Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 42 of 133
Found at i:9167127 original size:61 final size:61
Alignment explanation
Indices: 9166996--9167138 Score: 144
Period size: 61 Copynumber: 2.3 Consensus size: 61
9166986 TATTGATAAC
* ** * *
9166996 TTAGTAATAAATCAATGATAACTTAATAGTAAATTATTAATAATTTAATAGTAAATCAATTTCAA
1 TTAGTAATAAAT-AAT--TAAC--AATAATAAATTACAAATAATTTAATAATAAATCAATATCAA
*
9167061 T
61 A
* * *
9167062 TTAGTAGTAATTAATTAACAATAATAAATTACAAATAATTTAATAATAAATCAGTAAT-AAA
1 TTAGTAATAAATAATTAACAATAATAAATTACAAATAATTTAATAATAAATCAAT-ATCAAA
9167123 TTAGTAATAAATAATT
1 TTAGTAATAAATAATT
9167139 TATAATTTAG
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
61 47 0.72
62 1 0.02
63 4 0.06
65 3 0.05
66 10 0.15
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.38
Consensus pattern (61 bp):
TTAGTAATAAATAATTAACAATAATAAATTACAAATAATTTAATAATAAATCAATATCAAA
Found at i:9167192 original size:43 final size:44
Alignment explanation
Indices: 9167139--9167239 Score: 107
Period size: 43 Copynumber: 2.3 Consensus size: 44
9167129 ATAAATAATT
* * **
9167139 TATAATTTAGTAATTA-TTCATTGAAAATGTAAAAGTAAATCAG
1 TATAACTTAGTAATTACATCATTGAAAACATAAAAGTAAATCAG
* * *
9167182 TATAACTTAGTAA-TACATCATTGATAACATAAATGTTAATCAG
1 TATAACTTAGTAATTACATCATTGAAAACATAAAAGTAAATCAG
*
9167225 TGATAACTTAATAAT
1 T-ATAACTTAGTAAT
9167240 AAATCATACA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
42 2 0.04
43 34 0.72
44 11 0.23
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.37
Consensus pattern (44 bp):
TATAACTTAGTAATTACATCATTGAAAACATAAAAGTAAATCAG
Found at i:9167266 original size:43 final size:43
Alignment explanation
Indices: 9167174--9167335 Score: 105
Period size: 43 Copynumber: 3.8 Consensus size: 43
9167164 AATGTAAAAG
* * ** * * *
9167174 TAAATCAGT-ATAACTTAGTAATACATCATTGATAACATAAATG
1 TAAATCAGTGATAACTTAATAATAAATCATAAATAA-TTTAATA
* *
9167217 TTAATCAGTGATAACTTAATAATAAATCATACATAATTTAATA
1 TAAATCAGTGATAACTTAATAATAAATCATAAATAATTTAATA
* * * * *
9167260 TAAATCACG-AATAACTTCATAGTGAATCATAAATAATTTAGTGA
1 TAAATCA-GTGATAACTTAATAATAAATCATAAATAATTTAAT-A
* * ** *
9167304 TAAATTAATGATAA-TTTGTAATAAATAATAAA
1 TAAATCAGTGATAACTTAATAATAAATCATAAA
9167336 AAAATTAAGT
Statistics
Matches: 92, Mismatches: 23, Indels: 8
0.75 0.19 0.07
Matches are distributed among these distances:
43 58 0.63
44 34 0.37
ACGTcount: A:0.49, C:0.09, G:0.08, T:0.35
Consensus pattern (43 bp):
TAAATCAGTGATAACTTAATAATAAATCATAAATAATTTAATA
Found at i:9167273 original size:21 final size:22
Alignment explanation
Indices: 9167227--9167276 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
9167217 TTAATCAGTG
*
9167227 ATAACTTAATAATAAATCATAC
1 ATAACTTAATAATAAATCAGAC
*
9167249 ATAATTTAAT-ATAAATCACGA-
1 ATAACTTAATAATAAATCA-GAC
9167270 ATAACTT
1 ATAACTT
9167277 CATAGTGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.34
Consensus pattern (22 bp):
ATAACTTAATAATAAATCAGAC
Found at i:9167470 original size:22 final size:22
Alignment explanation
Indices: 9167421--9167472 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
9167411 TTAGTACTAA
* *
9167421 ATTAATAACTTAGTAGTAAACC
1 ATTAATAACATAATAGTAAACC
* **
9167443 ACTAATAACATAATAGTAAATT
1 ATTAATAACATAATAGTAAACC
9167465 ATTAATAA
1 ATTAATAA
9167473 TTAAGTCATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.33
Consensus pattern (22 bp):
ATTAATAACATAATAGTAAACC
Found at i:9167484 original size:22 final size:22
Alignment explanation
Indices: 9167459--9167521 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
9167449 AACATAATAG
*
9167459 TAAATTATTAATAATTAAGTCA
1 TAAATTATTAATAATTAAGTAA
* * *
9167481 TAAATTAGTGATAATTTAGTAA
1 TAAATTATTAATAATTAAGTAA
*
9167503 TAAATTAGTTAATCATTAA
1 TAAATTA-TTAATAATTAA
9167522 TAAGTTTTAG
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
22 25 0.78
23 7 0.22
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (22 bp):
TAAATTATTAATAATTAAGTAA
Found at i:9167494 original size:11 final size:11
Alignment explanation
Indices: 9167459--9167511 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
9167449 AACATAATAG
*
9167459 TAAATTATTAA
1 TAAATTAGTAA
*
9167470 T-AATTAAGTCA
1 TAAATT-AGTAA
*
9167481 TAAATTAGTGA
1 TAAATTAGTAA
*
9167492 TAATTTAGTAA
1 TAAATTAGTAA
9167503 TAAATTAGT
1 TAAATTAGT
9167512 TAATCATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 4 0.12
11 26 0.76
12 4 0.12
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (11 bp):
TAAATTAGTAA
Found at i:9167696 original size:22 final size:22
Alignment explanation
Indices: 9167642--9167702 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
9167632 ACTTAATGGC
* *
9167642 AAATCATTCATAAATTAGAAAT
1 AAATCATTGATAATTTAGAAAT
*
9167664 AAATCATTGATAATTTAGTAAT
1 AAATCATTGATAATTTAGAAAT
9167686 AAAT-ATATGATAATTTA
1 AAATCAT-TGATAATTTA
9167703 ATTGTTAATC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
21 2 0.06
22 33 0.94
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.38
Consensus pattern (22 bp):
AAATCATTGATAATTTAGAAAT
Found at i:9167718 original size:22 final size:22
Alignment explanation
Indices: 9167610--9167720 Score: 75
Period size: 22 Copynumber: 5.1 Consensus size: 22
9167600 AATCACCAAC
* *
9167610 AATTTAAT-AGAAATCATTCAT
1 AATTTAATAATAAATCATTGAT
* *** *
9167631 AACTTAATGGCAAATCATTCAT
1 AATTTAATAATAAATCATTGAT
*
9167653 AAATTAGA-AATAAATCATTGAT
1 AATTTA-ATAATAAATCATTGAT
*
9167675 AATTTAGTAATAAAT-ATATGAT
1 AATTTAATAATAAATCAT-TGAT
** *
9167697 AATTTAATTGTTAATCATTGAT
1 AATTTAATAATAAATCATTGAT
9167719 AA
1 AA
9167721 ATTTTTTTGT
Statistics
Matches: 71, Mismatches: 14, Indels: 9
0.76 0.15 0.10
Matches are distributed among these distances:
21 9 0.13
22 59 0.83
23 3 0.04
ACGTcount: A:0.47, C:0.07, G:0.08, T:0.38
Consensus pattern (22 bp):
AATTTAATAATAAATCATTGAT
Found at i:9168023 original size:22 final size:22
Alignment explanation
Indices: 9167963--9168428 Score: 135
Period size: 22 Copynumber: 21.0 Consensus size: 22
9167953 TACAACATAT
*
9167963 TAGTAAATCAATGATAAGTTAA
1 TAGTAAATCAATGATAACTTAA
* *
9167985 TA-TAAAACAAATAATAACTTAA
1 TAGTAAATC-AATGATAACTTAA
* *
9168007 TAGTTAATCATTGATAACTTAA
1 TAGTAAATCAATGATAACTTAA
* * *
9168029 CAATAAATTAATGATAACTTAA
1 TAGTAAATCAATGATAACTTAA
* * * *
9168051 TAGTAAATTAGTAATGACTTAA
1 TAGTAAATCAATGATAACTTAA
** ***
9168073 TAGTAAATCAATTTTGGTTTAGTA
1 TAGTAAATCAATGATAACTTA--A
* * * *
9168097 CTAGTAAATCATTAATTATTTAA
1 -TAGTAAATCAATGATAACTTAA
* * * * *
9168120 TAGTAAATTAGTAATAATTTAG
1 TAGTAAATCAATGATAACTTAA
* * * * *
9168142 TAATTAATCATTAAAAACTTAA
1 TAGTAAATCAATGATAACTTAA
* *
9168164 AAGTAAATCAAT-ATAATTTAGTA
1 TAGTAAATCAATGATAACTTA--A
* * *
9168187 CTAATTAATC-ATCAATAACTTAA
1 -TAGTAAATCAAT-GATAACTTAA
* *
9168210 TAGTAAAT-TATGAATAATTTAA
1 TAGTAAATCAATG-ATAACTTAA
* * *
9168232 TA-TAAATTAGTGATAACTTGA
1 TAGTAAATCAATGATAACTTAA
* * *
9168253 TAATAAATC-ATGGCTAATTTAA
1 TAGTAAATCAAT-GATAACTTAA
* ** * **
9168275 TAATAAATCTGTGATAATTTTG
1 TAGTAAATCAATGATAACTTAA
* * * **
9168297 TA-AAAAT-AATAAAAAAATAA
1 TAGTAAATCAATGATAACTTAA
9168317 GTAGTAAATCAATGATAA-TATAA
1 -TAGTAAATCAATGATAACT-TAA
* *
9168340 TAGTAAATGC-ATAATAACATAA
1 TAGTAAAT-CAATGATAACTTAA
* * * *
9168362 TAGTAAATTATTGACAATTTAGA
1 TAGTAAATCAATGATAACTTA-A
* * *
9168385 T-GTAAATTATTGATAACTTAG
1 TAGTAAATCAATGATAACTTAA
* *
9168406 TAGTAAATCACTAATAACTTAA
1 TAGTAAATCAATGATAACTTAA
9168428 T
1 T
9168429 TCAATTACAA
Statistics
Matches: 325, Mismatches: 94, Indels: 50
0.69 0.20 0.11
Matches are distributed among these distances:
20 5 0.02
21 33 0.10
22 235 0.72
23 22 0.07
24 7 0.02
25 23 0.07
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (22 bp):
TAGTAAATCAATGATAACTTAA
Found at i:9168271 original size:43 final size:44
Alignment explanation
Indices: 9168201--9168291 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 44
9168191 TTAATCATCA
* *
9168201 ATAACTTAATAGTAAATTATGAATAATTTAAT-ATAAAT-TAGTG
1 ATAACTTAATAATAAATCATGAATAATTTAATAATAAATCT-GTG
* **
9168244 ATAACTTGATAATAAATCATGGCTAATTTAATAATAAATCTGTG
1 ATAACTTAATAATAAATCATGAATAATTTAATAATAAATCTGTG
9168288 ATAA
1 ATAA
9168292 TTTTGTAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
43 27 0.66
44 13 0.32
45 1 0.02
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.37
Consensus pattern (44 bp):
ATAACTTAATAATAAATCATGAATAATTTAATAATAAATCTGTG
Found at i:9168547 original size:22 final size:21
Alignment explanation
Indices: 9168465--9168560 Score: 72
Period size: 22 Copynumber: 4.5 Consensus size: 21
9168455 TTAATTATTG
9168465 ATAACTTTATAGTAAATCATCA
1 ATAA-TTTATAGTAAATCATCA
* * *
9168487 ATACATTAATAGTAAATAAGT-T
1 ATA-ATTTATAGTAAATCA-TCA
**
9168509 ATAAATTTATAACAAATCATCA
1 AT-AATTTATAGTAAATCATCA
*
9168531 ATAATTTAGTAGTAAAT--TAA
1 ATAATTTA-TAGTAAATCATCA
9168551 ATAATTTATA
1 ATAATTTATA
9168561 ACTTAGTAGT
Statistics
Matches: 58, Mismatches: 11, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
19 2 0.03
20 10 0.17
21 7 0.12
22 36 0.62
23 3 0.05
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (21 bp):
ATAATTTATAGTAAATCATCA
Found at i:9168557 original size:41 final size:42
Alignment explanation
Indices: 9168478--9168562 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 42
9168468 ACTTTATAGT
9168478 AAATCATCAATACATTAATAGTAAATAAGTTATAAATTTATAAC
1 AAATCATCAATACATTAATAGTAAATAA--TATAAATTTATAAC
*
9168522 AAATCATCAATA-ATTTAGTAGTAAATTAA-AT-AATTTATAAC
1 AAATCATCAATACA-TTAATAGTAAA-TAATATAAATTTATAAC
9168563 TTAGTAGTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
41 10 0.26
42 2 0.05
43 1 0.03
44 22 0.58
45 3 0.08
ACGTcount: A:0.52, C:0.08, G:0.05, T:0.35
Consensus pattern (42 bp):
AAATCATCAATACATTAATAGTAAATAATATAAATTTATAAC
Found at i:9168626 original size:22 final size:22
Alignment explanation
Indices: 9168548--9168668 Score: 82
Period size: 22 Copynumber: 5.5 Consensus size: 22
9168538 AGTAGTAAAT
* * *
9168548 TAAATAATTTATAACTTAGTAG
1 TAAATCATTGATAACTTAATAG
* ** * *
9168570 TAAATCATTTATAAAGTAACAA
1 TAAATCATTGATAACTTAATAG
* *
9168592 TATATCATTGATAACTTAGTAG
1 TAAATCATTGATAACTTAATAG
*
9168614 TAAATCATAGATAA-TATAATAG
1 TAAATCATTGATAACT-TAATAG
* * * *
9168636 TAAATTAATCATAACTTAATTG
1 TAAATCATTGATAACTTAATAG
*
9168658 TCAATCATTGA
1 TAAATCATTGA
9168669 ATTTTTTTTT
Statistics
Matches: 72, Mismatches: 25, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
21 1 0.01
22 70 0.97
23 1 0.01
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.37
Consensus pattern (22 bp):
TAAATCATTGATAACTTAATAG
Found at i:9168650 original size:44 final size:44
Alignment explanation
Indices: 9168558--9168653 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 44
9168548 TAAATAATTT
** * * *
9168558 ATAACTTAGTAGTAAATCATTTATAAAGTAACAATATATCATTG
1 ATAACTTAGTAGTAAATCATAGATAAAGTAACAATAAATCAATC
* * *
9168602 ATAACTTAGTAGTAAATCATAGATAATA-TAATAGTAAATTAATC
1 ATAACTTAGTAGTAAATCATAGATAA-AGTAACAATAAATCAATC
9168646 ATAACTTA
1 ATAACTTA
9168654 ATTGTCAATC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
44 42 0.98
45 1 0.02
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.35
Consensus pattern (44 bp):
ATAACTTAGTAGTAAATCATAGATAAAGTAACAATAAATCAATC
Found at i:9169014 original size:21 final size:21
Alignment explanation
Indices: 9168989--9169038 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
9168979 CATTAAGAGG
9168989 TTACCAAAATGT-TATCAATAA
1 TTACCAAAAT-TATATCAATAA
* * *
9169010 TTACCCAAATTATATCATTAG
1 TTACCAAAATTATATCAATAA
9169031 TTACCAAA
1 TTACCAAA
9169039 CTAATATTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.34
Consensus pattern (21 bp):
TTACCAAAATTATATCAATAA
Found at i:9169082 original size:21 final size:21
Alignment explanation
Indices: 9169057--9169103 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
9169047 GAAGGTTGCA
* *
9169057 AAAATTGTATCAAAGATTATC
1 AAAATTATATCAAAAATTATC
*
9169078 AAAATTATATTAAAAATTATC
1 AAAATTATATCAAAAATTATC
9169099 AAAAT
1 AAAAT
9169104 CAAAATTATA
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:0.55, C:0.06, G:0.04, T:0.34
Consensus pattern (21 bp):
AAAATTATATCAAAAATTATC
Found at i:9169128 original size:27 final size:27
Alignment explanation
Indices: 9169075--9169130 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
9169065 ATCAAAGATT
*
9169075 ATCAAAATTATATTAAAAATTATCAAA
1 ATCAAAATTATATTAAAAATTACCAAA
*
9169102 ATCAAAATTATA-TAAAACGTTACCAAA
1 ATCAAAATTATATTAAAA-ATTACCAAA
9169129 AT
1 AT
9169131 TTACTTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (27 bp):
ATCAAAATTATATTAAAAATTACCAAA
Found at i:9169184 original size:9 final size:9
Alignment explanation
Indices: 9169170--9169195 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9169160 CTATTAGTGT
9169170 TTATCATTA
1 TTATCATTA
9169179 TTATCATTA
1 TTATCATTA
9169188 TTATCATT
1 TTATCATT
9169196 GTATAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.58
Consensus pattern (9 bp):
TTATCATTA
Found at i:9170237 original size:55 final size:54
Alignment explanation
Indices: 9170150--9170253 Score: 181
Period size: 55 Copynumber: 1.9 Consensus size: 54
9170140 GTAAACAAGC
9170150 TATTACATCAACAAATTATAATGTGAAAGTTATTAAATGATAACTTAATAACATG
1 TATTACATCAACAAATTATAATGTGAAAGTTATTAAATGA-AACTTAATAACATG
* *
9170205 TATTACATCAACAAATTATAATGTGAATGTTATTAAATGAAATTTAATA
1 TATTACATCAACAAATTATAATGTGAAAGTTATTAAATGAAACTTAATA
9170254 CATATTACAT
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
54 8 0.17
55 39 0.83
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.37
Consensus pattern (54 bp):
TATTACATCAACAAATTATAATGTGAAAGTTATTAAATGAAACTTAATAACATG
Found at i:9170239 original size:30 final size:30
Alignment explanation
Indices: 9170150--9170239 Score: 75
Period size: 30 Copynumber: 3.2 Consensus size: 30
9170140 GTAAACAAGC
*
9170150 TATTACATCAACAAATTATAATGTGAAAGT
1 TATTACATCAACAAATTATAATGTGAATGT
* * * * *
9170180 TATTAAAT-GATAACTTAATAA----CATG-
1 TATTACATCAACAAATT-ATAATGTGAATGT
9170205 TATTACATCAACAAATTATAATGTGAATGT
1 TATTACATCAACAAATTATAATGTGAATGT
9170235 TATTA
1 TATTA
9170240 AATGAAATTT
Statistics
Matches: 42, Mismatches: 11, Indels: 14
0.63 0.16 0.21
Matches are distributed among these distances:
25 11 0.26
26 7 0.17
29 8 0.19
30 16 0.38
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.37
Consensus pattern (30 bp):
TATTACATCAACAAATTATAATGTGAATGT
Found at i:9171193 original size:500 final size:501
Alignment explanation
Indices: 9170251--9171335 Score: 1809
Period size: 500 Copynumber: 2.2 Consensus size: 501
9170241 ATGAAATTTA
*
9170251 ATACATATTACATAAATTATGATAATACAAGCACGTAAACTAGCTATTACATCAACAAATTATAA
1 ATACATATTACATAAATTATGATCATACAAGCACGTAAACTAGCTATTACATCAACAAATTATAA
* * *
9170316 TGTGAAAGTTATTAAATGAAATAAATTTTTATAAATAAAAATTACTCGTGTGTAATGCACGTTTC
66 TGTGAAAGTTATTAAATGAAATAAACTTTTATAAATAAAAATTACTCGTGTGTAACGCACGTATC
*
9170381 AAACATTAGTAAAAAAAAGTTCACGATTAAGCACTTAAATTTTGTTTTTGTCAAACATTGTGACC
131 AAACACTAGTAAAAAAAAGTTCACGATTAAGCACTTAAATTTTGTTTTTGTCAAACATTGTGACC
* * * *
9170446 TACACTAATTTTGTTAATGATAAGTTGGAGCGATAAAAAAATAACCAGTAATTAATATCATAATA
196 TACACTAATTTTGTTAATGATAAGCTGAAGCAATAAAAAAATAACCAATAATTAATATCATAATA
* * * *
9170511 TATGGCACATTTTTATTTATCAATATTTACCAAATTAGTTTTTTGACTTACAATGTTAGTCCATG
261 TATGGCACATTTCTATTTATCAATATTTACCAAATTAGCTTTTTGACATACAATGCTAGTCCATG
* * * *
9170576 TTGCAAAATTTTGATGGAAACAAAATTTGTAAACTTAATTGCTATTTTTTATAAGTATCAAATTA
326 CTGCAAAATTTTGATGGAAACAAAATTTATAAACTTAATCGCAATTTTTTATAAGTATCAAATTA
9170641 TTAAAAATAATAAATTCAAAGATCAAATAACATGTTAACCCAAATTAATAAGATCCTACAGAAAA
391 TTAAAAATAATAAATTCAAAGATCAAATAACATGTTAACCCAAATTAATAAGATCCTAC-GAAAA
* * *
9170706 AA-GATGGCCTTGTATGTTCAAAGAGTATAACAATAAATATCTATGC
455 AAGGATGGCCTTGTAGGTTCAAAGAATATAACAATAAATATCTATAC
* *
9170752 ATACATATTGCATAAATTATGATCATACATGCACGTAAACTAGCTATTACATCAACAAATTATAA
1 ATACATATTACATAAATTATGATCATACAAGCACGTAAACTAGCTATTACATCAACAAATTATAA
*
9170817 TGTGAAAGTTATTAAATGAAATAAACTTTTATAAATAAAAATTACAT-GTGTGTCACGCACGTAT
66 TGTGAAAGTTATTAAATGAAATAAACTTTTATAAATAAAAATTAC-TCGTGTGTAACGCACGTAT
* *
9170881 CAAACCCTAGTAAAAAATA-TTCACGATTAAGCACTTAAATTTTGTTTTTGTCAAACATTGTGAC
130 CAAACACTAGTAAAAAAAAGTTCACGATTAAGCACTTAAATTTTGTTTTTGTCAAACATTGTGAC
*
9170945 CTACATTAATTTTGTTAATGATAAGCTGAAGCAATAAAAAAATAACCAATAATTAATATCATAAT
195 CTACACTAATTTTGTTAATGATAAGCTGAAGCAATAAAAAAATAACCAATAATTAATATCATAAT
* * *
9171010 ATGTGGCACATTTCTATTTATCAATATTTGCCAAATTAGCTTTTTGACATACAGTGCTAGTCCAT
260 ATATGGCACATTTCTATTTATCAATATTTACCAAATTAGCTTTTTGACATACAATGCTAGTCCAT
*
9171075 GCTGCAAAATTTTGATGGAAACAAAATTTATAAACTTAATCGCAATTTTTTTTAAGTATCAAATT
325 GCTGCAAAATTTTGATGGAAACAAAATTTATAAACTTAATCGCAATTTTTTATAAGTATCAAATT
*
9171140 ATTAAAAATAATAAATTCAAAGATCAAATTACATGTTAACCCAAATTAATAAGATCCTACGAAAA
390 ATTAAAAATAATAAATTCAAAGATCAAATAACATGTTAACCCAAATTAATAAGATCCTACGAAAA
9171205 AAGGATGGCCTTGTAGGTTCAAAGAATATAACAATAAATATCTATAC
455 AAGGATGGCCTTGTAGGTTCAAAGAATATAACAATAAATATCTATAC
* * *
9171252 ATACATATTACATAAATTATGATCATGCACA-CACATAAACTAGCTATTAAATCAACAAATTATA
1 ATACATATTACATAAATTATGATCATACA-AGCACGTAAACTAGCTATTACATCAACAAATTATA
9171316 ATGTGAAAGTTATTAAATGA
65 ATGTGAAAGTTATTAAATGA
9171336 TAATTTAATT
Statistics
Matches: 545, Mismatches: 36, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
499 7 0.01
500 401 0.74
501 136 0.25
502 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.34
Consensus pattern (501 bp):
ATACATATTACATAAATTATGATCATACAAGCACGTAAACTAGCTATTACATCAACAAATTATAA
TGTGAAAGTTATTAAATGAAATAAACTTTTATAAATAAAAATTACTCGTGTGTAACGCACGTATC
AAACACTAGTAAAAAAAAGTTCACGATTAAGCACTTAAATTTTGTTTTTGTCAAACATTGTGACC
TACACTAATTTTGTTAATGATAAGCTGAAGCAATAAAAAAATAACCAATAATTAATATCATAATA
TATGGCACATTTCTATTTATCAATATTTACCAAATTAGCTTTTTGACATACAATGCTAGTCCATG
CTGCAAAATTTTGATGGAAACAAAATTTATAAACTTAATCGCAATTTTTTATAAGTATCAAATTA
TTAAAAATAATAAATTCAAAGATCAAATAACATGTTAACCCAAATTAATAAGATCCTACGAAAAA
AGGATGGCCTTGTAGGTTCAAAGAATATAACAATAAATATCTATAC
Found at i:9188765 original size:21 final size:20
Alignment explanation
Indices: 9188724--9188766 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
9188714 TTTTTTTATA
** *
9188724 ATTTTTATTTATTTTATTTT
1 ATTTTTATTTAAATTAATTT
9188744 ATTTTATATTTAAATTAATTT
1 ATTTT-TATTTAAATTAATTT
9188765 AT
1 AT
9188767 ATAAAAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
ATTTTTATTTAAATTAATTT
Found at i:9188911 original size:103 final size:103
Alignment explanation
Indices: 9188792--9189045 Score: 247
Period size: 104 Copynumber: 2.5 Consensus size: 103
9188782 TAATCCTTTT
* ** * **
9188792 AAAA-TATTAGAAAATTTAAATCTCAAACTAAATCC-TAGTAAATTATTGGAGAGTTTAATTATT
1 AAAACTATTA-AAAATTTAAATCTCAAATTAAATCCTTACCAAACTATTAAAGAGTTTAATT-TT
* *
9188855 TTT-TAGAAAAAA-AAATTTTTAATA-TTTTTTTAATTCAGT-C
64 TTTATA-AAAAAAGAAATTTATAA-ACATTTTTTAA-TC-GTAC
* * *
9188895 -AAACTATTAAATAATTTAAATATCAAATTGAA-CCTTACCAAACTATTAAAGGGTTTAATTTTT
1 AAAACTATTAAA-AATTTAAATCTCAAATTAAATCCTTACCAAACTATTAAAGAGTTTAATTTTT
9188958 TTATAAAAAAAGTAAATTTATAAACATTTTTTAATCGTAC
65 TTATAAAAAAAG-AAATTTATAAACATTTTTTAATCGTAC
* *
9188998 AAAACTATTAAAAAATTTAAATCTCGAATTAAAT-CTTATCAAACTATT
1 AAAACTATT-AAAAATTTAAATCTCAAATTAAATCCTTACCAAACTATT
9189046 GATAAATTTA
Statistics
Matches: 125, Mismatches: 15, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
102 20 0.16
103 47 0.38
104 55 0.44
105 3 0.02
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (103 bp):
AAAACTATTAAAAATTTAAATCTCAAATTAAATCCTTACCAAACTATTAAAGAGTTTAATTTTTT
TATAAAAAAAGAAATTTATAAACATTTTTTAATCGTAC
Found at i:9189086 original size:22 final size:21
Alignment explanation
Indices: 9189047--9189087 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
9189037 CAAACTATTG
* *
9189047 ATAAATTTAATAATGTTTTAA
1 ATAAATTCAATAAAGTTTTAA
9189068 ATAAATTCATATAAAGTTTT
1 ATAAATTCA-ATAAAGTTTT
9189088 GATTATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (21 bp):
ATAAATTCAATAAAGTTTTAA
Found at i:9194801 original size:15 final size:15
Alignment explanation
Indices: 9194781--9194809 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9194771 AGAAGCTTGC
9194781 GAGTTTCTAAAATTT
1 GAGTTTCTAAAATTT
9194796 GAGTTTCTAAAATT
1 GAGTTTCTAAAATT
9194810 GATAAAATAT
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:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (15 bp):
GAGTTTCTAAAATTT
Found at i:9200630 original size:42 final size:42
Alignment explanation
Indices: 9200532--9200675 Score: 171
Period size: 42 Copynumber: 3.4 Consensus size: 42
9200522 TTTGAAAATA
* * * * * *
9200532 AAATTTTAAAATTGTATGCCTCTGTTTAGAAGAGCTTTTTTTTTT
1 AAATTTTAAAGTTGTGTGCCTCTATTTAGATGAG---TCTTTTTC
*
9200577 AAATTTAAAAGTTGTGTGCCTCTATTTAGATGAGTCTTTTTC
1 AAATTTTAAAGTTGTGTGCCTCTATTTAGATGAGTCTTTTTC
* * *
9200619 AAATTTTAAAGTTGTGTGCCTATATTAAGATGAGCCTTTTTC
1 AAATTTTAAAGTTGTGTGCCTCTATTTAGATGAGTCTTTTTC
9200661 AAATTTTAAAGTTGT
1 AAATTTTAAAGTTGT
9200676 TAAGCCTCTG
Statistics
Matches: 88, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
42 59 0.67
45 29 0.33
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (42 bp):
AAATTTTAAAGTTGTGTGCCTCTATTTAGATGAGTCTTTTTC
Found at i:9200810 original size:44 final size:43
Alignment explanation
Indices: 9200664--9200967 Score: 208
Period size: 44 Copynumber: 7.0 Consensus size: 43
9200654 CTTTTTCAAA
* * * *
9200664 TTTT-AAAGTTGTTAAGCCTCTGTTGAGAA-G-TCTTTTATG-T
1 TTTTAAAAGTTGTTGAGCCTCTGTTTA-AATGAGCCTTTATGTT
** * *
9200704 TTTTAAAAGTCATTGAGCCTCTGTTTAAACGAGACTTTATGTT
1 TTTTAAAAGTTGTTGAGCCTCTGTTTAAATGAGCCTTTATGTT
* * * *
9200747 TTTTAAAAGTTGTTAAGCCTCTTTTTAGATGAGCCTTTGTGTT
1 TTTTAAAAGTTGTTGAGCCTCTGTTTAAATGAGCCTTTATGTT
* * *
9200790 TTTCTAAAAGTTGTTGAGCCTCTATTTAAATGAGTCTTTTATGAT
1 TTT-TAAAAGTTGTTGAGCCTCTGTTTAAATGAG-CCTTTATGTT
* * * *
9200835 TTTTAAAAGTCT-TTGAGCTTCTGTTTAGATGAACCTTTTATATT
1 TTTTAAAAGT-TGTTGAGCCTCTGTTTAAATGAGCC-TTTATGTT
* ** * * * * **
9200879 TTTCAAAAGTCATTAAGCTTTTATTTAAGGGAGCCTCTTATGTT
1 TTTTAAAAGTTGTTGAGCCTCTGTTTAAATGAGCCT-TTATGTT
* * *
9200923 TTTT-AAAGTTCTTGAGCCTCTATATATAA-GAGCCTTTTATGTT
1 TTTTAAAAGTTGTTGAGCCTCTGTTTA-AATGAGCC-TTTATGTT
9200966 TT
1 TT
9200968 GCAAAAAAAA
Statistics
Matches: 206, Mismatches: 46, Indels: 21
0.75 0.17 0.08
Matches are distributed among these distances:
40 6 0.03
41 19 0.09
42 6 0.03
43 71 0.34
44 93 0.45
45 11 0.05
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.47
Consensus pattern (43 bp):
TTTTAAAAGTTGTTGAGCCTCTGTTTAAATGAGCCTTTATGTT
Found at i:9200812 original size:87 final size:87
Alignment explanation
Indices: 9200664--9200967 Score: 271
Period size: 88 Copynumber: 3.5 Consensus size: 87
9200654 CTTTTTCAAA
* *
9200664 TTTT-AAAGTTGTTAAGCCTCTGTTGAGA--AGTCTTTTATGTTTTTAAAAGTCATTGAGCCTCT
1 TTTTAAAAGTTGTTAAGCCTCTGTTTAGATGAGCCTTTTATGTTTTTAAAAGTCATTGAGCCTCT
* *
9200726 GTTTAAACGAGAC-TTTATGTT
66 ATTTAAACGAGACTTTTATGAT
* * **
9200747 TTTTAAAAGTTGTTAAGCCTCTTTTTAGATGAGCC-TTTGTGTTTTTCTAAAAGTTGTTGAGCCT
1 TTTTAAAAGTTGTTAAGCCTCTGTTTAGATGAGCCTTTTATG-TTTT-TAAAAGTCATTGAGCCT
* *
9200811 CTATTTAAATGAGTCTTTTATGAT
64 CTATTTAAACGAGACTTTTATGAT
* * * * * *
9200835 TTTTAAAAGTCT-TTGAGCTTCTGTTTAGATGAACCTTTTATATTTTTCAAAAGTCATTAAGCTT
1 TTTTAAAAGT-TGTTAAGCCTCTGTTTAGATGAGCCTTTTATGTTTTT-AAAAGTCATTGAGCCT
* ** * *
9200899 TTATTTAAGGGAGCCTCTTATG-T
64 CTATTTAAACGAGACTTTTATGAT
* * * * * * *
9200922 TTTTTAAAGTTCTTGAGCCTCTATATATAAGAGCCTTTTATGTTTT
1 TTTTAAAAGTTGTTAAGCCTCTGTTTAGATGAGCCTTTTATGTTTT
9200968 GCAAAAAAAA
Statistics
Matches: 178, Mismatches: 33, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
83 4 0.02
84 22 0.12
85 5 0.03
86 8 0.04
87 65 0.37
88 69 0.39
89 5 0.03
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.47
Consensus pattern (87 bp):
TTTTAAAAGTTGTTAAGCCTCTGTTTAGATGAGCCTTTTATGTTTTTAAAAGTCATTGAGCCTCT
ATTTAAACGAGACTTTTATGAT
Found at i:9201188 original size:18 final size:18
Alignment explanation
Indices: 9201165--9201201 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9201155 GAATTTTAGG
*
9201165 ATTTTATTATTTTACTTT
1 ATTTTATTAATTTACTTT
*
9201183 ATTTTATTAATTTAGTTT
1 ATTTTATTAATTTACTTT
9201201 A
1 A
9201202 GGATTATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.68
Consensus pattern (18 bp):
ATTTTATTAATTTACTTT
Found at i:9201567 original size:5 final size:5
Alignment explanation
Indices: 9201557--9201581 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
9201547 TTCTAAGGAG
9201557 GATTT GATTT GATTT GATTT GATTT
1 GATTT GATTT GATTT GATTT GATTT
9201582 AAAAAAGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
GATTT
Found at i:9202033 original size:20 final size:20
Alignment explanation
Indices: 9202005--9202046 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
9201995 TTTTTTTGTA
*
9202005 TTTTTTATTTTAATT-ATTT
1 TTTTTTATTTAAATTAATTT
9202024 TTTTTGTATTTAAATTAATTT
1 TTTTT-TATTTAAATTAATTT
9202045 TT
1 TT
9202047 ATAAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 9 0.45
21 6 0.30
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTTTTATTTAAATTAATTT
Found at i:9202268 original size:105 final size:103
Alignment explanation
Indices: 9202044--9202320 Score: 282
Period size: 105 Copynumber: 2.7 Consensus size: 103
9202034 TAAATTAATT
* * * * *
9202044 TTTATAAAAATATTTTTTAATCCTACCAAATTATTGAAGGATTT-AA-ATC---TTAAATCCTAT
1 TTTAT-AAAA-ATTTTGTAATCCTACCAAATTATTAAAGAATTTAAATATCAAATTAAATCTTAC
* * * * *
9202104 CAAACTCTTAGA-TGGTTTAATTATTTTTCAGAAAGGTAAA
64 CAAATTATTGGAGT-GTTTAATTATTTTTAAAAAAGGTAAA
* * * * *
9202144 TTTATAAATATTTTTTAATCCTATCAAATTATTAAA-AGATTTAAATCTCAAATTTAA-CATTAC
1 TTTATAAAAATTTTGTAATCCTACCAAATTATTAAAGA-ATTTAAATATCAAATTAAATC-TTAC
9202207 CAAATTATTGGAGTGTTTAATTATTTTTTTAAAAAAGGTAAA
64 CAAATTATTGGAGTGTTTAATTA--TTTTTAAAAAAGGTAAA
* *
9202249 TTTATAAAAATTTTGTAATCTTACCAAATTATTAGAGAATTTAAATATCAAATTAAATCTTACCA
1 TTTATAAAAATTTTGTAATCCTACCAAATTATTAAAGAATTTAAATATCAAATTAAATCTTACCA
9202314 AATTATT
66 AATTATT
9202321 TGGAAGATTT
Statistics
Matches: 145, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
98 29 0.20
99 5 0.03
100 7 0.05
102 1 0.01
103 24 0.17
104 1 0.01
105 76 0.52
106 2 0.01
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (103 bp):
TTTATAAAAATTTTGTAATCCTACCAAATTATTAAAGAATTTAAATATCAAATTAAATCTTACCA
AATTATTGGAGTGTTTAATTATTTTTAAAAAAGGTAAA
Found at i:9202344 original size:105 final size:105
Alignment explanation
Indices: 9202135--9202341 Score: 276
Period size: 105 Copynumber: 2.0 Consensus size: 105
9202125 TATTTTTCAG
* * * * *
9202135 AAAGGTAAATTTATAAATATTTTTTAATCCTATCAAATTATTAAAAGATTTAAATCTCAAATTTA
1 AAAGGTAAATTTATAAAAATTTTGTAATCCTACCAAATTATTAAAAGATTTAAATATCAAATTAA
* *
9202200 ACATTACCAAATTATTGGAGTGTTTAATTATTTTTTTAAA
66 ACATTACCAAATTATTGGAGTATTTAATGATTTTTTTAAA
* *
9202240 AAAGGTAAATTTATAAAAATTTTGTAATCTTACCAAATTATT-AGAGAATTTAAATATCAAATTA
1 AAAGGTAAATTTATAAAAATTTTGTAATCCTACCAAATTATTAAAAG-ATTTAAATATCAAATTA
9202304 AATC-TTACCAAATTATTTGGAAG-ATTTAATGATTTTTT
65 AA-CATTACCAAATTA-TTGG-AGTATTTAATGATTTTTT
9202342 AAACAAATTC
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
104 3 0.03
105 66 0.74
106 18 0.20
107 2 0.02
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.43
Consensus pattern (105 bp):
AAAGGTAAATTTATAAAAATTTTGTAATCCTACCAAATTATTAAAAGATTTAAATATCAAATTAA
ACATTACCAAATTATTGGAGTATTTAATGATTTTTTTAAA
Found at i:9210886 original size:15 final size:15
Alignment explanation
Indices: 9210866--9210901 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
9210856 GTAAGAATGG
9210866 AAGATTTGCAAGACA
1 AAGATTTGCAAGACA
*
9210881 AAGATTTGTAAGACA
1 AAGATTTGCAAGACA
9210896 AAGATT
1 AAGATT
9210902 CACATTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.47, C:0.08, G:0.19, T:0.25
Consensus pattern (15 bp):
AAGATTTGCAAGACA
Found at i:9211100 original size:22 final size:21
Alignment explanation
Indices: 9211075--9211155 Score: 63
Period size: 22 Copynumber: 3.6 Consensus size: 21
9211065 AAACTTAGAG
9211075 ATTCACATCGAAAATTTCAAAA
1 ATTCACATC-AAAATTTCAAAA
* *
9211097 ATTCACATTCAAAAATTTTAATA
1 ATTCACA-TC-AAAATTTCAAAA
* * *
9211120 TTTCATAAACAAAATTTCAAAA
1 ATTCA-CATCAAAATTTCAAAA
*
9211142 ATTCTCATCCAAAA
1 ATTCACAT-CAAAA
9211156 ATTTTTAGGG
Statistics
Matches: 44, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
21 1 0.02
22 25 0.57
23 17 0.39
24 1 0.02
ACGTcount: A:0.49, C:0.17, G:0.01, T:0.32
Consensus pattern (21 bp):
ATTCACATCAAAATTTCAAAA
Found at i:9211124 original size:23 final size:22
Alignment explanation
Indices: 9211075--9211159 Score: 73
Period size: 23 Copynumber: 3.8 Consensus size: 22
9211065 AAACTTAGAG
*
9211075 ATTCACATCGAAAATTTCAAAA
1 ATTCACATCAAAAATTTCAAAA
* *
9211097 ATTCACATTCAAAAATTTTAATA
1 ATTCACA-TCAAAAATTTCAAAA
* * *
9211120 TTTCATA-AACAAAATTTCAAAA
1 ATTCACATCA-AAAATTTCAAAA
*
9211142 ATTCTCATCCAAAAATTT
1 ATTCACAT-CAAAAATTT
9211160 TTAGGGTTTC
Statistics
Matches: 47, Mismatches: 12, Indels: 7
0.71 0.18 0.11
Matches are distributed among these distances:
21 1 0.02
22 21 0.45
23 24 0.51
24 1 0.02
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.34
Consensus pattern (22 bp):
ATTCACATCAAAAATTTCAAAA
Found at i:9211180 original size:45 final size:45
Alignment explanation
Indices: 9211085--9211214 Score: 125
Period size: 46 Copynumber: 2.8 Consensus size: 45
9211075 ATTCACATCG
* *
9211085 AAAATTTCAAAAATTCACATTCAAAAATTTTAATATTTCATAAAC
1 AAAATTTCAAAAATTCACATCCAAAAATTTTAAGATTTCATAAAC
* * * **
9211130 AAAATTTCAAAAATTCTCATCCAAAAATTTTTAGGGTTTCATATCC
1 AAAATTTCAAAAATTCACATCCAAAAA-TTTTAAGATTTCATAAAC
* * * **
9211176 AAATTTTTAAATATTCACATTTGAAAAATTTTAGAGATT
1 AAAATTTCAAAAATTCACA-TCCAAAAATTTTA-AGATT
9211215 CACATCTAAA
Statistics
Matches: 67, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
45 25 0.37
46 33 0.49
47 9 0.13
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (45 bp):
AAAATTTCAAAAATTCACATCCAAAAATTTTAAGATTTCATAAAC
Found at i:9212682 original size:24 final size:25
Alignment explanation
Indices: 9212650--9212696 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
9212640 TTTCTTTTTT
9212650 TTTTCTTTTTCCTTCTCATTTTTCC
1 TTTTCTTTTTCCTTCTCATTTTTCC
* *
9212675 TTTT-TTTTTCTTTTTCATTTTT
1 TTTTCTTTTTCCTTCTCATTTTT
9212697 TAGTTTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (25 bp):
TTTTCTTTTTCCTTCTCATTTTTCC
Found at i:9212695 original size:7 final size:6
Alignment explanation
Indices: 9212640--9212696 Score: 55
Period size: 6 Copynumber: 9.5 Consensus size: 6
9212630 TGTCTATCAA
* * *
9212640 TTTCTT TTT-TT TTTCTT TTTCCT TCTCATT TTTCCT TTT-TT TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTC-TT TTTCTT TTTCTT TTTCTT
9212687 TTTCATT TTT
1 TTTC-TT TTT
9212697 TAGTTTTTGA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
5 9 0.22
6 23 0.56
7 9 0.22
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTCTT
Found at i:9216251 original size:4 final size:4
Alignment explanation
Indices: 9216242--9216267 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
9216232 AAAATTATTG
9216242 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
9216268 ATACAAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:9216999 original size:103 final size:103
Alignment explanation
Indices: 9216831--9217028 Score: 261
Period size: 103 Copynumber: 1.9 Consensus size: 103
9216821 AAGCTTTTAC
**
9216831 TTGTGAAAACAATTTAATATTAAAAATATCTTCCAATATATTGGTAAAATTTTTTGTCAAAAATT
1 TTGTGAAAACAATTTAATATTAAAAATATCTTCCAATATATTGGTAAAATTTTTCATCAAAAATT
*
9216896 ATCCTCCAATCTATTGGTAAGATTAAAAATTTAATTGT
66 ATCCTCCAATCTATTAGTAAGATTAAAAATTTAATTGT
* * * * * * * * * *
9216934 TTGTGAGACCAATTTATTTTTAGAAATATCTTCTAATATGTTGGTAAGATTTTTCATTAAGAATT
1 TTGTGAAAACAATTTAATATTAAAAATATCTTCCAATATATTGGTAAAATTTTTCATCAAAAATT
* *
9216999 ATCCTCCAATCTATTAGTAGGATTTAAAAT
66 ATCCTCCAATCTATTAGTAAGATTAAAAAT
9217029 ATATATTTTT
Statistics
Matches: 80, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
103 80 1.00
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.42
Consensus pattern (103 bp):
TTGTGAAAACAATTTAATATTAAAAATATCTTCCAATATATTGGTAAAATTTTTCATCAAAAATT
ATCCTCCAATCTATTAGTAAGATTAAAAATTTAATTGT
Found at i:9217242 original size:28 final size:28
Alignment explanation
Indices: 9217197--9217259 Score: 82
Period size: 23 Copynumber: 2.4 Consensus size: 28
9217187 CAAATAATAC
9217197 CATGCAATAATAATAT-A-AT--A-TAT
1 CATGCAATAATAATATAACATAAACTAT
9217220 CATGCAATAATAATATAACATAAACTAT
1 CATGCAATAATAATATAACATAAACTAT
*
9217248 CATGCCATAATA
1 CATGCAATAATA
9217260 TAATATACAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
23 16 0.47
24 1 0.03
25 2 0.06
27 1 0.03
28 14 0.41
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (28 bp):
CATGCAATAATAATATAACATAAACTAT
Found at i:9219997 original size:54 final size:54
Alignment explanation
Indices: 9219939--9220045 Score: 205
Period size: 54 Copynumber: 2.0 Consensus size: 54
9219929 ATATATAAAC
*
9219939 TAATTTTGAGAATGATTTCAAAAAATGATAATAACAAGGTTTTAATTTTTATTA
1 TAATTTTGAGAATGATTTCAAAAAATGATAATAACAAGGTATTAATTTTTATTA
9219993 TAATTTTGAGAATGATTTCAAAAAATGATAATAACAAGGTATTAATTTTTATT
1 TAATTTTGAGAATGATTTCAAAAAATGATAATAACAAGGTATTAATTTTTATT
9220046 GTTATCATTA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.42
Consensus pattern (54 bp):
TAATTTTGAGAATGATTTCAAAAAATGATAATAACAAGGTATTAATTTTTATTA
Found at i:9224665 original size:22 final size:22
Alignment explanation
Indices: 9224639--9224683 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
9224629 GGCAGAGATA
*
9224639 AATTGTGGCTTGTGTTCTCAAT
1 AATTGTGGCTTGTGCTCTCAAT
* *
9224661 AATTGTGGTTTGTGCTGTCAAT
1 AATTGTGGCTTGTGCTCTCAAT
9224683 A
1 A
9224684 TAGCTTTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.11, G:0.24, T:0.44
Consensus pattern (22 bp):
AATTGTGGCTTGTGCTCTCAAT
Found at i:9225646 original size:7 final size:7
Alignment explanation
Indices: 9225634--9225667 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
9225624 TTTAGTAGCA
9225634 TTTCTAT
1 TTTCTAT
9225641 TTTCTAT
1 TTTCTAT
9225648 TTTCTAT
1 TTTCTAT
9225655 TTT-TAT
1 TTTCTAT
9225661 TTT-TAT
1 TTTCTAT
9225667 T
1 T
9225668 ATTTTTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 10 0.37
7 17 0.63
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTCTAT
Found at i:9225848 original size:42 final size:42
Alignment explanation
Indices: 9225799--9225885 Score: 129
Period size: 42 Copynumber: 2.1 Consensus size: 42
9225789 TACCATTTTC
* *
9225799 TTTTTATTTTTAATATTTTTGAAAATTAAAAATAAATATCTG
1 TTTTTATTTTTAATATTTTTGAAAATTAAAAATAAAAAACTG
* **
9225841 TTTTTATTTTTAATATTTTTTAAAATTGGAAATAAAAAACTG
1 TTTTTATTTTTAATATTTTTGAAAATTAAAAATAAAAAACTG
9225883 TTT
1 TTT
9225886 ACCTTTTTCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (42 bp):
TTTTTATTTTTAATATTTTTGAAAATTAAAAATAAAAAACTG
Found at i:9226129 original size:50 final size:50
Alignment explanation
Indices: 9226066--9226202 Score: 148
Period size: 42 Copynumber: 2.9 Consensus size: 50
9226056 CTATTTTTTG
*
9226066 TTTTTATTTTTAATAATTTTT-AAAATTAGAAATAAAAATCTGTTATTATT
1 TTTTTATTTTTAAT-ATTTTTGAAAATTAAAAATAAAAATCTGTTATTATT
* *
9226116 TTTTTATTTTTAATATTTTTGAAAGTTAAAAAT-AAAA-----T-TT-TG
1 TTTTTATTTTTAATATTTTTGAAAATTAAAAATAAAAATCTGTTATTATT
** *
9226158 TTTTTATTTTTAATATTTTTGAAAATTACGAATAAAAATATGTTA
1 TTTTTATTTTTAATATTTTTGAAAATTAAAAATAAAAATCTGTTA
9226203 GTACTATTAT
Statistics
Matches: 73, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
42 31 0.42
43 6 0.08
44 1 0.01
48 1 0.01
49 10 0.14
50 24 0.33
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.53
Consensus pattern (50 bp):
TTTTTATTTTTAATATTTTTGAAAATTAAAAATAAAAATCTGTTATTATT
Found at i:9227857 original size:143 final size:142
Alignment explanation
Indices: 9227704--9227991 Score: 504
Period size: 143 Copynumber: 2.0 Consensus size: 142
9227694 AATTTTAGTT
*
9227704 AAAGAAATAATTAGTAAAATTTTTTAATAGTTTAAAAAGATTTACTTTAATGCAGATCTCCCAAT
1 AAAGAAATAATTAGTAAAATTTTTTAATAGTTTAAAAAGATTTACTTTAATGCAAATCTCCCAAT
*
9227769 AGTTTAATAAGATTTTATTATAAGATTATTTTTTGAAAATATATTAAATCTTTCAATAGTTTGAT
66 AATTTAATAAGATTTTATTATAAGATTA-TTTTTGAAAATATATTAAATCTTTCAATAGTTTGAT
9227834 ATGATTTAATTTA
130 ATGATTTAATTTA
* * *
9227847 AAAGAAATAATTAGTTAAATTTTTTAATAGTTTAAAAAGATTTACTTTGATGCAAATCTCTCAAT
1 AAAGAAATAATTAGTAAAATTTTTTAATAGTTTAAAAAGATTTACTTTAATGCAAATCTCCCAAT
* *
9227912 AATTTAATGAGATTTTATTATAAGATTATTTTTGAAAATATATTAAATCTTTCAATAGTTTGGTA
66 AATTTAATAAGATTTTATTATAAGATTATTTTTGAAAATATATTAAATCTTTCAATAGTTTGATA
9227977 TGATTTAATTTA
131 TGATTTAATTTA
9227989 AAA
1 AAA
9227992 TGCAAATCCT
Statistics
Matches: 138, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
142 51 0.37
143 87 0.63
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.44
Consensus pattern (142 bp):
AAAGAAATAATTAGTAAAATTTTTTAATAGTTTAAAAAGATTTACTTTAATGCAAATCTCCCAAT
AATTTAATAAGATTTTATTATAAGATTATTTTTGAAAATATATTAAATCTTTCAATAGTTTGATA
TGATTTAATTTA
Found at i:9228233 original size:20 final size:19
Alignment explanation
Indices: 9228205--9228242 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
9228195 AGTAAAGCTT
*
9228205 TTATTTAAATTTTTATTTTG
1 TTATATAAATTTTT-TTTTG
9228225 TTATATAAATTTTTTTTT
1 TTATATAAATTTTTTTTT
9228243 AAGAATACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (19 bp):
TTATATAAATTTTTTTTTG
Found at i:9228276 original size:20 final size:20
Alignment explanation
Indices: 9228253--9228296 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
9228243 AAGAATACCA
9228253 AAAACAAT-AGACAAATAAAT
1 AAAACAATGA-ACAAATAAAT
* *
9228273 AAAAGAATGAATAAATAAAT
1 AAAACAATGAACAAATAAAT
9228293 AAAA
1 AAAA
9228297 TAACCTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.73, C:0.05, G:0.07, T:0.16
Consensus pattern (20 bp):
AAAACAATGAACAAATAAAT
Found at i:9229608 original size:65 final size:66
Alignment explanation
Indices: 9229526--9229849 Score: 228
Period size: 66 Copynumber: 4.9 Consensus size: 66
9229516 ATCAAACTAT
* * * * *
9229526 GAGTCAGAAAAATAAAATGATTTGGACCTAGCTAAGAT-ATAAAGGAGTGCT-AAGATTGAACCG
1 GAGTCAGAAAAATAAAATGATTTGGACCGAGCCAAGATCAAAAAAGAGTGATCAAGATTGAACCG
9229589 C
66 C
* * *
9229590 GAGTCAAAAAAATAAAAATGATTTGGACCGAGCCGAGATCAAAAAAGAGTGATCAAGATTGAATC
1 GAGTCAGAAAAAT-AAAATGATTTGGACCGAGCCAAGATCAAAAAAGAGTGATCAAGATTGAACC
9229655 GC
65 GC
* * * ** * ** * * * * *
9229657 GAGTTAGAAAAATAAAATGATTTGGATCAAATCGAGAT-TGAAACGAGTAATCAGGATCGAACCT
1 GAGTCAGAAAAATAAAATGATTTGGACCGAGCCAAGATCAAAAAAGAGTGATCAAGATTGAACCG
9229721 C
66 C
* * * * * * *
9229722 AAGTCAAAAAAAATAAAATGATCTGGATCGAGCCAAAATCAAATATAA-A-TGATCGAGATCGAA
1 GAGTC-AGAAAAATAAAATGATTTGGACCGAGCCAAGATCAAA-A-AAGAGTGATCAAGATTGAA
*
9229785 CCAC
63 CCGC
* * * * * * * * *
9229789 GAGTCAAAAAAATAAAATGATCTAGATCGAGTCGAGATC-AAAACGAATAATCAAGATTGAA
1 GAGTCAGAAAAATAAAATGATTTGGACCGAGCCAAGATCAAAAAAGAGTGATCAAGATTGAA
9229850 TCGTGGGTCG
Statistics
Matches: 204, Mismatches: 47, Indels: 17
0.76 0.18 0.06
Matches are distributed among these distances:
63 1 0.00
64 14 0.07
65 57 0.28
66 87 0.43
67 42 0.21
68 2 0.01
69 1 0.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (66 bp):
GAGTCAGAAAAATAAAATGATTTGGACCGAGCCAAGATCAAAAAAGAGTGATCAAGATTGAACCG
C
Found at i:9229763 original size:132 final size:132
Alignment explanation
Indices: 9229591--9229841 Score: 301
Period size: 132 Copynumber: 1.9 Consensus size: 132
9229581 TTGAACCGCG
* * * * *
9229591 AGTCAAAAAAATAAAAATGATTTGGACCGAGCCGAGATCAAA-A-AAGAGTGATCAAGATTGAAT
1 AGTCAAAAAAATAAAAATGATCTGGACCGAGCCAAAATCAAATATAA-A-TGATCAAGATCGAAC
* * * * * ** *
9229654 CGCGAGTTAGAAAAATAAAATGATTTGGATCAAATCGAGATTGAAACGAGTAATCAGGATCGAAC
64 CACGAGTCAAAAAAATAAAATGATCTAGATCAAATCGAGATCAAAACGAATAATCAGGATCGAAC
9229719 CTCA
129 CTCA
* *
9229723 AGTCAAAAAAA-ATAAAATGATCTGGATCGAGCCAAAATCAAATATAAATGATCGAGATCGAACC
1 AGTCAAAAAAATA-AAAATGATCTGGACCGAGCCAAAATCAAATATAAATGATCAAGATCGAACC
* *
9229787 ACGAGTCAAAAAAATAAAATGATCTAGATCGAGTCGAGATCAAAACGAATAATCA
65 ACGAGTCAAAAAAATAAAATGATCTAGATCAAATCGAGATCAAAACGAATAATCA
9229842 AGATTGAATC
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
131 1 0.01
132 94 0.95
133 2 0.02
134 2 0.02
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.20
Consensus pattern (132 bp):
AGTCAAAAAAATAAAAATGATCTGGACCGAGCCAAAATCAAATATAAATGATCAAGATCGAACCA
CGAGTCAAAAAAATAAAATGATCTAGATCAAATCGAGATCAAAACGAATAATCAGGATCGAACCT
CA
Found at i:9229864 original size:66 final size:65
Alignment explanation
Indices: 9229577--9229869 Score: 253
Period size: 66 Copynumber: 4.4 Consensus size: 65
9229567 AAGGAGTGCT
* * * * *
9229577 AAGATTGAACCGCGAGTCAAAAAAATAAAAATGATTTGGACCGAGCCGAGATCAAAAAAGAGTGA
1 AAGATTGAACCGCGAGTCAAAAAAAT-AAAATGATCTGGATCGAGCCGAGATC-AAAACGAATAA
9229642 TC
64 TC
* * * * * ** ** *
9229644 AAGATTGAATCGCGAGTTAGAAAAATAAAATGATTTGGATCAAATCGAGATTGAAACGAGTAATC
1 AAGATTGAACCGCGAGTCAAAAAAATAAAATGATCTGGATCGAGCCGAGATCAAAACGAATAATC
* * * * * * ** *
9229709 AGGATCGAACCTCAAGTCAAAAAAAATAAAATGATCTGGATCGAGCCAAAATCAAATATAAATGA
1 AAGATTGAACCGCGAGTC-AAAAAAATAAAATGATCTGGATCGAGCCGAGATCAAA-ACGAATAA
9229774 TC
64 TC
* * * * *
9229776 GAGATCGAACCACGAGTCAAAAAAATAAAATGATCTAGATCGAGTCGAGATCAAAACGAATAATC
1 AAGATTGAACCGCGAGTCAAAAAAATAAAATGATCTGGATCGAGCCGAGATCAAAACGAATAATC
* * * *
9229841 AAGATTGAATCGTGGGTCGAAAAAATAAA
1 AAGATTGAACCGCGAGTCAAAAAAATAAA
9229870 TTCAAAATTT
Statistics
Matches: 176, Mismatches: 48, Indels: 6
0.77 0.21 0.03
Matches are distributed among these distances:
65 51 0.29
66 82 0.47
67 43 0.24
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.19
Consensus pattern (65 bp):
AAGATTGAACCGCGAGTCAAAAAAATAAAATGATCTGGATCGAGCCGAGATCAAAACGAATAATC
Found at i:9229864 original size:132 final size:130
Alignment explanation
Indices: 9229577--9229869 Score: 293
Period size: 132 Copynumber: 2.2 Consensus size: 130
9229567 AAGGAGTGCT
* * * *
9229577 AAGATTGAACCGCGAGTCAAAAAAATAAAAATGATTTGGACCGAGCCGAGATCAAAAAAGAGTGA
1 AAGATTGAA-CGTGAGTCAAAAAAAT-AAAATGATCTGGACCGAGCCAAAATCAAAAAAGAGTGA
* * * * * * * ** *
9229642 TCAAGATTGAATCGCGAGTTAGAAAAATAAAATGATTTGGATCAAATCGAGATTGAAACGAGTAA
64 TCAAGATCGAACCACGAGTCAAAAAAATAAAATGATCTAGATCAAATCGAGATCAAAACGAATAA
9229707 TC
129 TC
* * * * *
9229709 AGGATCGAACCTCAAGTCAAAAAAAATAAAATGATCTGGATCGAGCCAAAATCAAATATAA-A-T
1 AAGATTGAACGT-GAGTC-AAAAAAATAAAATGATCTGGACCGAGCCAAAATCAAA-A-AAGAGT
* * *
9229772 GATCGAGATCGAACCACGAGTCAAAAAAATAAAATGATCTAGATCGAGTCGAGATCAAAACGAAT
62 GATCAAGATCGAACCACGAGTCAAAAAAATAAAATGATCTAGATCAAATCGAGATCAAAACGAAT
9229837 AATC
127 AATC
* *
9229841 AAGATTGAATCGTGGGTCGAAAAAATAAA
1 AAGATTGAA-CGTGAGTCAAAAAAATAAA
9229870 TTCAAAATTT
Statistics
Matches: 128, Mismatches: 28, Indels: 11
0.77 0.17 0.07
Matches are distributed among these distances:
131 11 0.09
132 103 0.80
133 12 0.09
134 2 0.02
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.19
Consensus pattern (130 bp):
AAGATTGAACGTGAGTCAAAAAAATAAAATGATCTGGACCGAGCCAAAATCAAAAAAGAGTGATC
AAGATCGAACCACGAGTCAAAAAAATAAAATGATCTAGATCAAATCGAGATCAAAACGAATAATC
Found at i:9231537 original size:15 final size:15
Alignment explanation
Indices: 9231517--9231561 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
9231507 GCCCCATCAA
9231517 TTTCTCTTTCATT-TT
1 TTTCTCTTT-ATTCTT
9231532 TTTCTCTTTATTC-T
1 TTTCTCTTTATTCTT
9231546 TTT-T-TTTATTCTT
1 TTTCTCTTTATTCTT
9231559 TTT
1 TTT
9231562 TTTCATTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 7 0.25
13 5 0.18
14 7 0.25
15 9 0.32
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTCTCTTTATTCTT
Found at i:9231562 original size:11 final size:12
Alignment explanation
Indices: 9231538--9231574 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
9231528 TTTTTTTCTC
9231538 TTTATTCTTTTT
1 TTTATTCTTTTT
9231550 TTTATTCTTTTT
1 TTTATTCTTTTT
*
9231562 TTTCATTATTTTT
1 TTT-ATTCTTTTT
9231575 CAAGAAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 15 0.65
13 8 0.35
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTATTCTTTTT
Found at i:9234692 original size:263 final size:260
Alignment explanation
Indices: 9234221--9234742 Score: 913
Period size: 263 Copynumber: 2.0 Consensus size: 260
9234211 GTATGGCATT
* * *
9234221 CTGTTAGATGAGACATTCAGGTTAGTTTCATGTTCTTATTTCGATGCAATGCATCATTTGGTTTA
1 CTGTTAGATGAGACATTCAAGTTAGTTTCATGTTCTTATTTCGAAGCAATACATCATTTGGTTTA
* *
9234286 TATGCGAAAGACTTAATGGAAATGAATATTGATTCTATTTTCACATCATTTCATTTCACACTATC
66 GATGCGAAAGACCTAATGGAAATGAATATTGATTCTATTTTCACATCATTTCATTTCACACTATC
9234351 ATACTACTACTTCTAAAGTGTTTATGATTTTGTGTGTACATATCTTATTGATACAATGCATTTTG
131 ATACTACTACTTCTAAAGTGTTTATGATTTTGTGTGTACATATCTTATTGATACAATGCATTTTG
*
9234416 GAAGCTCATAAATGCATGTTGCTGTTACTATTTTTGAATAATTCATAAATCTATATACTTGTATG
196 GAAGCTCATAAATGCATGTTGCTATTACTATTTTTGAATAATTCATAAATCTATATACTTGTATG
9234481 CTGTTAGATGAGACATTCAAGTTAGTTTCATGTTCTTATTTCGAAGCAATACATCATTTGGTTTA
1 CTGTTAGATGAGACATTCAAGTTAGTTTCATGTTCTTATTTCGAAGCAATACATCATTTGGTTTA
*
9234546 GATGCGAAAGGACCTAATGGAAATGAATATTGATTCT-TTTTCATATCCATTTTCATTTCACGAC
66 GATGCGAAA-GACCTAATGGAAATGAATATTGATTCTATTTTCACAT-CA-TTTCATTTCAC-AC
*
9234610 TATCATACTA-TTCTTCTAAAGTGTTTATGGATTTTGTGTGTACATATCTTATTGATACAATGCA
127 TATCATACTACTACTTCTAAAGTGTTTAT-GATTTTGTGTGTACATATCTTATTGATACAATGCA
9234674 TTTTGGAAGCTCATAAATGCATGTTGCTATTACTATTTTTGAATAATTCATAAATCTATATACTT
191 TTTTGGAAGCTCATAAATGCATGTTGCTATTACTATTTTTGAATAATTCATAAATCTATATACTT
9234739 GTAT
256 GTAT
9234743 TCTATTGATA
Statistics
Matches: 249, Mismatches: 8, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
260 78 0.31
261 28 0.11
262 28 0.11
263 115 0.46
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.42
Consensus pattern (260 bp):
CTGTTAGATGAGACATTCAAGTTAGTTTCATGTTCTTATTTCGAAGCAATACATCATTTGGTTTA
GATGCGAAAGACCTAATGGAAATGAATATTGATTCTATTTTCACATCATTTCATTTCACACTATC
ATACTACTACTTCTAAAGTGTTTATGATTTTGTGTGTACATATCTTATTGATACAATGCATTTTG
GAAGCTCATAAATGCATGTTGCTATTACTATTTTTGAATAATTCATAAATCTATATACTTGTATG
Found at i:9238557 original size:5 final size:5
Alignment explanation
Indices: 9238547--9238581 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
9238537 TAGCAGTATA
9238547 CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT
9238582 TGTTTAATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
CATAT
Found at i:9239868 original size:6 final size:6
Alignment explanation
Indices: 9239857--9239884 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
9239847 ATTATATATT
9239857 ATTATA ATTATA ATTATA ATTATA ATTA
1 ATTATA ATTATA ATTATA ATTATA ATTA
9239885 GACTCACATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTATA
Found at i:9240133 original size:24 final size:23
Alignment explanation
Indices: 9240105--9240173 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 23
9240095 AAAAAAATAG
9240105 ATAAATATGTATTTTATTTTAAAT
1 ATAAATAT-TATTTTATTTTAAAT
* * *
9240129 ATAAAT-TATAATTTA-ATTATAT
1 ATAAATAT-TATTTTATTTTAAAT
* *
9240151 ATAAATATAATTTTTTTTTAAAT
1 ATAAATATTATTTTATTTTAAAT
9240174 TAAGAAATTA
Statistics
Matches: 34, Mismatches: 9, Indels: 5
0.71 0.19 0.10
Matches are distributed among these distances:
22 15 0.44
23 13 0.38
24 6 0.18
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (23 bp):
ATAAATATTATTTTATTTTAAAT
Found at i:9240226 original size:23 final size:23
Alignment explanation
Indices: 9240182--9240226 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
9240172 ATTAAGAAAT
* * *
9240182 TAAATAATATATTTATTATTAAA
1 TAAATAATAAAATAATTATTAAA
*
9240205 TAAATAATAAAATAATTTTTAA
1 TAAATAATAAAATAATTATTAA
9240227 TAATCCCGAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TAAATAATAAAATAATTATTAAA
Found at i:9241034 original size:19 final size:19
Alignment explanation
Indices: 9240988--9241034 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
9240978 GTTATCTAAT
* *
9240988 AAAGA-TAAAACGAATAAA
1 AAAGATTAAAACCAAAAAA
*
9241006 TAAG-TTAAAACCAAAAAA
1 AAAGATTAAAACCAAAAAA
9241024 AAAGATTAAAA
1 AAAGATTAAAA
9241035 AAATTAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.70, C:0.06, G:0.09, T:0.15
Consensus pattern (19 bp):
AAAGATTAAAACCAAAAAA
Found at i:9241037 original size:14 final size:14
Alignment explanation
Indices: 9241018--9241055 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
9241008 AGTTAAAACC
9241018 AAAAAAAAAGATTA
1 AAAAAAAAAGATTA
*
9241032 AAAAAATTAA-ATTA
1 AAAAAA-AAAGATTA
9241046 AAAAAAAAAG
1 AAAAAAAAAG
9241056 TAAAGAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
13 2 0.10
14 16 0.80
15 2 0.10
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (14 bp):
AAAAAAAAAGATTA
Found at i:9244611 original size:21 final size:20
Alignment explanation
Indices: 9244587--9244626 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
9244577 ATATAAATTT
9244587 TAAAAAAATAATTTTGATCAA
1 TAAAAAAATAATTTT-ATCAA
* *
9244608 TAAATAAATTATTTTATCA
1 TAAAAAAATAATTTTATCA
9244627 TAATCTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (20 bp):
TAAAAAAATAATTTTATCAA
Found at i:9247414 original size:15 final size:15
Alignment explanation
Indices: 9247374--9247406 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
9247364 AATTATCAAT
9247374 TATAAC-AATTTTTAA
1 TATAACGAA-TTTTAA
9247389 TATAACGAATTTTAA
1 TATAACGAATTTTAA
9247404 TAT
1 TAT
9247407 GAATAATTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.88
16 2 0.12
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (15 bp):
TATAACGAATTTTAA
Found at i:9248882 original size:4 final size:4
Alignment explanation
Indices: 9248873--9248899 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
9248863 CAAAACCTAT
9248873 ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA
9248900 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:9250288 original size:16 final size:15
Alignment explanation
Indices: 9250269--9250331 Score: 53
Period size: 15 Copynumber: 4.3 Consensus size: 15
9250259 AATTCAATAT
9250269 AAAAAGCATAAAAAGA
1 AAAAAGCA-AAAAAGA
*
9250285 AAAAATCAAAAAA-A
1 AAAAAGCAAAAAAGA
*
9250299 GGAAAAG--AAAAAGA
1 -AAAAAGCAAAAAAGA
*
9250313 AAAATGCAAAAAA-A
1 AAAAAGCAAAAAAGA
9250327 AAAAA
1 AAAAA
9250332 ATGAAGCTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
13 9 0.24
14 7 0.19
15 14 0.38
16 7 0.19
ACGTcount: A:0.79, C:0.05, G:0.11, T:0.05
Consensus pattern (15 bp):
AAAAAGCAAAAAAGA
Found at i:9250332 original size:28 final size:28
Alignment explanation
Indices: 9250278--9250332 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
9250268 TAAAAAGCAT
**
9250278 AAAAAGAAAAAATCAAAAAAAGGAAAAG
1 AAAAAGAAAAAATCAAAAAAAAAAAAAG
9250306 AAAAAG-AAAAATGCAAAAAAAAAAAAA
1 AAAAAGAAAAAAT-CAAAAAAAAAAAAA
9250333 TGAAGCTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.82, C:0.04, G:0.11, T:0.04
Consensus pattern (28 bp):
AAAAAGAAAAAATCAAAAAAAAAAAAAG
Found at i:9251585 original size:11 final size:11
Alignment explanation
Indices: 9251569--9251617 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
9251559 TTTAGATTAA
9251569 AAATAAAAAAG
1 AAATAAAAAAG
9251580 AAATAAAAAAG
1 AAATAAAAAAG
*
9251591 ACAA-AAAAAAC
1 A-AATAAAAAAG
9251602 AAA-AAATAAAG
1 AAATAAA-AAAG
9251613 AAATA
1 AAATA
9251618 TAAAGTGCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
10 5 0.15
11 25 0.76
12 3 0.09
ACGTcount: A:0.82, C:0.04, G:0.06, T:0.08
Consensus pattern (11 bp):
AAATAAAAAAG
Found at i:9256998 original size:29 final size:29
Alignment explanation
Indices: 9256947--9257004 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
9256937 TTTTAAACAC
* * * * *
9256947 AATATGAAAATTATATTACAAAATATATA
1 AATATAAAAATGATATGAAAAAAAATATA
9256976 AATATAAAAATGATATGAAAAAAAATATA
1 AATATAAAAATGATATGAAAAAAAATATA
9257005 CGAAAGTGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (29 bp):
AATATAAAAATGATATGAAAAAAAATATA
Found at i:9257962 original size:21 final size:22
Alignment explanation
Indices: 9257930--9257973 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
9257920 AAATAGCAAA
*
9257930 TATAATTTTTTTTATAAAAATT
1 TATAATTTTTTTAATAAAAATT
*
9257952 TATAA-TTTTTTAATAAATATT
1 TATAATTTTTTTAATAAAAATT
9257973 T
1 T
9257974 TTTCATATCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TATAATTTTTTTAATAAAAATT
Found at i:9258935 original size:2 final size:2
Alignment explanation
Indices: 9258928--9258966 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
9258918 GAATCGATCC
9258928 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
9258967 ATTCCACAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:9263531 original size:30 final size:31
Alignment explanation
Indices: 9263462--9263536 Score: 86
Period size: 29 Copynumber: 2.5 Consensus size: 31
9263452 TAACTTAATT
*
9263462 ATATATAAAT-ATAGTTTTTTATTAAATTAAA
1 ATATATAAATAATAG-TATTTATTAAATTAAA
*
9263493 ATAT-TAAATAATA-TATTTATT-AATATAAC
1 ATATATAAATAATAGTATTTATTAAAT-TAAA
9263522 ATATATAAATAATAG
1 ATATATAAATAATAG
9263537 AATCTATTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
28 3 0.08
29 14 0.37
30 14 0.37
31 7 0.18
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (31 bp):
ATATATAAATAATAGTATTTATTAAATTAAA
Found at i:9264408 original size:22 final size:20
Alignment explanation
Indices: 9264379--9264428 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
9264369 ACTTATCTAG
9264379 TAAAAAAATAAAGTTAAAAAA
1 TAAAAAAAT-AAGTTAAAAAA
* *
9264400 TAAATAAAATATGTTAAAAAG
1 TAAA-AAAATAAGTTAAAAAA
9264421 TAAAAAAA
1 TAAAAAAA
9264429 AAAATAGTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 4 0.15
21 17 0.65
22 5 0.19
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (20 bp):
TAAAAAAATAAGTTAAAAAA
Found at i:9289874 original size:22 final size:20
Alignment explanation
Indices: 9289828--9289874 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
9289818 AAATATTTAT
*
9289828 ATAA-ATATAATTGAAAATC
1 ATAATATATAATTGAAAAAC
9289847 ATAATATATAATTGAAAAGGAC
1 ATAATATATAATTGAAAA--AC
9289869 ATAATA
1 ATAATA
9289875 ATTAAGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 13 0.54
22 7 0.29
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (20 bp):
ATAATATATAATTGAAAAAC
Found at i:9294351 original size:25 final size:26
Alignment explanation
Indices: 9294303--9294352 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
9294293 ACCAATTTAT
* *
9294303 TATTCAAAGACTTGAAAATAAATAAA
1 TATTCAAAGACTTCAAAAAAAATAAA
9294329 TATTCAAAGAC-TCAAAAAAAATAA
1 TATTCAAAGACTTCAAAAAAAATAA
9294353 TAATAGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.60, C:0.10, G:0.06, T:0.24
Consensus pattern (26 bp):
TATTCAAAGACTTCAAAAAAAATAAA
Found at i:9295781 original size:15 final size:17
Alignment explanation
Indices: 9295756--9295789 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
9295746 CAAAATGAAA
9295756 AAAAATATA-TTAGGAT
1 AAAAATATATTTAGGAT
9295772 AAAAAT-TATTTAGGAT
1 AAAAATATATTTAGGAT
9295788 AA
1 AA
9295790 CTCTTTTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 15 0.88
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (17 bp):
AAAAATATATTTAGGAT
Found at i:9297238 original size:24 final size:23
Alignment explanation
Indices: 9297206--9297265 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 23
9297196 TTATAAACAT
*
9297206 AACTGTCTATTTTGAATAGATAAA
1 AACTATCTATTTTGAATA-ATAAA
*
9297230 AACTATCTATTTTTGAATAATTAA
1 AACTATCTA-TTTTGAATAATAAA
*
9297254 AATTATCTATTT
1 AACTATCTATTT
9297266 GAACTAACTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 3 0.09
24 20 0.62
25 9 0.28
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (23 bp):
AACTATCTATTTTGAATAATAAA
Found at i:9297284 original size:22 final size:23
Alignment explanation
Indices: 9297254--9297311 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
9297244 GAATAATTAA
* *
9297254 AATTATCTA-TTTGAACTAACTT
1 AATTGTCTATTTTGAACAAACTT
* *
9297276 ATTTGTCTATTTTGTACAAACTT
1 AATTGTCTATTTTGAACAAACTT
*
9297299 AATTGTCTGTTTT
1 AATTGTCTATTTT
9297312 TATCTATTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
22 7 0.24
23 22 0.76
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.52
Consensus pattern (23 bp):
AATTGTCTATTTTGAACAAACTT
Found at i:9299392 original size:19 final size:19
Alignment explanation
Indices: 9299368--9299413 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
9299358 AATCCAAGTG
*
9299368 TTATTTCCTA-TTATTAACT
1 TTATTTCATATTTATT-ACT
9299387 TTATTTCATATTTATTACT
1 TTATTTCATATTTATTACT
*
9299406 TTTTTTCA
1 TTATTTCA
9299414 AAAAGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.63
Consensus pattern (19 bp):
TTATTTCATATTTATTACT
Found at i:9306708 original size:22 final size:24
Alignment explanation
Indices: 9306673--9306720 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
9306663 TAAATTTTTA
9306673 TTAAATAATATAAATT-AT-TATT
1 TTAAATAATATAAATTAATATATT
9306695 TTAAATTAAT-TAAATTAATATATT
1 TTAAA-TAATATAAATTAATATATT
9306719 TT
1 TT
9306721 CATTTAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 11 0.48
23 6 0.26
24 6 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TTAAATAATATAAATTAATATATT
Found at i:9312601 original size:25 final size:25
Alignment explanation
Indices: 9312572--9312637 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 25
9312562 TTACTAGAAC
9312572 TATTAAAATATTAAAAATGATTTAT
1 TATTAAAATATTAAAAATGATTTAT
* * *
9312597 TATTAAAGAATATT-TAATTTATTTAT
1 TATT-AA-AATATTAAAAATGATTTAT
9312623 TATTAAAATTATTAA
1 TATTAAAA-TATTAA
9312638 TATTCAAGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
24 2 0.06
25 10 0.30
26 15 0.45
27 6 0.18
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (25 bp):
TATTAAAATATTAAAAATGATTTAT
Found at i:9312602 original size:17 final size:17
Alignment explanation
Indices: 9312580--9312612 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9312570 ACTATTAAAA
9312580 TATTAAA-AATGATTTAT
1 TATTAAAGAAT-ATTTAT
9312597 TATTAAAGAATATTTA
1 TATTAAAGAATATTTA
9312613 ATTTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (17 bp):
TATTAAAGAATATTTAT
Found at i:9312693 original size:19 final size:18
Alignment explanation
Indices: 9312658--9312703 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
9312648 TAATTATATT
9312658 TTAATAATAATATTTAATA
1 TTAA-AATAATATTTAATA
*
9312677 TTAAAATATTATATTAATA
1 TTAAAATAATAT-TTAATA
*
9312696 TAAAAATA
1 TTAAAATA
9312704 CTTAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TTAAAATAATATTTAATA
Found at i:9312750 original size:26 final size:26
Alignment explanation
Indices: 9312721--9312793 Score: 69
Period size: 26 Copynumber: 2.7 Consensus size: 26
9312711 TAAAACTATT
9312721 TATTATTTTTATATTAATATT-TT-AAA
1 TATTA-TTTT-TATTAATATTCTTAAAA
* *
9312747 TATTTAAATGTTATTAATATTCTTAAAA
1 TA-TT-ATTTTTATTAATATTCTTAAAA
*
9312775 TACTATTTTTATTAATATT
1 TATTATTTTTATTAATATT
9312794 AAAATAGTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
26 25 0.66
27 7 0.18
28 6 0.16
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (26 bp):
TATTATTTTTATTAATATTCTTAAAA
Found at i:9312816 original size:21 final size:21
Alignment explanation
Indices: 9312789--9312839 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
9312779 ATTTTTATTA
9312789 ATATTAAAATAGTAATA-TTT
1 ATATTAAAATAGTAATATTTT
* *
9312809 ATTATTAAAATATTTATATTTT
1 A-TATTAAAATAGTAATATTTT
9312831 ATATTAAAA
1 ATATTAAAA
9312840 GCATATGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 1 0.04
21 22 0.81
22 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
ATATTAAAATAGTAATATTTT
Found at i:9316609 original size:2 final size:2
Alignment explanation
Indices: 9316602--9316629 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9316592 GAAAACAAAC
9316602 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9316630 TCTCTAGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9321124 original size:16 final size:16
Alignment explanation
Indices: 9321103--9321133 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9321093 AAAAATTCAA
9321103 ATCATTTCAAGTTTGG
1 ATCATTTCAAGTTTGG
*
9321119 ATCATTTCAATTTTG
1 ATCATTTCAAGTTTG
9321134 AATTAGGTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (16 bp):
ATCATTTCAAGTTTGG
Found at i:9324586 original size:16 final size:16
Alignment explanation
Indices: 9324565--9324638 Score: 94
Period size: 16 Copynumber: 4.6 Consensus size: 16
9324555 TATCATTTCG
9324565 AATTTAAATTTAAATT
1 AATTTAAATTTAAATT
* *
9324581 AATTTAAGTTTGAATT
1 AATTTAAATTTAAATT
* * *
9324597 AATTTGATTTTAAAAT
1 AATTTAAATTTAAATT
*
9324613 AATTTAAAATTAAATT
1 AATTTAAATTTAAATT
9324629 AATTTAAATT
1 AATTTAAATT
9324639 CTGGTTGATT
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (16 bp):
AATTTAAATTTAAATT
Found at i:9325050 original size:20 final size:20
Alignment explanation
Indices: 9325014--9325052 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
9325004 ATTATTCATA
*
9325014 TTTTTGTTATTTTAGTTTTC
1 TTTTTGTTATTTAAGTTTTC
9325034 TTTTT-TTATTTAAAGTTTT
1 TTTTTGTTATTT-AAGTTTT
9325053 TCAAATAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.15, C:0.03, G:0.08, T:0.74
Consensus pattern (20 bp):
TTTTTGTTATTTAAGTTTTC
Found at i:9325099 original size:24 final size:25
Alignment explanation
Indices: 9325062--9325108 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
9325052 TTCAAATAAC
9325062 TTCATTATAATTATATAACAAACCA
1 TTCATTATAATTATATAACAAACCA
* * *
9325087 TTCA-TATCATTATTTAATAAAC
1 TTCATTATAATTATATAACAAAC
9325109 TAATTAATAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (25 bp):
TTCATTATAATTATATAACAAACCA
Found at i:9330964 original size:2 final size:2
Alignment explanation
Indices: 9330951--9330992 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
9330941 AGGTATTCTG
* * *
9330951 TC TC TG TC TC TC TC TC TC TG TC TC TG TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
9330993 GTGCACAGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.43, G:0.07, T:0.50
Consensus pattern (2 bp):
TC
Found at i:9330972 original size:20 final size:20
Alignment explanation
Indices: 9330947--9330989 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
9330937 GAGGAGGTAT
9330947 TCTGTCTCTGTCTCTCTCTC
1 TCTGTCTCTGTCTCTCTCTC
9330967 TCTGTCTCTGTCTCTCTCTC
1 TCTGTCTCTGTCTCTCTCTC
9330987 TCT
1 TCT
9330990 CTCGTGCACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.00, C:0.40, G:0.09, T:0.51
Consensus pattern (20 bp):
TCTGTCTCTGTCTCTCTCTC
Found at i:9332522 original size:28 final size:28
Alignment explanation
Indices: 9332490--9332544 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
9332480 TCGCATATTA
* *
9332490 AATATATTTAAACACGAAAATTATCATG
1 AATATATATAAACACAAAAATTATCATG
* *
9332518 AATATATATAAATATAAAAATTATCAT
1 AATATATATAAACACAAAAATTATCAT
9332545 ATATCACAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.35
Consensus pattern (28 bp):
AATATATATAAACACAAAAATTATCATG
Found at i:9333897 original size:21 final size:22
Alignment explanation
Indices: 9333872--9333922 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
9333862 TTTGTGTAAA
**
9333872 AAATATTTATTAATAT-TTTTT
1 AAATATTTAAGAATATATTTTT
*
9333893 AAATATTAAAGAATATATTTTT
1 AAATATTTAAGAATATATTTTT
*
9333915 AAAGATTT
1 AAATATTT
9333923 TATTTTTTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (22 bp):
AAATATTTAAGAATATATTTTT
Found at i:9333972 original size:131 final size:124
Alignment explanation
Indices: 9333656--9333973 Score: 290
Period size: 129 Copynumber: 2.5 Consensus size: 124
9333646 TACGAAAATG
* * * * * *
9333656 TTTTTAAAGATTTTAATTTTTTATGTGTGCGACCCACTTCCT-TCTAACTT-TTTTTTTTTTTTG
1 TTTTTAAAGATTTT-ATTTTTTGTGTGTG-GACCCACTT-ATAACAAAATTATTTTTTTTTTTTC
9333719 CTTTTTTTACTTTTTCCATTTAAAAAAATTAGTATATATTTTTAAAATTATAAAAAATACAA
63 CTTTTTTTACTTTTTCCATTTAAAAAAATTAGTATATATTTTTAAAATTATAAAAAATACAA
* * * *
9333781 ATTTTAAAGATTCTT-TTTTATGTGTG-GGACCCACTTATAATAAATTTTATTTTTTATTTTTTA
1 TTTTTAAAGATT-TTATTTTTTGTGTGTGGACCCACTTATAACAAA-ATTATTTTTT-TTTTTT-
** * * *
9333844 CCTTTTTTTAACTTTTTCTTTGTGTAAAAAATATTTATTA-ATATTTTTTAAA-TATTAAAGAAT
62 CCTTTTTTT-ACTTTTTCCAT-T-TAAAAAA-A-TTAGTATATATTTTTAAAATTA-TAAAAAAT
*
9333907 A-TA
121 ACAA
*
9333910 TTTTTAAAGATTTTATTTTTTGTGTGTGTGACCCACTTATACCAAAATTATTTTGCTTTTTTTT
1 TTTTTAAAGATTTTATTTTTTGTGTGTG-GACCCACTTATAACAAAATTATTTT--TTTTTTTT
9333974 TTACCCATTT
Statistics
Matches: 156, Mismatches: 20, Indels: 28
0.76 0.10 0.14
Matches are distributed among these distances:
121 1 0.01
122 11 0.07
123 3 0.02
124 15 0.10
125 17 0.11
126 10 0.06
127 9 0.06
128 3 0.02
129 31 0.20
130 28 0.18
131 26 0.17
132 2 0.01
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.54
Consensus pattern (124 bp):
TTTTTAAAGATTTTATTTTTTGTGTGTGGACCCACTTATAACAAAATTATTTTTTTTTTTTCCTT
TTTTTACTTTTTCCATTTAAAAAAATTAGTATATATTTTTAAAATTATAAAAAATACAA
Found at i:9334306 original size:22 final size:21
Alignment explanation
Indices: 9334277--9334317 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
9334267 TAAAAAAATT
9334277 AATAATATTTTTAAA-ATTTAA
1 AATAATA-TTTTAAAGATTTAA
9334298 AATATATATTTTAAAGATTT
1 AATA-ATATTTTAAAGATTT
9334318 TGTTTTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AATAATATTTTAAAGATTTAA
Found at i:9334665 original size:24 final size:21
Alignment explanation
Indices: 9334624--9334678 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 21
9334614 TATTTTTTTT
*
9334624 AATTTTTT-AAAAATTATTTA
1 AATTTTTTAAAAAATTATTGA
9334644 ATATTTTTTAAAAAATAATATTGA
1 A-ATTTTTTAAAAAAT--TATTGA
9334668 AATTTCTTTAA
1 AATTT-TTTAA
9334679 TATGGGTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 1 0.03
21 7 0.24
22 6 0.21
23 4 0.14
24 11 0.38
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
AATTTTTTAAAAAATTATTGA
Found at i:9335501 original size:22 final size:21
Alignment explanation
Indices: 9335476--9335525 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
9335466 GACACCCTCT
9335476 ATTTTTTTA-TCTCTTTTTTAA
1 ATTTTTTTAGTCTC-TTTTTAA
* *
9335497 AATTTTTTAGTTTCTTTTTAA
1 ATTTTTTTAGTCTCTTTTTAA
9335518 ATTTTTTT
1 ATTTTTTT
9335526 CCTTTACCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 22 0.88
22 3 0.12
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.72
Consensus pattern (21 bp):
ATTTTTTTAGTCTCTTTTTAA
Found at i:9335846 original size:29 final size:29
Alignment explanation
Indices: 9335814--9335873 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
9335804 ATTTAACATA
**
9335814 AATAAAAATATATTTTAT-ATTTTTATATT
1 AATAAAAAT-TATGATATAATTTTTATATT
*
9335843 AATATAAATTATGATATAATTTTTATATT
1 AATAAAAATTATGATATAATTTTTATATT
9335872 AA
1 AA
9335874 ATATAATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (29 bp):
AATAAAAATTATGATATAATTTTTATATT
Found at i:9335850 original size:35 final size:35
Alignment explanation
Indices: 9335806--9335917 Score: 101
Period size: 35 Copynumber: 3.3 Consensus size: 35
9335796 ATATATGAAT
* *
9335806 TTAACATAAATAAAAATATATTTTATATTTTTATA
1 TTAATATAAATAATAATATATTTTATATTTTTATA
* * * *
9335841 TTAATATAAATTATGATATAATTTT-TA-TATTAAA
1 TTAATATAAATAATAATAT-ATTTTATATTTTTATA
9335875 TATAATATAAATACATAA-AT-TTTTAT-TTTTTATA
1 T-TAATATAAATA-ATAATATATTTTATATTTTTATA
9335909 TT-ATATAAA
1 TTAATATAAA
9335918 CACACAAATT
Statistics
Matches: 62, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
32 7 0.11
33 5 0.08
34 13 0.21
35 29 0.47
36 8 0.13
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (35 bp):
TTAATATAAATAATAATATATTTTATATTTTTATA
Found at i:9335915 original size:32 final size:32
Alignment explanation
Indices: 9335826--9335927 Score: 96
Period size: 32 Copynumber: 3.0 Consensus size: 32
9335816 TAAAAATATA
*
9335826 TTTTATATTTTTATATTAATATAAATTATGATATAAT
1 TTTTAT-TTTTTATATT-ATATAAA-TA-CATA-AAT
* ** *
9335863 TTTTATATTAAATATAATATAAATACATAAAT
1 TTTTATTTTTTATATTATATAAATACATAAAT
* *
9335895 TTTTATTTTTTATATTATATAAACACACAAAT
1 TTTTATTTTTTATATTATATAAATACATAAAT
9335927 T
1 T
9335928 ATCAGATTTA
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
32 30 0.56
33 3 0.06
34 2 0.04
35 7 0.13
36 6 0.11
37 6 0.11
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (32 bp):
TTTTATTTTTTATATTATATAAATACATAAAT
Found at i:9336189 original size:21 final size:19
Alignment explanation
Indices: 9336165--9336217 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 19
9336155 AATAAAATTT
9336165 AAATTTAGTTTAAATCTTATA
1 AAATTTAGTTTAAAT-TTA-A
9336186 AAA-TTATGTTTAAATTTAA
1 AAATTTA-GTTTAAATTTAA
*
9336205 ATAATTTAATTTA
1 A-AATTTAGTTTA
9336218 TCAATCAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 2 0.07
20 12 0.43
21 14 0.50
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (19 bp):
AAATTTAGTTTAAATTTAA
Found at i:9336481 original size:18 final size:18
Alignment explanation
Indices: 9336458--9336500 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
9336448 ATTTTTTTGA
9336458 TTAAATTCGA-ATTAAATT
1 TTAAATTCGACATTAAA-T
**
9336476 TTAAATTTTACATTAAAT
1 TTAAATTCGACATTAAAT
9336494 TTAAATT
1 TTAAATT
9336501 TAATATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (18 bp):
TTAAATTCGACATTAAAT
Found at i:9337359 original size:2 final size:2
Alignment explanation
Indices: 9337352--9337376 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9337342 TTTATCCTTT
9337352 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
9337377 TTGATTGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:9338037 original size:2 final size:2
Alignment explanation
Indices: 9338030--9338072 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
9338020 GGCTTTCTTT
9338030 TA TA TA TA 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 TA
9338072 T
1 T
9338073 TGATTATCTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9347486 original size:14 final size:15
Alignment explanation
Indices: 9347459--9347488 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9347449 AATCAACCGT
9347459 AAAAAGAAAGAAACA
1 AAAAAGAAAGAAACA
9347474 AAAAAGAAA-AAACA
1 AAAAAGAAAGAAACA
9347488 A
1 A
9347489 GGGAAAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAGAAACA
Found at i:9350159 original size:19 final size:18
Alignment explanation
Indices: 9350126--9350168 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
9350116 TCATTTTTAC
9350126 TATAGCATCTACTATCAT
1 TATAGCATCTACTATCAT
* *
9350144 TATAGCAATTTACTATTAT
1 TATAGC-ATCTACTATCAT
9350163 TATAGC
1 TATAGC
9350169 GATAACGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.42
Consensus pattern (18 bp):
TATAGCATCTACTATCAT
Found at i:9351546 original size:18 final size:18
Alignment explanation
Indices: 9351523--9351562 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
9351513 TTTGTGTACG
9351523 TGAACAATACCT-TATACA
1 TGAACAATA-CTGTATACA
*
9351541 TGAACAATATTGTATACA
1 TGAACAATACTGTATACA
9351559 TGAA
1 TGAA
9351563 TAATGACAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (18 bp):
TGAACAATACTGTATACA
Found at i:9352750 original size:28 final size:27
Alignment explanation
Indices: 9352721--9352777 Score: 84
Period size: 25 Copynumber: 2.2 Consensus size: 27
9352711 TAGAATTTTA
9352721 TTATTTATTAT-AT-AATAAATAAAAT
1 TTATTTATTATAATAAATAAATAAAAT
*
9352746 TTATTTATTATAATAAATTAATAAAA-
1 TTATTTATTATAATAAATAAATAAAAT
9352772 TTATTT
1 TTATTT
9352778 TATAATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 11 0.38
26 8 0.28
27 10 0.34
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
TTATTTATTATAATAAATAAATAAAAT
Found at i:9352779 original size:27 final size:25
Alignment explanation
Indices: 9352720--9352780 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 25
9352710 TTAGAATTTT
9352720 ATTA-TTTATTATATAATAAATAAA
1 ATTATTTTATTATATAATAAATAAA
*
9352744 ATT-TATTTATTATAATAAATTAATAAA
1 ATTAT-TTTATTAT-AT-AATAAATAAA
9352771 ATTATTTTAT
1 ATTATTTTAT
9352781 AATTTTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
24 3 0.10
25 8 0.26
26 2 0.06
27 17 0.55
28 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTATTTTATTATATAATAAATAAA
Found at i:9353505 original size:29 final size:27
Alignment explanation
Indices: 9353449--9353507 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 27
9353439 CTTTAAATTT
* *
9353449 TATTAATTAATAAATTTATAATTCAAA
1 TATTAATTAAAAAATTTAAAATTCAAA
*
9353476 TATTAAATTAAAAAATTTTAAAATTTAAA
1 TATT-AATTAAAAAA-TTTAAAATTCAAA
9353505 TAT
1 TAT
9353508 CACATTATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 4 0.15
28 9 0.33
29 14 0.52
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (27 bp):
TATTAATTAAAAAATTTAAAATTCAAA
Found at i:9353514 original size:29 final size:28
Alignment explanation
Indices: 9353453--9353514 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 28
9353443 AAATTTTATT
* * *
9353453 AATTAATAAATTTATAATTCAAATATTA
1 AATTAAAAAATTTAAAATTCAAATATCA
*
9353481 AATTAAAAAATTTTAAAATTTAAATATCA
1 AATTAAAAAA-TTTAAAATTCAAATATCA
*
9353510 CATTA
1 AATTA
9353515 TATATTTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 9 0.32
29 19 0.68
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (28 bp):
AATTAAAAAATTTAAAATTCAAATATCA
Found at i:9355144 original size:22 final size:23
Alignment explanation
Indices: 9355101--9355144 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
9355091 TTTTAAAATT
*
9355101 TTAAAAAATTCTTAAAATTTTTG
1 TTAAAAAATTCTGAAAATTTTTG
9355124 TTAAAAAA-TCTGAAATATTTT
1 TTAAAAAATTCTGAAA-ATTTT
9355145 AAATTTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (23 bp):
TTAAAAAATTCTGAAAATTTTTG
Found at i:9355173 original size:35 final size:35
Alignment explanation
Indices: 9355127--9355209 Score: 107
Period size: 35 Copynumber: 2.4 Consensus size: 35
9355117 ATTTTTGTTA
* *
9355127 AAAAATCTGAAATA-TTTT-AAATTTATAAAAAATT
1 AAAAATATGAAATATTTTTAAAAATTAT-AAAAATT
*
9355161 AAATTATATGAAATATTTTTAAAAATTATAAAAATT
1 AAA-AATATGAAATATTTTTAAAAATTATAAAAATT
9355197 AAAAATATGAAAT
1 AAAAATATGAAAT
9355210 TTTAAAAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
34 3 0.07
35 18 0.43
36 14 0.33
37 7 0.17
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (35 bp):
AAAAATATGAAATATTTTTAAAAATTATAAAAATT
Found at i:9355215 original size:23 final size:25
Alignment explanation
Indices: 9355183--9355229 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
9355173 ATATTTTTAA
9355183 AAATTATAAAAATT-AA-AAATATG
1 AAATTATAAAAATTCAACAAATATG
*
9355206 AAATTTTAAAAATTCAACAAATAT
1 AAATTATAAAAATTCAACAAATAT
9355230 CTCAAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 13 0.62
24 2 0.10
25 6 0.29
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (25 bp):
AAATTATAAAAATTCAACAAATATG
Found at i:9355617 original size:18 final size:17
Alignment explanation
Indices: 9355596--9355639 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
9355586 TCTCTTTTTT
9355596 TTTTTTTAAGAAAATTTA
1 TTTTTTTAA-AAAATTTA
**
9355614 TTTTTATTAAAATTTTTA
1 TTTTT-TTAAAAAATTTA
9355632 TTTTTTTA
1 TTTTTTTA
9355640 TTTTTTAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 3 0.13
18 16 0.70
19 4 0.17
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (17 bp):
TTTTTTTAAAAAATTTA
Found at i:9358595 original size:18 final size:18
Alignment explanation
Indices: 9358574--9358616 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
9358564 TTTTTATTAA
* *
9358574 AATTTTTTTATGTTTGAT
1 AATTTTTTAAAGTTTGAT
9358592 AATTATTTTAAAGTTTGAT
1 AATT-TTTTAAAGTTTGAT
*
9358611 TATTTT
1 AATTTT
9358617 ATAATTGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (18 bp):
AATTTTTTAAAGTTTGAT
Found at i:9366456 original size:3 final size:3
Alignment explanation
Indices: 9366448--9366476 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
9366438 ACAACTCCAT
9366448 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
9366477 GATCATCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Done.