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 154 of 190
Found at i:24897179 original size:20 final size:21
Alignment explanation
Indices: 24897131--24897180 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
24897121 CCTAGATACC
*
24897131 CAAATCCAAATCCAAAAACTT
1 CAAATCCAAACCCAAAAACTT
24897152 CAAA-CCAAACCCAAAAA--T
1 CAAATCCAAACCCAAAAACTT
24897170 CTAAATCCAAA
1 C-AAATCCAAA
24897181 ATTCCCGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 2 0.08
19 3 0.12
20 17 0.65
21 4 0.15
ACGTcount: A:0.56, C:0.30, G:0.00, T:0.14
Consensus pattern (21 bp):
CAAATCCAAACCCAAAAACTT
Found at i:24897508 original size:3 final size:3
Alignment explanation
Indices: 24897500--24897605 Score: 87
Period size: 3 Copynumber: 36.7 Consensus size: 3
24897490 AAGGAAAGAG
24897500 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*** * * * * *
24897546 AAT GCC AAT AACA AAT AAT AA- AA- AAT ACT AAT AAC AA- AAA AAC
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
24897589 AAT AAC AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
24897606 AAATTGATCC
Statistics
Matches: 83, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
2 10 0.12
3 71 0.86
4 2 0.02
ACGTcount: A:0.67, C:0.07, G:0.01, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:24897592 original size:14 final size:16
Alignment explanation
Indices: 24897559--24897596 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
24897549 GCCAATAACA
*
24897559 AATAATAAAAAATACT
1 AATAACAAAAAATACT
24897575 AATAACAAAAAA-AC-
1 AATAACAAAAAATACT
24897589 AATAACAA
1 AATAACAA
24897597 TAATAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 2 0.10
16 11 0.52
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.16
Consensus pattern (16 bp):
AATAACAAAAAATACT
Found at i:24904408 original size:17 final size:16
Alignment explanation
Indices: 24904374--24904407 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24904364 ATTCTTAAAA
*
24904374 TTAAAAAAATTAAATT
1 TTAAAAAAACTAAATT
*
24904390 TTAATAAAACTAAATT
1 TTAAAAAAACTAAATT
24904406 TT
1 TT
24904408 TCTTAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
TTAAAAAAACTAAATT
Found at i:24904498 original size:27 final size:27
Alignment explanation
Indices: 24904467--24904542 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 27
24904457 AATTTTTTTA
24904467 AAAAATACCTA-AAAATTTAT-AAAAATT
1 AAAAAT-CCTATAAAATTT-TGAAAAATT
* *
24904494 TAAAATTCTATAAAATTTTGAAAAATT
1 AAAAATCCTATAAAATTTTGAAAAATT
* * *
24904521 AAAAA-CTTTTGAAATTTTGAAA
1 AAAAATCCTATAAAATTTTGAAA
24904543 TAGACTAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
26 17 0.43
27 23 0.57
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.36
Consensus pattern (27 bp):
AAAAATCCTATAAAATTTTGAAAAATT
Found at i:24904535 original size:26 final size:30
Alignment explanation
Indices: 24904506--24904566 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 30
24904496 AAATTCTATA
*
24904506 AAATTTTGAAA-A-ATTAAAAACTT-T-TG
1 AAATTTTGAAATAGACTAAAAACTTATATG
24904532 AAATTTTGAAATAGACTAAAAACTTATATG
1 AAATTTTGAAATAGACTAAAAACTTATATG
24904562 AAATT
1 AAATT
24904567 AAAAATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 11 0.37
27 1 0.03
28 10 0.33
29 1 0.03
30 7 0.23
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (30 bp):
AAATTTTGAAATAGACTAAAAACTTATATG
Found at i:24904824 original size:28 final size:28
Alignment explanation
Indices: 24904793--24904882 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 28
24904783 AGAAAATTTT
24904793 ATTTTTATCAAAATTTT-AATGTTTTGAA
1 ATTTTTATCAAAATTTTGAAT-TTTTGAA
** * * *
24904821 A-TTTTAAGAAATTTTTGAATTTTTTAT
1 ATTTTTATCAAAATTTTGAATTTTTGAA
* **
24904848 ATTTTTATTAAAATTTTGAGATTTTTTTA
1 ATTTTTATCAAAATTTTGA-ATTTTTGAA
24904877 ATTTTT
1 ATTTTT
24904883 TAAGCTTTCA
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
27 18 0.37
28 18 0.37
29 13 0.27
ACGTcount: A:0.32, C:0.01, G:0.07, T:0.60
Consensus pattern (28 bp):
ATTTTTATCAAAATTTTGAATTTTTGAA
Found at i:24904944 original size:10 final size:10
Alignment explanation
Indices: 24904898--24904944 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
24904888 TTTCATAATG
24904898 TTTTT-AAAT
1 TTTTTAAAAT
24904907 ATTTTTAAATAT
1 -TTTTTAAA-AT
*
24904919 TTTTTATAACT
1 TTTTTA-AAAT
24904930 TTTTTAAAAT
1 TTTTTAAAAT
24904940 TTTTT
1 TTTTT
24904945 TAAGTTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 13 0.41
11 15 0.47
12 4 0.12
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTTTAAAAT
Found at i:24904952 original size:10 final size:10
Alignment explanation
Indices: 24904898--24904952 Score: 56
Period size: 10 Copynumber: 5.2 Consensus size: 10
24904888 TTTCATAATG
*
24904898 TTTTTAAATA
1 TTTTTAAATT
24904908 TTTTTAAATAT
1 TTTTTAAAT-T
24904919 TTTTTATAACTT
1 TTTTTA-AA-TT
*
24904931 TTTTAAAATT
1 TTTTTAAATT
*
24904941 TTTTTAAGTT
1 TTTTTAAATT
24904951 TT
1 TT
24904953 AAAAATTTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
10 21 0.55
11 8 0.21
12 8 0.21
13 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTTTAAATT
Found at i:24908073 original size:24 final size:23
Alignment explanation
Indices: 24908046--24908096 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
24908036 ATTATTATTA
24908046 TTATTATCATTATT-TTTTAAAAGT
1 TTATTATCATT-TTATTTT-AAAGT
* *
24908070 TTATTTTTATTTTATTTTAAAGT
1 TTATTATCATTTTATTTTAAAGT
24908093 TTAT
1 TTAT
24908097 CTTAAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (23 bp):
TTATTATCATTTTATTTTAAAGT
Found at i:24909744 original size:46 final size:48
Alignment explanation
Indices: 24909691--24909794 Score: 131
Period size: 49 Copynumber: 2.2 Consensus size: 48
24909681 GACAACTTGA
* *
24909691 AACTTTAAAATC-TA-AAAAAAAAAGCTCCTCTCAACAGAGGCTCAAC
1 AACTTTAAAATCTTACAAAAAAAAAGCTCATCTCAACAGAAGCTCAAC
*** *
24909737 AACTTTAAAATCTTACCTTGAAAAAAGCTCATCTCAGCAGAAGCTCAAC
1 AACTTTAAAATCTTA-CAAAAAAAAAGCTCATCTCAACAGAAGCTCAAC
24909786 AACTTTAAA
1 AACTTTAAA
24909795 GAAATTCTCA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
46 12 0.24
47 2 0.04
49 35 0.71
ACGTcount: A:0.45, C:0.23, G:0.09, T:0.23
Consensus pattern (48 bp):
AACTTTAAAATCTTACAAAAAAAAAGCTCATCTCAACAGAAGCTCAAC
Found at i:24909772 original size:49 final size:49
Alignment explanation
Indices: 24909708--24910097 Score: 335
Period size: 49 Copynumber: 7.8 Consensus size: 49
24909698 AAATCTAAAA
* *
24909708 AAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTTACCTTG
1 AAAAAAGCTCATCTCAACAGAGGCTCAACAACTTTAAAATCTTATCTTG
* * * *
24909757 AAAAAAGCTCATCTCAGCAGAAGCTCAACAACTTTAAAGAAATTCTCATATTG
1 AAAAAAGCTCATCTCAACAGAGGCTCAACAACTTT--A-AAA-TCTTATCTTG
* * ** *
24909810 AAAAAGGCTTATCTCAGTAGAGGCTCAACAACTTTAAAAATAATTCACATCTTG
1 AAAAAAGCTCATCTCAACAGAGGCTCAACAACTTT-AAAAT-CTT---ATCTTG
* * *
24909864 -AAAAAGACACCTCTCAACAGAGGCTCAACAACTTTAAAATTTTATCTTG
1 AAAAAAG-CTCATCTCAACAGAGGCTCAACAACTTTAAAATCTTATCTTG
* *** * *
24909913 AAAAAGGCTCATCTCTGTAGAGACTCAACGACTTTTAAAAT-TCTATCTTG
1 AAAAAAGCTCATCTCAACAGAGGCTCAACAAC-TTTAAAATCT-TATCTTG
* *
24909963 AAAAAAGCTCTTCTCAACAGAGGCTCAATAACTTTTAAAATCTTATCTTG
1 AAAAAAGCTCATCTCAACAGAGGCTCAACAAC-TTTAAAATCTTATCTTG
* * *
24910013 -AAAAAGCTCATAT-AAGTAAAGGCTCAACAACTTTAAAAT-TTATCTTG
1 AAAAAAGCTCATCTCAA-CAGAGGCTCAACAACTTTAAAATCTTATCTTG
* * * *
24910060 -AAAAAGCTCCTCT-AAGTAGAGGCTCAATAACTCTAAAA
1 AAAAAAGCTCATCTCAA-CAGAGGCTCAACAACTTTAAAA
24910098 AATCTCATCT
Statistics
Matches: 281, Mismatches: 46, Indels: 30
0.79 0.13 0.08
Matches are distributed among these distances:
47 41 0.15
48 10 0.04
49 80 0.28
50 61 0.22
51 6 0.02
52 7 0.02
53 48 0.17
54 28 0.10
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.27
Consensus pattern (49 bp):
AAAAAAGCTCATCTCAACAGAGGCTCAACAACTTTAAAATCTTATCTTG
Found at i:24909896 original size:156 final size:149
Alignment explanation
Indices: 24909709--24910105 Score: 439
Period size: 156 Copynumber: 2.6 Consensus size: 149
24909699 AATCTAAAAA
*
24909709 AAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTTACCTTGAAAAAAGCTCATCTCAG
1 AAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAAT-TTATCTTGAAAAAAGCTCATCTCAG
* * **
24909774 CAGAAGCTCAACAACTTTAAAGAAATTCTCATATTGAAAAAGGCT-TATCTCAGTAGAGGCTCAA
65 TAGAAGCTCAACAACTTTAAA-AAATTCTCATATTGAAAAAAGCTCT-TCTCAACAGAGGCTCAA
24909838 CAACTTTAAAAATAATTCACATCTTG
128 CAACTTTAAAAAT-ATT---ATCTTG
* * *
24909864 AAAAAGACACCTCTCAACAGAGGCTCAACAACTTTAAAATTTTATCTTGAAAAAGGCTCATCTCT
1 AAAAAG-CTCCTCTCAACAGAGGCTCAACAACTTTAAAA-TTTATCTTGAAAAAAGCTCATCTCA
* * *
24909929 GTAG-AGACTCAACGACTTT-TAAAATTCT-ATCTTGAAAAAAGCTCTTCTCAACAGAGGCTCAA
64 GTAGAAG-CTCAACAACTTTAAAAAATTCTCATATTGAAAAAAGCTCTTCTCAACAGAGGCTCAA
* * *
24909991 TAACTTTTAAAATCTTATCTTG
128 CAACTTTAAAAATATTATCTTG
* * * * * *
24910013 AAAAAGCTCATAT-AAGTAAAGGCTCAACAACTTTAAAATTTATCTTG-AAAAAGCTCCTCTAAG
1 AAAAAGCTCCTCTCAA-CAGAGGCTCAACAACTTTAAAATTTATCTTGAAAAAAGCTCATCTCAG
* * *
24910076 TAGAGGCTCAATAACTCTAAAAAA-TCTCAT
65 TAGAAGCTCAACAACTTTAAAAAATTCTCAT
24910106 CTGTTCTCGA
Statistics
Matches: 206, Mismatches: 28, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
146 27 0.13
147 18 0.09
148 24 0.12
149 12 0.06
152 2 0.01
153 39 0.19
154 8 0.04
155 9 0.04
156 66 0.32
157 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (149 bp):
AAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTTATCTTGAAAAAAGCTCATCTCAGT
AGAAGCTCAACAACTTTAAAAAATTCTCATATTGAAAAAAGCTCTTCTCAACAGAGGCTCAACAA
CTTTAAAAATATTATCTTG
Found at i:24910022 original size:99 final size:99
Alignment explanation
Indices: 24909708--24910091 Score: 377
Period size: 99 Copynumber: 3.8 Consensus size: 99
24909698 AAATCTAAAA
* * ** * * *
24909708 AAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAA-TCTTACCTTGAAAAAAGCTCATCTC
1 AAAAAGGCTCATCTCAGTAGAGGCTCAACAACTTTAAAATTCATATCTTG-AAAAAGCTCCTCTC
* * * * *
24909772 AGCAGAAGCTCAACAACTTTAAAGAAATTCTCATATTG
65 AACAGAGGCTCAACAACTTT-TA-AAA-TCTTATCTTG
* * *
24909810 AAAAAGGCTTATCTCAGTAGAGGCTCAACAACTTTAAAAATAATTCACATCTTGAAAAAGACACC
1 AAAAAGGCTCATCTCAGTAGAGGCTCAACAACTTT---AA-AATTCATATCTTGAAAAAG-CTCC
*
24909875 TCTCAACAGAGGCTCAACAAC-TTTAAAATTTTATCTTG
61 TCTCAACAGAGGCTCAACAACTTTTAAAATCTTATCTTG
* * * *
24909913 AAAAAGGCTCATCTCTGTAGAGACTCAACGACTTTTAAAATTC-TATCTTGAAAAAAGCTCTTCT
1 AAAAAGGCTCATCTCAGTAGAGGCTCAACAAC-TTTAAAATTCATATCTTG-AAAAAGCTCCTCT
*
24909977 CAACAGAGGCTCAATAACTTTTAAAATCTTATCTTG
64 CAACAGAGGCTCAACAACTTTTAAAATCTTATCTTG
* * *
24910013 AAAAA-GCTCATATAAGTAAAGGCTCAACAACTTTAAAATT--TATCTTGAAAAAGCTCCTCT-A
1 AAAAAGGCTCATCTCAGTAGAGGCTCAACAACTTTAAAATTCATATCTTGAAAAAGCTCCTCTCA
* *
24910074 AGTAGAGGCTCAATAACT
66 A-CAGAGGCTCAACAACT
24910092 CTAAAAAATC
Statistics
Matches: 239, Mismatches: 33, Indels: 26
0.80 0.11 0.09
Matches are distributed among these distances:
95 2 0.01
96 27 0.11
97 7 0.03
98 9 0.04
99 48 0.20
100 32 0.13
101 2 0.01
102 30 0.13
103 35 0.15
104 6 0.03
105 3 0.01
106 10 0.04
107 28 0.12
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.28
Consensus pattern (99 bp):
AAAAAGGCTCATCTCAGTAGAGGCTCAACAACTTTAAAATTCATATCTTGAAAAAGCTCCTCTCA
ACAGAGGCTCAACAACTTTTAAAATCTTATCTTG
Found at i:24922156 original size:18 final size:18
Alignment explanation
Indices: 24922133--24922174 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
24922123 CTCGTTTTTC
*
24922133 TTATTACTT-ATTCTTAAT
1 TTATTAATTAATT-TTAAT
*
24922151 TTATTAATTAATTTTTAT
1 TTATTAATTAATTTTAAT
24922169 TTATTA
1 TTATTA
24922175 TTTTATAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATTAATTAATTTTAAT
Found at i:24922414 original size:22 final size:23
Alignment explanation
Indices: 24922389--24922438 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
24922379 TTTATTATTA
24922389 TTATCATTATTTT-TTAAAAAGT
1 TTATCATTATTTTATTAAAAAGT
** **
24922411 TTATTTTTATTTTATTTTAAAGT
1 TTATCATTATTTTATTAAAAAGT
24922434 TTATC
1 TTATC
24922439 TTAAAATTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (23 bp):
TTATCATTATTTTATTAAAAAGT
Found at i:24935674 original size:20 final size:21
Alignment explanation
Indices: 24935649--24935691 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
24935639 CAAGTCCTTC
24935649 AAGGCTTTAGTTGTAA-GGTT
1 AAGGCTTTAGTTGTAAGGGTT
24935669 AAGGCTTTAGTTGTAAGGGTT
1 AAGGCTTTAGTTGTAAGGGTT
24935690 AA
1 AA
24935692 TGTTTGTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.28, C:0.05, G:0.30, T:0.37
Consensus pattern (21 bp):
AAGGCTTTAGTTGTAAGGGTT
Found at i:24937268 original size:12 final size:12
Alignment explanation
Indices: 24937253--24937296 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
24937243 TAAAATATTT
*
24937253 TTTAAATTTTTA
1 TTTAAATTTATA
24937265 TTTAAATTTATA
1 TTTAAATTTATA
*
24937277 TAT-AATTTATA
1 TTTAAATTTATA
*
24937288 TTAAAATTT
1 TTTAAATTT
24937297 TAAATTATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTAAATTTATA
Found at i:24953636 original size:62 final size:62
Alignment explanation
Indices: 24953539--24953662 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
24953529 CCTTAAACAA
24953539 AATCAAAGCATTTAATTAAAATAAAGCCAAATTAGAGACAAATTATCTCTAAATTAAACTTT
1 AATCAAAGCATTTAATTAAAATAAAGCCAAATTAGAGACAAATTATCTCTAAATTAAACTTT
*
24953601 AATCAAAGCATTTAATTAAAATAAAGCCAAATTAGAGACAAATTATCTCTAAATTAAGCTTT
1 AATCAAAGCATTTAATTAAAATAAAGCCAAATTAGAGACAAATTATCTCTAAATTAAACTTT
24953663 CTTAACTTGA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.49, C:0.13, G:0.07, T:0.31
Consensus pattern (62 bp):
AATCAAAGCATTTAATTAAAATAAAGCCAAATTAGAGACAAATTATCTCTAAATTAAACTTT
Found at i:24954704 original size:20 final size:20
Alignment explanation
Indices: 24954659--24954704 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
24954649 TGAAAACACT
* **
24954659 TTTAGTATTTTAAGTTTGAA
1 TTTAATATTTTAAGTTCAAA
*
24954679 TATAATATTTTAAGTTCAAA
1 TTTAATATTTTAAGTTCAAA
24954699 TTTAAT
1 TTTAAT
24954705 TTTATTCTAC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.52
Consensus pattern (20 bp):
TTTAATATTTTAAGTTCAAA
Found at i:24954828 original size:15 final size:15
Alignment explanation
Indices: 24954793--24954821 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24954783 AAAGTCATTT
24954793 AATATTTTAATTTTA
1 AATATTTTAATTTTA
24954808 AATATTTTAATTTT
1 AATATTTTAATTTT
24954822 GTATATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AATATTTTAATTTTA
Found at i:24954919 original size:45 final size:43
Alignment explanation
Indices: 24954863--24954962 Score: 123
Period size: 42 Copynumber: 2.3 Consensus size: 43
24954853 TTCAATACTA
* *
24954863 AATAGTATTTTATTATTATTTTAATAATAAGTAATAACAT-ATAT
1 AATAATATTTT-TTATTATTTTAATAATAAATAATAA-ATAATAT
**
24954907 AATAATA-TTTTTATTATTTTAATAATAAATGTTAAATAATAT
1 AATAATATTTTTTATTATTTTAATAATAAATAATAAATAATAT
24954949 AATAATATTATTTT
1 AATAATATT-TTTT
24954963 CTTAATATGA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
41 2 0.04
42 33 0.67
43 4 0.08
44 10 0.20
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (43 bp):
AATAATATTTTTTATTATTTTAATAATAAATAATAAATAATAT
Found at i:24955144 original size:17 final size:17
Alignment explanation
Indices: 24955122--24955154 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
24955112 CAATATAAAA
24955122 TATAAATATTTTAATAG
1 TATAAATATTTTAATAG
24955139 TATAAATATTTTAATA
1 TATAAATATTTTAATA
24955155 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (17 bp):
TATAAATATTTTAATAG
Found at i:24955170 original size:15 final size:16
Alignment explanation
Indices: 24955150--24955185 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
24955140 ATAAATATTT
24955150 TAATATTAATAAA-AA
1 TAATATTAATAAAGAA
*
24955165 TAATATTTATAAAGAA
1 TAATATTAATAAAGAA
24955181 TAATA
1 TAATA
24955186 AATAGTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
TAATATTAATAAAGAA
Found at i:24955234 original size:19 final size:18
Alignment explanation
Indices: 24955207--24955294 Score: 53
Period size: 19 Copynumber: 4.9 Consensus size: 18
24955197 GTTTAGTATT
*
24955207 TTTTTATATTAATATAATA
1 TTTTAATATTAA-ATAATA
*
24955226 TTTTAATATTAAATATTA
1 TTTTAATATTAAATAATA
*
24955244 TTATTAA-A--ATATAATTA
1 TT-TTAATATTAAATAA-TA
24955261 TTCTTGAATATT-AAT-A-A
1 TT-TT-AATATTAAATAATA
*
24955278 TTTTAATAATAAATAAT
1 TTTTAATATTAAATAAT
24955295 TTCATTGTAC
Statistics
Matches: 53, Mismatches: 7, Indels: 19
0.67 0.09 0.24
Matches are distributed among these distances:
15 5 0.09
16 9 0.17
17 10 0.19
18 10 0.19
19 17 0.32
20 2 0.04
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (18 bp):
TTTTAATATTAAATAATA
Found at i:24955248 original size:21 final size:19
Alignment explanation
Indices: 24955203--24955276 Score: 59
Period size: 19 Copynumber: 4.0 Consensus size: 19
24955193 TTATGTTTAG
*
24955203 TATT-TTTTTATATTAATA
1 TATTATTTTAATATTAATA
*
24955221 TAATATTTTAATATTAA-A
1 TATTATTTTAATATTAATA
*
24955239 TATTATTATTAA-AAT-ATA
1 TATTATT-TTAATATTAATA
24955257 -ATTATTCTTGAATATTAATA
1 TATTATT-TT-AATATTAATA
24955277 ATTTTAATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
17 9 0.20
18 15 0.34
19 17 0.39
20 3 0.07
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (19 bp):
TATTATTTTAATATTAATA
Found at i:24955294 original size:16 final size:16
Alignment explanation
Indices: 24955216--24955296 Score: 51
Period size: 16 Copynumber: 4.8 Consensus size: 16
24955206 TTTTTTATAT
24955216 TAATATAAT-ATTTTAA
1 TAATA-AATAATTTTAA
*
24955232 TATTAAATATTATTATTAA
1 TAATAAATA--ATT-TTAA
*
24955251 -AATATAATTATTCTTGAA
1 TAATA-AATAATT-TT-AA
*
24955269 T-ATTAATAATTTTAA
1 TAATAAATAATTTTAA
24955284 TAATAAATAATTT
1 TAATAAATAATTT
24955297 CATTGTACCA
Statistics
Matches: 50, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
15 6 0.12
16 16 0.32
17 11 0.22
18 10 0.20
19 7 0.14
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (16 bp):
TAATAAATAATTTTAA
Found at i:24955982 original size:23 final size:23
Alignment explanation
Indices: 24955930--24955983 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
24955920 ACAATTGTCT
**
24955930 TTAAATTTTCTATTTATTCTCTA
1 TTAAATTTTAAATTTATTCTCTA
* *
24955953 TTTAATTTTAAATTTATT-TGTA
1 TTAAATTTTAAATTTATTCTCTA
24955975 CTTAAATTT
1 -TTAAATTT
24955984 CATAATATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (23 bp):
TTAAATTTTAAATTTATTCTCTA
Found at i:24956055 original size:28 final size:28
Alignment explanation
Indices: 24955998--24956055 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
24955988 ATATATATGT
* * * *
24955998 ATATTTATTGTATTGTTATTTTTCACAA
1 ATATTTATTGTATTGTAACTTTTAAAAA
24956026 ATATTTATTGATATT-TAACTTTTAAAAA
1 ATATTTATTG-TATTGTAACTTTTAAAAA
24956054 AT
1 AT
24956056 TTTGACCCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
28 21 0.84
29 4 0.16
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.53
Consensus pattern (28 bp):
ATATTTATTGTATTGTAACTTTTAAAAA
Found at i:24956443 original size:16 final size:18
Alignment explanation
Indices: 24956422--24956460 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
24956412 GTTAGATTTA
*
24956422 TTAATTTT-TA-ATTTTT
1 TTAATTTTATATATTATT
24956438 TTAATTTTATATATTATT
1 TTAATTTTATATATTATT
24956456 TTAAT
1 TTAAT
24956461 ATAATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTAATTTTATATATTATT
Found at i:24956468 original size:13 final size:13
Alignment explanation
Indices: 24956441--24956476 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
24956431 AATTTTTTTA
*
24956441 ATTTT-ATATATT
1 ATTTTAATATAAT
24956453 ATTTTAATATAAT
1 ATTTTAATATAAT
24956466 ATTTTAATATA
1 ATTTTAATATA
24956477 TTTAAGTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 5 0.23
13 17 0.77
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
ATTTTAATATAAT
Found at i:24956555 original size:19 final size:19
Alignment explanation
Indices: 24956514--24956555 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
24956504 TATTGTCATT
*
24956514 TTATAAAAATTTTAAAAAA
1 TTATAAAAATATTAAAAAA
24956533 -TATAAAAA-ATTAAGAAAA
1 TTATAAAAATATTAA-AAAA
24956551 TTATA
1 TTATA
24956556 TAATTTGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 4 0.20
18 12 0.60
19 4 0.20
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
TTATAAAAATATTAAAAAA
Found at i:24959147 original size:15 final size:15
Alignment explanation
Indices: 24959127--24959160 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
24959117 TTGGTATATT
24959127 TAAAAA-TAATAATAA
1 TAAAAATTAAT-ATAA
24959142 TAAAAATTAATATAA
1 TAAAAATTAATATAA
24959157 TAAA
1 TAAA
24959161 TGAAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAAAATTAATATAA
Found at i:24960609 original size:2 final size:2
Alignment explanation
Indices: 24960602--24960639 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
24960592 AGTATAAATG
*
24960602 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24960640 TATTGTAAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:24965978 original size:16 final size:17
Alignment explanation
Indices: 24965957--24965999 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
24965947 TTGCACAAAG
24965957 AAAAAAAAGTCAGCTTA
1 AAAAAAAAGTCAGCTTA
*
24965974 AAAAAAAAGTCAGTTTA
1 AAAAAAAAGTCAGCTTA
24965991 AAGAAAAAA
1 AA-AAAAAA
24966000 AAAAGAGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.65, C:0.07, G:0.12, T:0.16
Consensus pattern (17 bp):
AAAAAAAAGTCAGCTTA
Found at i:24966740 original size:15 final size:15
Alignment explanation
Indices: 24966703--24966736 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
24966693 AACAAAATAA
24966703 AATAATAATAAATTT
1 AATAATAATAAATTT
24966718 AATAATAATAAA-TT
1 AATAATAATAAATTT
24966732 AATAA
1 AATAA
24966737 ATAAGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATAATAAATTT
Found at i:24969905 original size:22 final size:21
Alignment explanation
Indices: 24969862--24969905 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
24969852 GAAGCTTGTT
* **
24969862 AAAAAAGAATTAAAAGCTAAA
1 AAAAAAGAAATAAAAGAGAAA
24969883 AAAAAAGAAATAAGAAGAGAAA
1 AAAAAAGAAATAA-AAGAGAAA
24969905 A
1 A
24969906 TTTGAAACTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.75, C:0.02, G:0.14, T:0.09
Consensus pattern (21 bp):
AAAAAAGAAATAAAAGAGAAA
Found at i:24974693 original size:14 final size:15
Alignment explanation
Indices: 24974665--24974710 Score: 60
Period size: 14 Copynumber: 3.1 Consensus size: 15
24974655 TGTTTTCATC
24974665 TTCATTTTGCTTTCCA
1 TTCATTTT-CTTTCCA
24974681 TTC-TTTTCTTTCCA
1 TTCATTTTCTTTCCA
*
24974695 -TCATTTTCTTGCCA
1 TTCATTTTCTTTCCA
24974709 TT
1 TT
24974711 TTATTTTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 2 0.07
14 17 0.63
15 5 0.19
16 3 0.11
ACGTcount: A:0.11, C:0.26, G:0.04, T:0.59
Consensus pattern (15 bp):
TTCATTTTCTTTCCA
Found at i:24979108 original size:50 final size:50
Alignment explanation
Indices: 24978990--24979376 Score: 327
Period size: 50 Copynumber: 7.9 Consensus size: 50
24978980 ATTTGGAGCC
* * * * *
24978990 CTTTTTC-AGATGAGATTTTTAAAGTTGTCGAGCCTCTACTAAGATG-AG
1 CTTTTTCAAGATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAAG
* * *
24979038 CTTTTTCTAA-AT-AAAATTTTAAATTTGTTGAGCCTCTGCTGAGAGGAAT
1 CTTTTTC-AAGATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAAG
* * ** * *
24979087 CTTTTTTAATATGAGAATTTTAAAGTTGTCAAGCCTCTACTGAGA-AAAG
1 CTTTTTCAAGATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAAG
* ** *
24979136 CTTTTTCAAGATGAGAATTTTTAAAATTGTCAAGCCTTTGCTGAGAGG-AG
1 CTTTTTCAAGATGAGAA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAAG
* *
24979186 CTTTTTCAA-ATGA-AATTTTTAAAGTCGTTGAGCCTATGCTGAGAGG-AG
1 CTTTTTCAAGATGAGAA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAAG
* * * * * * *
24979234 CCCTTTTCAAGATAAG-ATTTCAAAAATTGTTGAGCCTATACTGAGAAG-AG
1 -CTTTTTCAAGATGAGAATTT-TAAAGTTGTTGAGCCTCTGCTGAGAGGAAG
* ***
24979284 CCTTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGA--TCC
1 -CTTTTTCAAGATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAAG
24979333 CTTTTT-AAGATGA-AATTTTTAAAGTTGTTGAGCCTCTGCTGAGA
1 CTTTTTCAAGATGAGAA-TTTTAAAGTTGTTGAGCCTCTGCTGAGA
24979377 TGAGTCTTTT
Statistics
Matches: 281, Mismatches: 44, Indels: 29
0.79 0.12 0.08
Matches are distributed among these distances:
46 1 0.00
47 35 0.12
48 72 0.26
49 43 0.15
50 127 0.45
51 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.37
Consensus pattern (50 bp):
CTTTTTCAAGATGAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAAG
Found at i:24979108 original size:98 final size:98
Alignment explanation
Indices: 24978990--24979387 Score: 360
Period size: 98 Copynumber: 4.1 Consensus size: 98
24978980 ATTTGGAGCC
* * * *
24978990 CTTTTTCAGATGAGATTTTTAAAGTTGTCGAGCCTCTACTAAGATGAGCTTTTTCTAA-AT-AAA
1 CTTTTTCAAATGAGAATTTTAAAGTTGTCGAGCCTCTACTGAGATGAGCCTTTTC-AAGATGAAA
*
24979053 ATTTTAAATTTGTTGAGCCTCTGCTGAGAGGAAT
65 ATTTTAAAATTGTTGAGCCTCTGCTGAGAGGAAT
* * ** *
24979087 CTTTTTTAATATGAGAATTTTAAAGTTGTCAAGCCTCTACTGAGAAAAGCTTTTTCAAGATGAGA
1 CTTTTTCAA-ATGAGAATTTTAAAGTTGTCGAGCCTCTACTGAGATGAGCCTTTTCAAGATGA-A
* ** * *
24979152 ATTTTTAAAATTGTCAAGCCTTTGCTGAGAGG-AG
64 AATTTTAAAATTGTTGAGCCTCTGCTGAGAGGAAT
* * * * *
24979186 CTTTTTCAAATGA-AATTTTTAAAGTCGTTGAGCCTATGCTGAGAGGAGCCCTTTTCAAGAT-AA
1 CTTTTTCAAATGAGAA-TTTTAAAGTTGTCGAGCCTCTACTGAGATGAG-CCTTTTCAAGATGAA
* * * * * **
24979249 GATTTCAAAAATTGTTGAGCCTATACTGAGAAGAGC
64 AATTT-TAAAATTGTTGAGCCTCTGCTGAGAGGAAT
* * * * *
24979285 CTTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAT--CCCTTTTTAAGATGAAA
1 CTTTTTCAA-ATGAGAATTTTAAAGTTGTCGAGCCTCTACTGAGATGAGCCTTTTCAAGATGAAA
* * * *
24979348 TTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGT
65 ATTTTAAAATTGTTGAGCCTCTGCTGAGAGGAAT
24979382 CTTTTT
1 CTTTTT
24979388 TCAGATTTTA
Statistics
Matches: 244, Mismatches: 46, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
97 56 0.23
98 99 0.41
99 30 0.12
100 58 0.24
101 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.38
Consensus pattern (98 bp):
CTTTTTCAAATGAGAATTTTAAAGTTGTCGAGCCTCTACTGAGATGAGCCTTTTCAAGATGAAAA
TTTTAAAATTGTTGAGCCTCTGCTGAGAGGAAT
Found at i:24979276 original size:148 final size:147
Alignment explanation
Indices: 24978989--24979376 Score: 462
Period size: 148 Copynumber: 2.6 Consensus size: 147
24978979 GATTTGGAGC
* *
24978989 CCTTTTTC-AGATGAGATTTTTAAAGTTGTCGAGCCTCTACTAAGATGAGCTTTTTCTAAAT-AA
1 CCTTTTTCAAGATGAGATTTTTAAAGTTGTCGAGCCTCTGCTGAGA-GAGCTTTTTC-AAATGAA
* * * * * * * * *
24979052 AATTTTAAATTTGTTGAGCCTCTGCTGAGAGGAATCTTTTTTAATATGAGAATTTTAAAGTTGTC
64 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCCTTTTCAAGATAAGAATTTAAAAATTGTC
*
24979117 AAGCCTCTACTGAGAAAAG
129 AAGCCTATACTGAGAAAAG
* * *
24979136 -CTTTTTCAAGATGAGAATTTTTAAAATTGTCAAGCCTTTGCTGAGAGGAGCTTTTTCAAATGAA
1 CCTTTTTCAAGATGAG-ATTTTTAAAGTTGTCGAGCCTCTGCTGAGA-GAGCTTTTTCAAATGAA
* * *
24979200 ATTTTTAAAGTCGTTGAGCCTATGCTGAGAGGAGCCCTTTTCAAGATAAG-ATTTCAAAAATTGT
64 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCCTTTTCAAGATAAGAATTT-AAAAATTGT
** *
24979264 TGAGCCTATACTGAGAAGAG
128 CAAGCCTATACTGAGAAAAG
* ***
24979284 CCTTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGATCCCTTTTT-AAGATGAAA
1 CCTTTTTCAAGATGAGATTTTTAAAGTTGTCGAGCCTCTGCTGAGAGAGCTTTTTCAA-ATGAAA
24979348 TTTTTAAAGTTGTTGAGCCTCTGCTGAGA
65 TTTTTAAAGTTGTTGAGCCTCTGCTGAGA
24979377 TGAGTCTTTT
Statistics
Matches: 204, Mismatches: 31, Indels: 12
0.83 0.13 0.05
Matches are distributed among these distances:
146 9 0.04
147 54 0.26
148 126 0.62
149 15 0.07
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.37
Consensus pattern (147 bp):
CCTTTTTCAAGATGAGATTTTTAAAGTTGTCGAGCCTCTGCTGAGAGAGCTTTTTCAAATGAAAT
TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCCTTTTCAAGATAAGAATTTAAAAATTGTCAA
GCCTATACTGAGAAAAG
Found at i:24979627 original size:12 final size:12
Alignment explanation
Indices: 24979610--24979656 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
24979600 GGTCACAAAA
24979610 AAAATAATAAAT
1 AAAATAATAAAT
24979622 AAAATAAT-AAT
1 AAAATAATAAAT
* *
24979633 AATATTATTAAAT
1 AA-AATAATAAAT
*
24979646 ACAATAATAAA
1 AAAATAATAAA
24979657 AATTAAACAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
11 5 0.18
12 19 0.68
13 4 0.14
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAATAATAAAT
Found at i:24980614 original size:20 final size:20
Alignment explanation
Indices: 24980585--24980626 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
24980575 CTGAATTGTC
24980585 GAACCAACCGGAC-CGTGCTT
1 GAACCAACCGGACTCGTG-TT
*
24980605 GAACCGACCGGACTCGTGTT
1 GAACCAACCGGACTCGTGTT
24980625 GA
1 GA
24980627 GCGGATCGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.24, C:0.31, G:0.29, T:0.17
Consensus pattern (20 bp):
GAACCAACCGGACTCGTGTT
Found at i:24980847 original size:15 final size:15
Alignment explanation
Indices: 24980793--24980847 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
24980783 GTTAATTTTT
24980793 AAAATAAACTTTAA-A
1 AAAATAAA-TTTAATA
**
24980808 AAACA-AAATAAAATA
1 AAA-ATAAATTTAATA
24980823 AAAATAAATTTAATA
1 AAAATAAATTTAATA
*
24980838 ATAATAAATT
1 AAAATAAATT
24980848 GATAAATAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
14 4 0.12
15 27 0.84
16 1 0.03
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAATAAATTTAATA
Found at i:24985441 original size:3 final size:3
Alignment explanation
Indices: 24985435--24985472 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
24985425 CTTCTTGCTT
*
24985435 TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
24985473 TATAATGTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:24987173 original size:19 final size:19
Alignment explanation
Indices: 24987149--24987188 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
24987139 TCCAAGGGCC
24987149 ATTCTTTTTTTTTTCTTCA
1 ATTCTTTTTTTTTTCTTCA
24987168 ATTCTTTTTTTTTTCTTCA
1 ATTCTTTTTTTTTTCTTCA
24987187 AT
1 AT
24987189 GGTTTTCCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.72
Consensus pattern (19 bp):
ATTCTTTTTTTTTTCTTCA
Found at i:24987194 original size:19 final size:19
Alignment explanation
Indices: 24987152--24987194 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
24987142 AAGGGCCATT
*
24987152 CTTTTTTTTTTCTTCAATT
1 CTTTTTTTTTTCTTCAATG
24987171 CTTTTTTTTTTCTTCAATG
1 CTTTTTTTTTTCTTCAATG
*
24987190 GTTTT
1 CTTTT
24987195 CCCTACTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.09, C:0.14, G:0.05, T:0.72
Consensus pattern (19 bp):
CTTTTTTTTTTCTTCAATG
Found at i:24992738 original size:64 final size:64
Alignment explanation
Indices: 24992604--24993090 Score: 270
Period size: 64 Copynumber: 7.7 Consensus size: 64
24992594 TTTATTGTAT
* ** * * * * *
24992604 GGATTATTGAAGGCATTTTTGGACAAAAATGCCTTTAATAAT-CCAT-ATAAATTTTTTTTTG-A
1 GGATTATTGAAAGTGTTTTAGGTCAAAAATGCCTTCAATAATCCCTTCATAAA--TTTTTATGAA
24992666 G
64 G
* * * * *
24992667 GAAATTATTGAAGGTGTTTTAGGTCAAAAATGCTTTCAATAATCCATTCAATAAATTTTAATGAA
1 G-GATTATTGAAAGTGTTTTAGGTCAAAAATGCCTTCAATAATCCCTTC-ATAAATTTTTATGAA
24992732 -
64 G
* ** ** * * * * *
24992732 GGATTATTTAAAGCATTTTTTGCCAAAAACGCCTTCAATAATCCCTTCATAACTTTTTACGAAC
1 GGATTATTGAAAGTGTTTTAGGTCAAAAATGCCTTCAATAATCCCTTCATAAATTTTTATGAAG
* * * * ** *
24992796 AGATTATTGAAAGCGTTTTGAGCT-AAAAACGCCTTCAATAATTCCCTAAATAAAGTTTTAT-AA
1 GGATTATTGAAAGTGTTTT-AGGTCAAAAATGCCTTCAATAA-TCCCTTCATAAATTTTTATGAA
24992859 G
64 G
* * * * * * * * *
24992860 GGATCATTAAAAGCT-TTTTTGATCAAAAATACTTTCAATAATCCCCTCATAACTTTTTA-CAAG
1 GGATTATTGAAAG-TGTTTTAGGTCAAAAATGCCTTCAATAATCCCTTCATAAATTTTTATGAAG
* * * * * *
24992923 GAAAATATTG-AAGTGTTTTAGGCCAAAAA--CACTTAAAATAATCCCTTGAATGAATTTTTAT-
1 G-GATTATTGAAAGTGTTTTAGGTCAAAAATGC-CTT-CAATAATCCCTT-CATAAATTTTTATG
24992984 AAG
62 AAG
* * * *
24992987 GGATTATTGAAAGTATTTT-TGACTAAAAATGCCTTCAATAAT--CTTCATGAAATTTTTA-G-T
1 GGATTATTGAAAGTGTTTTAGGTC-AAAAATGCCTTCAATAATCCCTTCAT-AAATTTTTATGAA
24993047 G
64 G
* * *
24993048 GGATTATTGAAAGTGTTTTCGGTCCAAAATACCTTCAATAATC
1 GGATTATTGAAAGTGTTTTAGGTCAAAAATGCCTTCAATAATC
24993091 TCTCAATTTT
Statistics
Matches: 320, Mismatches: 79, Indels: 51
0.71 0.18 0.11
Matches are distributed among these distances:
61 38 0.12
62 16 0.05
63 64 0.20
64 169 0.53
65 26 0.08
66 2 0.01
67 5 0.02
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (64 bp):
GGATTATTGAAAGTGTTTTAGGTCAAAAATGCCTTCAATAATCCCTTCATAAATTTTTATGAAG
Found at i:24993016 original size:127 final size:127
Alignment explanation
Indices: 24992665--24993029 Score: 350
Period size: 128 Copynumber: 2.9 Consensus size: 127
24992655 TTTTTTTTTG
* ** * * *
24992665 AGGAAATTATTGAAGGTGTTTTAGGTCAAAAATGCTTTCAATAATCCATTCAATAAATTTTAATG
1 AGGAAATTATTGAA-GTGTTTTAGGCCAAAAACAC-TTCAATAATCCCTTAAATAAATTTTTAT-
* * * * *
24992730 AA-GGATTATTTAAAGCATTTTTTG-CCAAAAACGCCTTCAATAATCCCTTCATAACTTTTTACG
63 AAGGGATTATTAAAAGTA-TTTTTGACTAAAAATGCCTTCAATAATCCCCTCATAACTTTTTACG
24992793 A
127 A
* * * * * *
24992794 A-CAGATTATTGAAAGCGTTTT-GAGCTAAAAACGCCTTCAATAATTCCC-TAAATAAAGTTTTA
1 AGGAAATTATTG-AAGTGTTTTAG-GCCAAAAAC-ACTTCAATAA-TCCCTTAAATAAATTTTTA
* * *
24992856 TAAGGGATCATTAAAAGCT-TTTTTGA-TCAAAAATACTTTCAATAATCCCCTCATAACTTTTTA
62 TAAGGGATTATTAAAAG-TATTTTTGACT-AAAAATGCCTTCAATAATCCCCTCATAACTTTTTA
24992919 C-A
125 CGA
* * * *
24992921 AGGAAAATATTGAAGTGTTTTAGGCCAAAAACACTTAAAATAATCCCTTGAATGAATTTTTATAA
1 AGGAAATTATTGAAGTGTTTTAGGCCAAAAACACTT-CAATAATCCCTTAAATAAATTTTTATAA
*
24992986 GGGATTATTGAAAGTATTTTTGACTAAAAATGCCTTCAATAATC
65 GGGATTATTAAAAGTATTTTTGACTAAAAATGCCTTCAATAATC
24993030 TTCATGAAAT
Statistics
Matches: 189, Mismatches: 33, Indels: 30
0.75 0.13 0.12
Matches are distributed among these distances:
126 8 0.04
127 82 0.43
128 92 0.49
129 7 0.04
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (127 bp):
AGGAAATTATTGAAGTGTTTTAGGCCAAAAACACTTCAATAATCCCTTAAATAAATTTTTATAAG
GGATTATTAAAAGTATTTTTGACTAAAAATGCCTTCAATAATCCCCTCATAACTTTTTACGA
Found at i:24993986 original size:18 final size:18
Alignment explanation
Indices: 24993963--24993998 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
24993953 AAATTAATAC
24993963 AAGGTGAGTCATGAGGAT
1 AAGGTGAGTCATGAGGAT
24993981 AAGGTGAGTCATGAGGAT
1 AAGGTGAGTCATGAGGAT
24993999 TAGTTATGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.39, T:0.22
Consensus pattern (18 bp):
AAGGTGAGTCATGAGGAT
Found at i:24999940 original size:28 final size:28
Alignment explanation
Indices: 24999882--24999938 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 28
24999872 TTATTAATTT
*
24999882 ATAAATATAAATATAAAAAATATATCAA
1 ATAAATATAAATATAAAAAATATAGCAA
*
24999910 ATAAATAATAATATTTAAAAAATA-AGCAA
1 ATAAAT-ATAA-ATATAAAAAATATAGCAA
24999939 TATTTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.24
29 8 0.32
30 11 0.44
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (28 bp):
ATAAATATAAATATAAAAAATATAGCAA
Found at i:25000769 original size:30 final size:29
Alignment explanation
Indices: 25000718--25000774 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 29
25000708 AAGATATTGT
25000718 TATCATTTTTTATATTATTTATTATATTAC
1 TATCATTTTTTATATTATTTATT-TATTAC
25000748 TATCA-TTTTTATTAATT-TTTATTTATT
1 TATCATTTTTTA-T-ATTATTTATTTATT
25000775 TATTAACCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
29 10 0.40
30 12 0.48
31 3 0.12
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (29 bp):
TATCATTTTTTATATTATTTATTTATTAC
Found at i:25000967 original size:23 final size:24
Alignment explanation
Indices: 25000937--25000986 Score: 77
Period size: 23 Copynumber: 2.1 Consensus size: 24
25000927 AAAAAAATAA
25000937 TTATTATAATTA-TGATT-AAAATT
1 TTATTATAATTACT-ATTAAAAATT
25000960 TTATTATAATTACTATTAAAAATT
1 TTATTATAATTACTATTAAAAATT
25000984 TTA
1 TTA
25000987 ATAAAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
TTATTATAATTACTATTAAAAATT
Found at i:25002495 original size:20 final size:19
Alignment explanation
Indices: 25002457--25002496 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
25002447 ACAAAGAAAA
*
25002457 TAAAAAAATTTTATTATAT
1 TAAAAAAATTTTATAATAT
25002476 TAAAAAAATTTTATAAATAT
1 TAAAAAAATTTTAT-AATAT
25002496 T
1 T
25002497 TCAATACATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAAAAAATTTTATAATAT
Found at i:25002648 original size:28 final size:29
Alignment explanation
Indices: 25002605--25002660 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
25002595 AAATTTCTTA
*
25002605 TATTTTTTATGAATTTTGTATTATTATTAC
1 TATTTTTTA-GAATTTTGTATCATTATTAC
*
25002635 TATTTTTTA-AATTTTTTATCATTATT
1 TATTTTTTAGAATTTTGTATCATTATT
25002661 CTTTAACGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 15 0.62
30 9 0.38
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.66
Consensus pattern (29 bp):
TATTTTTTAGAATTTTGTATCATTATTAC
Found at i:25002783 original size:21 final size:21
Alignment explanation
Indices: 25002759--25002808 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
25002749 TTACATACAT
* *
25002759 AAATACTAATAATAAAATTTA
1 AAATAATAAAAATAAAATTTA
*
25002780 AAATAATAAAAATAATATTTA
1 AAATAATAAAAATAAAATTTA
25002801 AAA-AATAA
1 AAATAATAA
25002809 TTCAAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
AAATAATAAAAATAAAATTTA
Found at i:25003825 original size:3 final size:3
Alignment explanation
Indices: 25003819--25003855 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
25003809 AAGAAGAAAA
25003819 AAT AAT AA- AA- AAT AA- AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
25003856 TTTCGGACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 6 0.19
3 26 0.81
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:25006734 original size:23 final size:25
Alignment explanation
Indices: 25006688--25006735 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
25006678 ATAAATTTAC
*
25006688 TTGTGCTTGACATGCATATGTTTGA
1 TTGTGCTTGACATGCATATATTTGA
*
25006713 TTGTGCTT-AC-TTCATATATTTGA
1 TTGTGCTTGACATGCATATATTTGA
25006736 CTAATATATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 11 0.52
24 2 0.10
25 8 0.38
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.48
Consensus pattern (25 bp):
TTGTGCTTGACATGCATATATTTGA
Found at i:25008961 original size:22 final size:22
Alignment explanation
Indices: 25008935--25008989 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
25008925 GTTGGTGAAT
**
25008935 AAAATTGCTAACAATTGGTATC
1 AAAATTGCTAACAATTGACATC
25008957 AAAATTGCTAACAATTGACATC
1 AAAATTGCTAACAATTGACATC
25008979 AAAATTGCTAA
1 AAAATTGCTAA
25008990 AGATTTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (22 bp):
AAAATTGCTAACAATTGACATC
Found at i:25009196 original size:16 final size:16
Alignment explanation
Indices: 25009172--25009203 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25009162 TTTTGATGAC
*
25009172 ATATTTTTAACAATTG
1 ATATCTTTAACAATTG
25009188 ATATCTTTAACAATTG
1 ATATCTTTAACAATTG
25009204 GTATGAGCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (16 bp):
ATATCTTTAACAATTG
Found at i:25016386 original size:19 final size:21
Alignment explanation
Indices: 25016322--25016383 Score: 124
Period size: 21 Copynumber: 3.0 Consensus size: 21
25016312 ATATTAATAT
25016322 TTAAAAAAATAATATTTTATA
1 TTAAAAAAATAATATTTTATA
25016343 TTAAAAAAATAATATTTTATA
1 TTAAAAAAATAATATTTTATA
25016364 TTAAAAAAATAATATTTTAT
1 TTAAAAAAATAATATTTTAT
25016384 TAATTTCGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TTAAAAAAATAATATTTTATA
Found at i:25022144 original size:10 final size:10
Alignment explanation
Indices: 25022129--25022165 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
25022119 AAAAGAAACT
25022129 TTCAAAAAAA
1 TTCAAAAAAA
25022139 TTCAAAAAAA
1 TTCAAAAAAA
25022149 -TCAAAAAAA
1 TTCAAAAAAA
*
25022158 TTGAAAAA
1 TTCAAAAA
25022166 CCAAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 9 0.36
10 16 0.64
ACGTcount: A:0.70, C:0.08, G:0.03, T:0.19
Consensus pattern (10 bp):
TTCAAAAAAA
Found at i:25022439 original size:21 final size:21
Alignment explanation
Indices: 25022413--25022459 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
25022403 TCAAAAAAGG
* *
25022413 AAAAAATTTAAGAACTTTTTA
1 AAAAAATTTAACAAATTTTTA
*
25022434 AAAAAATTTTACAAATTTTTA
1 AAAAAATTTAACAAATTTTTA
25022455 AAAAA
1 AAAAA
25022460 TTCTTAGAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (21 bp):
AAAAAATTTAACAAATTTTTA
Found at i:25022604 original size:10 final size:10
Alignment explanation
Indices: 25022591--25022619 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
25022581 AAAGTTTTCA
25022591 TAATTTTTTT
1 TAATTTTTTT
25022601 TAA-TTTTTT
1 TAATTTTTTT
25022610 TAATTTTTTT
1 TAATTTTTTT
25022620 AAAACTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TAATTTTTTT
Found at i:25022609 original size:8 final size:9
Alignment explanation
Indices: 25022595--25022621 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
25022585 TTTTCATAAT
25022595 TTTTTTTAA
1 TTTTTTTAA
25022604 TTTTTTTAA
1 TTTTTTTAA
25022613 TTTTTTTAA
1 TTTTTTTAA
25022622 AACTGTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:25023783 original size:24 final size:22
Alignment explanation
Indices: 25023736--25023784 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
25023726 TATAATCTTA
*
25023736 AAAATTTATTAATTAAAAAAAG
1 AAAATTTATTAAATAAAAAAAG
*
25023758 AAAATATTATTGAAATAAAAATAG
1 AAAAT-TTATT-AAATAAAAAAAG
25023782 AAA
1 AAA
25023785 CATAGATTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 5 0.22
23 5 0.22
24 13 0.57
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (22 bp):
AAAATTTATTAAATAAAAAAAG
Found at i:25025733 original size:10 final size:10
Alignment explanation
Indices: 25025718--25025747 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
25025708 ATTGAGCTTT
25025718 TATATTTTAA
1 TATATTTTAA
25025728 TATATTTTAA
1 TATATTTTAA
25025738 T-TATTTTAA
1 TATATTTTAA
25025747 T
1 T
25025748 TAATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:25025744 original size:9 final size:9
Alignment explanation
Indices: 25025720--25025749 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
25025710 TGAGCTTTTA
25025720 TATTTTAAT
1 TATTTTAAT
25025729 ATATTTTAAT
1 -TATTTTAAT
25025739 TATTTTAAT
1 TATTTTAAT
25025748 TA
1 TA
25025750 ATAAAATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTAAT
Found at i:25026464 original size:12 final size:12
Alignment explanation
Indices: 25026447--25026482 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
25026437 TATAAGACAA
*
25026447 CAATCACTGTAG
1 CAATCACTATAG
25026459 CAATCACTATAG
1 CAATCACTATAG
*
25026471 CAGTCACTATAG
1 CAATCACTATAG
25026483 AAGCTACTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (12 bp):
CAATCACTATAG
Found at i:25026976 original size:19 final size:20
Alignment explanation
Indices: 25026952--25027041 Score: 58
Period size: 19 Copynumber: 4.3 Consensus size: 20
25026942 GTATATATAA
25026952 TTTATTTTTTATTTA-TTTT
1 TTTATTTTTTATTTAGTTTT
** *
25026971 TTTATTTTACATTTATTTATT
1 TTTATTTTTTATTTAGTT-TT
*
25026992 TTTATTTTACTTTTTTGAGTTTT
1 TTTATTTT--TTATTT-AGTTTT
* *
25027015 ATTTATTTATTA-TTATTTTT
1 -TTTATTTTTTATTTAGTTTT
25027035 TATTATT
1 T-TTATT
25027042 AGGTGATAAG
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
19 14 0.25
20 12 0.22
21 12 0.22
22 2 0.04
23 5 0.09
24 10 0.18
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTATTTTTTATTTAGTTTT
Found at i:25026992 original size:34 final size:35
Alignment explanation
Indices: 25026951--25027033 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 35
25026941 AGTATATATA
*
25026951 ATTTATTTTTTA-TTTA-TTTTTTTA-TTTTACATTT
1 ATTTATTTTTTATTTTACTTTTTTGAGTTTT--ATTT
25026985 ATTTA-TTTTTATTTTACTTTTTTGAGTTTTATTT
1 ATTTATTTTTTATTTTACTTTTTTGAGTTTTATTT
*
25027019 ATTTA-TTATTATTTT
1 ATTTATTTTTTATTTT
25027034 TTATTATTAG
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
33 6 0.14
34 27 0.61
35 7 0.16
36 4 0.09
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.75
Consensus pattern (35 bp):
ATTTATTTTTTATTTTACTTTTTTGAGTTTTATTT
Found at i:25027016 original size:20 final size:21
Alignment explanation
Indices: 25026971--25027018 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
25026961 TATTTATTTT
*
25026971 TTTATTTTACATTTATTTATT
1 TTTATTTTACATTTATTTAGT
25026992 TTTATTTTAC-TTT-TTTGAGT
1 TTTATTTTACATTTATTT-AGT
25027012 TTTATTT
1 TTTATTT
25027019 ATTTATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 3 0.12
20 12 0.48
21 10 0.40
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.73
Consensus pattern (21 bp):
TTTATTTTACATTTATTTAGT
Found at i:25027042 original size:13 final size:12
Alignment explanation
Indices: 25026952--25027038 Score: 74
Period size: 13 Copynumber: 7.1 Consensus size: 12
25026942 GTATATATAA
25026952 TTTATTTTTTA-
1 TTTATTTTTTAT
25026963 TTTATTTTTTTAT
1 TTTA-TTTTTTAT
**
25026976 TTTA-CATTTA-
1 TTTATTTTTTAT
25026986 TTTA-TTTTTAT
1 TTTATTTTTTAT
25026997 TTTACTTTTTTGAGT
1 TTTA-TTTTTT-A-T
25027012 TTTATTTATTTAT
1 TTTATTT-TTTAT
25027025 TATTATTTTTTAT
1 T-TTATTTTTTAT
25027038 T
1 T
25027039 ATTAGGTGAT
Statistics
Matches: 63, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
10 8 0.13
11 12 0.19
12 7 0.11
13 17 0.27
14 11 0.17
15 8 0.13
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (12 bp):
TTTATTTTTTAT
Found at i:25029266 original size:17 final size:17
Alignment explanation
Indices: 25029244--25029279 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
25029234 TCCTTTTCAT
*
25029244 TGGTAGCCTATGAGAGG
1 TGGTAGCCTATGACAGG
25029261 TGGTAGCCTATGACAGG
1 TGGTAGCCTATGACAGG
25029278 TG
1 TG
25029280 AGGATTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.14, G:0.39, T:0.25
Consensus pattern (17 bp):
TGGTAGCCTATGACAGG
Found at i:25038941 original size:22 final size:22
Alignment explanation
Indices: 25038892--25038941 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
25038882 AAATATTTTG
25038892 CTTAAAAAATAAAAAAATAAAA
1 CTTAAAAAATAAAAAAATAAAA
**
25038914 AATAAAAAAT-AAAAAATGAAAA
1 CTTAAAAAATAAAAAAAT-AAAA
25038936 CTTAAA
1 CTTAAA
25038942 TTAAAAATCC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (22 bp):
CTTAAAAAATAAAAAAATAAAA
Found at i:25038949 original size:7 final size:7
Alignment explanation
Indices: 25038894--25038935 Score: 66
Period size: 7 Copynumber: 5.7 Consensus size: 7
25038884 ATATTTTGCT
25038894 TAAAAAA
1 TAAAAAA
25038901 TAAAAAAA
1 T-AAAAAA
25038909 TAAAAAA
1 TAAAAAA
25038916 TAAAAAA
1 TAAAAAA
25038923 TAAAAAA
1 TAAAAAA
25038930 TGAAAA
1 T-AAAA
25038936 CTTAAATTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
7 22 0.67
8 11 0.33
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.14
Consensus pattern (7 bp):
TAAAAAA
Found at i:25039724 original size:33 final size:33
Alignment explanation
Indices: 25039663--25039730 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 33
25039653 AATTGACATT
* *** *
25039663 TGTATAGCATGTATTGCATTTTTTAATGTTTAG
1 TGTATAGCATGCATTGCATTTAGGAATGTCTAG
25039696 TGTATAGCATGCATTGCATTTAGGAATGTCTAG
1 TGTATAGCATGCATTGCATTTAGGAATGTCTAG
25039729 TG
1 TG
25039731 CATGAAGTAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.09, G:0.22, T:0.44
Consensus pattern (33 bp):
TGTATAGCATGCATTGCATTTAGGAATGTCTAG
Found at i:25040012 original size:43 final size:43
Alignment explanation
Indices: 25039958--25040453 Score: 557
Period size: 43 Copynumber: 11.5 Consensus size: 43
25039948 GATTTTTAAG
* *
25039958 GAGCCTTATTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAAAT
1 GAGCTTTATTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAT
* * * * *
25040001 GAGCCTTATTTATTTTTTAAATTTGTTAAGCCTCTGATTAGAT
1 GAGCTTTATTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAT
*
25040044 GAGCTTTATTTATTTTTCAAAAGTTGTTGAGCCTCTGTTTAGAG
1 GAGCTTTATTTATTTTTC-AAAGTTGTTGAGCCTCTGTTTAGAT
* * * *
25040088 GAGCTTTATTTATTTTTTAAAGTTGTTGAACCTTTGATTAGAT
1 GAGCTTTATTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAT
* * *
25040131 GAGCTTTATTTATTTTTCAAAAGTTGTGGAGCCTCTATTTAGAG
1 GAGCTTTATTTATTTTTC-AAAGTTGTTGAGCCTCTGTTTAGAT
* * * *
25040175 GAACTTTATTTATTTTTTAAAGTTGTTGAGCCTCTATTTA-AA
1 GAGCTTTATTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAT
* * * *
25040217 GAAGTTTTATTTATTTTTCAAAGTTATTGAGCCTCTGTTTAAAA
1 G-AGCTTTATTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAT
* * *
25040261 GAGTTTTATTTATTTTTCAAAGTTATTGAGCCTTTGTTTAGAT
1 GAGCTTTATTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAT
* * * * * *
25040304 GAGCCTTATTTATTTTCCAAAGTTGTTGAGCTTTTGTTTAAAA
1 GAGCTTTATTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAT
* * * *
25040347 AAGCCTTT-TTTATTTTTTAAAGTTGTTGAGCCTCTATTTAGAG
1 GAG-CTTTATTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAT
* * * **
25040390 GAGCTTTATTTATTTTTCAAAGTTGCTAAGCATCTAATTAGAAT
1 GAGCTTTATTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAG-AT
25040434 -AGCTTTATTTATTTTTCAAA
1 GAGCTTTATTTATTTTTCAAA
25040454 AATTATTGAG
Statistics
Matches: 388, Mismatches: 58, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
42 6 0.02
43 302 0.78
44 80 0.21
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.48
Consensus pattern (43 bp):
GAGCTTTATTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAGAT
Found at i:25040528 original size:18 final size:19
Alignment explanation
Indices: 25040505--25040540 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
25040495 AGTATGCTTT
25040505 AAAAAAACAAAAA-AAAAG
1 AAAAAAACAAAAACAAAAG
*
25040523 AAAAAAATAAAAACAAAA
1 AAAAAAACAAAAACAAAA
25040541 TGAACGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.89, C:0.06, G:0.03, T:0.03
Consensus pattern (19 bp):
AAAAAAACAAAAACAAAAG
Found at i:25040726 original size:4 final size:4
Alignment explanation
Indices: 25040712--25040814 Score: 81
Period size: 4 Copynumber: 25.5 Consensus size: 4
25040702 CAAGTATATA
* *
25040712 TTAT TTA- TTAT TTAT TTAT TT-T TCAT TT-T TCAT TTAT TTATT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA-T TTAT
* *
25040758 TTGT TTAT TTA- TT-T TTATT TTAC TTATT TTACTT TTAT TTAT TTATT
1 TTAT TTAT TTAT TTAT TTA-T TTAT TTA-T TTA--T TTAT TTAT TTA-T
25040805 TTAT TTAT TT
1 TTAT TTAT TT
25040815 TGATTATTTT
Statistics
Matches: 81, Mismatches: 8, Indels: 20
0.74 0.07 0.18
Matches are distributed among these distances:
3 11 0.14
4 50 0.62
5 15 0.19
6 5 0.06
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (4 bp):
TTAT
Found at i:25040746 original size:22 final size:21
Alignment explanation
Indices: 25040731--25040771 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
25040721 ATTTATTTAT
25040731 TTTTCATTT-TTCATTTATTTA
1 TTTT-ATTTGTTCATTTATTTA
*
25040752 TTTTATTTGTTTATTTATTT
1 TTTTATTTGTTCATTTATTT
25040772 TTATTTTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTATTTGTTCATTTATTTA
Found at i:25040758 original size:9 final size:9
Alignment explanation
Indices: 25040712--25040824 Score: 76
Period size: 9 Copynumber: 12.2 Consensus size: 9
25040702 CAAGTATATA
25040712 TTATTTATTAT
1 TTATTTA-T-T
25040723 TTATTTATTT
1 TTATTTA-TT
*
25040733 TTCATTTTTCAT
1 TT-ATTTAT--T
25040745 TTATTTATT
1 TTATTTATT
*
25040754 TTATTT-GT
1 TTATTTATT
25040762 TTATTTA--
1 TTATTTATT
25040769 TT-TTTATT
1 TTATTTATT
*
25040777 TTACTTATT
1 TTATTTATT
25040786 TTACTTT-TAT
1 TTA-TTTAT-T
25040796 TTATTTATT
1 TTATTTATT
25040805 TTATTTATT
1 TTATTTATT
25040814 TTGA-TTATT
1 TT-ATTTATT
25040823 TT
1 TT
25040825 TTTGTTGTTA
Statistics
Matches: 86, Mismatches: 5, Indels: 24
0.75 0.04 0.21
Matches are distributed among these distances:
6 4 0.05
7 2 0.02
8 9 0.10
9 38 0.44
10 12 0.14
11 18 0.21
12 3 0.03
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (9 bp):
TTATTTATT
Found at i:25040773 original size:39 final size:38
Alignment explanation
Indices: 25040715--25040824 Score: 122
Period size: 38 Copynumber: 2.9 Consensus size: 38
25040705 GTATATATTA
*
25040715 TTTA-TTATTTATTTATTTTTCATTTTTCATT-TATTTA-T
1 TTTATTTATTTATTTATTTTT-ATTTTAC-TTAT-TTTACT
*
25040753 TTTATTTGTTTATTTATTTTTATTTTACTTATTTTACT
1 TTTATTTATTTATTTATTTTTATTTTACTTATTTTACT
*
25040791 TTTATTTATTTATTT-TATTTATTTTGA-TTATTTT
1 TTTATTTATTTATTTATTTTTATTTT-ACTTATTTT
25040825 TTTGTTGTTA
Statistics
Matches: 64, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
37 22 0.34
38 27 0.42
39 15 0.23
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.75
Consensus pattern (38 bp):
TTTATTTATTTATTTATTTTTATTTTACTTATTTTACT
Found at i:25040787 original size:47 final size:50
Alignment explanation
Indices: 25040712--25040823 Score: 124
Period size: 47 Copynumber: 2.3 Consensus size: 50
25040702 CAAGTATATA
** * *
25040712 TTATTTATTATTTATTTATTTTTCATTTTTCATTTATTTATTT-TATTTGT
1 TTATTTATTATTTATTTATACTTCATTTTACATTTATTTATTTAT-TTTAT
*
25040762 TTATTTATT-TTTATTT-TACTT-ATTTTACTTTTATTTATTTATTTTAT
1 TTATTTATTATTTATTTATACTTCATTTTACATTTATTTATTTATTTTAT
25040809 TTATTTTGATTATTT
1 TTA-TTT-ATTATTT
25040824 TTTTGTTGTT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
47 24 0.45
48 7 0.13
49 10 0.19
50 12 0.23
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.74
Consensus pattern (50 bp):
TTATTTATTATTTATTTATACTTCATTTTACATTTATTTATTTATTTTAT
Found at i:25040793 original size:6 final size:5
Alignment explanation
Indices: 25040744--25040815 Score: 55
Period size: 5 Copynumber: 14.6 Consensus size: 5
25040734 TCATTTTTCA
* *
25040744 TTTA- TTTAT TTTAT TTGTTT ATTTATT TTTAT TTTA- CTTAT TTTACT
1 TTTAT TTTAT TTTAT TT-TAT -TTTA-T TTTAT TTTAT TTTAT TTTA-T
25040791 TTTA- TTTA- TTTAT TTTA- TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
25040816 GATTATTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
4 19 0.34
5 22 0.39
6 12 0.21
7 3 0.05
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:25041146 original size:13 final size:13
Alignment explanation
Indices: 25041128--25041167 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 13
25041118 TTCAAAAAAA
25041128 TTTTTTT-GACAAT
1 TTTTTTTGGA-AAT
25041141 TTTTTTTGGAAA-
1 TTTTTTTGGAAAT
25041153 -TTTTTTGGAAAT
1 TTTTTTTGGAAAT
25041165 TTT
1 TTT
25041168 CAGATTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
11 11 0.46
13 11 0.46
14 2 0.08
ACGTcount: A:0.23, C:0.03, G:0.12, T:0.62
Consensus pattern (13 bp):
TTTTTTTGGAAAT
Found at i:25041156 original size:11 final size:11
Alignment explanation
Indices: 25041142--25041167 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
25041132 TTTGACAATT
25041142 TTTTTTGGAAA
1 TTTTTTGGAAA
25041153 TTTTTTGGAAA
1 TTTTTTGGAAA
25041164 TTTT
1 TTTT
25041168 CAGATTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (11 bp):
TTTTTTGGAAA
Found at i:25041602 original size:4 final size:4
Alignment explanation
Indices: 25041593--25041624 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
25041583 GGTATTTTCT
25041593 TTTA TTTA TTTA TTTA TTTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTT
25041625 TATAGGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:25041613 original size:13 final size:13
Alignment explanation
Indices: 25041593--25041627 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
25041583 GGTATTTTCT
25041593 TTTA-TTTATTTA
1 TTTATTTTATTTA
25041605 TTTATTTTATTTA
1 TTTATTTTATTTA
25041618 TTTATTTTAT
1 TTTATTTTAT
25041628 AGGTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:25041614 original size:17 final size:17
Alignment explanation
Indices: 25041592--25041624 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
25041582 TGGTATTTTC
25041592 TTTTATTTATTTATTTA
1 TTTTATTTATTTATTTA
25041609 TTTTATTTATTTATTT
1 TTTTATTTATTTATTT
25041625 TATAGGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTATTTATTTATTTA
Found at i:25041741 original size:24 final size:24
Alignment explanation
Indices: 25041717--25041763 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
25041707 TTAATTATTC
25041717 AATGATGAAATTTTTAGAAATTTCA
1 AATGAT-AAATTTTTAGAAATTTCA
* *
25041742 AATGGTAAATTTTTATAAATTT
1 AATGATAAATTTTTAGAAATTT
25041764 TTTATGTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.45
Consensus pattern (24 bp):
AATGATAAATTTTTAGAAATTTCA
Found at i:25051833 original size:51 final size:51
Alignment explanation
Indices: 25051765--25051861 Score: 176
Period size: 51 Copynumber: 1.9 Consensus size: 51
25051755 AGTTTATCAA
25051765 GGATTAATTGAGAGCATTAACATGTGATCTATAATTGAATTTCTTTATGAG
1 GGATTAATTGAGAGCATTAACATGTGATCTATAATTGAATTTCTTTATGAG
* *
25051816 GGATTAATTGAGAGCATTAACATGTGATTTGTAATTGAATTTCTTT
1 GGATTAATTGAGAGCATTAACATGTGATCTATAATTGAATTTCTTT
25051862 CCTTAGTATT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (51 bp):
GGATTAATTGAGAGCATTAACATGTGATCTATAATTGAATTTCTTTATGAG
Found at i:25060921 original size:51 final size:51
Alignment explanation
Indices: 25060853--25060949 Score: 176
Period size: 51 Copynumber: 1.9 Consensus size: 51
25060843 AGTTTATCAA
25060853 GGATTAATTGAGAGCATTAACATGTGATCTATAATTGAATTTCTTTATGAG
1 GGATTAATTGAGAGCATTAACATGTGATCTATAATTGAATTTCTTTATGAG
* *
25060904 GGATTAATTGAGAGCATTAACATGTGATTTGTAATTGAATTTCTTT
1 GGATTAATTGAGAGCATTAACATGTGATCTATAATTGAATTTCTTT
25060950 CCTTAGTATT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (51 bp):
GGATTAATTGAGAGCATTAACATGTGATCTATAATTGAATTTCTTTATGAG
Found at i:25063887 original size:16 final size:16
Alignment explanation
Indices: 25063868--25063899 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25063858 TATGATAACA
*
25063868 TATCTTTAACAATTGG
1 TATCCTTAACAATTGG
25063884 TATCCTTAACAATTGG
1 TATCCTTAACAATTGG
25063900 CTTGAGCTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (16 bp):
TATCCTTAACAATTGG
Found at i:25064320 original size:22 final size:21
Alignment explanation
Indices: 25064279--25064320 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
25064269 TTTATAGCAA
*
25064279 TTGGTATAAGAGCTTTAACAT
1 TTGGTATAAGAGCTTAAACAT
*
25064300 TTGGTATAAAGAGGTTAAACA
1 TTGGTAT-AAGAGCTTAAACA
25064321 AAAAAAAGGG
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:0.38, C:0.07, G:0.21, T:0.33
Consensus pattern (21 bp):
TTGGTATAAGAGCTTAAACAT
Found at i:25065444 original size:20 final size:20
Alignment explanation
Indices: 25065419--25065465 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
25065409 TTATTGTATA
25065419 GATTGATTGGTTCAAGATAG
1 GATTGATTGGTTCAAGATAG
*
25065439 GATTGATTGGTTTAAGATAG
1 GATTGATTGGTTCAAGATAG
25065459 GATTGAT
1 GATTGAT
25065466 CCCCTCATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.02, G:0.30, T:0.38
Consensus pattern (20 bp):
GATTGATTGGTTCAAGATAG
Found at i:25067264 original size:22 final size:21
Alignment explanation
Indices: 25067239--25067288 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
25067229 GAGGTTTGGG
*
25067239 ATTTTGATTTTAGGGTTTAGAA
1 ATTTTGAGTTTA-GGTTTAGAA
* *
25067261 ATTTTGGGTTTAGGTTTCGAA
1 ATTTTGAGTTTAGGTTTAGAA
25067282 AGTTTTG
1 A-TTTTG
25067289 GGCTTTGGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.22, C:0.02, G:0.26, T:0.50
Consensus pattern (21 bp):
ATTTTGAGTTTAGGTTTAGAA
Found at i:25067276 original size:21 final size:23
Alignment explanation
Indices: 25067247--25067290 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
25067237 GGATTTTGAT
25067247 TTTAGGGTTTAGAAA-TTTTGGG
1 TTTAGGGTTTAGAAAGTTTTGGG
*
25067269 TTTA-GGTTTCGAAAGTTTTGGG
1 TTTAGGGTTTAGAAAGTTTTGGG
25067291 CTTTGGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.20, C:0.02, G:0.32, T:0.45
Consensus pattern (23 bp):
TTTAGGGTTTAGAAAGTTTTGGG
Found at i:25067324 original size:14 final size:14
Alignment explanation
Indices: 25067307--25067404 Score: 56
Period size: 14 Copynumber: 6.6 Consensus size: 14
25067297 ATTTTACGAT
25067307 TTTGAATTTAAGGG
1 TTTGAATTTAAGGG
* *
25067321 TTTGGATTTTAGGG
1 TTTGAATTTAAGGG
* *
25067335 TTTTGGATTTTAGAGGT
1 -TTT-GAATTTA-AGGG
25067352 TTTG-ATTTAAGGG
1 TTTGAATTTAAGGG
*
25067365 TTT-AGATTTTAGGG
1 TTTGA-ATTTAAGGG
* *
25067379 TTTTGGATTTTTAAGGT
1 -TTT-GA-ATTTAAGGG
25067396 TTTGAATTT
1 TTTGAATTT
25067405 TAAAAACACA
Statistics
Matches: 62, Mismatches: 14, Indels: 16
0.67 0.15 0.17
Matches are distributed among these distances:
13 6 0.10
14 27 0.44
15 9 0.15
16 10 0.16
17 10 0.16
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (14 bp):
TTTGAATTTAAGGG
Found at i:25067331 original size:15 final size:15
Alignment explanation
Indices: 25067313--25067407 Score: 90
Period size: 15 Copynumber: 6.3 Consensus size: 15
25067303 CGATTTTGAA
25067313 TTTAAGGGTTTGGAT
1 TTTAAGGGTTTGGAT
25067328 TTT-AGGGTTTTGGAT
1 TTTAAGGG-TTTGGAT
*
25067343 TTT-AGAGGTTTTGA-
1 TTTAAG-GGTTTGGAT
*
25067357 TTTAAGGGTTTAGAT
1 TTTAAGGGTTTGGAT
25067372 TTT-AGGGTTTTGGATT
1 TTTAAGGG-TTTGGA-T
* *
25067388 TTTAAGGTTTTGAAT
1 TTTAAGGGTTTGGAT
25067403 TTTAA
1 TTTAA
25067408 AAACACAAAC
Statistics
Matches: 68, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
14 18 0.26
15 36 0.53
16 11 0.16
17 3 0.04
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.52
Consensus pattern (15 bp):
TTTAAGGGTTTGGAT
Found at i:25067340 original size:44 final size:43
Alignment explanation
Indices: 25067284--25067404 Score: 156
Period size: 44 Copynumber: 2.7 Consensus size: 43
25067274 GTTTCGAAAG
* *
25067284 TTTT-GGGCTTTGGATTTTACGATTTTGAATTTAAGGGTTTGGA
1 TTTTAGGGTTTTGGATTTTA-GATTTTGAATTTAAGGGTTTAGA
25067327 TTTTAGGGTTTTGGATTTTAGAGGTTTTG-ATTTAAGGGTTTAGA
1 TTTTAGGGTTTTGGATTTTAGA--TTTTGAATTTAAGGGTTTAGA
*
25067371 TTTTAGGGTTTTGGATTTTTAAGGTTTTGAATTT
1 TTTTAGGGTTTTGGA-TTTT-AGATTTTGAATTT
25067405 TAAAAACACA
Statistics
Matches: 69, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
43 6 0.09
44 48 0.70
45 13 0.19
46 2 0.03
ACGTcount: A:0.19, C:0.02, G:0.27, T:0.52
Consensus pattern (43 bp):
TTTTAGGGTTTTGGATTTTAGATTTTGAATTTAAGGGTTTAGA
Found at i:25068895 original size:25 final size:26
Alignment explanation
Indices: 25068861--25068915 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 26
25068851 ACCATCTCGA
*
25068861 TTTTCTTTCTTTTTTT-TTTTTTTGG
1 TTTTCTTTCTTTTTTTGTTGTTTTGG
* *
25068886 TTTTGTTTCTTTTTTTGTTGTTTTGT
1 TTTTCTTTCTTTTTTTGTTGTTTTGG
25068912 TTTT
1 TTTT
25068916 TTAATTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 15 0.58
26 11 0.42
ACGTcount: A:0.00, C:0.05, G:0.11, T:0.84
Consensus pattern (26 bp):
TTTTCTTTCTTTTTTTGTTGTTTTGG
Found at i:25068900 original size:20 final size:19
Alignment explanation
Indices: 25068871--25068917 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
25068861 TTTTCTTTCT
*
25068871 TTTTTTTTTTTTTGGTTTTG
1 TTTTTTTTTTGTT-GTTTTG
25068891 TTTCTTTTTTTGTTGTTTTG
1 TTT-TTTTTTTGTTGTTTTG
25068911 TTTTTTT
1 TTTTTTT
25068918 AATTTTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 4 0.16
20 12 0.48
21 9 0.36
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (19 bp):
TTTTTTTTTTGTTGTTTTG
Found at i:25068923 original size:25 final size:25
Alignment explanation
Indices: 25068861--25068926 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 25
25068851 ACCATCTCGA
* * *
25068861 TTTTCTTTCTTTTTTTTTTTTTTGG
1 TTTTGTTTATTTTTTTTTGTTTTGG
*
25068886 TTTTGTTTCTTTTTTTGTTGTTTT-G
1 TTTTGTTTATTTTTTT-TTGTTTTGG
*
25068911 TTTT-TTTAATTTTTTT
1 TTTTGTTTATTTTTTTT
25068927 AATTATTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 1 0.03
24 9 0.25
25 20 0.56
26 6 0.17
ACGTcount: A:0.03, C:0.05, G:0.09, T:0.83
Consensus pattern (25 bp):
TTTTGTTTATTTTTTTTTGTTTTGG
Found at i:25075005 original size:11 final size:11
Alignment explanation
Indices: 25074989--25075014 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
25074979 TGGATTGTTA
25074989 GATTCTTAGAT
1 GATTCTTAGAT
25075000 GATTCTTAGAT
1 GATTCTTAGAT
25075011 GATT
1 GATT
25075015 ACTTCCTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.46
Consensus pattern (11 bp):
GATTCTTAGAT
Found at i:25075214 original size:22 final size:21
Alignment explanation
Indices: 25075148--25075226 Score: 122
Period size: 21 Copynumber: 3.7 Consensus size: 21
25075138 TTATAACTAA
25075148 GGTACAATGACTCATTATTAT
1 GGTACAATGACTCATTATTAT
*
25075169 GGTACAATGACTTATTATTAT
1 GGTACAATGACTCATTATTAT
*
25075190 GGTACAATGACTCATCACTTAT
1 GGTACAATGACTCATTA-TTAT
*
25075212 GGTACGATGACTCAT
1 GGTACAATGACTCAT
25075227 ACTAAAGTAC
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
21 35 0.66
22 18 0.34
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (21 bp):
GGTACAATGACTCATTATTAT
Found at i:25075237 original size:42 final size:42
Alignment explanation
Indices: 25075143--25075237 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 42
25075133 GTGAGTTATA
* *
25075143 ACTAAGGTACAATGACTCATTATTATGGTACAATGACTTATT
1 ACTAAGGTACAATGACTCATCATTATGGTACAATGACTCATT
* * *
25075185 ATTATGGTACAATGACTCATCACTTATGGTACGATGACTCA-T
1 ACTAAGGTACAATGACTCATCA-TTATGGTACAATGACTCATT
*
25075227 ACTAAAGTACA
1 ACTAAGGTACA
25075238 GGGACTTATT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 28 0.64
43 16 0.36
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.33
Consensus pattern (42 bp):
ACTAAGGTACAATGACTCATCATTATGGTACAATGACTCATT
Found at i:25076555 original size:12 final size:13
Alignment explanation
Indices: 25076533--25076561 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
25076523 ACAACCTGCA
25076533 AGGTGTTTGAAGG
1 AGGTGTTTGAAGG
25076546 AGGT-TTTGAAGG
1 AGGTGTTTGAAGG
25076558 AGGT
1 AGGT
25076562 CTTGTGAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.24, C:0.00, G:0.45, T:0.31
Consensus pattern (13 bp):
AGGTGTTTGAAGG
Found at i:25080669 original size:21 final size:21
Alignment explanation
Indices: 25080645--25080687 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
25080635 CTTACATTCT
*
25080645 TTTTCTTTTATCTTGTTTTTA
1 TTTTATTTTATCTTGTTTTTA
*
25080666 TTTTATTTTATTTTGTTTTTA
1 TTTTATTTTATCTTGTTTTTA
25080687 T
1 T
25080688 ATATTATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.12, C:0.05, G:0.05, T:0.79
Consensus pattern (21 bp):
TTTTATTTTATCTTGTTTTTA
Found at i:25082013 original size:15 final size:15
Alignment explanation
Indices: 25081995--25082023 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25081985 TTATCAATCC
25081995 TTTTTTAAAATTTTA
1 TTTTTTAAAATTTTA
25082010 TTTTTTAAAATTTT
1 TTTTTTAAAATTTT
25082024 GGTTTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTTAAAATTTTA
Found at i:25085754 original size:15 final size:15
Alignment explanation
Indices: 25085731--25085767 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
25085721 CTAAAAGATA
25085731 GTAACAAGATGGGCC
1 GTAACAAGATGGGCC
*
25085746 GTAATAAGATGGGCC
1 GTAACAAGATGGGCC
25085761 GTAACAA
1 GTAACAA
25085768 TAAATCTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.38, C:0.16, G:0.30, T:0.16
Consensus pattern (15 bp):
GTAACAAGATGGGCC
Found at i:25089625 original size:13 final size:13
Alignment explanation
Indices: 25089607--25089644 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
25089597 CTTCTCAATG
25089607 TCTTTATATATGT
1 TCTTTATATATGT
*
25089620 TCTTTACATATGT
1 TCTTTATATATGT
*
25089633 TTTTTATATATG
1 TCTTTATATATG
25089645 CACTTTTATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.61
Consensus pattern (13 bp):
TCTTTATATATGT
Found at i:25091154 original size:162 final size:160
Alignment explanation
Indices: 25090812--25091744 Score: 886
Period size: 161 Copynumber: 5.8 Consensus size: 160
25090802 TTTTTGTGTT
* * ** * * * * * *
25090812 GTTACAAGGTAAAAATGTAAATTTACAGTTATTTTTCTATTTTAATAGTTTTGATAGTTTCAATA
1 GTTAAAAGGCAAAAATACAAATTTGCTGTTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATA
* * * * * * * *
25090877 CATGATATTAAACTTATTCAAATTATTAAACTTAGTTTCCATAGTTGATATATATGAAAAAGTTA
66 CATGATATTAAACTTGTTTAAATGATTGAACTTGGTTTTCACAGTTGATATATGTGAAAAAGTTA
*** * *
25090942 TTGTTTGTATCTATGTAGGACTTTTTATGCC
131 TTGTTTACCTCTGTTTAGGACTTTTT-TGCC
* * * * * * *
25090973 GTTAATAGGTAATAATACAATTTTGTTGTTATTGTTCTATTTTAACAGTTTAGATAGCTCCAATA
1 GTTAAAAGGCAAAAATACAAATTTGCTGTTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATA
* *
25091038 CATTATATTAAACTTGTTTGAATGATTGAACTTGGTTTTTCACAGTTGATATATGTGAAAAAGTT
66 CATGATATTAAACTTGTTTAAATGATTGAACTTGG-TTTTCACAGTTGATATATGTGAAAAAGTT
* * * * *
25091103 ATCGTTTACGTCTATTTAGAACTATTTTTGTC
130 ATTGTTTACCTCTGTTTAGGACT-TTTTTGCC
** * * * * *
25091135 GTTAAAACACAAAAATACAAATTTCCTGTTATTATTCTATTTTGATAGTTTGGAT-GACTTTAAT
1 GTTAAAAGGCAAAAATACAAATTTGCTGTTATTGTTCTATTTTAACAGTTTGGATAG-CTTCAAT
* * * * *
25091199 ATATGATATTAAACTTTTTTGAATGATTGAACTTGGTTTTCGCAGTTGACATATGTGAAAAAGTT
65 ACATGATATTAAACTTGTTTAAATGATTGAACTTGGTTTTCACAGTTGATATATGTGAAAAAGTT
* * *
25091264 GTTGTTTACCTTTGTTTAGGA-TTTTTCAGGCC
130 ATTGTTTACCTCTGTTTAGGACTTTTT--TGCC
* * * *
25091296 GTTAAAAGGCAAAAATACAAATTTGTTGTTATTGTTTTGTTTTAGCAGTTTGGATAGCTTCAATA
1 GTTAAAAGGCAAAAATACAAATTTGCTGTTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATA
* * * * * *
25091361 CATGATATTAAACTTTTTTGAATAATTGAACTTGGTTTTAACAATTGATATATGTGACAAAGTTG
66 CATGATATTAAACTTGTTTAAATGATTGAACTTGGTTTTCACAGTTGATATATGTGAAAAAGTT-
* * * **
25091426 TTTGTTTACCTTTGTTTTGGACTTTTCAGGGCC
130 ATTGTTTACCTCTGTTTAGGACTTTT--TTGCC
* * * * * * *
25091459 ATTAAAAGGCAAAAATACAAATTTGCTATTATTGTTTTGTTTTAGCAATTTGGATAGTTTCAATA
1 GTTAAAAGGCAAAAATACAAATTTGCTGTTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATA
* * * *
25091524 CATGATACTAACCTT-TTTCAAATGATTGAACTTGGTTTTCACAATTGATATATGTGACAAAGTT
66 CATGATATTAAACTTGTTT-AAATGATTGAACTTGGTTTTCACAGTTGATATATGTGAAAAAGTT
*
25091588 ATTGTTTACCTCTGTTTAGGACTTTTTGTGCT
130 ATTGTTTACCTCTGTTTAGGACTTTTT-TGCC
* * *** * *
25091620 GTTAAAAGGCAAAAATACAAAGTTGCTATTATTCACCATGTTTTAATAGTTTGGATAGCTTCAAT
1 GTTAAAAGGCAAAAATACAAATTTGCTGTTATTGTTC-TATTTTAACAGTTTGGATAGCTTCAAT
* ** * *
25091685 ATATGATATTAAACTTGTCCAAATGATTGAATTTGG-TTTC-CATGATTGATATGTGTGAAA
65 ACATGATATTAAACTTGTTTAAATGATTGAACTTGGTTTTCACA-G-TTGATATATGTGAAA
25091745 GGCCAAAATG
Statistics
Matches: 642, Mismatches: 114, Indels: 31
0.82 0.14 0.04
Matches are distributed among these distances:
159 4 0.01
160 3 0.00
161 270 0.42
162 237 0.37
163 128 0.20
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.43
Consensus pattern (160 bp):
GTTAAAAGGCAAAAATACAAATTTGCTGTTATTGTTCTATTTTAACAGTTTGGATAGCTTCAATA
CATGATATTAAACTTGTTTAAATGATTGAACTTGGTTTTCACAGTTGATATATGTGAAAAAGTTA
TTGTTTACCTCTGTTTAGGACTTTTTTGCC
Found at i:25091315 original size:323 final size:324
Alignment explanation
Indices: 25090830--25091723 Score: 971
Period size: 323 Copynumber: 2.8 Consensus size: 324
25090820 GTAAAAATGT
* * * * *
25090830 AAATTTACAGTTATTTTTCTATTTTAATAGTTTTGATAGTTTCAATACATGATATTAAACTTATT
1 AAATTTACTGTTATTATTCTATTTTGATAGTTTGGATAGTTTCAATACATGATATTAAACTTTTT
* * * * * * *
25090895 CAAATTATTAAACTTAGTTTCCATAGTTGATATATATGAAAAAGTTATTGTTTGTATCTATG--T
66 CAAATGATTGAACTTGGTTTTCACAGTTGATATATGTGAAAAAGTTATTG-TT-TACCTATGTTT
* * * * * *
25090958 AGGACTTTTTATGCCGTTAATAGGTAATAATACAATTTTGTTGTTATTGTTCTATTTTAACAGTT
129 AGGACTTTTTAGGCCGTTAAAAGGCAAAAATACAAATTTGTTGTTATTGTTCTGTTTTAACAGTT
* * * * *
25091023 TAGATAGCTCCAATACATTATATTAAACTTGTTTGAATGATTGAACTTGGTTTTTCACAGTTGAT
194 TGGATAGCTTCAATACATGATATTAAACTTGTTTGAATGATTGAACTTGGTTTTTAACAATTGAT
* ** * *
25091088 ATATGTGAAAAAGTT-ATCGTTTACGTCTATTTAGAACTATTT-TTGTCGTTAAAACACAAAAAT
259 ATATGTGAAAAAGTTGATCGTTTACCTCTATTTAGAACT-TTTAGGGCCATTAAAACACAAAAAT
25091151 AC
323 AC
* * *
25091153 AAATTTCCTGTTATTATTCTATTTTGATAGTTTGGATGACTTT-AATATATGATATTAAACTTTT
1 AAATTTACTGTTATTATTCTATTTTGATAGTTTGGAT-AGTTTCAATACATGATATTAAACTTTT
** * * * *
25091217 TTGAATGATTGAACTTGGTTTTCGCAGTTGACATATGTGAAAAAGTTGTTGTTTACCTTTGTTTA
65 TCAAATGATTGAACTTGGTTTTCACAGTTGATATATGTGAAAAAGTTATTGTTTACCTATGTTTA
* *
25091282 GGA-TTTTTCAGGCCGTTAAAAGGCAAAAATACAAATTTGTTGTTATTGTTTTGTTTTAGCAGTT
130 GGACTTTTT-AGGCCGTTAAAAGGCAAAAATACAAATTTGTTGTTATTGTTCTGTTTTAACAGTT
* *
25091346 TGGATAGCTTCAATACATGATATTAAACTTTTTTGAATAATTGAACTTGG-TTTTAACAATTGAT
194 TGGATAGCTTCAATACATGATATTAAACTTGTTTGAATGATTGAACTTGGTTTTTAACAATTGAT
* * * * * * * **
25091410 ATATGTGACAAAGTTGTTTGTTTACCTTTGTTTTGGACTTTTCAGGGCCATTAAAAGGCAAAAAT
259 ATATGTGAAAAAGTTGATCGTTTACCTCTATTTAGAACTTTT-AGGGCCATTAAAACACAAAAAT
25091475 AC
323 AC
* * * * * * *
25091477 AAATTTGCTATTATTGTTTTGTTTTAGCA-A-TTTGGATAGTTTCAATACATGATACTAACCTTT
1 AAATTTACTGTTATTATTCTATTTT-G-ATAGTTTGGATAGTTTCAATACATGATATTAAACTTT
* * *
25091540 TTCAAATGATTGAACTTGGTTTTCACAATTGATATATGTGACAAAGTTATTGTTTACCTCTGTTT
64 TTCAAATGATTGAACTTGGTTTTCACAGTTGATATATGTGAAAAAGTTATTGTTTACCTATGTTT
* * * * *** *
25091605 AGGACTTTTT-GTGCTGTTAAAAGGCAAAAATACAAAGTTGCTATTATTCACCATGTTTTAATAG
129 AGGACTTTTTAG-GCCGTTAAAAGGCAAAAATACAAATTTGTTGTTATTGTTC-TGTTTTAACAG
* *** *
25091669 TTTGGATAGCTTCAATATATGATATTAAACTTGTCCAAATGATTGAATTTGGTTT
192 TTTGGATAGCTTCAATACATGATATTAAACTTGTTTGAATGATTGAACTTGGTTT
25091724 CCATGATTGA
Statistics
Matches: 473, Mismatches: 84, Indels: 25
0.81 0.14 0.04
Matches are distributed among these distances:
321 6 0.01
322 36 0.08
323 209 0.44
324 158 0.33
325 61 0.13
326 3 0.01
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (324 bp):
AAATTTACTGTTATTATTCTATTTTGATAGTTTGGATAGTTTCAATACATGATATTAAACTTTTT
CAAATGATTGAACTTGGTTTTCACAGTTGATATATGTGAAAAAGTTATTGTTTACCTATGTTTAG
GACTTTTTAGGCCGTTAAAAGGCAAAAATACAAATTTGTTGTTATTGTTCTGTTTTAACAGTTTG
GATAGCTTCAATACATGATATTAAACTTGTTTGAATGATTGAACTTGGTTTTTAACAATTGATAT
ATGTGAAAAAGTTGATCGTTTACCTCTATTTAGAACTTTTAGGGCCATTAAAACACAAAAATAC
Found at i:25095037 original size:16 final size:15
Alignment explanation
Indices: 25094998--25095039 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
25094988 TGAAAATTTT
*
25094998 AAATTTAAAATACTC
1 AAATTTTAAATACTC
*
25095013 AAA-TTTAAATGATTC
1 AAATTTTAAAT-ACTC
25095028 AAATTTTAAATA
1 AAATTTTAAATA
25095040 GTTTGAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 6 0.26
15 10 0.43
16 7 0.30
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.38
Consensus pattern (15 bp):
AAATTTTAAATACTC
Found at i:25102807 original size:100 final size:100
Alignment explanation
Indices: 25102626--25102821 Score: 284
Period size: 100 Copynumber: 2.0 Consensus size: 100
25102616 GCCAAGGCCA
* * *
25102626 ATGAGTCTTACGATAAAAAAGAACCAAGGGTTAAGATCAAGAAAATTGAAGAATTAAAAGAAAAT
1 ATGAGTCTTACGACAAAAAAGAACCAAGGGTCAAGATCAAGAAAATTAAAGAATTAAAAGAAAAT
*
25102691 AACCAAAGTAAAAAAACCAACCAAACTAAAGGTCG
66 AACCAAAGTAAAAAAACCAACCAAACCAAAGGTCG
* * * * *
25102726 ATGAGTCTTATGACAAAGAAGAACCAAGGGTCAGGATCAAGAAAATTAAAGAATTAGAAGAGAAT
1 ATGAGTCTTACGACAAAAAAGAACCAAGGGTCAAGATCAAGAAAATTAAAGAATTAAAAGAAAAT
* * *
25102791 AACTAAGGTAAGAAAACCAACCAAACCAAAG
66 AACCAAAGTAAAAAAACCAACCAAACCAAAG
25102822 AGAAAAAAGA
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.54, C:0.13, G:0.18, T:0.15
Consensus pattern (100 bp):
ATGAGTCTTACGACAAAAAAGAACCAAGGGTCAAGATCAAGAAAATTAAAGAATTAAAAGAAAAT
AACCAAAGTAAAAAAACCAACCAAACCAAAGGTCG
Found at i:25108246 original size:97 final size:98
Alignment explanation
Indices: 25108125--25108321 Score: 333
Period size: 97 Copynumber: 2.0 Consensus size: 98
25108115 CTAATAAAGT
** *
25108125 GTTGCGAAGGTTTAGTAATGTAATTTTATGGTTGTAAAAATAGAAAACAGAAATTGGAT-GGGTT
1 GTTGCGAAGGTTTAGTAATGTAATTTTATGACTGTAAAAATAGAAAACAAAAATTGGATGGGGTT
*
25108189 AGAAAGGAAAAGTTTTGTTTCATATGAACCATA
66 AGAAAGGAAAAGTTCTGTTTCATATGAACCATA
*
25108222 GTTGTGAAGGTTTAGTAATGTAATTTTATGACTGTAAAAATAGAAAACAAAAATTGGATGGGGTT
1 GTTGCGAAGGTTTAGTAATGTAATTTTATGACTGTAAAAATAGAAAACAAAAATTGGATGGGGTT
*
25108287 AGAAAGGAAAAGTTCTGTTTTATATGAACCATA
66 AGAAAGGAAAAGTTCTGTTTCATATGAACCATA
25108320 GT
1 GT
25108322 GTTTGCAGTG
Statistics
Matches: 93, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
97 55 0.59
98 38 0.41
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.33
Consensus pattern (98 bp):
GTTGCGAAGGTTTAGTAATGTAATTTTATGACTGTAAAAATAGAAAACAAAAATTGGATGGGGTT
AGAAAGGAAAAGTTCTGTTTCATATGAACCATA
Found at i:25112395 original size:145 final size:142
Alignment explanation
Indices: 25112089--25112396 Score: 334
Period size: 145 Copynumber: 2.1 Consensus size: 142
25112079 GATAAACTCT
* * *
25112089 ATATTATTTCATGATTTTTGGTTAATTAAAAATCTTAATCGCACCTTAAAAGGTGTGAAATTACC
1 ATATTATTTCATGATTTTTGATTAATTAAAAACCTTAATCGCACCTTAAAAGGTGTAAAATTACC
* * * **
25112154 AAAATATTCTTAGAGGTATTTTTGTAATTTAACCTTTTCAAGGTTGGTTTTTCACAAAATGTTTC
66 AAAATATTCATAGAGGTATTTTTGTAATTTAACCTTTTCAAGGTTAGCTTTTCACAAAAACTTTC
* * *
25112219 ATATCTGGTTTT
131 AGATCTAGTTTC
* * * * *
25112231 ATATTATTCCATTATTTTTTGATTGCATTAAAAACCTTGATCGCACCTTGAAAGGTGTAAAATTA
1 ATATTATTTCATGA-TTTTTGATT-AATTAAAAACCTTAATCGCACCTTAAAAGGTGTAAAATTA
* * * *
25112296 CTAAAATGCCTTTCAT-G-GGTATTTTTGTAATTTGA-CTTTCTCGAGGTTAGCTTTTCACAAAA
64 CCAAAAT---ATTCATAGAGGTATTTTTGTAATTTAACCTTT-TCAAGGTTAGCTTTTCACAAAA
25112358 ACTTTCAGATCATAGTTTC
125 ACTTTCAGATC-TAGTTTC
* *
25112377 ATATTATTTAAGGATTTTTG
1 ATATTATTTCATGATTTTTG
25112397 GTACTTTAAA
Statistics
Matches: 135, Mismatches: 24, Indels: 11
0.79 0.14 0.06
Matches are distributed among these distances:
142 12 0.09
143 8 0.06
144 45 0.33
145 50 0.37
146 16 0.12
147 4 0.03
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.44
Consensus pattern (142 bp):
ATATTATTTCATGATTTTTGATTAATTAAAAACCTTAATCGCACCTTAAAAGGTGTAAAATTACC
AAAATATTCATAGAGGTATTTTTGTAATTTAACCTTTTCAAGGTTAGCTTTTCACAAAAACTTTC
AGATCTAGTTTC
Found at i:25112406 original size:144 final size:142
Alignment explanation
Indices: 25112089--25112407 Score: 331
Period size: 144 Copynumber: 2.2 Consensus size: 142
25112079 GATAAACTCT
* *
25112089 ATATTATTTCATGATTTTTGGTTA-ATTAAAAATCTTAATCGCACCTTAAAAGGTGTGAAATTAC
1 ATATTATTTCATGATTTTTGG-TACATTAAAAACCTTAATCGCACCTTAAAAGGTGTAAAATTAC
* * * **
25112153 CAAAATATTCTTAGAGGTATTTTTGTAATTTAACCTTTTCAAGGTTGGTTTTTCACAAAATGTTT
65 CAAAATATTCATAGAGGTATTTTTGTAATTTAACCTTTTCAAGGTTAGCTTTTCACAAAAACTTT
* * *
25112218 CATATCTGGTTTT
130 CAGATCTAGTTTC
* * * * * *
25112231 ATATTATTCCATTATTTTTTGATTGCATTAAAAACCTTGATCGCACCTTGAAAGGTGTAAAATTA
1 ATATTATTTCATGA-TTTTTG-GTACATTAAAAACCTTAATCGCACCTTAAAAGGTGTAAAATTA
* * * *
25112296 CTAAAATGCCTTTCAT-G-GGTATTTTTGTAATTTGA-CTTTCTCGAGGTTAGCTTTTCACAAAA
64 CCAAAAT---ATTCATAGAGGTATTTTTGTAATTTAACCTTT-TCAAGGTTAGCTTTTCACAAAA
25112358 ACTTTCAGATCATAGTTTC
125 ACTTTCAGATC-TAGTTTC
* * *
25112377 ATATTATTTAAGGATTTTTGGTACTTTAAAA
1 ATATTATTTCATGATTTTTGGTACATTAAAA
25112408 TCATAAAAAT
Statistics
Matches: 142, Mismatches: 27, Indels: 14
0.78 0.15 0.08
Matches are distributed among these distances:
142 12 0.08
143 7 0.05
144 53 0.37
145 50 0.35
146 16 0.11
147 4 0.03
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (142 bp):
ATATTATTTCATGATTTTTGGTACATTAAAAACCTTAATCGCACCTTAAAAGGTGTAAAATTACC
AAAATATTCATAGAGGTATTTTTGTAATTTAACCTTTTCAAGGTTAGCTTTTCACAAAAACTTTC
AGATCTAGTTTC
Found at i:25114039 original size:94 final size:97
Alignment explanation
Indices: 25113765--25114090 Score: 297
Period size: 94 Copynumber: 3.4 Consensus size: 97
25113755 TATGAAACTA
* * * * ** *
25113765 TAAACCACCATTCTAAA-CCTAAACCACTATCCAAACTCTAAACCACCAT-CTAAACCTTAAACT
1 TAAACCACCA-TCCAAACCCTAAACCACCATCCAAACCCCAAACCACCATACTAAACCCAAAACC
* * * * *
25113828 ATCATTCCT-AACCCCACACCACCATCTAAACCC
65 ACCATT-CTAAACCCTAAACCACCATCCAAACCT
* * * * * *
25113861 TATACCATCATTCCTAACCCCAGACCACCATTCCAAACCCCAAACCACCATTCTAAACCCAAAAC
1 TAAACCACCA-TCCAAACCCTAAACCACCA-TCCAAACCCCAAACCACCATACTAAACCCAAAAC
* * *
25113926 CACCATTCTAAACCTTAAACCATCATCC-AAGCT
64 CACCATTCTAAACCCTAAACCACCATCCAAACCT
* * * * *
25113959 CTAAACCACCATCTAAACCCTAAATCACCATCCAAACCCTAAACCATCA-ACT-AACCCTAAACC
1 -TAAACCACCATCCAAACCCTAAACCACCATCCAAACCCCAAACCACCATACTAAACCCAAAACC
*
25114022 ACCA-TCTAAACCCTAAACTACCATCCAAACCT
65 ACCATTCTAAACCCTAAACCACCATCCAAACCT
**
25114054 TAAACCACCATCCAAACCCTAAACCATTATCCAAACC
1 TAAACCACCATCCAAACCCTAAACCACCATCCAAACC
25114091 TTGAATCCTA
Statistics
Matches: 185, Mismatches: 39, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
94 52 0.28
95 18 0.10
96 15 0.08
97 26 0.14
98 37 0.20
99 37 0.20
ACGTcount: A:0.40, C:0.40, G:0.01, T:0.19
Consensus pattern (97 bp):
TAAACCACCATCCAAACCCTAAACCACCATCCAAACCCCAAACCACCATACTAAACCCAAAACCA
CCATTCTAAACCCTAAACCACCATCCAAACCT
Done.