTTCAAAGTTATTGAGCCTCTATTTA
Found at i:7719702 original size:80 final size:81
Alignment explanation
Indices: 7719602--7719754 Score: 186
Period size: 80 Copynumber: 1.9 Consensus size: 81
7719592 GAGGAGCCTT
* * * **
7719602 TTATTTTTCAAAGTTGTTG-AAC-TCCTAATTAGAGGAGCTTT-TTATTTTTCAAAGTTGTTGAG
1 TTATTTTCCAAAGTTATTGAAACAT--TAATTAGAGGAGCTTTATTATTTTTAAAAGTCATTGAG
7719664 CCTCTATTTAAAGGAGCA
64 CCTCTATTTAAAGGAGCA
** *
7719682 TTATTTTCCAAAGTTATTGAAACATTGTTTAGAGGAGCTTTATTTTTTTTAAAAGTCATTGAGCC
1 TTATTTTCCAAAGTTATTGAAACATTAATTAGAGGAGCTTTATTATTTTTAAAAGTCATTGAGCC
*
7719747 TCTGTTTA
66 TCTATTTA
7719755 GAGAAATTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
80 31 0.51
81 29 0.48
82 1 0.02
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.44
Consensus pattern (81 bp):
TTATTTTCCAAAGTTATTGAAACATTAATTAGAGGAGCTTTATTATTTTTAAAAGTCATTGAGCC
TCTATTTAAAGGAGCA
Found at i:7720758 original size:49 final size:49
Alignment explanation
Indices: 7720705--7720808 Score: 118
Period size: 49 Copynumber: 2.1 Consensus size: 49
7720695 AAAGGAAAAG
* * * * * *
7720705 AAAAAGAATTTTTAAATAGGCCCAAATTATGAAAAATTTAGAAATTCAA
1 AAAAAAAATTTCTAAATAGACCAAAATGATGAAAAATTTAGAAATCCAA
* * * *
7720754 AAAAAAAATTTCTAGATTGACCAAAATGGTGGAAAATTTAGAAATCCAA
1 AAAAAAAATTTCTAAATAGACCAAAATGATGAAAAATTTAGAAATCCAA
7720803 AAAAAA
1 AAAAAA
7720809 TAAAAAAACA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.55, C:0.09, G:0.12, T:0.25
Consensus pattern (49 bp):
AAAAAAAATTTCTAAATAGACCAAAATGATGAAAAATTTAGAAATCCAA
Found at i:7721365 original size:22 final size:22
Alignment explanation
Indices: 7721340--7721386 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
7721330 GTTTTCGATT
7721340 ATTTACTACAAAATTAT-TATAG
1 ATTTACTACAAAATTATCTA-AG
* *
7721362 ATTTATTACTAAATTATCTAAG
1 ATTTACTACAAAATTATCTAAG
7721384 ATT
1 ATT
7721387 CATTACCAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.45
Consensus pattern (22 bp):
ATTTACTACAAAATTATCTAAG
Found at i:7721391 original size:22 final size:22
Alignment explanation
Indices: 7721350--7721392 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7721340 ATTTACTACA
*
7721350 AAATTATTATAGATTTATTACT
1 AAATTATTATAGATTCATTACT
7721372 AAATTATCTA-AGATTCATTAC
1 AAATTAT-TATAGATTCATTAC
7721393 CAAGTTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (22 bp):
AAATTATTATAGATTCATTACT
Found at i:7721443 original size:22 final size:21
Alignment explanation
Indices: 7721406--7721487 Score: 85
Period size: 22 Copynumber: 3.8 Consensus size: 21
7721396 GTTATAATTG
*
7721406 ATTTA-TATTAAATTATCCATA
1 ATTTACTATTAAGTTAT-CATA
7721427 ATTTACTATTAAGTTATCATTA
1 ATTTACTATTAAGTTATCA-TA
* * *
7721449 ATTAACTATTAAGTTATTGATG
1 ATTTACTATTAAGTTA-TCATA
*
7721471 ATTTATTATTAAGTTAT
1 ATTTACTATTAAGTTAT
7721488 ATTTATTTGC
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
21 8 0.15
22 42 0.81
23 2 0.04
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (21 bp):
ATTTACTATTAAGTTATCATA
Found at i:7721573 original size:22 final size:23
Alignment explanation
Indices: 7721548--7721642 Score: 81
Period size: 22 Copynumber: 4.3 Consensus size: 23
7721538 CAACTACCAT
*
7721548 GTTATTTA-TAATTTATTATTAA
1 GTTATTAATTAATTTATTATTAA
*
7721570 GTTAATTAATTAA-TTACTATTAA
1 GTT-ATTAATTAATTTATTATTAA
* * * *
7721593 GCTA-AAACTAATTTAGTATTAA
1 GTTATTAATTAATTTATTATTAA
*
7721615 GTTA-TCATTAATTTATTATTAA
1 GTTATTAATTAATTTATTATTAA
*
7721637 GATATT
1 GTTATT
7721643 GGTGACTAAA
Statistics
Matches: 57, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
21 5 0.09
22 33 0.58
23 16 0.28
24 3 0.05
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.49
Consensus pattern (23 bp):
GTTATTAATTAATTTATTATTAA
Found at i:7721642 original size:11 final size:11
Alignment explanation
Indices: 7721560--7721642 Score: 51
Period size: 11 Copynumber: 7.5 Consensus size: 11
7721550 TATTTATAAT
7721560 TTATTATTAAG
1 TTATTATTAAG
7721571 TTAATTAATTAA-
1 TT-ATT-ATTAAG
*
7721583 TTACTATTAAG
1 TTATTATTAAG
* ** * *
7721594 CTAAAACTAAT
1 TTATTATTAAG
*
7721605 TTAGTATTAAG
1 TTATTATTAAG
* *
7721616 TTATCATTAAT
1 TTATTATTAAG
7721627 TTATTATTAAG
1 TTATTATTAAG
*
7721638 ATATT
1 TTATT
7721643 GGTGACTAAA
Statistics
Matches: 52, Mismatches: 17, Indels: 6
0.69 0.23 0.08
Matches are distributed among these distances:
10 5 0.10
11 37 0.71
12 5 0.10
13 5 0.10
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (11 bp):
TTATTATTAAG
Found at i:7721977 original size:22 final size:22
Alignment explanation
Indices: 7721944--7722528 Score: 155
Period size: 22 Copynumber: 26.4 Consensus size: 22
7721934 AAAGTTTACC
* * *
7721944 AATAATTGACTATTAAATTGTT
1 AATAATTTACTATTAAATTATG
* * *
7721966 ATTAATTTACTACTT-TATTATT
1 AATAATTTACTA-TTAAATTATG
* * * *
7721988 AGTAATTCACTATTAAACTATC
1 AATAATTTACTATTAAATTATG
*
7722010 AATAATTTACTATTAATTTATG
1 AATAATTTACTATTAAATTATG
*
7722032 AATAATTTACTATTAAGTTATG
1 AATAATTTACTATTAAATTATG
*
7722054 AATGATTTACTATTAAATTATTG
1 AATAATTTACTATTAAATTA-TG
* *
7722077 -ATGATTTATTA-TAAAGTTAT-
1 AATAATTTACTATTAAA-TTATG
* * * *
7722097 AATCGATTTATTATTAATTTATC
1 AAT-AATTTACTATTAAATTATG
* *
7722120 AATAATTTACTA-AAAAGTTATA
1 AATAATTTACTATTAAA-TTATG
* * *
7722142 AATGA-TTA--ACTAATTTAT-
1 AATAATTTACTATTAAATTATG
* * * *
7722160 AACTAAATTA-TCATTGATTTA-C
1 AA-TAATTTACT-ATTAAATTATG
* * *
7722182 AATTAAGTTATTAGTAATTTACTACTATATT
1 AA-TAA--T-TTACT-A-TTA--AAT-TATG
* ** *
7722213 ATTAGGATTTACTATTACGTTATA
1 AATA--ATTTACTATTAAATTATG
*
7722237 AATAATTTACTATTAAATTATT
1 AATAATTTACTATTAAATTATG
* * *
7722259 AGTGATTTACTATTATATTAT-
1 AATAATTTACTATTAAATTATG
* * ** *
7722280 TATATATTTACTACTATTTTATC
1 AATA-ATTTACTATTAAATTATG
* * *
7722303 ATTGATTTACTAATT-AATTGTTG
1 AATAATTTACT-ATTAAATT-ATG
* *
7722326 -ATTATTTACTATTAAATTATT
1 AATAATTTACTATTAAATTATG
* *
7722347 AATGATTTACTATTAAATTATC
1 AATAATTTACTATTAAATTATG
* * * * *
7722369 TATGATTTACTATCAAGTTATC
1 AATAATTTACTATTAAATTATG
*
7722391 ACTAATTTA-TATTAAATTATCG
1 AATAATTTACTATTAAATTAT-G
* * *
7722413 -ATAATTTACTATTGAGTTATC
1 AATAATTTACTATTAAATTATG
* * *
7722434 ACTAACTAACTATTAAATTATCG
1 AATAATTTACTATTAAATTAT-G
* *
7722457 -ATAATTTATTACTAAATTAT-
1 AATAATTTACTATTAAATTATG
* * * * *
7722477 ACTTATTTACTTTTAAGTT-TCC
1 AATAATTTACTATTAAATTAT-G
* * *
7722499 AATGATTTACTACTAAATTATC
1 AATAATTTACTATTAAATTATG
*
7722521 AATTATTT
1 AATAATTT
7722529 CCTACTAATT
Statistics
Matches: 420, Mismatches: 103, Indels: 80
0.70 0.17 0.13
Matches are distributed among these distances:
18 2 0.00
19 7 0.02
20 6 0.01
21 47 0.11
22 312 0.74
23 15 0.04
24 6 0.01
25 4 0.01
26 2 0.00
27 5 0.01
28 1 0.00
29 6 0.01
30 5 0.01
31 1 0.00
32 1 0.00
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (22 bp):
AATAATTTACTATTAAATTATG
Found at i:7722066 original size:66 final size:66
Alignment explanation
Indices: 7721943--7722552 Score: 304
Period size: 66 Copynumber: 9.2 Consensus size: 66
7721933 AAAAGTTTAC
* * * * * * * * *
7721943 CAATAATTGACTATTAAATTGTTATTAATTTACTACTTTA-TTATTAGTAATTCACTATTAAACT
1 CAATAATTTACTATTAAATTATCAATGATTTACTA-TTAAGTTATTAATAATTTACTATTAAATT
7722007 AT
65 AT
* * * * *
7722009 CAATAATTTACTATTAATTTATGAATAATTTACTATTAAGTTATGAATGATTTACTATTAAATTA
1 CAATAATTTACTATTAAATTATCAATGATTTACTATTAAGTTATTAATAATTTACTATTAAATTA
7722074 T
66 T
** * * * * *
7722075 TGATGATTTATTA-TAAAGTTAT-AATCGATTTATTATTAATTTATCAATAATTTACTAAAAAGT
1 CAATAATTTACTATTAAA-TTATCAAT-GATTTACTATTAAGTTATTAATAATTTACT----A--
*
7722138 TATAAATGAT
58 T-TAAATTAT
* * * * * * *
7722148 TAACTAATTTA-TAACTAAATTATCATTGATTTACAATTAAGTTATTAGTAATTTACTACTATAT
1 CAA-TAATTTACT-ATTAAATTATCAATGATTTACTATTAAGTTATTAATAATTTACTATTAAAT
7722212 TAT
64 TAT
* ** ** * * * * * *
7722215 -TAGGATTTACTATTACGTTATAAATAATTTACTATTAAATTATTAGTGATTTACTATTATATTA
1 CAATAATTTACTATTAAATTATCAATGATTTACTATTAAGTTATTAATAATTTACTATTAAATTA
7722279 T
66 T
* * ** * * * *
7722280 -TATATATTTACTACTATTTTATCATTGATTTACTAATTAA-TTGTTGATTATTTACTATTAAAT
1 CAATA-ATTTACTATTAAATTATCAATGATTTACT-ATTAAGTTATTAATAATTTACTATTAAAT
7722343 TAT
64 TAT
* * * * * *
7722346 TAATGATTTACTATTAAATTATCTATGATTTACTATCAAGTTATCACTAATTTA-TATTAAATTA
1 CAATAATTTACTATTAAATTATCAATGATTTACTATTAAGTTATTAATAATTTACTATTAAATTA
7722410 T
66 T
* * * * * * * * ** * *
7722411 CGATAATTTACTATTGAGTTATCACTAACTAACTATTAAATTATCGATAATTTATTACTAAATTA
1 CAATAATTTACTATTAAATTATCAATGATTTACTATTAAGTTATTAATAATTTACTATTAAATTA
7722476 T
66 T
* * * * * * * * * * *
7722477 -ACTTATTTACTTTTAAGTT-TCCAATGATTTACTACTAAATTATCAATTATTTCCTACTAATTT
1 CAATAATTTACTATTAAATTAT-CAATGATTTACTATTAAGTTATTAATAATTTACTATTAAATT
7722540 AT
65 AT
* *
7722542 CATTTATTTAC
1 CAATAATTTAC
7722553 AACCAAATGC
Statistics
Matches: 419, Mismatches: 103, Indels: 44
0.74 0.18 0.08
Matches are distributed among these distances:
64 1 0.00
65 163 0.39
66 187 0.45
67 13 0.03
70 2 0.00
72 1 0.00
73 10 0.02
74 36 0.09
75 6 0.01
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.48
Consensus pattern (66 bp):
CAATAATTTACTATTAAATTATCAATGATTTACTATTAAGTTATTAATAATTTACTATTAAATTA
T
Found at i:7722084 original size:44 final size:43
Alignment explanation
Indices: 7721982--7722519 Score: 226
Period size: 44 Copynumber: 12.1 Consensus size: 43
7721972 TTACTACTTT
* * ** * *
7721982 ATTATTAGTAATTCACTATTAAACTATCAATAATTTACTATTAA
1 ATTATTA-TGATTTACTATTAAGTTATAAATGATTTACTATTAA
* * * *
7722026 TTTATGAATAATTTACTATTAAGTTATGAATGATTTACTATTAA
1 ATTAT-TATGATTTACTATTAAGTTATAAATGATTTACTATTAA
* * *
7722070 ATTATTGATGATTTATTATAAAGTTAT-AATCGATTTATTATTAA
1 ATTATT-ATGATTTACTATTAAGTTATAAAT-GATTTACTATTAA
* * * ** *
7722114 TTTATCAATAATTTACTAAAAAGTTATAAATGATTAACTAATTTATAACTAA
1 ATTAT-TATGATTTACTATTAAGTTATAAATGATT---T-A-CTAT---TAA
* * * * * * *
7722166 ATTATCATTGATTTACAATTAAGTTATTAGTAATTTACTACTAT
1 ATTATTA-TGATTTACTATTAAGTTATAAATGATTTACTATTAA
* * *
7722210 ATTATTAGGATTTACTATTACGTTATAAATAATTTACTATTAA
1 ATTATTATGATTTACTATTAAGTTATAAATGATTTACTATTAA
* * *
7722253 ATTATTAGTGATTTACTATTATA-TTATTATAT-ATTTACTACTAT
1 ATTATTA-TGATTTACTATTA-AGTTA-TAAATGATTTACTATTAA
* * * ** *
7722297 TTTATCATTGATTTACTAATTAA-TTGTTGATTATTTACTATTAA
1 ATTATTA-TGATTTACT-ATTAAGTTATAAATGATTTACTATTAA
* ** *
7722341 ATTATTAATGATTTACTATTAAATTATCTATGATTTACTATCAA
1 ATTATT-ATGATTTACTATTAAGTTATAAATGATTTACTATTAA
* * * * ** * *
7722385 GTTATCACTAATTTA-TATTAAATTATCGATAATTTACTATTGA
1 ATTATTA-TGATTTACTATTAAGTTATAAATGATTTACTATTAA
* * * * * * ** * * *
7722428 GTTATCACTAACTAACTATTAAATTATCGATAATTTATTACTAA
1 ATTATTA-TGATTTACTATTAAGTTATAAATGATTTACTATTAA
* * * *
7722472 ATTA-TACTTATTTACTTTTAAGTT-TCCAATGATTTACTACTAA
1 ATTATTA-TGATTTACTATTAAGTTAT-AAATGATTTACTATTAA
7722515 ATTAT
1 ATTAT
7722520 CAATTATTTC
Statistics
Matches: 389, Mismatches: 80, Indels: 50
0.75 0.15 0.10
Matches are distributed among these distances:
42 1 0.00
43 117 0.30
44 220 0.57
45 13 0.03
47 3 0.01
48 2 0.01
49 5 0.01
51 1 0.00
52 27 0.07
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.47
Consensus pattern (43 bp):
ATTATTATGATTTACTATTAAGTTATAAATGATTTACTATTAA
Found at i:7722609 original size:22 final size:22
Alignment explanation
Indices: 7722584--7722628 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
7722574 TTAGTTATTG
*
7722584 ATTAGAAAATTATCATTCATTT
1 ATTAGAAAATTATCATTAATTT
** *
7722606 ATTATTAAATTATTATTAATTT
1 ATTAGAAAATTATCATTAATTT
7722628 A
1 A
7722629 CTATTAAGTT
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:0.42, C:0.04, G:0.02, T:0.51
Consensus pattern (22 bp):
ATTAGAAAATTATCATTAATTT
Found at i:7722633 original size:22 final size:22
Alignment explanation
Indices: 7722590--7722642 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
7722580 ATTGATTAGA
* *
7722590 AAATTATCATTCATTTATTATT
1 AAATTATCATTAATTTACTATT
*
7722612 AAATTATTATTAATTTACTATT
1 AAATTATCATTAATTTACTATT
*
7722634 AAGTTATCA
1 AAATTATCA
7722643 CTGATTAACT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.51
Consensus pattern (22 bp):
AAATTATCATTAATTTACTATT
Found at i:7722690 original size:20 final size:21
Alignment explanation
Indices: 7722664--7722723 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 21
7722654 TATGTTTTCG
7722664 ATGATTA-TTACTAAGTTATA
1 ATGATTACTTACTAAGTTATA
* * * *
7722684 CTGATTACTT-TTAAATTTTA
1 ATGATTACTTACTAAGTTATA
*
7722704 ATGATTAGTTACTAAGTTAT
1 ATGATTACTTACTAAGTTAT
7722724 CAATTATTTA
Statistics
Matches: 29, Mismatches: 9, Indels: 3
0.71 0.22 0.07
Matches are distributed among these distances:
20 21 0.72
21 8 0.28
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.48
Consensus pattern (21 bp):
ATGATTACTTACTAAGTTATA
Found at i:7722690 original size:41 final size:41
Alignment explanation
Indices: 7722633--7722742 Score: 116
Period size: 41 Copynumber: 2.6 Consensus size: 41
7722623 AATTTACTAT
*
7722633 TAAGTTATCACTGATTAACTATATGTTTTCGATGATTA-TTAC
1 TAAGTTATCACTGATT-ACTATATGTTTT-AATGATTAGTTAC
* **
7722675 TAAGTTAT-ACTGATTACTTTTAAATTTTAATGATTAGTTAC
1 TAAGTTATCACTGATTAC-TATATGTTTTAATGATTAGTTAC
* *
7722716 TAAGTTATCAATTATTTACTATATGTT
1 TAAGTTATCACTGA-TTACTATATGTT
7722743 ATCATTAACT
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
40 9 0.16
41 26 0.47
42 16 0.29
43 4 0.07
ACGTcount: A:0.33, C:0.09, G:0.10, T:0.48
Consensus pattern (41 bp):
TAAGTTATCACTGATTACTATATGTTTTAATGATTAGTTAC
Found at i:7722734 original size:19 final size:21
Alignment explanation
Indices: 7722707--7722746 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
7722697 AATTTTAATG
7722707 ATTAGTTACTA-A-GTTATCA
1 ATTAGTTACTATATGTTATCA
*
7722726 ATTATTTACTATATGTTATCA
1 ATTAGTTACTATATGTTATCA
7722747 TTAACTTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 1 0.06
21 7 0.39
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.47
Consensus pattern (21 bp):
ATTAGTTACTATATGTTATCA
Found at i:7723601 original size:18 final size:19
Alignment explanation
Indices: 7723555--7723605 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
7723545 TTTAATTATT
* *
7723555 AATTGGATTTTAATTTGGTA
1 AATTGGATTTTAATCT-GCA
*
7723575 AATTAGATTTTAATCT-CA
1 AATTGGATTTTAATCTGCA
7723593 AATTGGATTTTAA
1 AATTGGATTTTAA
7723606 GTCCAACATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 13 0.48
20 14 0.52
ACGTcount: A:0.35, C:0.04, G:0.14, T:0.47
Consensus pattern (19 bp):
AATTGGATTTTAATCTGCA
Found at i:7723711 original size:22 final size:23
Alignment explanation
Indices: 7723686--7723729 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
7723676 ATAAAAGATA
*
7723686 AAAATAGAAAAGATAAA-TAAAC
1 AAAATAAAAAAGATAAACTAAAC
7723708 AAAATAAAAAAGATAAACTAAA
1 AAAATAAAAAAGATAAACTAAA
7723730 AAATGATAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.75, C:0.05, G:0.07, T:0.14
Consensus pattern (23 bp):
AAAATAAAAAAGATAAACTAAAC
Found at i:7725402 original size:20 final size:21
Alignment explanation
Indices: 7725345--7725433 Score: 67
Period size: 24 Copynumber: 4.1 Consensus size: 21
7725335 CTTTTTTCAG
*
7725345 AAATATCAATTAAAATAAATA
1 AAATACCAATTAAAATAAATA
* *
7725366 AAATTTGCACAAATAAAATAAA-A
1 AAA--TAC-CAATTAAAATAAATA
7725389 AAATACCAATTAAAATAAATTA
1 AAATACCAATTAAAATAAA-TA
*
7725411 TAAGATA--AAATAAAATAAATA
1 -AA-ATACCAATTAAAATAAATA
7725432 AA
1 AA
7725434 TAATTACCAA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
20 14 0.25
21 7 0.13
22 12 0.22
23 7 0.13
24 15 0.27
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (21 bp):
AAATACCAATTAAAATAAATA
Found at i:7726441 original size:22 final size:22
Alignment explanation
Indices: 7726399--7726445 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
7726389 GATAAAATAT
**
7726399 TTAAAGATAAATGAAATTAAAA
1 TTAAAGATAAACCAAATTAAAA
*
7726421 TTAAAGATAAACCATAATAAAAA
1 TTAAAGATAAACCA-AATTAAAA
7726444 TT
1 TT
7726446 TAAAAAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (22 bp):
TTAAAGATAAACCAAATTAAAA
Found at i:7726864 original size:40 final size:39
Alignment explanation
Indices: 7726766--7726953 Score: 160
Period size: 40 Copynumber: 4.5 Consensus size: 39
7726756 CTAAAAAATA
*
7726766 AAGGCATACAACTTTGAAAAAAATAAGGACTCCTTCAACATG
1 AAGGCACACAACTTT---AAAAATAAGGACTCCTTCAACATG
* * * *
7726808 AAGGCACACAGCTTTAAAAATAATGATTCCTTTAACATG
1 AAGGCACACAACTTTAAAAATAAGGACTCCTTCAACATG
* * ** **
7726847 AAGGCACATAACTTTTAAAAATAAGGGCTTATTTAGTACTCAACACA
1 AAGGCACACAAC-TTTAAAAATAA-GG---A-CTCCT--TCAACATG
*
7726894 AAGGCACACAACTTTAAAAATTAAGGTCTCCTTCAACATG
1 AAGGCACACAACTTTAAAAA-TAAGGACTCCTTCAACATG
7726934 AAGGCACACAACTTTAAAAA
1 AAGGCACACAACTTTAAAAA
7726954 ATTAGGACAA
Statistics
Matches: 117, Mismatches: 20, Indels: 20
0.75 0.13 0.13
Matches are distributed among these distances:
39 31 0.26
40 37 0.32
41 1 0.01
42 15 0.13
44 1 0.01
45 3 0.03
46 10 0.09
47 19 0.16
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.24
Consensus pattern (39 bp):
AAGGCACACAACTTTAAAAATAAGGACTCCTTCAACATG
Found at i:7727520 original size:21 final size:21
Alignment explanation
Indices: 7727495--7727546 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
7727485 GCCTTGAATA
*
7727495 TTTCATCTTTGCCTTTATCAC
1 TTTCAACTTTGCCTTTATCAC
7727516 TTTCAACTTTGCCTTTATCAC
1 TTTCAACTTTGCCTTTATCAC
7727537 TTTCAACTTT
1 TTTCAACTTT
7727547 CTCAAAGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.17, C:0.27, G:0.04, T:0.52
Consensus pattern (21 bp):
TTTCAACTTTGCCTTTATCAC
Found at i:7727675 original size:19 final size:19
Alignment explanation
Indices: 7727651--7727688 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
7727641 TCAATGCAAG
7727651 GCATTTAAGAGGAAAGAAA
1 GCATTTAAGAGGAAAGAAA
*
7727670 GCATTTAATAGGAAAGAAA
1 GCATTTAAGAGGAAAGAAA
7727689 AAAAATGGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.53, C:0.05, G:0.24, T:0.18
Consensus pattern (19 bp):
GCATTTAAGAGGAAAGAAA
Found at i:7728088 original size:14 final size:14
Alignment explanation
Indices: 7728071--7728136 Score: 62
Period size: 14 Copynumber: 4.5 Consensus size: 14
7728061 AATTTGAGTG
*
7728071 TTTCTTTTTTTTTT
1 TTTCTTTCTTTTTT
7728085 TTTCTTTTCATTTTTCAT
1 TTTC-TTTC-TTTTT--T
*
7728103 TTT-TTACTTTTTT
1 TTTCTTTCTTTTTT
*
7728116 TTTCTTTCATTTTT
1 TTTCTTTCTTTTTT
7728130 TTTCTTT
1 TTTCTTT
7728137 AAGCAAAGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
13 4 0.09
14 19 0.44
15 8 0.19
16 8 0.19
18 4 0.09
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTCTTTCTTTTTT
Found at i:7741744 original size:26 final size:26
Alignment explanation
Indices: 7741714--7741765 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
7741704 AATTTATACT
7741714 TAAATTTAGAGAGAGCTTGTCTTTCA
1 TAAATTTAGAGAGAGCTTGTCTTTCA
* * *
7741740 TAAATTTAGGGATAGCTTGTTTTTCA
1 TAAATTTAGAGAGAGCTTGTCTTTCA
7741766 AATGGAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (26 bp):
TAAATTTAGAGAGAGCTTGTCTTTCA
Found at i:7742300 original size:21 final size:20
Alignment explanation
Indices: 7742274--7742328 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
7742264 CTAAAAAAAT
7742274 GATCGATCCCTCCA-CATAAGG
1 GATCGATCCCTCCAGCAT-A-G
*
7742295 GATCGATCACCT-AAGCATAG
1 GATCGATC-CCTCCAGCATAG
7742315 GATCGATCCCTCCA
1 GATCGATCCCTCCA
7742329 TTAAATTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
19 3 0.10
20 10 0.34
21 10 0.34
22 6 0.21
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (20 bp):
GATCGATCCCTCCAGCATAG
Found at i:7749282 original size:30 final size:30
Alignment explanation
Indices: 7749248--7749321 Score: 78
Period size: 32 Copynumber: 2.4 Consensus size: 30
7749238 GTCAATTAAA
7749248 ATAAATAAAATTTACGCAAATAAAAT-AATT
1 ATAAATAAAATTTAC-CAAATAAAATCAATT
* * *
7749278 ATAAATAAATAAATTACTAATTAAAATCAATT
1 ATAAAT-AA-AATTTACCAAATAAAATCAATT
7749310 ATAAAATAAAAT
1 AT-AAATAAAAT
7749322 AAAACAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
30 6 0.17
31 12 0.33
32 14 0.39
33 4 0.11
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.31
Consensus pattern (30 bp):
ATAAATAAAATTTACCAAATAAAATCAATT
Found at i:7749344 original size:15 final size:16
Alignment explanation
Indices: 7749250--7749344 Score: 60
Period size: 15 Copynumber: 6.2 Consensus size: 16
7749240 CAATTAAAAT
7749250 AAATAAAAT--TTACGC
1 AAATAAAATAATTAC-C
*
7749265 AAATAAAATAATTA-T
1 AAATAAAATAATTACC
*
7749280 AAAT-AAATAAATTACT
1 AAATAAAAT-AATTACC
* **
7749296 AATTAAAATCAATTATA
1 AAATAAAAT-AATTACC
*
7749313 AAATAAAATAA--AAC
1 AAATAAAATAATTACC
7749327 AAATAAAA-AATTACC
1 AAATAAAATAATTACC
7749342 AAA
1 AAA
7749345 ATGGGACAAC
Statistics
Matches: 64, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
13 2 0.03
14 13 0.20
15 23 0.36
16 6 0.09
17 20 0.31
ACGTcount: A:0.65, C:0.07, G:0.01, T:0.26
Consensus pattern (16 bp):
AAATAAAATAATTACC
Found at i:7753226 original size:33 final size:33
Alignment explanation
Indices: 7753189--7753258 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
7753179 ATTTCAATGC
7753189 TTTAATTGTAATATTTGTTCAAAAGCATTGAAA
1 TTTAATTGTAATATTTGTTCAAAAGCATTGAAA
7753222 TTTAATTGTAATATTTGTTCAAAAGCATTGAAA
1 TTTAATTGTAATATTTGTTCAAAAGCATTGAAA
7753255 TTTA
1 TTTA
7753259 TCAAATTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (33 bp):
TTTAATTGTAATATTTGTTCAAAAGCATTGAAA
Found at i:7760117 original size:301 final size:304
Alignment explanation
Indices: 7759558--7760178 Score: 754
Period size: 316 Copynumber: 2.0 Consensus size: 304
7759548 AGAAATTAAT
7759558 TATAGAAGTCAAGCTAGATTGTAAGAATGATATATTAAAAAATTATTTTAAGGGATTAAAAAAAT
1 TATAGAAGTCAAGCTAGATTGTAAGAATGATATATTAAAAAATTATTTTAAGGGATTAAAAAAAT
7759623 TTAATTATGTTATCAATGACAAATGATCAACTCAATAAACATACAACAACAATAACAACAATGAC
66 TTAATTATGTTATCAATGACAAATGATCAACTCAATAAACATACAACAACAAT---AACAAT---
7759688 AACAAACTAAGCCTTATATCCATAACTTTGAGATCGATTGTATGAAAAGACAAAAAAAAAAAAAT
125 -----A-TAAGCCTTATATCCATAACTTTGAGATCGATTGTATGAAAAGACAAAAAAAAAAAAAT
* * * * ** *
7759753 CAGGTTAGGTCGTAATTTTAAATTTTCTTACGTCTCTCATTTCTATAAAAAAAAACATTTTTTAT
184 CAGATTAAGTCATAATTTTAAATCTTCTTACACCTCTCATTTCTACAAAAAAAAACATTTTTTAT
*
7759818 CTACTTCCTTTTCATCAACTCAATAAACATACAAATAATAAAACCATTAACATATA
249 CTACTTCCTTTTCATCAACTCAACAAACATACAAATAATAAAACCATTAACATATA
* * **
7759874 TATAGAAGT-TAGCCTAGATTGTAAGAATGATATATTAAATAATTATTTTAAGGGATTAAAAGGA
1 TATAGAAGTCAAG-CTAGATTGTAAGAATGATATATTAAAAAATTATTTTAAGGGATTAAAAAAA
* *
7759938 TTTAATTATGTTATCAATGACAAATGATCAACTCAATAAATATGCAACAACAAT-A-AAT-TAAG
65 TTTAATTATGTTATCAATGACAAATGATCAACTCAATAAACATACAACAACAATAACAATATAAG
* * * * * * * *
7760000 TCTTATATCCATAACTTTGGGGTTTG-TTGTATG-AAAG-GATAAAAAAAAGAATCATATTAAGT
130 CCTTATATCCATAACTTT-GAGATCGATTGTATGAAAAGACAAAAAAAAAAAAATCAGATTAAGT
* * * * * *
7760062 CATAGTTTTAAATCTTCTTGCACCTTTTATTTTTACAAAAAACAAA-ATTTTTTTTATCTATTTC
194 CATAATTTTAAATCTTCTTACACCTCTCATTTCTACAAAAAA-AAACA--TTTTTTATCTACTTC
* * *
7760126 CTTTTGATCAACTCAACAAACATACAACTAATAAAATCATTAACATATA
256 CTTTTCATCAACTCAACAAACATACAAATAATAAAACCATTAACATATA
7760175 TATA
1 TATA
7760179 ATTAGCAAAT
Statistics
Matches: 269, Mismatches: 31, Indels: 25
0.83 0.10 0.08
Matches are distributed among these distances:
299 52 0.19
300 7 0.03
301 91 0.34
302 4 0.01
311 3 0.01
312 1 0.00
315 2 0.01
316 109 0.41
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.34
Consensus pattern (304 bp):
TATAGAAGTCAAGCTAGATTGTAAGAATGATATATTAAAAAATTATTTTAAGGGATTAAAAAAAT
TTAATTATGTTATCAATGACAAATGATCAACTCAATAAACATACAACAACAATAACAATATAAGC
CTTATATCCATAACTTTGAGATCGATTGTATGAAAAGACAAAAAAAAAAAAATCAGATTAAGTCA
TAATTTTAAATCTTCTTACACCTCTCATTTCTACAAAAAAAAACATTTTTTATCTACTTCCTTTT
CATCAACTCAACAAACATACAAATAATAAAACCATTAACATATA
Found at i:7763145 original size:3 final size:3
Alignment explanation
Indices: 7763137--7763169 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
7763127 AACAGTGCCT
7763137 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7763170 ACCTTTGCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7764939 original size:21 final size:23
Alignment explanation
Indices: 7764903--7764948 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
7764893 TAAATTTGTC
7764903 TTTTATATATTATTTAATATA-AT
1 TTTTATATATTATTTAA-ATAGAT
7764926 TTTTA-ATA-TATTTAAATAGAT
1 TTTTATATATTATTTAAATAGAT
7764947 TT
1 TT
7764949 AAGTATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 3 0.14
21 11 0.50
22 3 0.14
23 5 0.23
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TTTTATATATTATTTAAATAGAT
Found at i:7772715 original size:16 final size:16
Alignment explanation
Indices: 7772694--7772725 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
7772684 TTAAATATAT
7772694 ATATATATATACATAC
1 ATATATATATACATAC
7772710 ATATATATATACATAC
1 ATATATATATACATAC
7772726 TAAATGTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATATATATACATAC
Found at i:7774860 original size:23 final size:23
Alignment explanation
Indices: 7774829--7774907 Score: 68
Period size: 23 Copynumber: 3.4 Consensus size: 23
7774819 TTTAGTTATG
* *
7774829 ATTTGTTTATTATTCATGAATAT
1 ATTTATTTATTATTCATAAATAT
* *
7774852 ATTTATTTATATATTTATAAACAT
1 ATTTATTTAT-TATTCATAAATAT
** * * *
7774876 ATTCGTTCAATATTCATAAATAA
1 ATTTATTTATTATTCATAAATAT
7774899 ATTTATTTA
1 ATTTATTTA
7774908 ATTTAATCGA
Statistics
Matches: 41, Mismatches: 14, Indels: 2
0.72 0.25 0.04
Matches are distributed among these distances:
23 25 0.61
24 16 0.39
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (23 bp):
ATTTATTTATTATTCATAAATAT
Found at i:7775910 original size:5 final size:5
Alignment explanation
Indices: 7775900--7775927 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
7775890 TAAAATATTT
7775900 TTATA TTATA TTATA TTATA TTATA TTA
1 TTATA TTATA TTATA TTATA TTATA TTA
7775928 AAAATTATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:7783771 original size:23 final size:24
Alignment explanation
Indices: 7783724--7783772 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
7783714 AATTTTTTAT
*
7783724 ATTTAAAATAAATTTTAAAAAATC
1 ATTTAAAAGAAATTTTAAAAAATC
7783748 ATTTAAAAG-AATATTT-AAAAATC
1 ATTTAAAAGAAAT-TTTAAAAAATC
7783771 AT
1 AT
7783773 AGTATTAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (24 bp):
ATTTAAAAGAAATTTTAAAAAATC
Found at i:7783855 original size:13 final size:13
Alignment explanation
Indices: 7783837--7783861 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7783827 TTCATGTATT
7783837 TTTAAATTTTATA
1 TTTAAATTTTATA
7783850 TTTAAATTTTAT
1 TTTAAATTTTAT
7783862 TATATTTTAA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTAAATTTTATA
Found at i:7786009 original size:30 final size:30
Alignment explanation
Indices: 7785973--7786078 Score: 105
Period size: 30 Copynumber: 3.5 Consensus size: 30
7785963 AGTTTTTTAT
7785973 AATCAATTAAATC-TTAAATATTTTATTTCA
1 AATCAATTAAATCTTTAAATA-TTTATTTCA
7786003 AATCAATTAAATCTTTAAATATTTATTTTC-
1 AATCAATTAAATCTTTAAATATTTA-TTTCA
*
7786033 -ATCCAATT-AATCCCTTAAATATTTATTATC-
1 AAT-CAATTAAAT-CTTTAAATATTTATT-TCA
* *
7786063 ACTTAATTAAATCTTT
1 AATCAATTAAATCTTT
7786079 GTCTAAACAA
Statistics
Matches: 65, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
29 7 0.11
30 43 0.66
31 15 0.23
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (30 bp):
AATCAATTAAATCTTTAAATATTTATTTCA
Found at i:7787011 original size:2 final size:2
Alignment explanation
Indices: 7787004--7787038 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7786994 TACTATTTAC
7787004 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7787039 GAGAGAGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7787043 original size:2 final size:2
Alignment explanation
Indices: 7787038--7787064 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7787028 ATATATATAT
7787038 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
7787065 AGAAATACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7798420 original size:12 final size:12
Alignment explanation
Indices: 7798399--7798447 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
7798389 TTATATTTAT
7798399 ATAATCAATTAA
1 ATAATCAATTAA
*
7798411 ATAATAAATTAA
1 ATAATCAATTAA
7798423 A-ACAT-AATTAA
1 ATA-ATCAATTAA
*
7798434 ACAATCAATTAA
1 ATAATCAATTAA
7798446 AT
1 AT
7798448 CCACATGCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 10 0.31
12 22 0.69
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (12 bp):
ATAATCAATTAA
Found at i:7799166 original size:15 final size:17
Alignment explanation
Indices: 7799138--7799173 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
7799128 ATTAATTTTA
7799138 ATAAAATTTATTTAA-T
1 ATAAAATTTATTTAATT
7799154 ATAAAATTT-TTTAATT
1 ATAAAATTTATTTAATT
7799170 ATAA
1 ATAA
7799174 TTACAGTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATAAAATTTATTTAATT
Found at i:7799207 original size:24 final size:23
Alignment explanation
Indices: 7799153--7799207 Score: 76
Period size: 24 Copynumber: 2.4 Consensus size: 23
7799143 ATTTATTTAA
7799153 TATAA-AATTTTTTAATTATAAT
1 TATAATAATTTTTTAATTATAAT
* *
7799175 TACAGTAATTTTTTAAATTATAAT
1 TATAATAATTTTTT-AATTATAAT
7799199 TATAATAAT
1 TATAATAAT
7799208 AATTATTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 3 0.11
23 8 0.30
24 16 0.59
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
TATAATAATTTTTTAATTATAAT
Done.