Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 67 of 126
Found at i:13696306 original size:98 final size:98
Alignment explanation
Indices: 13696135--13696363 Score: 334
Period size: 98 Copynumber: 2.3 Consensus size: 98
13696125 ATCGTAGTTG
* * * *
13696135 AGAGATTTTTGAGATTCAATTTCAAAATCAATTGACATTTGATGTTGAGAGATTGTCAAGATTTA
1 AGAGATTTTTGGGATTTAATTCCAAAATCAATTGACATTTGATGTGGAGAGATTGTCAAGATTTA
13696200 ATTCCATAATCAATTCACATTAAAATGATA-GAA
66 ATTCCATAATCAATTCACATTAAAATGATATG-A
* * * *
13696233 ATAGATTTTTGGGATTTAATTCCAGAATCAGTTGACATTTGATGTGGAGAGATTGTCAGGATTTA
1 AGAGATTTTTGGGATTTAATTCCAAAATCAATTGACATTTGATGTGGAGAGATTGTCAAGATTTA
*
13696298 ATTCCATAATCAATTCACATTAAAATGATATGG
66 ATTCCATAATCAATTCACATTAAAATGATATGA
* * *
13696331 AGAGATTTTTGGGATTTGATTTCAAAATTAATT
1 AGAGATTTTTGGGATTTAATTCCAAAATCAATT
13696364 CTCATTAAGA
Statistics
Matches: 115, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
98 114 0.99
99 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (98 bp):
AGAGATTTTTGGGATTTAATTCCAAAATCAATTGACATTTGATGTGGAGAGATTGTCAAGATTTA
ATTCCATAATCAATTCACATTAAAATGATATGA
Found at i:13700210 original size:18 final size:18
Alignment explanation
Indices: 13700175--13700221 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
13700165 AATGGGTTAG
13700175 AAATAAAATC--AA-ATA
1 AAATAAAATCAAAACATA
*
13700190 AAATCAAATCAAAACATA
1 AAATAAAATCAAAACATA
*
13700208 AAATAAAATGAAAA
1 AAATAAAATCAAAA
13700222 AGGAAAAACC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 9 0.35
17 2 0.08
18 15 0.58
ACGTcount: A:0.72, C:0.09, G:0.02, T:0.17
Consensus pattern (18 bp):
AAATAAAATCAAAACATA
Found at i:13700871 original size:51 final size:49
Alignment explanation
Indices: 13700815--13701052 Score: 207
Period size: 51 Copynumber: 4.9 Consensus size: 49
13700805 GATTTTCGTC
* * * * *
13700815 TTAATGAGAATTAATTTTGAAATCAAATCCCAAAAATCTCTCCATATCA
1 TTAATGTGAATTGATTATGAAATTAAATCCCAAAAATCTCTCCACATCA
* * * *
13700864 TTTTAATGTGAATTGATTATGGAATTAAATCCCGACAATCTTTCCACATCA
1 --TTAATGTGAATTGATTATGAAATTAAATCCCAAAAATCTCTCCACATCA
* * * * *
13700915 --AATGTCAACTGATTCTGAAATTAAATCTCAAAAATCTCTCTCTATCAT-T
1 TTAATGTGAATTGATTATGAAATTAAATCCCAAAAATCTCTC-C-A-CATCA
** * *
13700964 TTAATGTGAATTGATTATGAAATTAAATTTCGACAATCTCTCCACATCA
1 TTAATGTGAATTGATTATGAAATTAAATCCCAAAAATCTCTCCACATCA
* * *
13701013 --AATGTCAATTGATTTTGGAATTAAATCCCAAAAATCTCTC
1 TTAATGTGAATTGATTATGAAATTAAATCCCAAAAATCTCTC
13701053 AACTACGATT
Statistics
Matches: 149, Mismatches: 32, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
47 65 0.44
48 4 0.03
49 2 0.01
50 4 0.03
51 74 0.50
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (49 bp):
TTAATGTGAATTGATTATGAAATTAAATCCCAAAAATCTCTCCACATCA
Found at i:13700937 original size:47 final size:47
Alignment explanation
Indices: 13700868--13701041 Score: 168
Period size: 47 Copynumber: 3.6 Consensus size: 47
13700858 ATATCATTTT
* *
13700868 AATGTGAATTGATTATGGAATTAAATCCCGACAATCTTTCCACATCA
1 AATGTCAATTGATTATGAAATTAAATCCCGACAATCTTTCCACATCA
* * * * * * **
13700915 AATGTCAACTGATTCTGAAATTAAATCTCAAAAATCTCTCTCTATCATTTT
1 AATGTCAATTGATTATGAAATTAAATCCCGACAATCT-T-TCCA-CA-TCA
* ** *
13700966 AATGTGAATTGATTATGAAATTAAATTTCGACAATCTCTCCACATCA
1 AATGTCAATTGATTATGAAATTAAATCCCGACAATCTTTCCACATCA
* *
13701013 AATGTCAATTGATTTTGGAATTAAATCCC
1 AATGTCAATTGATTATGAAATTAAATCCC
13701042 AAAAATCTCT
Statistics
Matches: 98, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
47 55 0.56
48 3 0.03
49 6 0.06
50 2 0.02
51 32 0.33
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (47 bp):
AATGTCAATTGATTATGAAATTAAATCCCGACAATCTTTCCACATCA
Found at i:13700961 original size:98 final size:98
Alignment explanation
Indices: 13700832--13701052 Score: 345
Period size: 98 Copynumber: 2.3 Consensus size: 98
13700822 GAATTAATTT
* *
13700832 TGAAATCAAATCCCAAAAATCTCTCCATATCATTTTAATGTGAATTGATTATGGAATTAAATCCC
1 TGAAATTAAATCCCAAAAATCTCTCCATATCATTTTAATGTGAATTGATTATGAAATTAAATCCC
*
13700897 GACAATCTTTCCACATCAAATGTCAACTGATTC
66 GACAATCTCTCCACATCAAATGTCAACTGATTC
* **
13700930 TGAAATTAAATCTCAAAAATCTCTCTC-TATCATTTTAATGTGAATTGATTATGAAATTAAATTT
1 TGAAATTAAATCCCAAAAATCTCTC-CATATCATTTTAATGTGAATTGATTATGAAATTAAATCC
* *
13700994 CGACAATCTCTCCACATCAAATGTCAATTGATTT
65 CGACAATCTCTCCACATCAAATGTCAACTGATTC
*
13701028 TGGAATTAAATCCCAAAAATCTCTC
1 TGAAATTAAATCCCAAAAATCTCTC
13701053 AACTACGATT
Statistics
Matches: 112, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
98 111 0.99
99 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (98 bp):
TGAAATTAAATCCCAAAAATCTCTCCATATCATTTTAATGTGAATTGATTATGAAATTAAATCCC
GACAATCTCTCCACATCAAATGTCAACTGATTC
Found at i:13701298 original size:22 final size:22
Alignment explanation
Indices: 13701242--13701298 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
13701232 GTAATCATTG
* *
13701242 ATAATTTAGTAATAAATTAATA
1 ATAATTTAGTAGTAAATGAATA
*
13701264 ATAATTTAATAGTAAATGAATA
1 ATAATTTAGTAGTAAATGAATA
*
13701286 GTAATTTAGTAGT
1 ATAATTTAGTAGT
13701299 TAATACTTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (22 bp):
ATAATTTAGTAGTAAATGAATA
Found at i:13701342 original size:11 final size:10
Alignment explanation
Indices: 13701320--13701380 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 10
13701310 AACTTCTTAG
13701320 TAAATCAATAA
1 TAAAT-AATAA
13701331 TAATATAATAA
1 TAA-ATAATAA
13701342 TAAATACATAA
1 TAAATA-ATAA
*
13701353 TTAAATCAATTA
1 -TAAAT-AATAA
*
13701365 TAATATAATTA
1 TAA-ATAATAA
13701376 TAAAT
1 TAAAT
13701381 GTATAACAGT
Statistics
Matches: 44, Mismatches: 1, Indels: 11
0.79 0.02 0.20
Matches are distributed among these distances:
10 5 0.11
11 26 0.59
12 12 0.27
13 1 0.02
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (10 bp):
TAAATAATAA
Found at i:13701471 original size:22 final size:22
Alignment explanation
Indices: 13701445--13701507 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
13701435 AGTTAATTAT
* *
13701445 TGATAACTTAGTAATAAATAAA
1 TGATAATTTAATAATAAATAAA
* * *
13701467 TGATAATTTAATAGTAAATTAG
1 TGATAATTTAATAATAAATAAA
13701489 TGATAATTTAATAATAAAT
1 TGATAATTTAATAATAAAT
13701508 GAGTTTCAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.51, C:0.02, G:0.10, T:0.38
Consensus pattern (22 bp):
TGATAATTTAATAATAAATAAA
Found at i:13701478 original size:44 final size:44
Alignment explanation
Indices: 13701403--13701507 Score: 129
Period size: 44 Copynumber: 2.4 Consensus size: 44
13701393 TAAAATAAGA
* * * * *
13701403 ATAACTTAACAAAAAATAAGTGACAAATTAATAGTTAATTATTG
1 ATAACTTAATAATAAATAAATGACAAATTAATAGTAAATTAGTG
* * *
13701447 ATAACTTAGTAATAAATAAATGATAATTTAATAGTAAATTAGTG
1 ATAACTTAATAATAAATAAATGACAAATTAATAGTAAATTAGTG
*
13701491 ATAATTTAATAATAAAT
1 ATAACTTAATAATAAAT
13701508 GAGTTTCAGT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.52, C:0.04, G:0.09, T:0.35
Consensus pattern (44 bp):
ATAACTTAATAATAAATAAATGACAAATTAATAGTAAATTAGTG
Found at i:13701649 original size:44 final size:44
Alignment explanation
Indices: 13701554--13701649 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 44
13701544 ATTAATTGAA
* *
13701554 AACTTAA-AACTAAATCAGTATAACTTAGTAGTAAATTATCAAT
1 AACTTAATAACTAAATCAATATAACTTAATAGTAAATTATCAAT
*
13701597 AACATAATAACT-AATCAATGATAACTTAATAGTAAATTAT-ACAT
1 AACTTAATAACTAAATCAAT-ATAACTTAATAGTAAATTATCA-AT
*
13701641 AATTTAATA
1 AACTTAATA
13701650 TAAAATAGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
43 13 0.29
44 32 0.71
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.33
Consensus pattern (44 bp):
AACTTAATAACTAAATCAATATAACTTAATAGTAAATTATCAAT
Found at i:13701771 original size:43 final size:43
Alignment explanation
Indices: 13701694--13701807 Score: 133
Period size: 43 Copynumber: 2.6 Consensus size: 43
13701684 AATTTAGTGA
* *
13701694 TAAATCAATAATAATTTTATGATAAATAATTAAAAATTA-AATAG
1 TAAATCAATGATAA-TTTATAATAAATAATT-AAAATTATAATAG
* *
13701738 TTAATCAATGATAATATATAATAAAT-ATATAAAATTATAATAG
1 TAAATCAATGATAATTTATAATAAATAAT-TAAAATTATAATAG
*
13701781 TAAATCATTGATAATTTAATAATAAAT
1 TAAATCAATGATAATTT-ATAATAAAT
13701808 TGACAACTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 9 0.15
43 30 0.50
44 21 0.35
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.38
Consensus pattern (43 bp):
TAAATCAATGATAATTTATAATAAATAATTAAAATTATAATAG
Found at i:13701800 original size:22 final size:22
Alignment explanation
Indices: 13701669--13701807 Score: 72
Period size: 22 Copynumber: 6.4 Consensus size: 22
13701659 AATAACCTGG
* *
13701669 TAGTAAATCATAGATAATTTAG
1 TAGTAAATCATTGATAATTTAA
* * *
13701691 T-GATAAATCAATAATAATTTTA
1 TAG-TAAATCATTGATAATTTAA
* * * *
13701713 T-GATAAATAATTAAAAATTAAA
1 TAG-TAAATCATTGATAATTTAA
* * *
13701735 TAGTTAATCAATGATAATAT-A
1 TAGTAAATCATTGATAATTTAA
* *
13701756 TAATAAAT-ATAT-AAAATTATAA
1 TAGTAAATCAT-TGATAATT-TAA
13701778 TAGTAAATCATTGATAATTTAA
1 TAGTAAATCATTGATAATTTAA
*
13701800 TAATAAAT
1 TAGTAAAT
13701808 TGACAACTTA
Statistics
Matches: 85, Mismatches: 25, Indels: 14
0.69 0.20 0.11
Matches are distributed among these distances:
20 5 0.06
21 10 0.12
22 62 0.73
23 8 0.09
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.37
Consensus pattern (22 bp):
TAGTAAATCATTGATAATTTAA
Found at i:13701852 original size:51 final size:51
Alignment explanation
Indices: 13701797--13701901 Score: 140
Period size: 51 Copynumber: 2.1 Consensus size: 51
13701787 ATTGATAATT
* * * *
13701797 TAAT-AATAAATTGACAACTTAATAGTAAATTACTAATAATTTAGTTGTAAA
1 TAATAAAT-AATTAACAACATAATAGTAAATTACTAATAACTTAATTGTAAA
* *
13701848 TAATAAATCATTAATAACATAATAGTAAATTACTAATAACTTAATTGTAAA
1 TAATAAATAATTAACAACATAATAGTAAATTACTAATAACTTAATTGTAAA
13701899 TAA
1 TAA
13701902 GAGAGAATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
51 44 0.94
52 3 0.06
ACGTcount: A:0.51, C:0.07, G:0.06, T:0.36
Consensus pattern (51 bp):
TAATAAATAATTAACAACATAATAGTAAATTACTAATAACTTAATTGTAAA
Found at i:13701876 original size:22 final size:22
Alignment explanation
Indices: 13701846--13701899 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
13701836 TTTAGTTGTA
* *
13701846 AATAATAAATCATTAATAACAT
1 AATAGTAAATCACTAATAACAT
* *
13701868 AATAGTAAATTACTAATAACTT
1 AATAGTAAATCACTAATAACAT
*
13701890 AATTGTAAAT
1 AATAGTAAAT
13701900 AAGAGAGAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (22 bp):
AATAGTAAATCACTAATAACAT
Found at i:13702133 original size:22 final size:22
Alignment explanation
Indices: 13702093--13702134 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
13702083 TACTCATAAA
* * *
13702093 TTAGTAGTATATTATTGATAGT
1 TTAGTAGTAAATAACTGATAGT
13702115 TTAGTAGTAAATAACTGATA
1 TTAGTAGTAAATAACTGATA
13702135 ACTTAATTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (22 bp):
TTAGTAGTAAATAACTGATAGT
Found at i:13702506 original size:21 final size:21
Alignment explanation
Indices: 13702463--13702541 Score: 79
Period size: 21 Copynumber: 3.8 Consensus size: 21
13702453 CATTAAGAGG
* *
13702463 TTACTAAAATTTTATAAAAAA
1 TTACTAAAATTATATCAAAAA
* *
13702484 TTA-TCAAAATTGTATCAATAA
1 TTACT-AAAATTATATCAAAAA
* *
13702505 TTACTAAAATTATATCACAAG
1 TTACTAAAATTATATCAAAAA
*
13702526 TTACCAAAATTATATC
1 TTACTAAAATTATATC
13702542 GAAGGTTATC
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.02
21 46 0.96
22 1 0.02
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.37
Consensus pattern (21 bp):
TTACTAAAATTATATCAAAAA
Found at i:13702561 original size:27 final size:27
Alignment explanation
Indices: 13702530--13702581 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
13702520 CACAAGTTAC
** *
13702530 CAAAATTATATCGAAGGTTATCAAAAT
1 CAAAATTATATAAAAAGTTATCAAAAT
13702557 CAAAATTATATAAAAAGTTATCAAA
1 CAAAATTATATAAAAAGTTATCAAA
13702582 TTTTACTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.29
Consensus pattern (27 bp):
CAAAATTATATAAAAAGTTATCAAAAT
Found at i:13710607 original size:51 final size:49
Alignment explanation
Indices: 13710545--13710782 Score: 216
Period size: 51 Copynumber: 4.9 Consensus size: 49
13710535 GATTTTCGTC
* * * * * *
13710545 TTAATGAGAATTAATTTTGAAATCAAATCCCAAAAATCTCTCCATATCA
1 TTAATGTGAATTGATTATGGAATTAAATCCCAAAAATCTCTCCACATCA
* * *
13710594 TTTTAATGTGAATTGATTATGGAATTAAATCCCGACAATCTTTCCACATCA
1 --TTAATGTGAATTGATTATGGAATTAAATCCCAAAAATCTCTCCACATCA
* * * *
13710645 --AATGTCAACTGATTCTGGAATTAAATCCCAAAAATCTCTCTCTATCAT-T
1 TTAATGTGAATTGATTATGGAATTAAATCCCAAAAATCTCTC-C-A-CATCA
**** *
13710694 TTAATGTGAATTGATTATGGAATTAAATTTTGACAATCTCTCCACATCA
1 TTAATGTGAATTGATTATGGAATTAAATCCCAAAAATCTCTCCACATCA
* *
13710743 --AATGTCAATTGATTTTGGAATTAAATCCCAAAAATCTCTC
1 TTAATGTGAATTGATTATGGAATTAAATCCCAAAAATCTCTC
13710783 AACTACGATT
Statistics
Matches: 149, Mismatches: 32, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
47 67 0.45
48 4 0.03
49 2 0.01
50 4 0.03
51 72 0.48
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.36
Consensus pattern (49 bp):
TTAATGTGAATTGATTATGGAATTAAATCCCAAAAATCTCTCCACATCA
Found at i:13710691 original size:98 final size:98
Alignment explanation
Indices: 13710569--13710782 Score: 358
Period size: 98 Copynumber: 2.2 Consensus size: 98
13710559 TTTTGAAATC
13710569 AAATCCCAAAAATCTCTCCATATCATTTTAATGTGAATTGATTATGGAATTAAATCCCGACAATC
1 AAATCCCAAAAATCTCTCCATATCATTTTAATGTGAATTGATTATGGAATTAAATCCCGACAATC
*
13710634 TTTCCACATCAAATGTCAACTGATTCTGGAATT
66 TCTCCACATCAAATGTCAACTGATTCTGGAATT
***
13710667 AAATCCCAAAAATCTCTCTC-TATCATTTTAATGTGAATTGATTATGGAATTAAATTTTGACAAT
1 AAATCCCAAAAATCTCTC-CATATCATTTTAATGTGAATTGATTATGGAATTAAATCCCGACAAT
* *
13710731 CTCTCCACATCAAATGTCAATTGATTTTGGAATT
65 CTCTCCACATCAAATGTCAACTGATTCTGGAATT
13710765 AAATCCCAAAAATCTCTC
1 AAATCCCAAAAATCTCTC
13710783 AACTACGATT
Statistics
Matches: 109, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
98 108 0.99
99 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (98 bp):
AAATCCCAAAAATCTCTCCATATCATTTTAATGTGAATTGATTATGGAATTAAATCCCGACAATC
TCTCCACATCAAATGTCAACTGATTCTGGAATT
Found at i:13710779 original size:47 final size:47
Alignment explanation
Indices: 13710569--13710782 Score: 212
Period size: 47 Copynumber: 4.4 Consensus size: 47
13710559 TTTTGAAATC
* *
13710569 AAATCCCAAAAATCTCTCCATATCATTTTAATGTGAATTGATTATGGAATT
1 AAATCCCAAAAATCTCTCCACATCA----AATGTCAATTGATTATGGAATT
* * * * *
13710620 AAATCCCGACAATCTTTCCACATCAAATGTCAACTGATTCTGGAATT
1 AAATCCCAAAAATCTCTCCACATCAAATGTCAATTGATTATGGAATT
** *
13710667 AAATCCCAAAAATCTCTCTCTATCATTTTAATGTGAATTGATTATGGAATT
1 AAATCCCAAAAATCTCTC-C-A-CA-TCAAATGTCAATTGATTATGGAATT
**** * *
13710718 AAATTTTGACAATCTCTCCACATCAAATGTCAATTGATTTTGGAATT
1 AAATCCCAAAAATCTCTCCACATCAAATGTCAATTGATTATGGAATT
13710765 AAATCCCAAAAATCTCTC
1 AAATCCCAAAAATCTCTC
13710783 AACTACGATT
Statistics
Matches: 130, Mismatches: 29, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
47 68 0.52
48 3 0.02
49 2 0.02
50 3 0.02
51 54 0.42
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (47 bp):
AAATCCCAAAAATCTCTCCACATCAAATGTCAATTGATTATGGAATT
Found at i:13711028 original size:22 final size:22
Alignment explanation
Indices: 13710972--13711028 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
13710962 GTAATCATTG
* *
13710972 ATAATTTAGTAATAAATTAATA
1 ATAATTTAGTAGTAAATGAATA
*
13710994 ATAATTTAATAGTAAATGAATA
1 ATAATTTAGTAGTAAATGAATA
*
13711016 GTAATTTAGTAGT
1 ATAATTTAGTAGT
13711029 TAATACTTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (22 bp):
ATAATTTAGTAGTAAATGAATA
Found at i:13711072 original size:11 final size:10
Alignment explanation
Indices: 13711050--13711110 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 10
13711040 AACTTTTTAG
13711050 TAAATCAATAA
1 TAAAT-AATAA
13711061 TAATATAATAA
1 TAA-ATAATAA
13711072 TAAATACATAA
1 TAAATA-ATAA
*
13711083 TTAAATCAATTA
1 -TAAAT-AATAA
*
13711095 TAATATAATTA
1 TAA-ATAATAA
13711106 TAAAT
1 TAAAT
13711111 GTATAACAGT
Statistics
Matches: 44, Mismatches: 1, Indels: 11
0.79 0.02 0.20
Matches are distributed among these distances:
10 5 0.11
11 26 0.59
12 12 0.27
13 1 0.02
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (10 bp):
TAAATAATAA
Found at i:13711208 original size:44 final size:44
Alignment explanation
Indices: 13711133--13711237 Score: 129
Period size: 44 Copynumber: 2.4 Consensus size: 44
13711123 TAAAATAAGA
* * * * *
13711133 ATAACTTAACAAAAAATAAGTGACAAATTAATAGTTAATTATTG
1 ATAACTTAATAATAAATAAATGACAAATTAATAGTAAATTAGTG
* * *
13711177 ATAACTTAGTAATAAATAAATGATAATTTAATAGTAAATTAGTG
1 ATAACTTAATAATAAATAAATGACAAATTAATAGTAAATTAGTG
*
13711221 ATAATTTAATAATAAAT
1 ATAACTTAATAATAAAT
13711238 TAGTTTCAGT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.52, C:0.04, G:0.09, T:0.35
Consensus pattern (44 bp):
ATAACTTAATAATAAATAAATGACAAATTAATAGTAAATTAGTG
Found at i:13711251 original size:22 final size:22
Alignment explanation
Indices: 13711146--13711241 Score: 93
Period size: 22 Copynumber: 4.4 Consensus size: 22
13711136 ACTTAACAAA
* * * *
13711146 AAATAAGTGACAAATTAATAGT
1 AAATTAGTGATAATTTAATAAT
* * * *
13711168 TAATTATTGATAACTTAGTAAT
1 AAATTAGTGATAATTTAATAAT
* * *
13711190 AAATAAATGATAATTTAATAGT
1 AAATTAGTGATAATTTAATAAT
13711212 AAATTAGTGATAATTTAATAAT
1 AAATTAGTGATAATTTAATAAT
13711234 AAATTAGT
1 AAATTAGT
13711242 TTCAGTTTAA
Statistics
Matches: 58, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 58 1.00
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (22 bp):
AAATTAGTGATAATTTAATAAT
Found at i:13711450 original size:22 final size:22
Alignment explanation
Indices: 13711403--13711459 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
13711393 ACCTGGTAGT
*
13711403 AAATC-ATAGATAATTTAGTGAT
1 AAATCAATA-ATAATTTAGTGAA
13711425 AAATCAATAATAATTTTA-TGAA
1 AAATCAATAATAA-TTTAGTGAA
13711447 AAAT-AATCAATAA
1 AAATCAAT-AATAA
13711460 CTTAATGGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 3 0.10
22 21 0.68
23 7 0.23
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.33
Consensus pattern (22 bp):
AAATCAATAATAATTTAGTGAA
Found at i:13711577 original size:22 final size:22
Alignment explanation
Indices: 13711543--13711615 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
13711533 CAAATTACTC
* * * *
13711543 ATAAATTAGTAGTATATTATTG
1 ATAACTTAATAGTAAATAATTG
*
13711565 ATAGCTTAATAGTAAATAATTG
1 ATAACTTAATAGTAAATAATTG
* * *
13711587 ATAACTTAATTGTTAATCATTG
1 ATAACTTAATAGTAAATAATTG
13711609 ATAACTT
1 ATAACTT
13711616 TTATTAAACT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.42
Consensus pattern (22 bp):
ATAACTTAATAGTAAATAATTG
Found at i:13711961 original size:21 final size:20
Alignment explanation
Indices: 13711923--13711996 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 20
13711913 AGAGGATACT
* * *
13711923 AAAATTTTATAAAAAATTATC
1 AAAATTATATCAATAATTA-C
*
13711944 AAAATTGTATCAATAATTAC
1 AAAATTATATCAATAATTAC
13711964 TAAAATTATATC-ATAAGTTACC
1 -AAAATTATATCAATAA-TTA-C
13711986 AAAATTATATC
1 AAAATTATATC
13711997 GAAGGTTATC
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.11
21 40 0.87
22 1 0.02
ACGTcount: A:0.51, C:0.09, G:0.03, T:0.36
Consensus pattern (20 bp):
AAAATTATATCAATAATTAC
Found at i:13712011 original size:21 final size:21
Alignment explanation
Indices: 13711943--13711996 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
13711933 AAAAAATTAT
*
13711943 CAAAATTGTATCAATAA-TTAC
1 CAAAATTATATC-ATAAGTTAC
*
13711964 TAAAATTATATCATAAGTTAC
1 CAAAATTATATCATAAGTTAC
13711985 CAAAATTATATC
1 CAAAATTATATC
13711997 GAAGGTTATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (21 bp):
CAAAATTATATCATAAGTTAC
Found at i:13712016 original size:27 final size:27
Alignment explanation
Indices: 13711985--13712036 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
13711975 CATAAGTTAC
* *
13711985 CAAAATTATATCGAAGGTTATCAAAAT
1 CAAAATTATATCAAAAGTTATCAAAAT
13712012 CAAAATTATATCAAAAGTTATCAAA
1 CAAAATTATATCAAAAGTTATCAAA
13712037 TTTTACTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.52, C:0.12, G:0.08, T:0.29
Consensus pattern (27 bp):
CAAAATTATATCAAAAGTTATCAAAAT
Found at i:13724253 original size:18 final size:19
Alignment explanation
Indices: 13724230--13724279 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
13724220 TGATCGAAAA
13724230 TTAATA-AAATA-TTATTTT
1 TTAATATAAATATTTA-TTT
*
13724248 TTAATATAAAAATTTATTT
1 TTAATATAAATATTTATTT
13724267 TTAATATAAATAT
1 TTAATATAAATAT
13724280 AAATATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 6 0.21
19 19 0.68
20 3 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TTAATATAAATATTTATTT
Found at i:13724269 original size:19 final size:21
Alignment explanation
Indices: 13724235--13724276 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 21
13724225 GAAAATTAAT
13724235 AAAATATTATTTTTTAATATA
1 AAAATATTATTTTTTAATATA
13724256 AAAAT-TTA-TTTTTAATATA
1 AAAATATTATTTTTTAATATA
13724275 AA
1 AA
13724277 TATAAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 13 0.62
20 3 0.14
21 5 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AAAATATTATTTTTTAATATA
Found at i:13727190 original size:10 final size:10
Alignment explanation
Indices: 13727162--13727208 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
13727152 AAATTGAATT
13727162 AACACAAACA
1 AACACAAACA
*
13727172 AAGAC-AACA
1 AACACAAACA
13727181 AACACAAACA
1 AACACAAACA
13727191 AACAACAAACA
1 AAC-ACAAACA
*
13727202 AAGACAA
1 AACACAA
13727209 GGATAAACAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 8 0.25
10 15 0.47
11 9 0.28
ACGTcount: A:0.70, C:0.26, G:0.04, T:0.00
Consensus pattern (10 bp):
AACACAAACA
Found at i:13727208 original size:17 final size:17
Alignment explanation
Indices: 13727162--13727201 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 17
13727152 AAATTGAATT
13727162 AACACAAACAAAGACAACA
1 AACACAAAC-AA-ACAACA
13727181 AACACAAACAAACAACA
1 AACACAAACAAACAACA
13727198 AACA
1 AACA
13727202 AAGACAAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 10 0.48
18 2 0.10
19 9 0.43
ACGTcount: A:0.70, C:0.28, G:0.03, T:0.00
Consensus pattern (17 bp):
AACACAAACAAACAACA
Found at i:13728003 original size:22 final size:23
Alignment explanation
Indices: 13727968--13728022 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
13727958 ATAATTATTT
*
13727968 TATATATAAATCTATT-TAA-ATA
1 TATATAAAAATCTATTATAACA-A
*
13727990 TATTTAAAAATCTATTATAACAA
1 TATATAAAAATCTATTATAACAA
13728013 TATATAAAAA
1 TATATAAAAA
13728023 AATTTTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 14 0.50
23 13 0.46
24 1 0.04
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (23 bp):
TATATAAAAATCTATTATAACAA
Found at i:13728023 original size:25 final size:22
Alignment explanation
Indices: 13727975--13728025 Score: 57
Period size: 25 Copynumber: 2.2 Consensus size: 22
13727965 TTTTATATAT
**
13727975 AAATCTATTTAAATATATTTAA
1 AAATCTATTTAAATATATAAAA
13727997 AAATCTATTATAACAATATATAAAA
1 AAATCTATT-T-A-AATATATAAAA
13728022 AAAT
1 AAAT
13728026 TTTAAAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 9 0.38
23 1 0.04
24 1 0.04
25 13 0.54
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (22 bp):
AAATCTATTTAAATATATAAAA
Found at i:13728628 original size:23 final size:20
Alignment explanation
Indices: 13728598--13728651 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 20
13728588 ATTATTCTTT
13728598 ATATTATTTATAAATATATTATA
1 ATATTATTTAT-AATA-A-TATA
13728621 ATATTATTTAT--TAATATA
1 ATATTATTTATAATAATATA
13728639 ATATTATTTATAA
1 ATATTATTTATAA
13728652 GTAAAATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
18 15 0.52
19 1 0.03
20 2 0.07
23 11 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATATTATTTATAATAATATA
Found at i:13728637 original size:13 final size:13
Alignment explanation
Indices: 13728598--13728637 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
13728588 ATTATTCTTT
*
13728598 ATATTATTTATAA
1 ATATTATTTATTA
13728611 ATA-TA-TTA-TA
1 ATATTATTTATTA
13728621 ATATTATTTATTA
1 ATATTATTTATTA
13728634 ATAT
1 ATAT
13728638 AATATTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
10 4 0.17
11 5 0.22
12 5 0.22
13 9 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATATTATTTATTA
Found at i:13728928 original size:2 final size:2
Alignment explanation
Indices: 13728921--13728948 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13728911 TGAACGTAAA
13728921 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
13728949 ATATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:13732734 original size:49 final size:50
Alignment explanation
Indices: 13732681--13732779 Score: 123
Period size: 49 Copynumber: 2.0 Consensus size: 50
13732671 TAATATAATA
* * * *
13732681 TATTTTTTAATTT-TATTTTATTTTATTATAATTT-TA-AAAAATATAGTTT
1 TATTTTCTAATTTAAATGTTATTTTA-CATAATTTATACAAAAAT-TAGTTT
13732730 TATTTTCTAATTTAAATGTTATTTTACATAATTTATACAAAAATTAGTTT
1 TATTTTCTAATTTAAATGTTATTTTACATAATTTATACAAAAATTAGTTT
13732780 ACCTATTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
49 19 0.44
50 18 0.42
51 6 0.14
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (50 bp):
TATTTTCTAATTTAAATGTTATTTTACATAATTTATACAAAAATTAGTTT
Found at i:13733548 original size:8 final size:8
Alignment explanation
Indices: 13733528--13733579 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
13733518 TAATTTTTTT
13733528 TAAA-ATA
1 TAAATATA
*
13733535 TAAATATT
1 TAAATATA
13733543 TAAATATA
1 TAAATATA
*
13733551 TAATTATA
1 TAAATATA
13733559 TTAATATATA
1 -TAA-ATATA
*
13733569 TAAATAAA
1 TAAATATA
13733577 TAA
1 TAA
13733580 TTAAAAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
7 4 0.11
8 23 0.62
9 6 0.16
10 4 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TAAATATA
Found at i:13733567 original size:18 final size:16
Alignment explanation
Indices: 13733526--13733574 Score: 64
Period size: 18 Copynumber: 3.0 Consensus size: 16
13733516 TATAATTTTT
13733526 TTTAAA-ATATAAATA
1 TTTAAATATATAAATA
*
13733541 TTTAAATATATAATTA
1 TTTAAATATATAAATA
13733557 TATTAATATATATAAATA
1 T-TTAA-ATATATAAATA
13733575 AATAATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 6 0.21
16 9 0.31
17 4 0.14
18 10 0.34
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTAAATATATAAATA
Found at i:13734538 original size:14 final size:14
Alignment explanation
Indices: 13734521--13734547 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13734511 TGTCGTATCT
13734521 AATAATTTAAAATA
1 AATAATTTAAAATA
13734535 AATAATTTAAAAT
1 AATAATTTAAAAT
13734548 TATGCATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AATAATTTAAAATA
Found at i:13735060 original size:9 final size:10
Alignment explanation
Indices: 13735015--13735066 Score: 50
Period size: 11 Copynumber: 4.9 Consensus size: 10
13735005 GATGTTATTT
*
13735015 AAAATTTTAA
1 AAAAATTTAA
*
13735025 TAAAAATTATAT
1 -AAAAATT-TAA
*
13735037 ATAAATTTAA
1 AAAAATTTAA
13735047 AAAAATTTAA
1 AAAAATTTAA
13735057 AAAATATTTA
1 AAAA-ATTTA
13735067 TAATTATCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
10 15 0.44
11 17 0.50
12 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AAAAATTTAA
Found at i:13750547 original size:23 final size:24
Alignment explanation
Indices: 13750519--13750590 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 24
13750509 CGTTCACGAA
13750519 TTTAATT-AAATTTTAAATTTTAT
1 TTTAATTAAAATTTTAAATTTTAT
*
13750542 TTTAATTAAAATTATT-ATTTATTAT
1 TTTAATTAAAATT-TTAAATT-TTAT
13750567 TTTATATATAAAAATTTTAAATTT
1 TTTA-AT-T-AAAATTTTAAATTT
13750591 AAATATATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
23 7 0.17
24 8 0.20
25 10 0.25
26 2 0.05
27 4 0.10
28 9 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTAATTAAAATTTTAAATTTTAT
Found at i:13750704 original size:16 final size:15
Alignment explanation
Indices: 13750679--13750708 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
13750669 ATATTTTAAT
13750679 ATTTATTTTAAATTA
1 ATTTATTTTAAATTA
13750694 ATTTAATTTTAAATT
1 ATTT-ATTTTAAATT
13750709 TTGTTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTTATTTTAAATTA
Found at i:13757922 original size:14 final size:14
Alignment explanation
Indices: 13757903--13757933 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13757893 AAAAAAAGTT
*
13757903 ACAATTTTTTTAAA
1 ACAATTTTTCTAAA
13757917 ACAATTTTTCTAAA
1 ACAATTTTTCTAAA
13757931 ACA
1 ACA
13757934 TACAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (14 bp):
ACAATTTTTCTAAA
Found at i:13760350 original size:18 final size:19
Alignment explanation
Indices: 13760298--13760350 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
13760288 ATAAAATTAA
13760298 AAATATATACATATTTTTATGT
1 AAATATATA-ATA--TTTATGT
*
13760320 AAATATGTAATATTTATGT
1 AAATATATAATATTTATGT
13760339 AAA-ATATAATAT
1 AAATATATAATAT
13760351 AAATATACGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 8 0.28
19 10 0.34
21 3 0.10
22 8 0.28
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (19 bp):
AAATATATAATATTTATGT
Found at i:13762764 original size:28 final size:29
Alignment explanation
Indices: 13762732--13762790 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
13762722 TAATGTATCA
13762732 AATATAA-ACTTTATATATTA-ATTAATAT
1 AATATAACA-TTTATATATTATATTAATAT
*
13762760 AATATAACATTTATATATTATATTTATAT
1 AATATAACATTTATATATTATATTAATAT
13762789 AA
1 AA
13762791 GTAATTCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 18 0.64
29 10 0.36
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.47
Consensus pattern (29 bp):
AATATAACATTTATATATTATATTAATAT
Found at i:13763471 original size:18 final size:18
Alignment explanation
Indices: 13763450--13763488 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13763440 TTAAATATAT
13763450 TTTA-AAATAAAAATAAAA
1 TTTATAAAT-AAAATAAAA
*
13763468 TTTATTAATAAAATAAAA
1 TTTATAAATAAAATAAAA
13763486 TTT
1 TTT
13763489 TTGGCCAGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TTTATAAATAAAATAAAA
Found at i:13764033 original size:30 final size:26
Alignment explanation
Indices: 13763985--13764048 Score: 65
Period size: 30 Copynumber: 2.3 Consensus size: 26
13763975 TGTATTTATA
*
13763985 TTATATTTCATATAAAAATTATGTTATAAT
1 TTATATTTCATACAAAAA-TA--TTA-AAT
* *
13764015 TTATATTTGATACGAAAATATTAAAT
1 TTATATTTCATACAAAAATATTAAAT
13764041 TTATATTT
1 TTATATTT
13764049 TTTATTTTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 11 0.35
27 3 0.10
29 2 0.06
30 15 0.48
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (26 bp):
TTATATTTCATACAAAAATATTAAAT
Found at i:13764250 original size:21 final size:20
Alignment explanation
Indices: 13764225--13764269 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
13764215 TATTTGAAAC
* * *
13764225 TATTATAATTTAAATTTTAAT
1 TATTAAAATTAAAAATTT-AT
13764246 TATTAAAATTAAAAATTTAT
1 TATTAAAATTAAAAATTTAT
13764266 TATT
1 TATT
13764270 TTACCAACAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TATTAAAATTAAAAATTTAT
Found at i:13765026 original size:27 final size:26
Alignment explanation
Indices: 13764971--13765026 Score: 60
Period size: 27 Copynumber: 2.1 Consensus size: 26
13764961 AATTACTGAA
* *
13764971 ATTTAAAATTTTTATGGATTTTATTAT
1 ATTTAAAATTTATAT-GATTTTATCAT
13764998 ATTTAACAATTTATAT-ATTTATATCAT
1 ATTTAA-AATTTATATGATTT-TATCAT
13765025 AT
1 AT
13765027 AAAAAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
26 4 0.16
27 13 0.52
28 8 0.32
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (26 bp):
ATTTAAAATTTATATGATTTTATCAT
Found at i:13765765 original size:20 final size:20
Alignment explanation
Indices: 13765729--13765766 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13765719 GGTAATACTA
**
13765729 AAAATTAATTTTTTTTTTCC
1 AAAATTAATTTCATTTTTCC
13765749 AAAATTAATTTCATTTTT
1 AAAATTAATTTCATTTTT
13765767 AAAAAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (20 bp):
AAAATTAATTTCATTTTTCC
Found at i:13765772 original size:20 final size:20
Alignment explanation
Indices: 13765728--13765772 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
13765718 AGGTAATACT
** *
13765728 AAAAATTAATTTTTTTTTTC
1 AAAAATTAATTTCATTTTTA
*
13765748 CAAAATTAATTTCATTTTTA
1 AAAAATTAATTTCATTTTTA
13765768 AAAAA
1 AAAAA
13765773 ATTTTTTGTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (20 bp):
AAAAATTAATTTCATTTTTA
Found at i:13773399 original size:19 final size:20
Alignment explanation
Indices: 13773357--13773399 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
13773347 ACGGGATTTT
*
13773357 TTTAAAATTATTTTTAATAA
1 TTTAAAACTATTTTTAATAA
*
13773377 -TTAAAACT-TTTTTATTAA
1 TTTAAAACTATTTTTAATAA
13773395 TTTAA
1 TTTAA
13773400 TTTTTTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTAAAACTATTTTTAATAA
Found at i:13774020 original size:3 final size:3
Alignment explanation
Indices: 13774012--13774048 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
13774002 TAAAACATCA
13774012 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
13774049 TATGATTGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13774852 original size:2 final size:2
Alignment explanation
Indices: 13774841--13774871 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
13774831 CACACACAAA
*
13774841 AT AT AG 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 A
13774872 CACACGTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:13776166 original size:27 final size:28
Alignment explanation
Indices: 13776129--13776196 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 28
13776119 TTTTTATTTG
**
13776129 AATTTAAATAATTATTGAAACATATT-A
1 AATTTAAATAATTATCCAAACATATTAA
*
13776156 AATTTACATAATTATCCAAACATATTAA
1 AATTTAAATAATTATCCAAACATATTAA
13776184 AATTTAAATAATT
1 AATTTAAATAATT
13776197 TATTAAATAG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 23 0.64
28 13 0.36
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.40
Consensus pattern (28 bp):
AATTTAAATAATTATCCAAACATATTAA
Found at i:13777101 original size:6 final size:6
Alignment explanation
Indices: 13777086--13777169 Score: 54
Period size: 6 Copynumber: 14.3 Consensus size: 6
13777076 TATTAGAAAT
**
13777086 AATT-A AATTAA AATTAA AATTAAA AATTAAA AACCATA AATTAAA AATT--
1 AATTAA AATTAA AATTAA AATT-AA AATT-AA AATTA-A AATT-AA AATTAA
* *
13777135 TATTAA AA--AC AATT-A AATTAA AATTAA AATTAA AA
1 AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA AA
13777170 CCCATATATT
Statistics
Matches: 62, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
4 6 0.10
5 8 0.13
6 28 0.45
7 19 0.31
8 1 0.02
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (6 bp):
AATTAA
Found at i:13777385 original size:8 final size:8
Alignment explanation
Indices: 13777372--13777398 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
13777362 TTTGTTGAAC
13777372 TTTATCAA
1 TTTATCAA
13777380 TTTATCAA
1 TTTATCAA
13777388 TTTATCAA
1 TTTATCAA
13777396 TTT
1 TTT
13777399 GAATTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (8 bp):
TTTATCAA
Found at i:13777739 original size:2 final size:2
Alignment explanation
Indices: 13777732--13777765 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
13777722 CTTAAAACAA
* *
13777732 AT AT AT AT AT GT AT AT AT AT GT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13777766 GTATGTATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13777746 original size:10 final size:10
Alignment explanation
Indices: 13777733--13777774 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
13777723 TTAAAACAAA
13777733 TATATATATG
1 TATATATATG
13777743 TATATATATG
1 TATATATATG
13777753 TATATATA--
1 TATATATATG
*
13777761 TATATGTATG
1 TATATATATG
13777771 TATA
1 TATA
13777775 AAACATAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 7 0.24
10 22 0.76
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (10 bp):
TATATATATG
Found at i:13777751 original size:14 final size:14
Alignment explanation
Indices: 13777732--13777774 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
13777722 CTTAAAACAA
*
13777732 ATATATATATGTAT
1 ATATATGTATGTAT
*
13777746 ATATATGTATATAT
1 ATATATGTATGTAT
13777760 ATATATGTATGTAT
1 ATATATGTATGTAT
13777774 A
1 A
13777775 AAACATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (14 bp):
ATATATGTATGTAT
Found at i:13779741 original size:10 final size:10
Alignment explanation
Indices: 13779726--13779755 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
13779716 ATCAAGTTTT
13779726 TATATTTTAA
1 TATATTTTAA
13779736 TATATTTTAA
1 TATATTTTAA
13779746 T-TATTTTAA
1 TATATTTTAA
13779755 T
1 T
13779756 TGATAAAATA
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:13785727 original size:26 final size:26
Alignment explanation
Indices: 13785671--13785723 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
13785661 TATATTTATC
* *
13785671 AATTTAAATTTGAATATAGATAATTA
1 AATTTAAAATTAAATATAGATAATTA
13785697 AATTTAAAATTAAATAT-GATAATTA
1 AATTTAAAATTAAATATAGATAATTA
13785722 AA
1 AA
13785724 ATTTTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.40
Consensus pattern (26 bp):
AATTTAAAATTAAATATAGATAATTA
Found at i:13785739 original size:26 final size:26
Alignment explanation
Indices: 13785671--13785723 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
13785661 TATATTTATC
13785671 AATTT-AAATTTGAATATAGATAATTA
1 AATTTAAAATTT-AATATAGATAATTA
*
13785697 AATTTAAAATTAAATAT-GATAATTA
1 AATTTAAAATTTAATATAGATAATTA
13785722 AA
1 AA
13785724 ATTTTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 10 0.40
26 10 0.40
27 5 0.20
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.40
Consensus pattern (26 bp):
AATTTAAAATTTAATATAGATAATTA
Found at i:13791447 original size:2 final size:2
Alignment explanation
Indices: 13791442--13791467 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13791432 TTACCCCTAC
13791442 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
13791468 AGTAAATTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13799587 original size:137 final size:137
Alignment explanation
Indices: 13799341--13799614 Score: 539
Period size: 137 Copynumber: 2.0 Consensus size: 137
13799331 TTTGCTGAAG
13799341 CTATTGATTTAACTCATACATTGAGCTTGTACTGTAAAACTGGATGATAAGAAGAAAGGGTGGCA
1 CTATTGATTTAACTCATACATTGAGCTTGTACTGTAAAACTGGATGATAAGAAGAAAGGGTGGCA
13799406 CTTAGGAATGACGGTTGGTTCCTTGTCTAAATGAATAAAGATGAAATAATAAGTTTCACCCCATC
66 CTTAGGAATGACGGTTGGTTCCTTGTCTAAATGAATAAAGATGAAATAATAAGTTTCACCCCATC
13799471 CTCAGCA
131 CTCAGCA
*
13799478 CTATTGATTTAACTCATACATTGAGCTTGTACTGTAAAACTGGATGATAGGAAGAAAGGGTGGCA
1 CTATTGATTTAACTCATACATTGAGCTTGTACTGTAAAACTGGATGATAAGAAGAAAGGGTGGCA
13799543 CTTAGGAATGACGGTTGGTTCCTTGTCTAAATGAATAAAGATGAAATAATAAGTTTCACCCCATC
66 CTTAGGAATGACGGTTGGTTCCTTGTCTAAATGAATAAAGATGAAATAATAAGTTTCACCCCATC
13799608 CTCAGCA
131 CTCAGCA
13799615 AAAGGGTCCA
Statistics
Matches: 136, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 136 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (137 bp):
CTATTGATTTAACTCATACATTGAGCTTGTACTGTAAAACTGGATGATAAGAAGAAAGGGTGGCA
CTTAGGAATGACGGTTGGTTCCTTGTCTAAATGAATAAAGATGAAATAATAAGTTTCACCCCATC
CTCAGCA
Found at i:13800152 original size:17 final size:17
Alignment explanation
Indices: 13800132--13800165 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13800122 TTTTCAAACC
13800132 AAATTAATTAAAAATCA
1 AAATTAATTAAAAATCA
* *
13800149 AAATTCATTTAAAATCA
1 AAATTAATTAAAAATCA
13800166 TTTTCATTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (17 bp):
AAATTAATTAAAAATCA
Found at i:13809018 original size:261 final size:263
Alignment explanation
Indices: 13808538--13809056 Score: 701
Period size: 261 Copynumber: 2.0 Consensus size: 263
13808528 AGAGTGCATC
* * * *
13808538 TCTATATGAACAATAATGTGGTTTTTGTGGAATGAAAGGCGGTCAGTCTTTTTTATGAAAGTTGG
1 TCTATATGAACAATAATGTAGTTTTGGTGGAATGAAAGGCGGACAGTC-TTTTTATGAAAGTTGA
* * *
13808603 GTACTGATTATGATATGAATATTGCTGATCAGTTGTATTTGTCAACAACTTGTGACAGTTTAGTT
65 GTACTGATTATGATATGAATATTACTAATCAGTTGTATATGTCAACAACTTGTGACAGTTTAGTT
* ** *
13808668 TAGTAATGCATGGGACTGAAGTATATGGCAGTTGTGATTCTGGAGATCATTATGATAATATGAAT
130 GAGTAATGCATGGGACTGAAGTATATGGCAGTTGCAATTCTGGAGATCATTATGATAATAGGAAT
* * *
13808733 TTGAATTGACTGAAATTGTCTGTTAAAAGCCTATCAATGCCGTATCTTAGTTGAAGTTCTGCTTG
195 GTGAATTGACTGAAATTGTCTGTTAAAAGCCTATCAATGCCATATCTTAGTGGAAGTTCTGCTTG
13808798 TATT
260 TATT
* * * *
13808802 TCTATATGAACAATAATGTAGTTTTGGTGGAATGAAAGGTGGACAGTC-TTTTGTGGAAGTTGAT
1 TCTATATGAACAATAATGTAGTTTTGGTGGAATGAAAGGCGGACAGTCTTTTTATGAAAGTTGAG
* * * *
13808866 TACTGGTTATGATACT-AATATTACTAATCGGTTGTA-ATGTCAACGA-TCTGTGACGGTTTAGT
66 TACTGATTATGATA-TGAATATTACTAATCAGTTGTATATGTCAACAACT-TGTGACAGTTTAGT
* *
13808928 ATGA-TAATGCATGGGACTGAAGTATATGGCGGTTGCAATTCTGGAGATCCTTATAGAATAATAG
129 -TGAGTAATGCATGGGACTGAAGTATATGGCAGTTGCAATTCTGGAGATCATTAT-G-ATAATAG
* *
13808992 GAATGTGAATTGATTGAAA-T-TCTGTTAAAAGCCTATCAATGCCATATCTTAGTGGAAGTTGTG
191 GAATGTGAATTGACTGAAATTGTCTGTTAAAAGCCTATCAATGCCATATCTTAGTGGAAGTTCTG
13809055 CT
256 CT
13809057 AGAAACTTCA
Statistics
Matches: 224, Mismatches: 26, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
260 1 0.00
261 109 0.49
262 46 0.21
263 24 0.11
264 44 0.20
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (263 bp):
TCTATATGAACAATAATGTAGTTTTGGTGGAATGAAAGGCGGACAGTCTTTTTATGAAAGTTGAG
TACTGATTATGATATGAATATTACTAATCAGTTGTATATGTCAACAACTTGTGACAGTTTAGTTG
AGTAATGCATGGGACTGAAGTATATGGCAGTTGCAATTCTGGAGATCATTATGATAATAGGAATG
TGAATTGACTGAAATTGTCTGTTAAAAGCCTATCAATGCCATATCTTAGTGGAAGTTCTGCTTGT
ATT
Found at i:13809929 original size:3 final size:3
Alignment explanation
Indices: 13809921--13809948 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
13809911 TTCACAGTGA
13809921 TGG TGG TGG TGG TGG TGG TGG TGG TGG T
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG T
13809949 AGTAACGGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.64, T:0.36
Consensus pattern (3 bp):
TGG
Found at i:13810661 original size:11 final size:11
Alignment explanation
Indices: 13810647--13810677 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
13810637 TTTTATATAA
13810647 AAATATAATAT
1 AAATATAATAT
13810658 AAATATAATAT
1 AAATATAATAT
13810669 AATATATAA
1 AA-ATATAA
13810678 GTTATTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.68
12 6 0.32
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAATATAATAT
Found at i:13819503 original size:22 final size:22
Alignment explanation
Indices: 13819475--13819520 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
13819465 GATGATGTGA
13819475 AATTTAAAAGAAGGAAACAAGC
1 AATTTAAAAGAAGGAAACAAGC
*
13819497 AATTTAAAAGAAGGAAAGAAGC
1 AATTTAAAAGAAGGAAACAAGC
13819519 AA
1 AA
13819521 AGGAAGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.61, C:0.07, G:0.20, T:0.13
Consensus pattern (22 bp):
AATTTAAAAGAAGGAAACAAGC
Found at i:13827056 original size:27 final size:29
Alignment explanation
Indices: 13827026--13827085 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
13827016 TTCTTGTTTT
13827026 TATATTATGTAA-A-ATATTAAAAAATTA
1 TATATTATGTAATATATATTAAAAAATTA
* *
13827053 TATATTTTGTAATATTTTATTAAAAAATTA
1 TATATTATGTAATA-TATATTAAAAAATTA
13827083 TAT
1 TAT
13827086 GTTAAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 11 0.39
28 1 0.04
30 16 0.57
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (29 bp):
TATATTATGTAATATATATTAAAAAATTA
Found at i:13827145 original size:21 final size:22
Alignment explanation
Indices: 13827121--13827164 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
13827111 ATGAATTATA
*
13827121 TATTTTTAATTTTATTA-AATT
1 TATTTATAATTTTATTATAATT
13827142 TATTTATAATTTTATTATAATT
1 TATTTATAATTTTATTATAATT
13827164 T
1 T
13827165 TAAATTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
TATTTATAATTTTATTATAATT
Found at i:13827173 original size:13 final size:11
Alignment explanation
Indices: 13827127--13827166 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
13827117 TATATATTTT
13827127 TAATTTTATTA
1 TAATTTTATTA
13827138 -AA-TTTATTTA
1 TAATTTTA-TTA
13827148 TAATTTTATTA
1 TAATTTTATTA
13827159 TAATTTTA
1 TAATTTTA
13827167 AATTATATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 4 0.15
10 5 0.19
11 13 0.50
12 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TAATTTTATTA
Found at i:13827831 original size:18 final size:20
Alignment explanation
Indices: 13827800--13827838 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
13827790 TTTTATTTAT
13827800 ATATATCAATTCAAAATTAA
1 ATATATCAATTCAAAATTAA
*
13827820 ATATAT-AA-TCAAATTTAA
1 ATATATCAATTCAAAATTAA
13827838 A
1 A
13827839 ATAAAATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 2 0.11
20 6 0.33
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (20 bp):
ATATATCAATTCAAAATTAA
Found at i:13827834 original size:24 final size:24
Alignment explanation
Indices: 13827797--13827859 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
13827787 TTATTTTATT
*
13827797 TATATATATC-AATTCAAAATTAAA
1 TATATA-ATCAAATTCAAAATAAAA
*
13827821 TATATAATCAAATTTAAAATAAAA
1 TATATAATCAAATTCAAAATAAAA
*
13827845 TATGAAAATCAAATT
1 TAT-ATAATCAAATT
13827860 TATTTTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 3 0.09
24 21 0.62
25 10 0.29
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (24 bp):
TATATAATCAAATTCAAAATAAAA
Found at i:13827888 original size:29 final size:31
Alignment explanation
Indices: 13827856--13827916 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 31
13827846 ATGAAAATCA
* *
13827856 AATTTATTTTTTA-TTAAA-TAAATTTAAAT
1 AATTTAATTTTTACTTAAATTAAACTTAAAT
13827885 AATTTAATTTTTACCTTAAATTAAACTTAAAT
1 AATTTAATTTTTA-CTTAAATTAAACTTAAAT
13827917 TTAAAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 12 0.44
31 5 0.19
32 10 0.37
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (31 bp):
AATTTAATTTTTACTTAAATTAAACTTAAAT
Found at i:13829440 original size:16 final size:15
Alignment explanation
Indices: 13829419--13829449 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
13829409 TTTAATTATT
13829419 TATTTATATATTTAAA
1 TATTTATAT-TTTAAA
13829435 TATTTATATTTTAAA
1 TATTTATATTTTAAA
13829450 AAATAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTTATATTTTAAA
Found at i:13829459 original size:21 final size:21
Alignment explanation
Indices: 13829432--13829482 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
13829422 TTATATATTT
13829432 AAATATTTATAT-TTTAAAAA
1 AAATATTTATATATTTAAAAA
*
13829452 ATAATATTT-TTTATTTAAAAA
1 A-AATATTTATATATTTAAAAA
13829473 AAATATTTAT
1 AAATATTTAT
13829483 TAATTACAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AAATATTTATATATTTAAAAA
Found at i:13830499 original size:21 final size:22
Alignment explanation
Indices: 13830470--13830511 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
13830460 TAATAATTTT
13830470 ATATCAAAA-TTTATTTTAAAG
1 ATATCAAAATTTTATTTTAAAG
*
13830491 ATATTAAAATTTTATTTTAAA
1 ATATCAAAATTTTATTTTAAA
13830512 ATAATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
ATATCAAAATTTTATTTTAAAG
Found at i:13833019 original size:55 final size:56
Alignment explanation
Indices: 13832960--13833079 Score: 154
Period size: 55 Copynumber: 2.2 Consensus size: 56
13832950 AATTAAAAAA
* * *
13832960 AAAAAACAAAT-AAATAAATAAATTGTAACACCAAATTTTCTCATAAGTATTCCAT
1 AAAAAACAAATAAAATAAACAAATTGTAACAACAAATTTTCCCATAAGTATTCCAT
* * * * *
13833015 AAAAAA-AAATAAAATCAACCATTTGTAACAATAAATTTTCCCATAATTATTCCAT
1 AAAAAACAAATAAAATAAACAAATTGTAACAACAAATTTTCCCATAAGTATTCCAT
13833070 AAAAAACAAA
1 AAAAAACAAA
13833080 ACCAACCATC
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
54 4 0.07
55 48 0.87
56 3 0.05
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.28
Consensus pattern (56 bp):
AAAAAACAAATAAAATAAACAAATTGTAACAACAAATTTTCCCATAAGTATTCCAT
Found at i:13836956 original size:25 final size:25
Alignment explanation
Indices: 13836928--13836980 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
13836918 TTTGTATAAA
*
13836928 ATATTAAAATATTAAAATT-TATATT
1 ATATT-AAATATAAAAATTATATATT
**
13836953 ATATTTTATATAAAAATTATATATT
1 ATATTAAATATAAAAATTATATATT
13836978 ATA
1 ATA
13836981 ATTTATATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
ATATTAAATATAAAAATTATATATT
Found at i:13836972 original size:23 final size:25
Alignment explanation
Indices: 13836936--13836988 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
13836926 AAATATTAAA
* *
13836936 ATATTAAAATT-TATATTATATTTT
1 ATATAAAAATTATATATTATAATTT
13836960 ATATAAAAATTATATATTATAATTT
1 ATATAAAAATTATATATTATAATTT
13836985 ATAT
1 ATAT
13836989 CAAATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 10 0.38
25 16 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
ATATAAAAATTATATATTATAATTT
Found at i:13836986 original size:37 final size:38
Alignment explanation
Indices: 13836910--13836988 Score: 108
Period size: 37 Copynumber: 2.1 Consensus size: 38
13836900 AACAATTCAA
*
13836910 ATATTTATTTTGTATAAAATATTAAAATATTAAAATTT
1 ATATTTATTTTATATAAAATATTAAAATATTAAAATTT
* *
13836948 ATATTATATTTTATATAAAA-ATT-ATATATTATAATTT
1 ATATT-TATTTTATATAAAATATTAAAATATTAAAATTT
13836985 ATAT
1 ATAT
13836989 CAAATTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 16 0.43
38 8 0.22
39 13 0.35
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (38 bp):
ATATTTATTTTATATAAAATATTAAAATATTAAAATTT
Found at i:13837066 original size:24 final size:26
Alignment explanation
Indices: 13837039--13837091 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
13837029 TTTATGTATA
13837039 ATTATTATTA-AAATTTT-AAATTAT
1 ATTATTATTATAAATTTTAAAATTAT
* **
13837063 ATTATTTTTATATTTTTTAAAATTAT
1 ATTATTATTATAAATTTTAAAATTAT
13837089 ATT
1 ATT
13837092 CATATCATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 9 0.38
25 5 0.21
26 10 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTATTATTATAAATTTTAAAATTAT
Found at i:13853843 original size:20 final size:20
Alignment explanation
Indices: 13853807--13853854 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
13853797 ATAATAATTT
*
13853807 TAATCAAAATAATAAAAATA
1 TAATTAAAATAATAAAAATA
*
13853827 TATATTAAAAT-ATAAAAATT
1 TA-ATTAAAATAATAAAAATA
13853847 TAATTAAA
1 TAATTAAA
13853855 CTCATAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 6 0.24
20 12 0.48
21 7 0.28
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
TAATTAAAATAATAAAAATA
Found at i:13854072 original size:20 final size:19
Alignment explanation
Indices: 13854035--13854083 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
13854025 AATATAAATA
*
13854035 AAAAAATATAA-T-TTTTT
1 AAAAAATAAAATTCTTTTT
*
13854052 AATAAATGAAAATTCTTTTT
1 AAAAAAT-AAAATTCTTTTT
13854072 AAAAAATAAAAT
1 AAAAAATAAAAT
13854084 ATATTTGTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 6 0.23
18 3 0.12
19 6 0.23
20 11 0.42
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
AAAAAATAAAATTCTTTTT
Found at i:13858767 original size:35 final size:35
Alignment explanation
Indices: 13858713--13858786 Score: 121
Period size: 35 Copynumber: 2.1 Consensus size: 35
13858703 TTCTACAGCG
*
13858713 TCAGGTGAGTGCAACTAATGGTTACTAGTGATGTT
1 TCAGGTGAGTGCAACTAATGGTTACTAATGATGTT
* *
13858748 TCAGGTGAGTGTAATTAATGGTTACTAATGATGTT
1 TCAGGTGAGTGCAACTAATGGTTACTAATGATGTT
13858783 TCAG
1 TCAG
13858787 CTTTATTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.27, C:0.09, G:0.27, T:0.36
Consensus pattern (35 bp):
TCAGGTGAGTGCAACTAATGGTTACTAATGATGTT
Found at i:13861141 original size:1 final size:1
Alignment explanation
Indices: 13861135--13861160 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
13861125 CAGGCTTCTC
13861135 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
13861161 TTGTTAACTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:13875594 original size:123 final size:120
Alignment explanation
Indices: 13875427--13875687 Score: 405
Period size: 123 Copynumber: 2.1 Consensus size: 120
13875417 TTTTTATATC
*
13875427 AAAATTGCATAATTATGAACCAAGGTTCATACAATCACCCTAAAATATGGTATTTAATAAATTTA
1 AAAATTGCATAATTATGAACCAAGGTTCATACAATCACCCTAAAATATGATATTTAATAAATTTA
* * *
13875492 AATTTTAAATATCAATACATGCGAGTTTTTTTTTTTTTTTTAATATTTGTGGATAAG
66 AATTTTAAAAATCAATACATGCAAG--TTTTTTTTTTTTTTAATATTCGTGGATAAG
* * * * *
13875549 AAAATTACATAATTATGAACTTAGGGTTCTTACAATCACCGTAAAATATGATATTTAATAAATTT
1 AAAATTGCATAATTATGAAC-CAAGGTTCATACAATCACCCTAAAATATGATATTTAATAAATTT
*
13875614 AAATTTTAAAAATCAATGCATGCAAGTTTTTTTTTTTTTTAATATTCGTGGATAAG
65 AAATTTTAAAAATCAATACATGCAAGTTTTTTTTTTTTTTAATATTCGTGGATAAG
13875670 AAAATTGCATAATTATGA
1 AAAATTGCATAATTATGA
13875688 CAATCACATA
Statistics
Matches: 127, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
121 46 0.36
122 19 0.15
123 62 0.49
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (120 bp):
AAAATTGCATAATTATGAACCAAGGTTCATACAATCACCCTAAAATATGATATTTAATAAATTTA
AATTTTAAAAATCAATACATGCAAGTTTTTTTTTTTTTTAATATTCGTGGATAAG
Found at i:13875988 original size:29 final size:29
Alignment explanation
Indices: 13875951--13876009 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
13875941 TATAACTCAA
* * *
13875951 TATTGAATTTTGTCACTGTATTTTAAATT
1 TATTAAATTTTATCACTATATTTTAAATT
* *
13875980 TATTAAATTTTATCATTATATTTTCAATT
1 TATTAAATTTTATCACTATATTTTAAATT
13876009 T
1 T
13876010 CATTGATTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.58
Consensus pattern (29 bp):
TATTAAATTTTATCACTATATTTTAAATT
Found at i:13877548 original size:25 final size:25
Alignment explanation
Indices: 13877520--13877567 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
13877510 TTTCATGTAT
* *
13877520 TAATGTTTACATATATTATGATACG
1 TAATGTTTACATAAAATATGATACG
* *
13877545 TAATTTTTATATAAAATATGATA
1 TAATGTTTACATAAAATATGATA
13877568 TAAATATATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (25 bp):
TAATGTTTACATAAAATATGATACG
Found at i:13877582 original size:32 final size:32
Alignment explanation
Indices: 13877546--13877613 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
13877536 TATGATACGT
*
13877546 AATTTTTATATAAAATATGATATAAATATATA
1 AATTTTAATATAAAATATGATATAAATATATA
*** *
13877578 AATTTTAATATTTTATATTATATAAATATATA
1 AATTTTAATATAAAATATGATATAAATATATA
13877610 AATT
1 AATT
13877614 ATCATATCTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (32 bp):
AATTTTAATATAAAATATGATATAAATATATA
Found at i:13877830 original size:12 final size:13
Alignment explanation
Indices: 13877813--13877841 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
13877803 TCTTTACGTA
13877813 AAATAAATA-TAT
1 AAATAAATACTAT
13877825 AAATAAATACTAT
1 AAATAAATACTAT
13877838 AAAT
1 AAAT
13877842 CTATTGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATAAATACTAT
Found at i:13885170 original size:25 final size:25
Alignment explanation
Indices: 13885112--13885177 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
13885102 AAAAATATAT
* *
13885112 ATATTTTTTGTTTTCATAATTGAAA
1 ATATTTTTTTTTTTCATAATTCAAA
* *
13885137 ATATCTTTTTTTTTTCATATTTCAAC
1 ATAT-TTTTTTTTTTCATAATTCAAA
*
13885163 TTATTTTTATTTTTT
1 ATATTTTT-TTTTTT
13885178 TTCTAAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 8 0.24
26 26 0.76
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.65
Consensus pattern (25 bp):
ATATTTTTTTTTTTCATAATTCAAA
Found at i:13885907 original size:38 final size:38
Alignment explanation
Indices: 13885851--13885926 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
13885841 TAAAAGTTAG
*
13885851 TAAAGATTCAATGTATCCATATATCTAATGACTTTTAA
1 TAAAAATTCAATGTATCCATATATCTAATGACTTTTAA
* * *
13885889 TAAAAATTCAATGTATCCATATATTTGATGATTTTTAA
1 TAAAAATTCAATGTATCCATATATCTAATGACTTTTAA
13885927 ACTTTACATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (38 bp):
TAAAAATTCAATGTATCCATATATCTAATGACTTTTAA
Found at i:13892756 original size:28 final size:30
Alignment explanation
Indices: 13892725--13892795 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 30
13892715 AATTAATAAA
*
13892725 TTTATAATTTAAATATTATATTA-A-AATT
1 TTTATAATTTAAATATGATATTATATAATT
* ** *
13892753 TTTAAAATTTTGATATGATATTATATATTT
1 TTTATAATTTAAATATGATATTATATAATT
13892783 TATTATAATTTAA
1 T-TTATAATTTAA
13892796 GAACATCGTT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
28 19 0.59
29 1 0.03
30 4 0.12
31 8 0.25
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (30 bp):
TTTATAATTTAAATATGATATTATATAATT
Found at i:13894921 original size:16 final size:16
Alignment explanation
Indices: 13894902--13894939 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
13894892 TTTTAATTTT
13894902 ATATATAAGTTTTATA
1 ATATATAAGTTTTATA
13894918 ATATATAAGTTTTATA
1 ATATATAAGTTTTATA
13894934 ATATAT
1 ATATAT
13894940 CGATTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (16 bp):
ATATATAAGTTTTATA
Found at i:13896308 original size:104 final size:104
Alignment explanation
Indices: 13896128--13896332 Score: 374
Period size: 104 Copynumber: 2.0 Consensus size: 104
13896118 TCAATGGCTT
* * * *
13896128 CATCTGTTCCTATTGAATCAACCACATAGTAAAAACGAAGGCTTTCTGTTGTACAATTCACATGG
1 CATCTGCTCCTATTGAATCAACCACACAGTAAAAACGAAGGCTTTCTATTGCACAATTCACATGG
13896193 ACAATGCAATTGCATTTAGAACAAAAGTAACTCCAATGC
66 ACAATGCAATTGCATTTAGAACAAAAGTAACTCCAATGC
13896232 CATCTGCTCCTATTGAATCAACCACACAGTAAAAACGAAGGCTTTCTATTGCACAATTCACATGG
1 CATCTGCTCCTATTGAATCAACCACACAGTAAAAACGAAGGCTTTCTATTGCACAATTCACATGG
13896297 ACAATGCAATTGCATTTAGAACAAAAGTAACTCCAA
66 ACAATGCAATTGCATTTAGAACAAAAGTAACTCCAA
13896333 CGCTCTGTGT
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
104 97 1.00
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (104 bp):
CATCTGCTCCTATTGAATCAACCACACAGTAAAAACGAAGGCTTTCTATTGCACAATTCACATGG
ACAATGCAATTGCATTTAGAACAAAAGTAACTCCAATGC
Found at i:13899017 original size:3 final size:3
Alignment explanation
Indices: 13899011--13899056 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
13899001 AGGATTTGTG
13899011 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
13899057 GTAGTAGTAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13900384 original size:4 final size:4
Alignment explanation
Indices: 13900350--13900405 Score: 53
Period size: 4 Copynumber: 13.8 Consensus size: 4
13900340 ATCTTCTTCT
* *
13900350 TTTC TTTT TTATC TCTTC TTTC TTCC TTTTC TTTC TTTC TTT- TTTC TTT-
1 TTTC TTTC TT-TC T-TTC TTTC TTTC -TTTC TTTC TTTC TTTC TTTC TTTC
13900399 TTTC TTT
1 TTTC TTT
13900406 TATAATTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
3 6 0.14
4 28 0.65
5 8 0.19
6 1 0.02
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:13900406 original size:7 final size:7
Alignment explanation
Indices: 13900343--13900406 Score: 58
Period size: 7 Copynumber: 9.0 Consensus size: 7
13900333 ATTTTTAATC
13900343 TTCTTCTT
1 TTCTT-TT
13900351 TTCTTTT
1 TTCTTTT
* * *
13900358 TTATCTC
1 TTCTTTT
*
13900365 TTCTTTC
1 TTCTTTT
*
13900372 TTC-CTT
1 TTCTTTT
13900378 TTCTTTCT
1 TTCTTT-T
13900386 TTCTTTT
1 TTCTTTT
13900393 TTCTTTT
1 TTCTTTT
13900400 TTCTTTT
1 TTCTTTT
13900407 ATAATTTTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
6 4 0.09
7 30 0.65
8 12 0.26
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.77
Consensus pattern (7 bp):
TTCTTTT
Found at i:13901106 original size:20 final size:20
Alignment explanation
Indices: 13901071--13901109 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13901061 TGGAATGAGA
**
13901071 TTTACAAATTCTTTTCCATT
1 TTTACAAATTAATTTCCATT
13901091 TTTACAAATTAATTTCCAT
1 TTTACAAATTAATTTCCAT
13901110 AACAAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.18, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTACAAATTAATTTCCATT
Found at i:13903118 original size:2 final size:2
Alignment explanation
Indices: 13903113--13903139 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13903103 AAAAAAAAAA
13903113 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 A
13903140 GAGAGAGAGA
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13903144 original size:2 final size:2
Alignment explanation
Indices: 13903139--13903185 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
13903129 ATATATATAT
13903139 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13903181 AG AG A
1 AG AG A
13903186 AGTTTTAAGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13906113 original size:21 final size:22
Alignment explanation
Indices: 13906064--13906113 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
13906054 TATATTTTAA
*
13906064 AATTTTAACAAAAATTATAAAT
1 AATTTTAACAAAAATTAAAAAT
*
13906086 AAATTTAACAAAAA-TAAAAAT
1 AATTTTAACAAAAATTAAAAAT
*
13906107 TATTTTA
1 AATTTTA
13906114 TGTTTTGCGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (22 bp):
AATTTTAACAAAAATTAAAAAT
Found at i:13906185 original size:32 final size:31
Alignment explanation
Indices: 13906145--13906204 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 31
13906135 TATAACATAT
*
13906145 AATTTTAATGTAAAATACAATATAAATATAC
1 AATTTTAATATAAAATACAATATAAATATAC
***
13906176 AATTATTAATATTTTATACAATATAAATA
1 AATT-TTAATATAAAATACAATATAAATA
13906205 CATAAATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 4 0.17
32 20 0.83
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (31 bp):
AATTTTAATATAAAATACAATATAAATATAC
Found at i:13918134 original size:22 final size:21
Alignment explanation
Indices: 13918104--13918144 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
13918094 TTCTTTTATA
*
13918104 AATTTTTACGACATTTATAATG
1 AATTCTTAC-ACATTTATAATG
*
13918126 AATTCTTACCCATTTATAA
1 AATTCTTACACATTTATAA
13918145 AGAGAATCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.37, C:0.15, G:0.05, T:0.44
Consensus pattern (21 bp):
AATTCTTACACATTTATAATG
Found at i:13918158 original size:35 final size:35
Alignment explanation
Indices: 13918119--13918186 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
13918109 TTACGACATT
13918119 TATAATGAATTCTTACC-CATTTATAAAGAGAATCA
1 TATAATGAATTCTTACCACATTTATAAA-AGAATCA
* *
13918154 TATAATGAGTTCTTTCCAACATTTATAAAAGAA
1 TATAATGAATTCTTACC-ACATTTATAAAAGAA
13918187 ATTTAGAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
35 15 0.52
36 4 0.14
37 10 0.34
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (35 bp):
TATAATGAATTCTTACCACATTTATAAAAGAATCA
Found at i:13919251 original size:163 final size:166
Alignment explanation
Indices: 13919043--13919356 Score: 492
Period size: 165 Copynumber: 1.9 Consensus size: 166
13919033 TCTTTTCTCT
13919043 TTTTCTTTTTCTTCTTCTTCCTTTTCTCTCTTTTACATCTTCTTTCTTTTA-TCTTTTAAT-TTT
1 TTTTCTTTTTCTTCTTCTTCCTTTTCTCTCTTTTACATCTTCTTTCTTTTATTCTTTTAATATTT
* * * *
13919106 TCCCTTTTTATAATTTTTAAAATCTTTTTTGGTGAATAAACTACAAACAATACAGGATAAACTTA
66 TCCCTTTTTATAATTTTCAAAATCCTTTTTCGTGAATAAACTACAAACAATACAAGATAAACTTA
*
13919171 GATTTGCTTTCAAAAATCTTGAGGAGAATAAAGTAA
131 GATTTGCCTTCAAAAATCTTGAGGAGAATAAAGTAA
* * * *
13919207 TTTT-TTTTTCTTTTTCTT-CTTTATCTCTTTTTTACCTCTTCTTTCTTTTATTTTTTTAATATT
1 TTTTCTTTTTCTTCTTCTTCCTTT-TCTCTCTTTTACATCTTCTTTCTTTTATTCTTTTAATATT
* *
13919270 TTCTCTTTTTATAATTTTCAAAATCCTTTTTCGTGAATAAACTACATACAATACAAGATAAACTT
65 TTCCCTTTTTATAATTTTCAAAATCCTTTTTCGTGAATAAACTACAAACAATACAAGATAAACTT
13919335 AGATTTGCCTTCAAAAATCTTG
130 AGATTTGCCTTCAAAAATCTTG
13919357 GATTACTTTA
Statistics
Matches: 136, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
162 4 0.03
163 38 0.28
164 12 0.09
165 82 0.60
ACGTcount: A:0.26, C:0.16, G:0.06, T:0.52
Consensus pattern (166 bp):
TTTTCTTTTTCTTCTTCTTCCTTTTCTCTCTTTTACATCTTCTTTCTTTTATTCTTTTAATATTT
TCCCTTTTTATAATTTTCAAAATCCTTTTTCGTGAATAAACTACAAACAATACAAGATAAACTTA
GATTTGCCTTCAAAAATCTTGAGGAGAATAAAGTAA
Found at i:13920013 original size:2 final size:2
Alignment explanation
Indices: 13920002--13920040 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
13919992 TGACATCCTT
13920002 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13920041 AAATTTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:13920129 original size:16 final size:16
Alignment explanation
Indices: 13920087--13920152 Score: 51
Period size: 16 Copynumber: 3.9 Consensus size: 16
13920077 GGTCATCTTG
*
13920087 AAATGAAAAAAAGAATA
1 AAAT-AAAAAAAGAAAA
* * *
13920104 AAAGAGAAAATGAAAA
1 AAATAAAAAAAGAAAA
*
13920120 AAATAAAAAATGTGAAAA
1 AAATAAAAAA--AGAAAA
*
13920138 CAATAAAAAAAGAAA
1 AAATAAAAAAAGAAA
13920153 TTAAAGAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
16 21 0.54
17 3 0.08
18 15 0.38
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.11
Consensus pattern (16 bp):
AAATAAAAAAAGAAAA
Found at i:13921781 original size:17 final size:18
Alignment explanation
Indices: 13921751--13921784 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
13921741 CTGGTTTGAT
13921751 CCTTTAGAAAAAGAAACG
1 CCTTTAGAAAAAGAAACG
13921769 CCTTTAG-AAAAGAAAC
1 CCTTTAGAAAAAGAAAC
13921785 CTTTTGCTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.50, C:0.18, G:0.15, T:0.18
Consensus pattern (18 bp):
CCTTTAGAAAAAGAAACG
Found at i:13925022 original size:11 final size:11
Alignment explanation
Indices: 13925006--13925030 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13924996 AATTAATTGG
13925006 ATTAAGCTTTA
1 ATTAAGCTTTA
13925017 ATTAAGCTTTA
1 ATTAAGCTTTA
13925028 ATT
1 ATT
13925031 TAGTGCTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (11 bp):
ATTAAGCTTTA
Found at i:13925069 original size:19 final size:19
Alignment explanation
Indices: 13925026--13925062 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13925016 AATTAAGCTT
*
13925026 TAATTTAGTGCTGAAATTA
1 TAATTTAATGCTGAAATTA
13925045 TAATTTAATGCTGAAATT
1 TAATTTAATGCTGAAATT
13925063 TGAATTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (19 bp):
TAATTTAATGCTGAAATTA
Found at i:13931059 original size:19 final size:19
Alignment explanation
Indices: 13931035--13931071 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13931025 ATGATATTTG
*
13931035 GCCAAGTTAAGCTCTTTTA
1 GCCAAGGTAAGCTCTTTTA
13931054 GCCAAGGTAAGCTCTTTT
1 GCCAAGGTAAGCTCTTTT
13931072 GACCAAGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (19 bp):
GCCAAGGTAAGCTCTTTTA
Found at i:13931077 original size:19 final size:19
Alignment explanation
Indices: 13931031--13931078 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
13931021 ATCAATGATA
* *
13931031 TTTGGCCAAGTTAAGCTCT
1 TTTGACCAAGGTAAGCTCT
13931050 TTT-AGCCAAGGTAAGCTCT
1 TTTGA-CCAAGGTAAGCTCT
13931069 TTTGACCAAG
1 TTTGACCAAG
13931079 CTAATCCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 24 0.96
20 1 0.04
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (19 bp):
TTTGACCAAGGTAAGCTCT
Found at i:13931877 original size:47 final size:46
Alignment explanation
Indices: 13931826--13931935 Score: 112
Period size: 47 Copynumber: 2.3 Consensus size: 46
13931816 TTTGTGAACA
* * * *
13931826 CAATTTGTCGAGATGAGCTTTTTTGCCAAGTTAAGTCTTTATGAAAG
1 CAATTTGTC-AGATGAGATCTTTTGCCAAGGTAAGCCTTTATGAAAG
* * * *
13931873 CAATTTGTCAAACTAAGATCTTTTGCTAAGGTAAGCCTTTATGAAGG
1 CAATTTGTCAGA-TGAGATCTTTTGCCAAGGTAAGCCTTTATGAAAG
*
13931920 CAATTTATCTAGATGA
1 CAATTTGTC-AGATGA
13931936 ACTCTTCGAC
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
46 2 0.04
47 46 0.92
48 2 0.04
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (46 bp):
CAATTTGTCAGATGAGATCTTTTGCCAAGGTAAGCCTTTATGAAAG
Done.