Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168071.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_32, 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: 761692
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.42
Warning! 1000 characters in sequence are not A, C, G, or T
File 14 of 17
Found at i:536910 original size:21 final size:22
Alignment explanation
Indices: 536872--536934 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
536862 ATAAAAAACC
536872 TATAATAAATATAATATCATTAT
1 TATAATAAATATAATATCA-TAT
*
536895 T-TAATAATTA-AATATCATAT
1 TATAATAAATATAATATCATAT
* *
536915 TATAAT-TAGATAATATCATA
1 TATAATAAATATAATATCATA
536935 ATTAATGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 5 0.15
21 20 0.59
22 8 0.24
23 1 0.03
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (22 bp):
TATAATAAATATAATATCATAT
Found at i:536927 original size:26 final size:26
Alignment explanation
Indices: 536873--536928 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
536863 TAAAAAACCT
*
536873 ATAA-TAAATATAATATCATTATTTA
1 ATAATTAAATATAATATCATTAATTA
* *
536898 ATAATTAAATATCATATTA-TAATTA
1 ATAATTAAATATAATATCATTAATTA
536923 GATAAT
1 -ATAAT
536929 ATCATAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 9 0.35
26 17 0.65
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (26 bp):
ATAATTAAATATAATATCATTAATTA
Found at i:537155 original size:108 final size:110
Alignment explanation
Indices: 537043--537262 Score: 408
Period size: 108 Copynumber: 2.0 Consensus size: 110
537033 TTATAATTAT
*
537043 TAATATACTAAATTTTCAAATTGCTTTATAATAACTTAAATTATGAAATAAATGTTATAACTGTT
1 TAATATACTAAATTTTCAAATTGCTTTATAATAACTTAAATTATGAAATAAATGTTATAACCGTT
*
537108 AGTATTTTAA-TTT-TTTTATATAATAATAATTTATTATAACATA
66 AGTATTTTAATTTTGTTTTATATAATAATAACTTATTATAACATA
537151 TAATATACTAAATTTTCAAATTGCTTTATAATAACTTAAATTATGAAATAAATGTTATAACCGTT
1 TAATATACTAAATTTTCAAATTGCTTTATAATAACTTAAATTATGAAATAAATGTTATAACCGTT
537216 AGTATTTTAATTTTGTTTTATATAATAATAACTTATTATAACATA
66 AGTATTTTAATTTTGTTTTATATAATAATAACTTATTATAACATA
537261 TA
1 TA
537263 TTAGTTATTA
Statistics
Matches: 108, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
108 74 0.69
109 3 0.03
110 31 0.29
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.46
Consensus pattern (110 bp):
TAATATACTAAATTTTCAAATTGCTTTATAATAACTTAAATTATGAAATAAATGTTATAACCGTT
AGTATTTTAATTTTGTTTTATATAATAATAACTTATTATAACATA
Found at i:537636 original size:17 final size:17
Alignment explanation
Indices: 537597--537638 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
537587 AAAAAATATA
*
537597 TTAATTTAATAATTTTT
1 TTAATTAAATAATTTTT
*
537614 CT-ATTAAATAATTTTT
1 TTAATTAAATAATTTTT
537630 TTAATTAAA
1 TTAATTAAA
537639 ATAAGTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAATTAAATAATTTTT
Found at i:537945 original size:29 final size:28
Alignment explanation
Indices: 537878--537951 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 28
537868 TGAATTTCGA
* *
537878 AATTATAATTAAATATTATTTAGATAAT
1 AATTATAATTAAATATGAATTAGATAAT
*
537906 AATAATAAATTAAATATGAATTA-ATACTAT
1 AATTAT-AATTAAATATGAATTAGATA--AT
*
537936 CATTATAATTAAATAT
1 AATTATAATTAAATAT
537952 TTCCATTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
28 8 0.21
29 24 0.63
30 6 0.16
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (28 bp):
AATTATAATTAAATATGAATTAGATAAT
Found at i:538184 original size:20 final size:21
Alignment explanation
Indices: 538159--538205 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
538149 AGAAAGAGTT
*
538159 TAATTATA-A-AATTAATTATA
1 TAATTATACATAAATAATTA-A
538179 TAATTA-ACATAAATAATTAA
1 TAATTATACATAAATAATTAA
538199 TAATTAT
1 TAATTAT
538206 CAATTATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 14 0.61
21 8 0.35
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TAATTATACATAAATAATTAA
Found at i:538921 original size:27 final size:27
Alignment explanation
Indices: 538899--538957 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
538889 TTTAATTGTT
*
538899 ATAAATTGGTATTAAATTATAATATTTA
1 ATAAATTGGT-TTAAATAATAATATTTA
* *
538927 ATTAATTGGTTTAAATAATAATAATTA
1 ATAAATTGGTTTAAATAATAATATTTA
538954 ATAA
1 ATAA
538958 GTTTTGCATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 18 0.67
28 9 0.33
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (27 bp):
ATAAATTGGTTTAAATAATAATATTTA
Found at i:539378 original size:20 final size:20
Alignment explanation
Indices: 539329--539379 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
539319 TTATCATTCA
539329 TAATAATTATTTAACTATAT
1 TAATAATTATTTAACTATAT
* *
539349 TATTATTTATTATAA-TA-ATT
1 TAATAATTATT-TAACTATA-T
539369 TAATAATTATT
1 TAATAATTATT
539380 GAAATATTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
TAATAATTATTTAACTATAT
Found at i:539971 original size:23 final size:21
Alignment explanation
Indices: 539892--539975 Score: 57
Period size: 19 Copynumber: 3.8 Consensus size: 21
539882 AATCTTTTAA
539892 TTTATAATTATAATTAACATATATAT
1 TTTATAATTAT-A-TAA-AT-TAT-T
*
539918 TGTTATAATTATATTAATTATT
1 T-TTATAATTATATAAATTATT
*
539940 TTTGT--TTATATAAATTATT
1 TTTATAATTATATAAATTATT
539959 TATTAATAATTAT-TAAA
1 T-TT-ATAATTATATAAA
539976 AAGTCATAAC
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
19 14 0.29
20 2 0.04
21 4 0.08
22 6 0.12
23 7 0.14
24 2 0.04
25 2 0.04
26 2 0.04
27 10 0.20
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (21 bp):
TTTATAATTATATAAATTATT
Found at i:540282 original size:30 final size:30
Alignment explanation
Indices: 540234--540308 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
540224 TATAATAAAT
540234 TAATCTAATTAA-TATAATATAACTA-ATAA
1 TAAT-TAATTAATTATAATATAACTACATAA
* * *
540263 TAATTCATATAATTATAATATAATTACTTAA
1 TAATTAAT-TAATTATAATATAACTACATAA
540294 TAATTAATTAATTAT
1 TAATTAATTAATTAT
540309 TATAACATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
28 3 0.08
29 7 0.18
30 19 0.49
31 10 0.26
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (30 bp):
TAATTAATTAATTATAATATAACTACATAA
Found at i:540550 original size:30 final size:32
Alignment explanation
Indices: 540516--540593 Score: 85
Period size: 30 Copynumber: 2.6 Consensus size: 32
540506 AATTTTAATT
*
540516 TTAATATTATAATTT-AATTA-TATTATTTAA
1 TTAATAATATAATTTAAATTAGTATTATTTAA
*
540546 TTAATAATATTATTTAAATTAGTTATTATTT-A
1 TTAATAATATAATTTAAATTAG-TATTATTTAA
*
540578 --AATAAAATAATTTAAA
1 TTAATAATATAATTTAAA
540594 CAATTGTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 27 0.66
31 5 0.12
32 1 0.02
33 8 0.20
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (32 bp):
TTAATAATATAATTTAAATTAGTATTATTTAA
Found at i:540555 original size:17 final size:17
Alignment explanation
Indices: 540497--540562 Score: 61
Period size: 17 Copynumber: 4.1 Consensus size: 17
540487 TATTAATATA
*
540497 AATTAA-AATAAT-TTT
1 AATTAATAATATTATTT
*
540512 AATT-TTAATATTA--T
1 AATTAATAATATTATTT
*
540526 AATTTAATTATATTATTT
1 AA-TTAATAATATTATTT
540544 AATTAATAATATTATTT
1 AATTAATAATATTATTT
540561 AA
1 AA
540563 ATTAGTTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
14 3 0.08
15 11 0.28
16 7 0.17
17 16 0.40
18 3 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATTAATAATATTATTT
Found at i:540648 original size:17 final size:18
Alignment explanation
Indices: 540621--540669 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
540611 AACAACAGTT
*
540621 CATAATAATTTGAAATAG
1 CATAATTATTTGAAATAG
*
540639 -ATAATTATTT-AAATGG
1 CATAATTATTTGAAATAG
540655 CCATAATTATTTGAA
1 -CATAATTATTTGAA
540670 TTGATTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 5 0.19
17 9 0.35
18 10 0.38
19 2 0.08
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (18 bp):
CATAATTATTTGAAATAG
Found at i:542198 original size:19 final size:21
Alignment explanation
Indices: 542160--542204 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
542150 AACTTATAAC
542160 AATTATATTAATAATAATATT
1 AATTATATTAATAATAATATT
*
542181 AATTAT-TT-ATATTAATATT
1 AATTATATTAATAATAATATT
*
542200 TATTA
1 AATTA
542205 ACTTATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 14 0.64
20 2 0.09
21 6 0.27
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AATTATATTAATAATAATATT
Found at i:542199 original size:12 final size:12
Alignment explanation
Indices: 542162--542202 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
542152 CTTATAACAA
*
542162 TTATATTAATAA
1 TTATATTAATAT
*
542174 TAATATTAATTAT
1 TTATATTAA-TAT
542187 TTATATTAATAT
1 TTATATTAATAT
542199 TTAT
1 TTAT
542203 TAACTTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TTATATTAATAT
Found at i:544241 original size:182 final size:180
Alignment explanation
Indices: 543399--544811 Score: 1206
Period size: 181 Copynumber: 7.8 Consensus size: 180
543389 TTAATTATAT
* * * * *
543399 AAATATTAATAAAGTAATATTATTTTATTTTGGATAAGCTTTTTATGAA-ATGAAACAATTGTTT
1 AAATATTAATAAATTAGTATTATTTTATTTCGAATAAGC-TTGTATGAATA-GAAACAATTGTTT
* * * *
543463 TACGATAAAACAAAAGGTCGTAACAATTTTAAA-ATGATAATTGTTTAAATAGTCATAACTATTT
64 TATGACAAAA-AAAAGGTCATAACAATTTGAAATA-GATAATTGTTTAAATAGTCATAACTATTT
* *** * * * * *
543527 AAACTTATTTGGTAAATAGATTTATTTTTTAATTC-CTTGCTTATTAATTTTTT
127 GAACTTATTCAATAAACAGATTTATTTTTTAAATCTTTTACTTATTAATTTTTG
* * * * *
543580 AAATGTTAATAAAATAGTATTATTTTTATTTCGAATAAGCATGTATGAATTG-AACAATTATTTT
1 AAATATTAATAAATTAGTATTA-TTTTATTTCGAATAAGCTTGTATGAATAGAAACAATTGTTTT
* * * ** *
543644 ATGGCTAAACAAAAGGTCAGAATGATTTGAAATAGATAATT-ATTATAATAGT-ATTAACTATTT
65 ATGAC-AAAAAAAAGGTCATAACAATTTGAAATAGATAATTGTTTA-AATAGTCA-TAACTATTT
* * * * *
543707 GAACTGATTCAACAAATACATTTATTTTTTAAATCTCTTACTTATTAATTTTT-
127 GAACTTATTCAATAAACAGATTTATTTTTTAAATCTTTTACTTATTAATTTTTG
* ** * * * * * *
543760 AGAATATTACTAGTTTAGCAATATTTTACTCCGAATAAGTTTGTATGGATAGAAACAATTG-TTT
1 A-AATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAATAGAAACAATTGTTTT
* * * * * *
543824 ATGACAAAACAAAGATCATACCAATTTGAGATAGATAATTATTCAAATAGTCATAACTATTTGAA
65 ATGACAAAAAAAAGGTCATAACAATTTGAAATAGATAATTGTTTAAATAGTCATAACTATTTGAA
* * **
543889 -TTAGTTCAATAAACAGATATAGTTTTTAAATC---T-CTTATTAATTTTCA
130 CTTA-TTCAATAAACAGATTTATTTTTTAAATCTTTTACTTATTAATTTTTG
* **
543936 AAATATTAATAAATTAGTATTATTTTATTTTGAATAATTTTGTATGAATAGAAACAATTGTTTTA
1 AAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAATAGAAACAATTGTTTTA
* * * ** * * * * *
544001 TTACAAAACAAAGGATTATAATGATTTGAAATAAATAATTATTTAAATAGTAATAATTAGTTGAA
66 TGACAAAAAAAAGG-TCATAACAATTTGAAATAGATAATTGTTTAAATAGTCATAACTATTTGAA
* * * * * *
544066 CTCACTCGATAAACAAATTTATTTTTAAAATATTTTACTTATTAATTTTTG
130 CTTATTCAATAAACAGATTTATTTTTTAAATCTTTTACTTATTAATTTTTG
* * * *
544117 AAATTTTAATAAATTAGTCTTATTTTATTTCGAATAAGCTTTTTATGAATAGAAACAATTGGTTT
1 AAATATTAATAAATTAGTATTATTTTATTTCGAATAAGC-TTGTATGAATAGAAACAATTGTTTT
* * * *
544182 ATGACAAAATAAAAGGTCATAACAATTTGAAATAGATAATTGTTTAAATTGTTATAATTATTTTC
65 ATGACAAAA-AAAAGGTCATAACAATTTGAAATAGATAATTGTTTAAATAGTCATAACTA-TTTG
* * * * * * *
544247 AACATGTTCAAAAAACAAATTTATTTTATACAT-TTTTACTTATTAATCTTTG
128 AACTTATTCAATAAACAGATTTATTTTTTAAATCTTTTACTTATTAATTTTTG
* * * * *
544299 GAATATTAGTAAATTTA-TATTATTTTATTT-GAAATAAGCTTGTATAAATAAAAACAATTATTT
1 AAATATTAATAAA-TTAGTATTATTTTATTTCG-AATAAGCTTGTATGAATAGAAACAATTGTTT
* *
544362 TATGGCAAAATAAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTT
64 TATGAC-AAA-AAAAAGGTCATAACAATTTGAAATAGATAATTGTTTAAATAGTCATAACTATTT
* *** * * * * * *
544427 GAACTTGTTTGGTAAATAGATTCATTTTTTAGATCTCTTACTCATTAA-TTCTG
127 GAACTTATTCAATAAACAGATTTATTTTTTAAATCTTTTACTTATTAATTTTTG
* * * * * * * * *
544480 GAATAGTAATAAGTTAGTATTATTTTATTTTGAATAAGCCTATATGAATTGATATAATTGTTTTA
1 AAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAATAGAAACAATTGTTTTA
** * * * * * * *
544545 TGGTGAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAGATAGTTATTACCATTTGAA
66 T-GACAAAAAAAAGGTCATAACAATTTGAAATAGATAATTGTTTAAATAGTCATAACTATTTGAA
* * * *
544610 CTTGTTCAGTAAACATATTTATTTTTTAAATCTTTTACTTATTAATTGTTG
130 CTTATTCAATAAACAGATTTATTTTTTAAATCTTTTACTTATTAATTTTTG
* ** ** * *
544661 AAATATTAATAAATTAATATTATTTTAATTT-GAATAAGCTAATATGAGCAAAAATAATTGTTTT
1 AAATATTAATAAATTAGTATTATTTT-ATTTCGAATAAGCTTGTATGAATAGAAACAATTGTTTT
* ** * ** **
544725 ATGACAAAGCAAAAAGGTCACAATGATTTGAAATAAATAATTGTTCCAATAGTCATAACTATTCA
65 ATGACAAA--AAAAAGGTCATAACAATTTGAAATAGATAATTGTTTAAATAGTCATAACTATTTG
* * *
544790 AAATTATTCAGTAAATAGATTT
128 AACTTATTCAATAAACAGATTT
544812 GAAATAAGCT
Statistics
Matches: 989, Mismatches: 208, Indels: 69
0.78 0.16 0.05
Matches are distributed among these distances:
175 61 0.06
176 18 0.02
177 61 0.06
178 4 0.00
179 72 0.07
180 209 0.21
181 273 0.28
182 256 0.26
183 35 0.04
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (180 bp):
AAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAATAGAAACAATTGTTTTA
TGACAAAAAAAAGGTCATAACAATTTGAAATAGATAATTGTTTAAATAGTCATAACTATTTGAAC
TTATTCAATAAACAGATTTATTTTTTAAATCTTTTACTTATTAATTTTTG
Found at i:545051 original size:162 final size:161
Alignment explanation
Indices: 544870--545172 Score: 371
Period size: 162 Copynumber: 1.9 Consensus size: 161
544860 GGTTATAGCA
* * ** *
544870 ATTTGAACTAGATAATTGTTCAAATAGCCATAATTATTTGAATTTGTTC-GGTAAACAGATTCAT
1 ATTTGAACTAGATAATTGTTCAAATAGCCATAATTATTTGAA-CTGGTCAGCCAAA-AGATACAT
* ***
544934 TTTTTAAATCTC-TCACTTATTAATTTTTGGAATATTAATAAATTAGAATGA-TGTTATTCTGAA
64 TTTCTAAATC-CATCACTTATTAATTTTCAAAATATTAATAAATTAGAATGACT-TTATTCTGAA
* *
544997 TAAGCTTGTATGAACCAAAACAAAAGGTCATAATG
127 TAAGATTATATGAACCAAAACAAAAGGTCATAATG
* * *
545032 ATTTGATA-TAGATAATTGTTCAAATAGTCATAATTGTTTGCACTGGTCAAGCCAAAAGATACAT
1 ATTTGA-ACTAGATAATTGTTCAAATAGCCATAATTATTTGAACTGGTC-AGCCAAAAGATACAT
* * *
545096 TTTCTAAATCCATTACTTATTAATTTTCAAAATATTAATAAATTAGCATTACTTTATTCTGAATA
64 TTTCTAAATCCATCACTTATTAATTTTCAAAATATTAATAAATTAGAATGACTTTATTCTGAATA
545161 AGATTATATGAA
129 AGATTATATGAA
545173 TAGAAACAAT
Statistics
Matches: 119, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
161 5 0.04
162 108 0.91
163 6 0.05
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (161 bp):
ATTTGAACTAGATAATTGTTCAAATAGCCATAATTATTTGAACTGGTCAGCCAAAAGATACATTT
TCTAAATCCATCACTTATTAATTTTCAAAATATTAATAAATTAGAATGACTTTATTCTGAATAAG
ATTATATGAACCAAAACAAAAGGTCATAATG
Found at i:545419 original size:181 final size:181
Alignment explanation
Indices: 545094--545426 Score: 402
Period size: 181 Copynumber: 1.8 Consensus size: 181
545084 CAAAAGATAC
* * *
545094 ATTTTCTAAATCCATTACTTATTAATTTTCAAAATATTAATAAATTAGCATTACTTTATTCTGAA
1 ATTTTCTAAATCCATTACATATTAATTTTCAAAATATTAATAAATTAACATTACTTTATTCTCAA
* * * * * * * *
545159 TAAGATTATATGAATAGAAACAATTGTTTTATGATAAAACAAATGGTCATAACGATTTGAAATAA
66 TAAAATTATATGAACAGAAACAATTGTTTTATGACAAAACAAAAGATAATAACAATTTGAAACAA
* * *
545224 ATATTTGGTCAAATAGTTATAACTAATTAAACTGGTATGGCAAACAAATTT
131 ATAATTAGTCAAATAGTCATAACTAATTAAACTGGTATGGCAAACAAATTT
* ** ** * *
545275 ATTTTTTAAATCTTTTACATATTAATTTTTGAAATATTAATAAATTAATATTATTTTATT-TCAA
1 ATTTTCTAAATCCATTACATATTAATTTTCAAAATATTAATAAATTAACATTACTTTATTCTCAA
*
545339 -ACAAACTTATATGAACA-AAAGCATTTGTTTTATGACAAAACAAAAGATAATAACAATTTGAAA
66 TA-AAA-TTATATGAACAGAAA-CAATTGTTTTATGACAAAACAAAAGATAATAACAATTTGAAA
* *
545402 CAGATAATTATTCAAATAGTCATAA
128 CAAATAATTAGTCAAATAGTCATAA
545427 TTATTTTGAA
Statistics
Matches: 125, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
179 1 0.01
180 8 0.06
181 116 0.93
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (181 bp):
ATTTTCTAAATCCATTACATATTAATTTTCAAAATATTAATAAATTAACATTACTTTATTCTCAA
TAAAATTATATGAACAGAAACAATTGTTTTATGACAAAACAAAAGATAATAACAATTTGAAACAA
ATAATTAGTCAAATAGTCATAACTAATTAAACTGGTATGGCAAACAAATTT
Found at i:546191 original size:181 final size:181
Alignment explanation
Indices: 545633--546881 Score: 1022
Period size: 181 Copynumber: 7.0 Consensus size: 181
545623 TATCTATTTC
* * * **
545633 AAATAATTGTTTC-AGTTAACATAAGCTTATTTGAAATAAAATAGAT-CTAATTTATTAATATAC
1 AAATAATTGTTTCTA-TTCATACAAGCTTATTTGAAATAAAATA-ATACTAATTTATTAATATTT
* * * * *
545696 CAAAAATTAATGAGTAAGAAAATTAAAAAAAATGAATCTATTTACCGAACAAGTTCAAACAGTTA
64 CAAAAATTAATAAGTAA-AAGATT-TAAAAAATAAATCTATTTACCGAACAAGTTCAAATAGTTA
* * * * * * *
545761 TGACTATCTAAATAATTATCTATTTTAAAACATTATGACCATTTGTTTTGTCATA
127 TGACTATTTGAACAATTATCTATTTCAAATCTTTATGACCTTTTGTTTTGTCATA
* * * * * * *
545816 AAATAATTAG-TTCTTTTCATGCAAGCTTATTTCAAATAAAGTAATA-TAAATTTATTAAAACTC
1 AAATAATT-GTTTCTATTCATACAAGCTTATTTGAAATAAAATAATACT-AATTTATTAATATTT
* * * **
545879 CAAAAATTAATAAATAAAA-ATTTAAAAAATAAATATGTTTTTCGAACACA-TTC-AATAGTTAT
64 CAAAAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTACCGAACA-AGTTCAAATAGTTAT
* * * * **
545941 GACTATTTGTACTATTATCTATTTCAAATCATTATAACAATTTGTTTTGTCATA
128 GACTATTTGAACAATTATCTATTTCAAATCTTTATGACCTTTTGTTTTGTCATA
** * * *
545995 AACCAATTATTTCTATTCATACAAGCTTATTTGAAATAAAATAATATTAATTTATTAATATTTCT
1 AAATAATTGTTTCTATTCATACAAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTTCA
* * * * * *
546060 AAAATTAATAAGTAAAAGATTTAAATAATAAATTTGTTTACCGAGCAAGTTTAAATAGTTATTAC
66 AAAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTACCGAACAAGTTCAAATAGTTATGAC
* * * *
546125 TATTTGAACAATTATATGTTTCAAATCTTTATGATCTTTTGTTTTGTTATA
131 TATTTGAACAATTATCTATTTCAAATCTTTATGACCTTTTGTTTTGTCATA
* * * *
546176 AAATAATTGTTTCTATTCACACAAGTTTATTTGGAATAAAATAATACTAATTTATTATTA-TTCT
1 AAATAATTGTTTCTATTCATACAAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTTC-
* * *
546240 AAAAATTAATAAGTTAGAGATTTAAAAAATAAATCTATTTACCGAACAAGTAT-AAATAGTCATG
65 AAAAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTACCGAACAAGT-TCAAATAGTTATG
* * * * * * *
546304 TCCATTTGAACTATTATTTATTTCAAAT-TGTTATGACATTTTGTTTTATTATA
129 ACTATTTGAACAATTATCTATTTCAAATCT-TTATGACCTTTTGTTTTGTCATA
* * * *
546357 AAATAATTGTTTCTATTCATACAA-ATTA-TTCAGAATAAAATAATACCAATTTATTACTATTTC
1 AAATAATTGTTTCTATTCATACAAGCTTATTTGA-AATAAAATAATACTAATTTATTAATATTTC
* * ** *
546420 AAAAATTAATAAG-----GATTT-AAAAATAAATGTGTTTTTCGAAGC-AGTTCAAATAGTTAAG
65 AAAAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTACCGAA-CAAGTTCAAATAGTTATG
* * * *
546478 ACTATTTGAACAATTATCTATTCCAAAT-TATTATGATCTTTTGTTTAGTCAAA
129 ACTATTTGAACAATTATCTATTTCAAATCT-TTATGACCTTTTGTTTTGTCATA
* * * ** *
546531 AAATAATTGTTTC-AGTTCATACATGCTTATTCGAAATATAGCAATACTAATTTATTAAAATTT-
1 AAATAATTGTTTCTA-TTCATACAAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTTC
* * *
546594 AGAAATT--TAA-TAAGAA-ATTT--AAAA-AAATCTATTTACTGAATAAGTTCAAATAGTTATG
65 AAAAATTAATAAGTAA-AAGATTTAAAAAATAAATCTATTTACCGAACAAGTTCAAATAGTTATG
* * * * *
546652 ACTATTTGAACAATTATCTATTTAAAATC-GTCTGACCTTTTATTTTATCATA
129 ACTATTTGAACAATTATCTATTTCAAATCTTTATGACCTTTTGTTTTGTCATA
* * ** * * * **
546704 AAACAAATGTTTC-AGTAAATAAAAG-TT-TTTCCAAAATAAAATAATATTGCTTTATTAATATT
1 AAATAATTGTTTCTA-TTCATACAAGCTTATTT--GAAATAAAATAATACTAATTTATTAATATT
* *** * * * ** *
546766 TCAAAAATTAAGAAGTTGGAGTTTTAAAAAATAAATC-AGTTTATCAAATTA-TTCAAATAATTA
63 TCAAAAATTAATAAGTAAAAGATTTAAAAAATAAATCTA-TTTACCGAACAAGTTCAAATAGTTA
* * * * * * *
546829 TGGCCATTTGAATAATTATCTATTTTAAATCGTTATAAACTTTTGTTTT-TCAT
127 TGACTATTTGAACAATTATCTATTTCAAATCTTTATGACCTTTTGTTTTGTCAT
546882 CATACAAGCC
Statistics
Matches: 858, Mismatches: 168, Indels: 84
0.77 0.15 0.08
Matches are distributed among these distances:
171 2 0.00
172 5 0.01
173 60 0.07
174 156 0.18
175 36 0.04
176 9 0.01
177 4 0.00
179 170 0.20
180 119 0.14
181 230 0.27
182 6 0.01
183 60 0.07
184 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.41
Consensus pattern (181 bp):
AAATAATTGTTTCTATTCATACAAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTTCA
AAAATTAATAAGTAAAAGATTTAAAAAATAAATCTATTTACCGAACAAGTTCAAATAGTTATGAC
TATTTGAACAATTATCTATTTCAAATCTTTATGACCTTTTGTTTTGTCATA
Found at i:547458 original size:182 final size:179
Alignment explanation
Indices: 546901--548097 Score: 747
Period size: 180 Copynumber: 6.7 Consensus size: 179
546891 CTATTTGGAA
* * *
546901 AAAATAATATTAATTTACTAATATTTCAAAAATTAAT-A-AA-AGATTTAAAAAGTTAA-TCTAT
1 AAAATAATATTAATTTATTAATATTTC-AAAATTAATAACAAGAGATTTAAAAAATAAATTCTAT
* *
546962 TTACTAAACCAATTCAAATAGTTATGACTATTTGAACAATTATATATTTCAAATTATTATAACCT
65 TTACTAAACCAATTCAAATAATTATGACTATTTGAACAATTATATATTTCAAATCATTATAACCT
* * * * * *
547027 TTTGTTATCTCATGAAAC-AATTATTTCTATTCACACAAGTTTATTTGAAAT
130 TTTGTTTTGTCATAAAACAAATT-TTT-TATTCATATAAGTTTATTCGAAAT
* * * *
547078 AAAATAATACTAATATAATAATATTTTGAAAATTAATAACTAAGAGATTTAAAAAATAAATT-TA
1 AAAATAATATTAATTTATTAATA-TTTCAAAATTAATAAC-AAGAGATTTAAAAAATAAATTCTA
* * * * * * * * *
547142 TTTACTGAACTAGTTCAAATATTTAAGGCTATATGAACAATTCTTTATTTCAAATCATTATAACC
64 TTTACTAAACCAATTCAAATAATTATGACTATTTGAACAATTATATATTTCAAATCATTATAACC
* * * *
547207 TTTTGTTTTGTCGTAAAAC-AATTTTTTAATTTCTTAGTAA-CTTATTCGGAAT
129 TTTTGTTTTGTCATAAAACAAATTTTTT-A-TTCATA-TAAGTTTATTCGAAAT
* * * * *
547259 AAAGTAAAATAAATTTATTAATATTTCAAAACTTAATAAGCAAGAGATTTAAAAAAAAAATTCTG
1 AAAATAATATTAATTTATTAATATTTCAAAA-TTAATAA-CAAGAGATTTAAAAAATAAATTCTA
* * * * ***
547324 TTTGCCT-AACCAATTCAAATAATTATGATTATTTAAACAATTATCTATTTCAAATCATTATGTT
64 TTT-ACTAAACCAATTCAAATAATTATGACTATTTGAACAATTATATATTTCAAATCATTATAAC
* * * * * *
547388 ATTTTATTTTGTCATAAAACAAATGTTTTTGTACATATAAGTTTGTTCAAAAT
128 CTTTTGTTTTGTCATAAAACAAAT-TTTTTATTCATATAAGTTTATTCGAAAT
** * * * * * *
547441 AAAATAATATTAATTTATTAATATTTGGAAACTAAGAAGTATA-AAATTTAAAAAGTAAA-ACTA
1 AAAATAATATTAATTTATTAATATTTCAAAATTAATAA-CA-AGAGATTTAAAAAATAAATTCTA
* * * * * * * * *
547504 TTTACTGAACCACTTTAATTAGTTATAACTATTTGAACAATTATTTGTTTCAAATCATTATGACC
64 TTTACTAAACCAATTCAAATAATTATGACTATTTGAACAATTATATATTTCAAATCATTATAACC
* * * * * * *
547569 ATTTGTATTGTCATAAAATAATTATTTTTGTTCATA-CAGTCTTATT-TAGAAT
129 TTTTGTTTTGTCATAAAACAAAT-TTTTTATTCATATAAGT-TTATTCGA-AAT
* * * ** * ** * * *
547621 AAAGTAATACTAATTTATCAATATTTTGAAATTAATAAGTAATCGATTTGAAAAATGAA-TCAAT
1 AAAATAATATTAATTTATTAATATTTCAAAATTAATAA-CAAGAGATTTAAAAAATAAATTCTAT
** *** * * * * * *
547685 TGGCTTGGCCAATGCAAATAGTTATGATTATTTGAATAATTATTTATTTCAAATCATTATGACCT
65 TTACTAAACCAATTCAAATAATTATGACTATTTGAACAATTATATATTTCAAATCATTATAACCT
* * * * * * *
547750 TTTGTTTTATCACAAAAC-AATTGTTTCTGTC-TGTACTAGCTTATTTGAAAT
130 TTTGTTTTGTCATAAAACAAATTTTTTAT-TCATATA--AGTTTATTCGAAAT
* * * * * * *
547801 AATATAAT-TCTATTTTATTAATATTCTAAAAATTAAT---AAGAGAATTGAAAAATGAA-TCTG
1 AAAATAATAT-TAATTTATTAATATT-TCAAAATTAATAACAAGAGATTTAAAAAATAAATTCTA
* * * * * *
547861 TTTA-TCGAA-CAAGTACAAATAATTATGACTATTTGAATAATTATCTATTTCTAATCACTATAA
64 TTTACT-AAACCAA-TTCAAATAATTATGACTATTTGAACAATTATATATTTCAAATCATTATAA
* * * * *
547924 CCTTTTGTTTGGTCCTAAAACAAAATTTTCTATTCATACAAGCTTATTTCG-AAT
127 CCTTTTGTTTTGTCATAAAAC-AAATTTTTTATTCATATAAGTTTA-TTCGAAAT
* * * * * *
547978 AAAATTACATAAATTTATTAATA-TTCAAACAACTAATAAGTAAAAGATTTTAAAAAATAAA-TC
1 AAAATAATATTAATTTATTAATATTTC-AA-AATTAATAA-CAAGAGA-TTTAAAAAATAAATTC
* * * * * * *
548041 TATTTATTGAA-TAAGTTTAAATAATTATGACCACTTGAACAATTATTTATTTCAAAT
62 TATTTACTAAACCAA-TTCAAATAATTATGACTATTTGAACAATTATATATTTCAAAT
548098 TGTTATGAAT
Statistics
Matches: 790, Mismatches: 187, Indels: 81
0.75 0.18 0.08
Matches are distributed among these distances:
175 1 0.00
176 7 0.01
177 140 0.18
178 16 0.02
179 21 0.03
180 241 0.31
181 187 0.24
182 166 0.21
183 6 0.01
184 5 0.01
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.41
Consensus pattern (179 bp):
AAAATAATATTAATTTATTAATATTTCAAAATTAATAACAAGAGATTTAAAAAATAAATTCTATT
TACTAAACCAATTCAAATAATTATGACTATTTGAACAATTATATATTTCAAATCATTATAACCTT
TTGTTTTGTCATAAAACAAATTTTTTATTCATATAAGTTTATTCGAAAT
Found at i:547910 original size:16 final size:17
Alignment explanation
Indices: 547878--547910 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
547868 AACAAGTACA
547878 AATAATTATGACTATTTG
1 AATAATTAT-ACTATTTG
547896 AATAATTAT-CTATTT
1 AATAATTATACTATTT
547911 CTAATCACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (17 bp):
AATAATTATACTATTTG
Found at i:547997 original size:177 final size:177
Alignment explanation
Indices: 547699--548097 Score: 391
Period size: 177 Copynumber: 2.2 Consensus size: 177
547689 TTGGCCAATG
* * * * * *
547699 CAAATAGTTATGATTATTTGAATAATTATTTATTTCAAATCATTATGACCTTTTGTTTTATCACA
1 CAAATAATTATGACTATTTGAATAATTATCTATTTCAAATCACTATAACCTTTTGTTTGATCACA
* * * *
547764 AAACAATTGTTTCTGTCTGTACTAGCTTATTTGAAATAATATAATTCTATTTTATTAATATTCTA
66 AAACAAATGTTTCTGTCTATACAAGCTTATTTGAAATAATATAATTCTAATTTATTAATATTC-A
*
547829 AA-AATTAATAAGAGAATTGAAAAATGAATCTGTTTATCGAACAAGTA
130 AACAACTAATAAGAGAATTGAAAAATGAATCTGTTTATCGAACAAGTA
* *
547876 CAAATAATTATGACTATTTGAATAATTATCTATTTCTAATCACTATAACCTTTTGTTTGGTC-CT
1 CAAATAATTATGACTATTTGAATAATTATCTATTTCAAATCACTATAACCTTTTGTTTGATCAC-
*
547940 AAAACAAAAT-TTTCTAT-TCATACAAGCTTATTTCG-AAT-A-A-AATTACATAAATTTATTAA
65 AAAAC-AAATGTTTCTGTCT-ATACAAGCTTATTT-GAAATAATATAATT-C-T-AATTTATTAA
* * * * * * *
547999 TATTCAAACAACTAATAAGTAAAAGATTTTAAAAAATAAATCTATTTATTGAATAAGTT
124 TATTCAAACAACTAATAAG----AGA-ATTGAAAAATGAATCTGTTTATCGAACAAGTA
* * * * *
548058 TAAATAATTATGACCACTTGAACAATTATTTATTTCAAAT
1 CAAATAATTATGACTATTTGAATAATTATCTATTTCAAAT
548098 TGTTATGAAT
Statistics
Matches: 182, Mismatches: 27, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
174 4 0.02
175 2 0.01
176 7 0.04
177 103 0.57
178 4 0.02
181 3 0.02
182 59 0.32
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.41
Consensus pattern (177 bp):
CAAATAATTATGACTATTTGAATAATTATCTATTTCAAATCACTATAACCTTTTGTTTGATCACA
AAACAAATGTTTCTGTCTATACAAGCTTATTTGAAATAATATAATTCTAATTTATTAATATTCAA
ACAACTAATAAGAGAATTGAAAAATGAATCTGTTTATCGAACAAGTA
Found at i:548887 original size:11 final size:10
Alignment explanation
Indices: 548847--548897 Score: 54
Period size: 11 Copynumber: 5.1 Consensus size: 10
548837 ATCTATACAG
548847 TTATAATTAA
1 TTATAATTAA
548857 TT-TAATTAA
1 TTATAATTAA
548866 --ATAATTTAA
1 TTATAA-TTAA
548875 TTATCAATTAA
1 TTAT-AATTAA
548886 TTTATAATTAA
1 -TTATAATTAA
548897 T
1 T
548898 AAAAACTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
8 3 0.09
9 11 0.31
10 3 0.09
11 12 0.34
12 6 0.17
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (10 bp):
TTATAATTAA
Found at i:549967 original size:22 final size:23
Alignment explanation
Indices: 549942--550013 Score: 67
Period size: 28 Copynumber: 2.9 Consensus size: 23
549932 ATCAATATAT
549942 TATAA-AATTAATATAATTTTGA
1 TATAATAATTAATATAATTTTGA
549964 TATATATTTAATTATATAATAATTTTGA
1 TATA-A--TAATTA-AT-ATAATTTTGA
549992 TGA-AATAATATAATATAATTTT
1 T-ATAATAAT-TAATATAATTTT
550014 ATTAACATTC
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
22 4 0.10
23 1 0.02
24 8 0.19
25 6 0.14
26 7 0.17
27 3 0.07
28 12 0.29
29 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (23 bp):
TATAATAATTAATATAATTTTGA
Found at i:551338 original size:182 final size:183
Alignment explanation
Indices: 550952--551379 Score: 418
Period size: 182 Copynumber: 2.3 Consensus size: 183
550942 CTATAGTCTC
* * * * *
550952 CTTTTGTTTTGTCATAAAATAATTGTTTCTAGTTCATACATGCTTATTCAAAATAAAATAATACT
1 CTTTTGTTTTGACATAAAACAATTGTTT-TAGATCATAAAAGCTTATTCAAAATAAAATAATACT
** *
551017 AATTTATTAACATTCAAAAAATTAATAAGCAAGAAATTTTAAAAAAATAAATTTGTTTAACGAAC
65 AATTTATTAACATTCAAAAAATTAATAAGCAAGAAATTTTAAAAAAATAAATCAGTTTAACAAAC
* * * * *
551082 AAGTTTAAATAGTTATGACTATTTGAATAATTATCTATCTACAATCATTATGAC
130 AAGTTAAAATAATTATGACCATTTGAACAATTATCTATCTACAATCATTATGAA
* *
551136 CTTTTATTTT-ATCATAAAACAATTGTTTTAGATCATAAAAGCTT-TGTCCCAAATAAAATAATA
1 CTTTTGTTTTGA-CATAAAACAATTGTTTTAGATCATAAAAGCTTAT-T-CAAAATAAAATAATA
* * * *** * * * * *
551199 TTACTTTATTAATATTTTTAAAATTGATAAGTTAA-AGA-TTT-AAAACATAAATCAGTTTATCA
63 CTAATTTATTAACATTCAAAAAATTAATAAG-CAAGAAATTTTAAAAAAATAAATCAGTTTAACA
* * * *
551261 AATAAGTTAAAATAATTATGGCCATTTGAACATTTATCTAT-TTCAAATCATTATGAA
127 AACAAGTTAAAATAATTATGACCATTTGAACAATTATCTATCTAC-AATCATTATGAA
* ** * ** **
551318 TTTTTGTTTTGACATAAAACAATTGTTTTTTATTATACTAGCTTATTCGTAATAAAATAATA
1 CTTTTGTTTTGACATAAAACAATTGTTTTAGATCATAAAAGCTTATTCAAAATAAAATAATA
551380 TTTCAAAAAT
Statistics
Matches: 198, Mismatches: 39, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
181 15 0.08
182 98 0.49
183 19 0.10
184 64 0.32
185 2 0.01
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (183 bp):
CTTTTGTTTTGACATAAAACAATTGTTTTAGATCATAAAAGCTTATTCAAAATAAAATAATACTA
ATTTATTAACATTCAAAAAATTAATAAGCAAGAAATTTTAAAAAAATAAATCAGTTTAACAAACA
AGTTAAAATAATTATGACCATTTGAACAATTATCTATCTACAATCATTATGAA
Found at i:551735 original size:14 final size:14
Alignment explanation
Indices: 551698--551736 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
551688 TATTTATTTT
* *
551698 TTATTATTAAATAA
1 TTATTTTTAATTAA
551712 TTA-TTTTAATTAA
1 TTATTTTTAATTAA
551725 TTATTTTTAATT
1 TTATTTTTAATT
551737 TGGATAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTATTTTTAATTAA
Found at i:552062 original size:17 final size:17
Alignment explanation
Indices: 552040--552092 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
552030 ATATTTATAT
552040 TATATTTTAATTAATTA
1 TATATTTTAATTAATTA
*
552057 TATATTATAATTAAATTA
1 TATATTTTAATT-AATTA
* * *
552075 GAT-TATTATTTAATTA
1 TATATTTTAATTAATTA
552091 TA
1 TA
552093 ACAATTATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 6 0.21
17 16 0.55
18 7 0.24
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TATATTTTAATTAATTA
Found at i:552063 original size:22 final size:23
Alignment explanation
Indices: 552035--552090 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
552025 TTTAAATATT
* *
552035 TATATTATATTTTAATTA-ATTA
1 TATATTATAATTAAATTAGATTA
552057 TATATTATAATTAAATTAGATTA
1 TATATTATAATTAAATTAGATTA
552080 T-TATT-TAATTA
1 TATATTATAATTA
552091 TAACAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 6 0.19
22 20 0.65
23 5 0.16
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
TATATTATAATTAAATTAGATTA
Found at i:552129 original size:21 final size:21
Alignment explanation
Indices: 552104--552145 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
552094 CAATTATTTT
*
552104 AATTTTAAATTA-ATAAGTAAA
1 AATTTT-AATTATATAAATAAA
552125 AATTTTAATTATATAAATAAA
1 AATTTTAATTATATAAATAAA
552146 TTAGATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
AATTTTAATTATATAAATAAA
Found at i:552290 original size:17 final size:17
Alignment explanation
Indices: 552251--552297 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
552241 TTGAAAATTA
*
552251 ATAAAATAAT-AGTAAT
1 ATAAAATAATAATTAAT
* *
552267 ATTAAATAATAATTATT
1 ATAAAATAATAATTAAT
*
552284 ATAAAATATTAATT
1 ATAAAATAATAATT
552298 GATCTAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 9 0.36
17 16 0.64
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
ATAAAATAATAATTAAT
Found at i:552377 original size:19 final size:18
Alignment explanation
Indices: 552349--552386 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
552339 TTATAATAAG
552349 TTATAGTATA-ACTTATTA
1 TTATAGTATATA-TTATTA
552367 TTATAAGTATATATTATTA
1 TTAT-AGTATATATTATTA
552386 T
1 T
552387 AATGTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 13 0.72
20 1 0.06
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (18 bp):
TTATAGTATATATTATTA
Found at i:552535 original size:29 final size:30
Alignment explanation
Indices: 552496--552562 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 30
552486 CTTTAATTAA
**
552496 TATTATATAATAGAATTTAATATAAATAAT
1 TATTATATAATAGAACATAATATAAATAAT
* *
552526 TATTA-ATAATAGAACATAATTTAAATATT
1 TATTATATAATAGAACATAATATAAATAAT
552555 TATTATAT
1 TATTATAT
552563 TTATCATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 25 0.78
30 7 0.22
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (30 bp):
TATTATATAATAGAACATAATATAAATAAT
Found at i:552748 original size:16 final size:15
Alignment explanation
Indices: 552710--552779 Score: 65
Period size: 15 Copynumber: 4.6 Consensus size: 15
552700 AACTTAACTA
*
552710 ATATAATCTAATATT
1 ATATAATTTAATATT
552725 ATATAA-TTATATATT
1 ATATAATTTA-ATATT
552740 ATAATAATTTAATATT
1 AT-ATAATTTAATATT
*
552756 AT-TAAATTTATTAATT
1 ATAT-AATTTAAT-ATT
552772 A-ATAATTT
1 ATATAATTT
552780 TGGATTATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
14 3 0.06
15 25 0.53
16 16 0.34
17 3 0.06
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (15 bp):
ATATAATTTAATATT
Found at i:552883 original size:9 final size:9
Alignment explanation
Indices: 552869--552893 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
552859 TATAATTTAT
552869 AATTATATA
1 AATTATATA
552878 AATTATATA
1 AATTATATA
552887 AATTATA
1 AATTATA
552894 ATTATATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
AATTATATA
Found at i:552915 original size:13 final size:14
Alignment explanation
Indices: 552846--552914 Score: 79
Period size: 13 Copynumber: 4.8 Consensus size: 14
552836 TAATTCTAAC
*
552846 ATAATTATATGATT
1 ATAATTATATAATT
552860 ATAATT-TATAATTAT
1 ATAATTATATAA-T-T
552875 ATAAATTATATAAATT
1 AT-AATTATAT-AATT
552891 ATAATTATAT-ATT
1 ATAATTATATAATT
552904 ATAATTATATA
1 ATAATTATATA
552915 TAAAGCAAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
13 17 0.35
14 7 0.15
15 11 0.23
16 7 0.15
17 4 0.08
18 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (14 bp):
ATAATTATATAATT
Found at i:553231 original size:21 final size:22
Alignment explanation
Indices: 553202--553255 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
553192 CTGATATTAT
* *
553202 TAATTTAATATACTATAAAA-A
1 TAATATAATATAATATAAAATA
*
553223 TAATATAATATAATTTAAAATA
1 TAATATAATATAATATAAAATA
553245 TAATTATAATA
1 TAA-TATAATA
553256 ATATAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 17 0.61
22 4 0.14
23 7 0.25
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
TAATATAATATAATATAAAATA
Found at i:553237 original size:31 final size:31
Alignment explanation
Indices: 553202--553262 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
553192 CTGATATTAT
*
553202 TAATTTAATATACT-ATAAAAATAATATAATA
1 TAATTTAAAATA-TAATAAAAATAATATAATA
* *
553233 TAATTTAAAATATAATTATAATAATATAAT
1 TAATTTAAAATATAATAAAAATAATATAAT
553263 TATTAAAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 1 0.04
31 25 0.96
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (31 bp):
TAATTTAAAATATAATAAAAATAATATAATA
Found at i:553256 original size:21 final size:23
Alignment explanation
Indices: 553232--553287 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 23
553222 ATAATATAAT
*
553232 ATAATTTAA-AATATA-ATTATA
1 ATAATTTAATAATAAAGATTATA
* *
553253 ATAATATAATTATTAAAGATTATA
1 ATAATTTAA-TAATAAAGATTATA
553277 ATAATTTAATA
1 ATAATTTAATA
553288 GTATTTGTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 8 0.29
23 6 0.21
24 14 0.50
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
ATAATTTAATAATAAAGATTATA
Found at i:553260 original size:14 final size:14
Alignment explanation
Indices: 553227--553265 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
553217 TAAAAATAAT
553227 ATAATATAATT-TA
1 ATAATATAATTATA
553240 A-AATATAATTATA
1 ATAATATAATTATA
553253 ATAATATAATTAT
1 ATAATATAATTAT
553266 TAAAGATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 9 0.38
13 4 0.17
14 11 0.46
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATAATATAATTATA
Found at i:553813 original size:181 final size:177
Alignment explanation
Indices: 553365--554027 Score: 542
Period size: 181 Copynumber: 3.7 Consensus size: 177
553355 CGACAAACAC
* * * * ***
553365 ATTTATTTTTTAAATCTCTTACTA--ATTTTTGAAATATTATTAAATTAGTATTATTTTAATATG
1 ATTTATTTTTTAAATCTC-TACTATTAATTTTCAAATATTAAT-AATTAGTATTATTTTATTCCA
* * * * * *
553428 AATA-AGCTTATATGAGA-AGAAACAATTG-TTTGTGAC-AAAATAAAGATCATAACAATTTGAT
64 AATATA-CTTGTATGA-ATAGAAACAATTGTTTTATGACAAAAAAAAAGGTCATAACTATTTGAA
* ** * *** * *
553489 ATAAATAATTGTTTAAA-TGTCATAACTATTTGAACTGT-TCT-TGTAAATAA
127 ATAAAAAATTACTCAAACAAACATAACGATTTGAA-T-TATCTCAGTAAATAA
* * * **
553539 ATTTAGTTTTTAAATCTCT--TATTAATTTTTAAAATATTAATAGATCAGTATTATTTTATTCGG
1 ATTTATTTTTTAAATCTCTACTATTAA-TTTTCAAATATTAATA-ATTAGTATTATTTTATTCCA
* * * *
553602 AATA-ATTTTGCATGAATAGAAATAATTGTTTTATGACAAAAAAAAAGGTTATAACTATTTGAAA
64 AATATA-CTTGTATGAATAGAAACAATTGTTTTATGACAAAAAAAAAGGTCATAACTATTTGAAA
* * * * * * *
553666 TAGATAATTGCTCAAATAAACATGACTATTTTGACTTAT-TCAGTAAATAA
128 TAAAAAATTACTCAAACAAACATAACGA-TTTGAATTATCTCAGTAAATAA
* *
553716 ATTTATTTTTTAAATCTCCTACCTACTAACTTTCAAAGTATTAATCAATTAGTATTATTTTATTC
1 ATTTATTTTTTAAATCT-CTA-CTATTAATTTTCAAA-TATTAAT-AATTAGTATTATTTTATTC
* * * *
553781 CAAATATACTTGTATGAATAGAAACAATTGTTTTAGGATAAAACAAAAGATCATAACTATTTGAA
62 CAAATATACTTGTATGAATAGAAACAATTGTTTTATGACAAAAAAAAAGGTCATAACTATTTGAA
* ** *
553846 ATAAAAAATTATTCAAACAGTCATAACGATTTGAATTATCTCAGTAAATAG
127 ATAAAAAATTACTCAAACAAACATAACGATTTGAATTATCTCAGTAAATAA
* * * * *
553897 ATTTATTTTTAAAATTTTTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTT
1 ATTTATTTTTTAAA-TCTCTAC-TATTAA-TTTTCAAATATTAAT-AATTAGTATTATTTTATTC
* * * * *
553962 CAAATATGCTTGTATGAACATAAACAATTGGTTTATGACAAAACAAAAGGGTCATAACTATTTGA
62 CAAATATACTTGTATGAATAGAAACAATTGTTTTATGACAAAA-AAAAAGGTCATAACTATTTGA
554027 A
126 A
554028 CATGTTCAAA
Statistics
Matches: 395, Mismatches: 71, Indels: 38
0.78 0.14 0.08
Matches are distributed among these distances:
171 2 0.01
173 4 0.01
174 67 0.17
175 7 0.02
176 36 0.09
177 33 0.08
178 7 0.02
180 16 0.04
181 194 0.49
182 29 0.07
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.41
Consensus pattern (177 bp):
ATTTATTTTTTAAATCTCTACTATTAATTTTCAAATATTAATAATTAGTATTATTTTATTCCAAA
TATACTTGTATGAATAGAAACAATTGTTTTATGACAAAAAAAAAGGTCATAACTATTTGAAATAA
AAAATTACTCAAACAAACATAACGATTTGAATTATCTCAGTAAATAA
Found at i:554099 original size:146 final size:146
Alignment explanation
Indices: 553897--554172 Score: 405
Period size: 146 Copynumber: 1.9 Consensus size: 146
553887 CAGTAAATAG
* *
553897 ATTTATTTTTAAAATTTTTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTT
1 ATTTATTTTTAAAATTTTTTACTTATTAAATTTTGAAATATTAATAAATTAGTATTATTTCA-TT
* * * *
553962 CA-AATATGCTTGTATGAACATAAACAATTGGTTTATGACAAAACAAAAGGGTCATAACTATTTG
65 CAGAATAAGCTTGTATGAACAGAAACAATTGGTTTAAGACAAAACAAAA-GGTCATAACAATTTG
554026 AACATGTTCAAAAAACAT
129 AACATGTTCAAAAAACAT
*
554044 ATTTATTTTTTAAA-TTTTTACTTATTAAATTTTGAAATATTAATAAATTTA-TATTATTTCATT
1 ATTTATTTTTAAAATTTTTTACTTATTAAATTTTGAAATATTAATAAA-TTAGTATTATTTCATT
* * * *
554107 CAGAATAAGCTTGTTTGAATAGAAACAATTGTTTTAAGACAAAACAAAATGTCATAACAATTTGA
65 CAGAATAAGCTTGTATGAACAGAAACAATTGGTTTAAGACAAAACAAAAGGTCATAACAATTTGA
554172 A
130 A
554173 ATAGATAATA
Statistics
Matches: 116, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
145 19 0.16
146 81 0.70
147 16 0.14
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (146 bp):
ATTTATTTTTAAAATTTTTTACTTATTAAATTTTGAAATATTAATAAATTAGTATTATTTCATTC
AGAATAAGCTTGTATGAACAGAAACAATTGGTTTAAGACAAAACAAAAGGTCATAACAATTTGAA
CATGTTCAAAAAACAT
Found at i:554601 original size:18 final size:18
Alignment explanation
Indices: 554554--554616 Score: 51
Period size: 21 Copynumber: 3.5 Consensus size: 18
554544 AAAAAGTATG
554554 TTATTT-AT-ATATTATA
1 TTATTTAATAATATTATA
*
554570 TTATAACTTTATAATATTATA
1 TTAT---TTAATAATATTATA
*
554591 TTATTTAATAATAATA-A
1 TTATTTAATAATATTATA
*
554608 ATATTTAAT
1 TTATTTAAT
554617 TTTACTAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
16 4 0.10
17 9 0.23
18 10 0.26
19 2 0.05
20 2 0.05
21 12 0.31
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATTTAATAATATTATA
Found at i:554612 original size:17 final size:17
Alignment explanation
Indices: 554592--554630 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
554582 AATATTATAT
554592 TATTTAATAATAATAAA
1 TATTTAATAATAATAAA
** *
554609 TATTTAATTTTACTAAA
1 TATTTAATAATAATAAA
554626 TATTT
1 TATTT
554631 TTAAGATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
TATTTAATAATAATAAA
Found at i:554762 original size:41 final size:38
Alignment explanation
Indices: 554692--554767 Score: 98
Period size: 41 Copynumber: 1.9 Consensus size: 38
554682 TTATTCTTAA
* *
554692 TAAATTAATATATTTATATTAACAATAGTATTAATTAT
1 TAAAATAATATATTTATATTAACAATAGTAATAATTAT
*
554730 TAAAATAATATATTAATATAATTAACATTAGTAATAAT
1 TAAAATAATATATT--TAT-ATTAACAATAGTAATAAT
554768 ATAATTTATC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 13 0.41
40 3 0.09
41 16 0.50
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (38 bp):
TAAAATAATATATTTATATTAACAATAGTAATAATTAT
Found at i:554896 original size:16 final size:16
Alignment explanation
Indices: 554875--554921 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
554865 AGATTATAAA
554875 ACTATTTATAATAATT
1 ACTATTTATAATAATT
*
554891 ACTATTTAT-ATATTT
1 ACTATTTATAATAATT
*
554906 ATTATTATATAATAAT
1 ACTATT-TATAATAAT
554922 ATATAATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 10 0.38
16 12 0.46
17 4 0.15
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (16 bp):
ACTATTTATAATAATT
Found at i:555299 original size:30 final size:31
Alignment explanation
Indices: 555234--555299 Score: 73
Period size: 30 Copynumber: 2.1 Consensus size: 31
555224 ATAAGTTATT
* *
555234 TAAATATTATAATAGTATTAATTTATCTATTA
1 TAAATATTATAATAG-ATTAATTGATCTATAA
*
555266 TAAATATTATTATA-ATTAATATGAT-TATAA
1 TAAATATTATAATAGATTAAT-TGATCTATAA
555296 TAAA
1 TAAA
555300 AATAATAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
30 14 0.47
31 3 0.10
32 13 0.43
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (31 bp):
TAAATATTATAATAGATTAATTGATCTATAA
Found at i:555349 original size:21 final size:21
Alignment explanation
Indices: 555300--555351 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
555290 TTATAATAAA
* * *
555300 AATAA-TAGTTATATAATTAT
1 AATAATTATTTATACAATTAG
555320 AACTAATTATTTATACAATTAG
1 AA-TAATTATTTATACAATTAG
555342 AATAATTATT
1 AATAATTATT
555352 AAACCAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.07
21 11 0.41
22 14 0.52
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (21 bp):
AATAATTATTTATACAATTAG
Found at i:555547 original size:23 final size:23
Alignment explanation
Indices: 555521--555566 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
555511 AATTTTTGTC
*
555521 TTAATATCAAATAAATATTATTT
1 TTAATATCAAATAAATATAATTT
* *
555544 TTAATTTGAAATAAATATAATTT
1 TTAATATCAAATAAATATAATTT
555567 AATATTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATATCAAATAAATATAATTT
Found at i:555573 original size:23 final size:22
Alignment explanation
Indices: 555529--555581 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
555519 TCTTAATATC
* *
555529 AAATAAATATTATTTTTAATTT
1 AAATAAATATAATTTATAATTT
555551 GAAATAAATATAATTTA-ATATTT
1 -AAATAAATATAATTTATA-ATTT
*
555574 AAAGAAAT
1 AAATAAAT
555582 TATTATATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (22 bp):
AAATAAATATAATTTATAATTT
Found at i:555774 original size:20 final size:21
Alignment explanation
Indices: 555749--555796 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
555739 AATCAAACAA
*
555749 TATATAAATATTA-TTAAATT
1 TATATAAATATTAGATAAATT
* *
555769 TATATAAATTTTAGATCAATT
1 TATATAAATATTAGATAAATT
555790 TATATAA
1 TATATAA
555797 TTCTATTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
TATATAAATATTAGATAAATT
Found at i:555776 original size:10 final size:10
Alignment explanation
Indices: 555749--555796 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
555739 AATCAAACAA
555749 TATATAAATAT
1 TATATAAAT-T
555760 TAT-TAAATT
1 TATATAAATT
555769 TATATAAATTT
1 TATATAAA-TT
* *
555780 TAGATCAATT
1 TATATAAATT
555790 TATATAA
1 TATATAA
555797 TTCTATTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
9 4 0.13
10 16 0.52
11 11 0.35
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (10 bp):
TATATAAATT
Found at i:556666 original size:21 final size:21
Alignment explanation
Indices: 556624--556731 Score: 59
Period size: 21 Copynumber: 5.1 Consensus size: 21
556614 TGATCTATTG
*
556624 AATAACATATATTATTTATAATTA
1 AATAA-ATATAATA-TT-TAATTA
556648 AATAAATATAATATTTAATTA
1 AATAAATATAATATTTAATTA
* *
556669 AA-AATTACAA-A--TAA-TA
1 AATAAATATAATATTTAATTA
*
556685 TAATATATATTAATA-TTATATTA
1 -AATAAATA-TAATATTTA-ATTA
*
556708 TAAT-ATTATAATATTTAATTA
1 -AATAAATATAATATTTAATTA
556729 AAT
1 AAT
556732 TTTATTAATA
Statistics
Matches: 68, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
16 2 0.03
17 5 0.07
18 3 0.04
19 3 0.04
20 10 0.15
21 19 0.28
22 8 0.12
23 13 0.19
24 5 0.07
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
AATAAATATAATATTTAATTA
Found at i:556711 original size:13 final size:14
Alignment explanation
Indices: 556679--556721 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
556669 AAAATTACAA
*
556679 ATAATATAATATAT
1 ATAATATTATATAT
556693 ATTAATATTATAT-T
1 A-TAATATTATATAT
556707 ATAATATTATA-AT
1 ATAATATTATATAT
556720 AT
1 AT
556722 TTAATTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 13 0.50
14 3 0.12
15 10 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATAATATTATATAT
Found at i:556721 original size:31 final size:31
Alignment explanation
Indices: 556639--556738 Score: 84
Period size: 31 Copynumber: 3.3 Consensus size: 31
556629 CATATATTAT
*
556639 TTATAATTA-AATAAATATAATATTTAATTAAA
1 TTAT-ATTATAAT-AATATAATATATAATTAAA
*
556671 --A-ATTACAAATAATATAATATAT-ATTAATA
1 TTATATTA-TAATAATATAATATATAATTAA-A
* *
556700 TTATATTATAATATTATAATATTTAATTAAA
1 TTATATTATAATAATATAATATATAATTAAA
*
556731 TTTTATTA
1 TTATATTA
556739 ATATTGTGTT
Statistics
Matches: 56, Mismatches: 5, Indels: 15
0.74 0.07 0.20
Matches are distributed among these distances:
28 9 0.16
29 12 0.21
30 4 0.07
31 22 0.39
32 9 0.16
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (31 bp):
TTATATTATAATAATATAATATATAATTAAA
Found at i:556740 original size:21 final size:23
Alignment explanation
Indices: 556683--556743 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 23
556673 TTACAAATAA
556683 TATAATATATATTAATA-TTATAT
1 TATAATAT-TATTAATATTTATAT
556706 TATAATATTA-TAATATTTA-AT
1 TATAATATTATTAATATTTATAT
*
556727 TA-AATTTTATTAATATT
1 TATAATATTATTAATATT
556744 GTGTTATTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
20 6 0.17
21 16 0.46
22 5 0.14
23 8 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TATAATATTATTAATATTTATAT
Found at i:557372 original size:23 final size:23
Alignment explanation
Indices: 557341--557384 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
557331 TTAATTATAC
*
557341 TAAAATATTTCATATTATGATAA
1 TAAAATATTTCAAATTATGATAA
* *
557364 TAAATTATTTTAAATTATGAT
1 TAAAATATTTCAAATTATGAT
557385 TTAATTAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (23 bp):
TAAAATATTTCAAATTATGATAA
Found at i:557546 original size:15 final size:15
Alignment explanation
Indices: 557519--557567 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
557509 TTTTATAATG
557519 TTTATT-TATAAATAT
1 TTTATTATA-AAATAT
557534 TTTATTATAAAATA-
1 TTTATTATAAAATAT
**
557548 ACTA-TATAAAATAT
1 TTTATTATAAAATAT
557562 TTTATT
1 TTTATT
557568 GTAGTTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
13 9 0.33
14 4 0.15
15 12 0.44
16 2 0.07
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTATTATAAAATAT
Found at i:558298 original size:181 final size:180
Alignment explanation
Indices: 557910--558306 Score: 412
Period size: 179 Copynumber: 2.2 Consensus size: 180
557900 GTTGAACCAA
* * * * * *
557910 TTCAAATAATTAAGACTA-TTATAACAATTATTTA-TTTCAAATCATTCTGACCCTTTGTTTAGT
1 TTCAAATAGTTATGACCATTTA-AACAATTATCTATTTTAAAATCATTATGACCCTTTGTTTAGT
* * * * * * *
557973 CATAAAATAATTGTTCAGTTTGTACATGCTTATTCAAAATAAAATACTACTATTTTATTAACATT
65 CATAAAACAATTGTTCAGTTTATAAAAGCTTATCCAAAATAAAATAATACTACTTTATTAACATT
*
558038 CAAAAAATTAATAAGCAAGAAATTAAAAAATAAATCAGTTTACCAAACAAG
130 CAAAAAATTAAGAAGCAAGAAATTAAAAAATAAATCAGTTTACCAAACAAG
* * * *
558089 TTTAAATAGTTATGACTATTTAAACAATTATC-ATTTTAAAATCGTTATGACCTTTTGTTTTA-T
1 TTCAAATAGTTATGACCATTTAAACAATTATCTATTTTAAAATCATTATGACCCTTTG-TTTAGT
* *
558152 CATAAAACAATTGTTTCA-TTTCATAAAAGCTTATCCAAAATAAAATAATATTACTTTATTAATA
65 CATAAAACAATTG-TTCAGTTT-ATAAAAGCTTATCCAAAATAAAATAATACTACTTTATTAACA
*** * * * * *
558216 TTTC-AAAAATTAAGAAGTTGGAGATTTAAAACATAAATCATTTTATCAAATC-GG
128 -TTCAAAAAATTAAGAAGCAAGA-AATTAAAAAATAAATCAGTTTACCAAA-CAAG
* *
558270 TTCAAATAGTTATGGCCATTTGAACAATTATCTATTT
1 TTCAAATAGTTATGACCATTTAAACAATTATCTATTT
558307 CAAACTTATA
Statistics
Matches: 179, Mismatches: 30, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
178 1 0.01
179 59 0.33
180 59 0.33
181 55 0.31
182 5 0.03
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.39
Consensus pattern (180 bp):
TTCAAATAGTTATGACCATTTAAACAATTATCTATTTTAAAATCATTATGACCCTTTGTTTAGTC
ATAAAACAATTGTTCAGTTTATAAAAGCTTATCCAAAATAAAATAATACTACTTTATTAACATTC
AAAAAATTAAGAAGCAAGAAATTAAAAAATAAATCAGTTTACCAAACAAG
Found at i:558926 original size:33 final size:30
Alignment explanation
Indices: 558889--558960 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 30
558879 TTATATTCGA
* *
558889 TAATATTATAACTATATTATTTTATATATTAAT
1 TAATATTATAA-TATAATATATT-T-TATTAAT
*
558922 TAATATAAT-ATATAATATATTTTATTAAT
1 TAATATTATAATATAATATATTTTATTAAT
558951 TAA-ATTATAA
1 TAATATTATAA
558961 ATTTATAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
28 4 0.12
29 11 0.32
30 1 0.03
31 9 0.26
32 1 0.03
33 8 0.24
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (30 bp):
TAATATTATAATATAATATATTTTATTAAT
Found at i:559032 original size:64 final size:64
Alignment explanation
Indices: 558910--559035 Score: 150
Period size: 64 Copynumber: 2.0 Consensus size: 64
558900 CTATATTATT
* * * *
558910 TTATATATTAATTAATATAATATATAATATATTTTATTAATTAAATTATAAATTTATAATTAAG
1 TTATATATTAATAAATATAATATAAAATATATTTTAATAATTAAATTATAAATATATAATTAAG
* *
558974 TTATATGTTAATAAAT-TATATATAAAATATATTTGTAATAA-T-CATTATAAATAATATAATTA
1 TTATATATTAATAAATATA-ATATAAAATATATTT-TAATAATTAAATTATAAAT-ATATAATTA
559036 TATTGTATTA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
63 11 0.21
64 37 0.70
65 5 0.09
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (64 bp):
TTATATATTAATAAATATAATATAAAATATATTTTAATAATTAAATTATAAATATATAATTAAG
Found at i:559386 original size:21 final size:19
Alignment explanation
Indices: 559313--559397 Score: 59
Period size: 19 Copynumber: 4.2 Consensus size: 19
559303 AACTAGTTAT
*
559313 ATATAATT-TATAAATATAA
1 ATATAATTAT-TAAATTTAA
559332 AT-TAAATTATT-AATTTAATA
1 ATAT-AATTATTAAATTT-A-A
*
559352 ATCATTATTTATTAACATTATAA
1 AT-A-TAATTATTAA-ATT-TAA
559375 ATATAATTATTAAATTTAA
1 ATATAATTATTAAATTTAA
559394 ATAT
1 ATAT
559398 GATAAATAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 20
0.70 0.04 0.26
Matches are distributed among these distances:
18 5 0.09
19 15 0.28
20 7 0.13
21 9 0.17
22 7 0.13
23 5 0.09
24 4 0.08
25 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
ATATAATTATTAAATTTAA
Found at i:559508 original size:13 final size:13
Alignment explanation
Indices: 559492--559594 Score: 53
Period size: 13 Copynumber: 8.3 Consensus size: 13
559482 TTAATAAAAT
559492 TAATATTATTATA
1 TAATATTATTATA
*
559505 TAAT-TAAATTA-A
1 TAATAT-TATTATA
* *
559517 TTATATAATTATA
1 TAATATTATTATA
559530 TAATA-T-TTAT-
1 TAATATTATTATA
*
559540 T-ATATTATAATA
1 TAATATTATTATA
559552 -AATATTTAATT-TA
1 TAATA-TT-ATTATA
*
559565 -AATATTTAATATA
1 TAATA-TTATTATA
*
559578 TAATAATATTATA
1 TAATATTATTATA
559591 TAAT
1 TAAT
559595 TAAATAAATT
Statistics
Matches: 70, Mismatches: 9, Indels: 22
0.69 0.09 0.22
Matches are distributed among these distances:
9 3 0.04
10 2 0.03
11 7 0.10
12 15 0.21
13 37 0.53
14 6 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TAATATTATTATA
Found at i:559508 original size:22 final size:25
Alignment explanation
Indices: 559483--559534 Score: 74
Period size: 22 Copynumber: 2.2 Consensus size: 25
559473 TTCAATTGTT
559483 TAATAAAATTAA-TAT-T-ATTATA
1 TAATAAAATTAATTATATAATTATA
*
559505 TAATTAAATTAATTATATAATTATA
1 TAATAAAATTAATTATATAATTATA
559530 TAATA
1 TAATA
559535 TTTATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 11 0.44
23 3 0.12
24 1 0.04
25 10 0.40
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
TAATAAAATTAATTATATAATTATA
Found at i:559511 original size:17 final size:17
Alignment explanation
Indices: 559489--559527 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
559479 TGTTTAATAA
559489 AATTAATATT-ATTATAT
1 AATTAA-ATTAATTATAT
559506 AATTAAATTAATTATAT
1 AATTAAATTAATTATAT
559523 AATTA
1 AATTA
559528 TATAATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTAAATTAATTATAT
Found at i:559605 original size:17 final size:17
Alignment explanation
Indices: 559499--559605 Score: 73
Period size: 17 Copynumber: 6.2 Consensus size: 17
559489 AATTAATATT
*
559499 ATTATATAATTAAATTA
1 ATTATATAATTAAATAA
*
559516 ATTATATAATTATATAA
1 ATTATATAATTAAATAA
559533 TATT-TATTATATTATAATAA
1 -ATTATA-TA-ATTA-AATAA
*
559553 A-TATTTAATT---TAA
1 ATTATATAATTAAATAA
*
559566 A-TATTTAATATATAATAA
1 ATTATATAAT-TA-AATAA
559584 TATTATATAATTAAATAA
1 -ATTATATAATTAAATAA
559602 ATTA
1 ATTA
559606 AATATATTAT
Statistics
Matches: 73, Mismatches: 5, Indels: 24
0.72 0.05 0.24
Matches are distributed among these distances:
13 12 0.16
14 1 0.01
17 24 0.33
18 16 0.22
19 9 0.12
20 11 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTATATAATTAAATAA
Found at i:559610 original size:34 final size:35
Alignment explanation
Indices: 559514--559618 Score: 117
Period size: 34 Copynumber: 3.0 Consensus size: 35
559504 ATAATTAAAT
* *
559514 TAATTATATAATTATATAATATTTATTATATTATAA
1 TAATTATATAATTAAATAA-ATTTAATATATTATAA
* * *
559550 TAAATATTTAATTTAAAT--ATTTAATATATAATAA
1 TAATTATATAA-TTAAATAAATTTAATATATTATAA
*
559584 T-ATTATATAATTAAATAAATTAAATATATTATAA
1 TAATTATATAATTAAATAAATTTAATATATTATAA
559618 T
1 T
559619 GATAAACATT
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
32 6 0.11
33 7 0.12
34 30 0.53
36 9 0.16
37 5 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (35 bp):
TAATTATATAATTAAATAAATTTAATATATTATAA
Found at i:559660 original size:17 final size:20
Alignment explanation
Indices: 559638--559683 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
559628 TTACTTATTA
559638 ATTATTATAA-TT-T-AACT
1 ATTATTATAATTTATCAACT
*
559655 ATTATTTTAATTTATCAACT
1 ATTATTATAATTTATCAACT
559675 ATTATTATA
1 ATTATTATA
559684 TCTATTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 9 0.38
18 2 0.08
19 1 0.04
20 12 0.50
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTATTATAATTTATCAACT
Found at i:560106 original size:11 final size:11
Alignment explanation
Indices: 560080--560143 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
560070 TTTGTTTTGT
*
560080 ATAATATATTA
1 ATAATATAATA
*
560091 TTAATATAATA
1 ATAATATAATA
560102 AT-A-ATAATA
1 ATAATATAATA
560111 ATAATATAATTA
1 ATAATATAA-TA
* *
560123 GTAATGTAATA
1 ATAATATAATA
* *
560134 TTGATATAAT
1 ATAATATAAT
560144 TACAATTAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
9 8 0.19
10 2 0.05
11 23 0.55
12 9 0.21
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (11 bp):
ATAATATAATA
Found at i:560155 original size:21 final size:23
Alignment explanation
Indices: 560114--560156 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
560104 AATAATAATA
*
560114 ATATAATTAGTAATGTAATATTG
1 ATATAATTAGCAATGTAATATTG
560137 ATATAATTA-CAAT-TAATATT
1 ATATAATTAGCAATGTAATATT
560157 ATTATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (23 bp):
ATATAATTAGCAATGTAATATTG
Found at i:560183 original size:13 final size:13
Alignment explanation
Indices: 560138--560189 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
560128 GTAATATTGA
*
560138 TATAATTACAATT
1 TATAATTATAATT
* *
560151 AAT-ATTATTATT
1 TATAATTATAATT
*
560163 TAAAAATTATAATT
1 T-ATAATTATAATT
560177 TATAATTATAATT
1 TATAATTATAATT
560190 GTAACATTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
12 7 0.23
13 14 0.47
14 9 0.30
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (13 bp):
TATAATTATAATT
Found at i:560334 original size:28 final size:28
Alignment explanation
Indices: 560281--560363 Score: 71
Period size: 28 Copynumber: 3.0 Consensus size: 28
560271 TTCCAAAAAT
* **
560281 TAATATATTATTATTAT-TTTTAAATAAA
1 TAATATATTATAATTATATAAT-AATAAA
* *
560309 TAATATATTATAATTATATACTAATAAT
1 TAATATATTATAATTATATAATAATAAA
* *
560337 TAATAAATTTTAA-TATATTAATAATAA
1 TAATATATTATAATTATA-TAATAATAA
560364 TTTATATTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
27 4 0.09
28 40 0.87
29 2 0.04
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (28 bp):
TAATATATTATAATTATATAATAATAAA
Found at i:560364 original size:28 final size:28
Alignment explanation
Indices: 560303--560365 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
560293 ATTATTTTTA
* * *
560303 AATAAATAATATATTATAATTATATACT
1 AATAATTAATAAATTATAATTATATAAT
*
560331 AATAATTAATAAATTTTAA-TATATTAAT
1 AATAATTAATAAATTATAATTATA-TAAT
560359 AATAATT
1 AATAATT
560366 TATATTAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 4 0.13
28 26 0.87
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (28 bp):
AATAATTAATAAATTATAATTATATAAT
Found at i:560370 original size:18 final size:18
Alignment explanation
Indices: 560330--560367 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
560320 AATTATATAC
*
560330 TAATA-ATTAATAAATTT
1 TAATATATTAATAAAATT
560347 TAATATATTAATAATAATT
1 TAATATATTAATAA-AATT
560366 TA
1 TA
560368 TATTAATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 8 0.44
19 5 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TAATATATTAATAAAATT
Found at i:560535 original size:21 final size:20
Alignment explanation
Indices: 560510--560554 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
560500 TATTATATAG
* *
560510 ATATAATATATAAATTTATTT
1 ATATAAAATAT-AATTAATTT
*
560531 ATATAAAATATTATTAATTT
1 ATATAAAATATAATTAATTT
560551 ATAT
1 ATAT
560555 TAGATTATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATAAAATATAATTAATTT
Found at i:560579 original size:18 final size:18
Alignment explanation
Indices: 560498--560590 Score: 77
Period size: 18 Copynumber: 5.1 Consensus size: 18
560488 AAATTAAATT
560498 TATATTATATAGATATAATA
1 TATATTAT-TA-ATATAATA
*
560518 TATAAATTTATTTATATAA-A
1 TAT--A-TTATTAATATAATA
*
560538 -ATATTATTAAT-TTATA
1 TATATTATTAATATAATA
*
560554 TTAGATTATTAATATAATA
1 -TATATTATTAATATAATA
560573 TATATTATTAA-ATAATA
1 TATATTATTAATATAATA
560590 T
1 T
560591 CAATTATTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 17
0.72 0.07 0.20
Matches are distributed among these distances:
15 2 0.03
16 8 0.13
17 8 0.13
18 20 0.33
19 6 0.10
20 4 0.07
21 6 0.10
22 2 0.03
23 4 0.07
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
TATATTATTAATATAATA
Found at i:560601 original size:18 final size:17
Alignment explanation
Indices: 560538--560604 Score: 64
Period size: 18 Copynumber: 3.8 Consensus size: 17
560528 TTTATATAAA
* *
560538 ATATTATTAATTTATATT
1 ATATTATTAAATAATA-T
*
560556 AGATTATTAATATAATAT
1 ATATTATTAA-ATAATAT
560574 ATATTATTAAATAATAT
1 ATATTATTAAATAATAT
560591 CA-ATTATTTAAATA
1 -ATATTA-TTAAATA
560605 GATTTAATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
17 11 0.26
18 27 0.64
19 4 0.10
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (17 bp):
ATATTATTAAATAATAT
Found at i:561130 original size:15 final size:15
Alignment explanation
Indices: 561110--561139 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
561100 CCTTTTGTAA
561110 TATTATAATTATAAT
1 TATTATAATTATAAT
561125 TATTATAATTATAAT
1 TATTATAATTATAAT
561140 AGATTAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTATAATTATAAT
Found at i:561350 original size:19 final size:20
Alignment explanation
Indices: 561326--561366 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
561316 TGTTGTTTGT
*
561326 AATAGTAAATATTATTT-AA
1 AATAGTAAATAATATTTCAA
*
561345 AATAGTTAATAATATTTCAA
1 AATAGTAAATAATATTTCAA
561365 AA
1 AA
561367 ATTATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (20 bp):
AATAGTAAATAATATTTCAA
Found at i:561506 original size:19 final size:19
Alignment explanation
Indices: 561457--561508 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
561447 GATTAAATAT
561457 TATTATTAT-ATATTATGA
1 TATTATTATAATATTATGA
*
561475 TAATTATTGTAATATTGAT-A
1 T-ATTATTATAATATT-ATGA
561495 TATTATTATAATAT
1 TATTATTATAATAT
561509 ATTATTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 1 0.03
19 19 0.66
20 7 0.24
21 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (19 bp):
TATTATTATAATATTATGA
Found at i:561522 original size:15 final size:13
Alignment explanation
Indices: 561453--561533 Score: 60
Period size: 13 Copynumber: 6.2 Consensus size: 13
561443 TGAAGATTAA
*
561453 ATATTATTATTAT
1 ATATTATTATAAT
*
561466 ATATTATGATAAT
1 ATATTATTATAAT
* *
561479 -TATTGTAATATTGAT
1 ATA-T-TATTA-TAAT
561494 ATATTATTATAAT
1 ATATTATTATAAT
561507 ATATTATTAATAA-
1 ATATTATT-ATAAT
*
561520 ATA-TATAATAAT
1 ATATTATTATAAT
561532 AT
1 AT
561534 TAATAAACTA
Statistics
Matches: 54, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
11 4 0.07
12 7 0.13
13 26 0.48
14 11 0.20
15 4 0.07
16 2 0.04
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (13 bp):
ATATTATTATAAT
Found at i:561534 original size:20 final size:21
Alignment explanation
Indices: 561501--561560 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 21
561491 GATATATTAT
561501 TATAATATATTATTAATAAA-TA
1 TATAATA-A-TATTAATAAACTA
561523 TATAATAATATTAATAAACTA
1 TATAATAATATTAATAAACTA
*
561544 -AT-A-AATAATAATAAACT
1 TATAATAATATTAATAAACT
561561 GTATTATTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
18 13 0.36
19 1 0.03
20 12 0.33
21 3 0.08
22 7 0.19
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
TATAATAATATTAATAAACTA
Found at i:561605 original size:22 final size:22
Alignment explanation
Indices: 561562--561606 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
561552 TAATAAACTG
* *
561562 TATTATTTAATTTACATTAAAA
1 TATTATTTAAATTACATGAAAA
561584 TATTATTTAAATTA-ATAGAAAA
1 TATTATTTAAATTACAT-GAAAA
561606 T
1 T
561607 TATTTATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
TATTATTTAAATTACATGAAAA
Found at i:561806 original size:6 final size:6
Alignment explanation
Indices: 561785--561845 Score: 50
Period size: 7 Copynumber: 9.3 Consensus size: 6
561775 ATAATTCTAT
* * *
561785 TATTAA TAATAA TATTAT TATTTATA TGTTAA TATTTAA TATTTAA TATTAA
1 TATTAA TATTAA TATTAA TA-TTA-A TATTAA TA-TTAA TA-TTAA TATTAA
561837 TAATTAA TA
1 T-ATTAA TA
561846 GAATATATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
6 19 0.42
7 25 0.56
8 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (6 bp):
TATTAA
Found at i:561819 original size:20 final size:20
Alignment explanation
Indices: 561787--561845 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
561777 AATTCTATTA
* *
561787 TTAATAATAATA-TTATTAT
1 TTAATATTAATATTTAATAT
*
561806 TTATATGTTAATATTTAATAT
1 TTA-ATATTAATATTTAATAT
*
561827 TTAATATTAATAATTAATA
1 TTAATATTAATATTTAATA
561846 GAATATATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
19 3 0.09
20 21 0.64
21 9 0.27
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
TTAATATTAATATTTAATAT
Found at i:561823 original size:7 final size:7
Alignment explanation
Indices: 561794--561845 Score: 56
Period size: 7 Copynumber: 7.7 Consensus size: 7
561784 TTATTAATAA
561794 TAATA-T
1 TAATATT
*
561800 TATTATT
1 TAATATT
561807 T-ATATGT
1 TAATAT-T
561814 TAATATT
1 TAATATT
561821 TAATATT
1 TAATATT
561828 TAATA-T
1 TAATATT
*
561834 TAATAAT
1 TAATATT
561841 TAATA
1 TAATA
561846 GAATATATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
6 13 0.32
7 23 0.57
8 4 0.10
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (7 bp):
TAATATT
Found at i:562090 original size:13 final size:12
Alignment explanation
Indices: 562072--562139 Score: 52
Period size: 13 Copynumber: 5.4 Consensus size: 12
562062 ATTCTAATAT
562072 TTAAATATTATAA
1 TTAAATA-TATAA
562085 TTAAATAT-TAA
1 TTAAATATATAA
562096 TT-AATAATAGTATA
1 TTAAAT-ATA-TA-A
*
562110 TTAATTATATAA
1 TTAAATATATAA
562122 TTTTAAAT-TATAA
1 --TTAAATATATAA
562135 TTAAA
1 TTAAA
562140 ATACATAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
10 3 0.07
11 12 0.26
12 2 0.04
13 16 0.35
14 11 0.24
15 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (12 bp):
TTAAATATATAA
Found at i:562796 original size:18 final size:19
Alignment explanation
Indices: 562762--562797 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
562752 TAATAGTCAT
562762 ATATTAGTTAATATTTATA
1 ATATTAGTTAATATTTATA
*
562781 ATATTA-TTACTATTTAT
1 ATATTAGTTAATATTTAT
562798 TATAATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
ATATTAGTTAATATTTATA
Found at i:562863 original size:27 final size:29
Alignment explanation
Indices: 562833--562899 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 29
562823 ATGTAATAAT
562833 TTAATAA-ATTATTATAA-TTAA-ATATTA
1 TTAATAATATT-TTATAATTTAATATATTA
562860 TTAATAATATTTTATAATTTAATATATTA
1 TTAATAATATTTTATAATTTAATATATTA
*
562889 TATTATAATAT
1 T-TAATAATAT
562900 AAATTATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
27 13 0.37
28 7 0.20
29 7 0.20
30 8 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
TTAATAATATTTTATAATTTAATATATTA
Found at i:562900 original size:10 final size:10
Alignment explanation
Indices: 562760--562900 Score: 52
Period size: 10 Copynumber: 14.5 Consensus size: 10
562750 ACTAATAGTC
562760 ATATATTAGTTA
1 ATATATTA--TA
562772 ATAT-TTATA
1 ATATATTATA
562781 ATATTATTACT-
1 ATA-TATTA-TA
*
562792 ATTTATTATA
1 ATATATTATA
562802 ATA-A-T-TA
1 ATATATTATA
*
562809 ATTTA-TATA
1 ATATATTATA
* *
562818 GTATCA-TGTA
1 ATAT-ATTATA
562828 ATA-ATT-TA
1 ATATATTATA
* *
562836 ATAAATTATT
1 ATATATTATA
562846 ATA-ATTA-A
1 ATATATTATA
562854 ATATTATTAATA
1 ATA-TATT-ATA
*
562866 ATATTTTATA
1 ATATATTATA
* *
562876 ATTTAATATA
1 ATATATTATA
*
562886 TTATATTATA
1 ATATATTATA
562896 ATATA
1 ATATA
562901 AATTATAAAT
Statistics
Matches: 98, Mismatches: 17, Indels: 30
0.68 0.12 0.21
Matches are distributed among these distances:
7 4 0.04
8 12 0.12
9 19 0.19
10 42 0.43
11 12 0.12
12 9 0.09
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.51
Consensus pattern (10 bp):
ATATATTATA
Found at i:562907 original size:17 final size:15
Alignment explanation
Indices: 562842--562900 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
562832 TTTAATAAAT
*
562842 TATTATAAT-TAA-A
1 TATTATATTATAATA
*
562855 TATTAT-TAATAATA
1 TATTATATTATAATA
*
562869 TTTTATAATT-TAATA
1 TATTAT-ATTATAATA
562884 TATTATATTATAATA
1 TATTATATTATAATA
562899 TA
1 TA
562901 AATTATAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
13 9 0.25
14 9 0.25
15 17 0.47
16 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTATATTATAATA
Found at i:563059 original size:23 final size:21
Alignment explanation
Indices: 563014--563070 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 21
563004 TAGTAATTAA
* *
563014 AATTT-TAATTAAATTTTATT
1 AATTTATAATTAAATTATAAT
563034 AATTTCATAATTATAATTATAAT
1 AATTT-ATAATTA-AATTATAAT
563057 AATTTATATATTAA
1 AATTTATA-ATTAA
563071 TATATTTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 5 0.16
22 10 0.32
23 16 0.52
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
AATTTATAATTAAATTATAAT
Found at i:563162 original size:7 final size:7
Alignment explanation
Indices: 563150--563196 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
563140 AACAATTTTA
563150 AATAATT
1 AATAATT
563157 AATAATT
1 AATAATT
*
563164 TAT-ATT
1 AATAATT
*
563170 AATTATT
1 AATAATT
*
563177 AAAAATT
1 AATAATT
563184 AATAA-T
1 AATAATT
563190 AATAATT
1 AATAATT
563197 TGCAAAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
6 11 0.33
7 22 0.67
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
AATAATT
Found at i:563166 original size:27 final size:27
Alignment explanation
Indices: 563136--563189 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
563126 ATAATTTATA
563136 TTATAACAATT-TTAAATAATTAATAAT
1 TTATAACAATTATTAAA-AATTAATAAT
**
563163 TTATATTAATTATTAAAAATTAATAAT
1 TTATAACAATTATTAAAAATTAATAAT
563190 AATAATTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (27 bp):
TTATAACAATTATTAAAAATTAATAAT
Found at i:563192 original size:20 final size:20
Alignment explanation
Indices: 563154--563192 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
563144 ATTTTAAATA
* * *
563154 ATTAATAATTTATATTAATT
1 ATTAAAAATTAATAATAATT
563174 ATTAAAAATTAATAATAAT
1 ATTAAAAATTAATAATAAT
563193 AATTTGCAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTAAAAATTAATAATAATT
Found at i:563388 original size:18 final size:18
Alignment explanation
Indices: 563339--563392 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
563329 AACAATTTAT
* **
563339 TATAATTATTAATTATTT
1 TATAATTATTAATAATAA
563357 TATTAATT-TATAATAATAA
1 TA-TAATTAT-TAATAATAA
563376 TATAATTATTAATAATA
1 TATAATTATTAATAATA
563393 TTTAATATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 16 0.53
19 14 0.47
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TATAATTATTAATAATAA
Found at i:563843 original size:18 final size:18
Alignment explanation
Indices: 563808--563860 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
563798 ATGATTACCA
*
563808 ATAATTTATTATTAATTT
1 ATAATTTATAATTAATTT
563826 ATAATTTAATAATT-ATTT
1 ATAATTT-ATAATTAATTT
563844 GAT-A-TTATAATTAATTT
1 -ATAATTTATAATTAATTT
563861 TAAAATAACT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.19
17 6 0.19
18 12 0.39
19 7 0.23
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
ATAATTTATAATTAATTT
Found at i:565180 original size:63 final size:64
Alignment explanation
Indices: 565100--565265 Score: 223
Period size: 63 Copynumber: 2.6 Consensus size: 64
565090 TAATTTACTT
* *
565100 TATGAGTGGTGACCAAATGATAGAA-GA-CAAATTTTGTTTTAAAGCGGCTGGTGCTAAAAAGCC
1 TATGAGTGGTGACCAAATGATAGAAGGATCAAA-TTTGTTTTAAAACGGCTAGTGCTAAAAAGCC
* * * *
565163 TGTGAGTGGTGACCAAATGAT-GAAGGATGAAATTTGTTTTAAAATGGCTAGTGCTAAGAAGCC
1 TATGAGTGGTGACCAAATGATAGAAGGATCAAATTTGTTTTAAAACGGCTAGTGCTAAAAAGCC
* *
565226 TATGAGTGGTGACCAAATGATA-AAGGATGAAACTTGTTTT
1 TATGAGTGGTGACCAAATGATAGAAGGATCAAATTTGTTTT
565266 GAACTTACTA
Statistics
Matches: 92, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
62 3 0.03
63 86 0.93
64 3 0.03
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (64 bp):
TATGAGTGGTGACCAAATGATAGAAGGATCAAATTTGTTTTAAAACGGCTAGTGCTAAAAAGCC
Found at i:565286 original size:63 final size:63
Alignment explanation
Indices: 565100--565287 Score: 173
Period size: 63 Copynumber: 3.0 Consensus size: 63
565090 TAATTTACTT
* * ** * ** * *
565100 TATGAGTGGTGACCAAATGATAGAA-GA-CAAATTTTGTTTTAAAGCGGCTGGTGCTAAAAAGCC
1 TATGAGTGGTGACCAAATGATA-AAGGATGAAA-CTTGTTTTAAAATGACTACTACTAAGAAGCC
* * * * * *
565163 TGTGAGTGGTGACCAAATGATGAAGGATGAAATTTGTTTTAAAATGGCTAGTGCTAAGAAGCC
1 TATGAGTGGTGACCAAATGATAAAGGATGAAACTTGTTTTAAAATGACTACTACTAAGAAGCC
* * * *
565226 TATGAGTGGTGACCAAATGATAAAGGATGAAACTTGTTTTGAACTTACTACTACTGAGAAGC
1 TATGAGTGGTGACCAAATGATAAAGGATGAAACTTGTTTTAAAATGACTACTACTAAGAAGC
565288 TTGTGAATGA
Statistics
Matches: 106, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
62 2 0.02
63 101 0.95
64 3 0.03
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.28
Consensus pattern (63 bp):
TATGAGTGGTGACCAAATGATAAAGGATGAAACTTGTTTTAAAATGACTACTACTAAGAAGCC
Found at i:565738 original size:21 final size:21
Alignment explanation
Indices: 565714--565833 Score: 134
Period size: 21 Copynumber: 5.5 Consensus size: 21
565704 GTGAACCCTC
* *
565714 AAATAAGAATTTTTGAGTCTT
1 AAATGAGAATCTTTGAGTCTT
*
565735 AAATGAGAATCTTTAAGAAATCCTT
1 AAATGAGAATCTTT--G-AGT-CTT
*
565760 AAATAAGAATCTTTGAGTCTT
1 AAATGAGAATCTTTGAGTCTT
*
565781 AAATGAGAATCTTTGAATCTT
1 AAATGAGAATCTTTGAGTCTT
565802 CAAATGAGAATCTTTGAGT-TT
1 -AAATGAGAATCTTTGAGTCTT
565823 CAAATGAGAAT
1 -AAATGAGAAT
565834 TTTTTATATG
Statistics
Matches: 86, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
21 47 0.55
22 19 0.22
23 2 0.02
24 2 0.02
25 16 0.19
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (21 bp):
AAATGAGAATCTTTGAGTCTT
Found at i:565828 original size:43 final size:46
Alignment explanation
Indices: 565712--565833 Score: 173
Period size: 46 Copynumber: 2.7 Consensus size: 46
565702 TTGTGAACCC
*
565712 TCAAATAAGAATTTTTGAGTCTTAAATGAGAATCTTTAAGAAATCCT
1 TCAAATAAGAATCTTTGAGTCTTAAATGAGAATCTTT-AGAAATCCT
565759 T-AAATAAGAATCTTTGAGTCTTAAATGAGAATCTTT-G-AAT-CT
1 TCAAATAAGAATCTTTGAGTCTTAAATGAGAATCTTTAGAAATCCT
*
565801 TCAAATGAGAATCTTTGAGT-TTCAAATGAGAAT
1 TCAAATAAGAATCTTTGAGTCTT-AAATGAGAAT
565834 TTTTTATATG
Statistics
Matches: 71, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
42 5 0.07
43 30 0.42
44 1 0.01
46 34 0.48
47 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (46 bp):
TCAAATAAGAATCTTTGAGTCTTAAATGAGAATCTTTAGAAATCCT
Found at i:566352 original size:9 final size:8
Alignment explanation
Indices: 566332--566366 Score: 61
Period size: 8 Copynumber: 4.2 Consensus size: 8
566322 CAAGAAAAAC
566332 AAAAAATG
1 AAAAAATG
566340 AAAAAATG
1 AAAAAATG
566348 AAAAAAATG
1 -AAAAAATG
566357 AAAAAATG
1 AAAAAATG
566365 AA
1 AA
566367 TGTGTTGGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 18 0.69
9 8 0.31
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:566354 original size:17 final size:17
Alignment explanation
Indices: 566332--566366 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
566322 CAAGAAAAAC
566332 AAAAAATGAAAAAATGA
1 AAAAAATGAAAAAATGA
566349 AAAAAATGAAAAAATGA
1 AAAAAATGAAAAAATGA
566366 A
1 A
566367 TGTGTTGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (17 bp):
AAAAAATGAAAAAATGA
Found at i:566940 original size:34 final size:31
Alignment explanation
Indices: 566901--566971 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 31
566891 TATTGTATTT
*
566901 AATTAATTTAAACTTGAATTAATATTAATAAAAA
1 AATTAATTT-AACTT-AATTAATAGTAAT-AAAA
* *
566935 AATTAA-TTAACTTATTTAATAGTAATAATA
1 AATTAATTTAACTTAATTAATAGTAATAAAA
566965 AATTAAT
1 AATTAAT
566972 AATATTATAC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
30 9 0.27
31 11 0.33
32 5 0.15
33 2 0.06
34 6 0.18
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (31 bp):
AATTAATTTAACTTAATTAATAGTAATAAAA
Found at i:567182 original size:20 final size:20
Alignment explanation
Indices: 567145--567182 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
567135 TTATAATATA
*
567145 ATTGATTATATATTTTAACT
1 ATTGATTATATATATTAACT
567165 ATTGATTA-ATATAATTAA
1 ATTGATTATATAT-ATTAA
567183 TTCTTATTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (20 bp):
ATTGATTATATATATTAACT
Found at i:567749 original size:19 final size:20
Alignment explanation
Indices: 567725--567766 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
567715 ATTAATAATG
* *
567725 ATATTATTATTAGTATTA-A
1 ATATTATTACTAATATTATA
567744 ATATTATTACTAATATTATA
1 ATATTATTACTAATATTATA
567764 ATA
1 ATA
567767 ATGTTATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (20 bp):
ATATTATTACTAATATTATA
Found at i:567949 original size:18 final size:18
Alignment explanation
Indices: 567928--567974 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
567918 TATTATAAGG
567928 ATTTTAATT-TTAATATTA
1 ATTTTAATTATTAAT-TTA
567946 A-TTTAATTATTAATTTA
1 ATTTTAATTATTAATTTA
*
567963 TTTTTAA-TATTA
1 ATTTTAATTATTA
567975 TAATTTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTAATTATTAATTTA
Found at i:567982 original size:15 final size:16
Alignment explanation
Indices: 567962--568002 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
567952 TTATTAATTT
567962 ATTTTTAATATTA-TA
1 ATTTTTAATATTAGTA
567977 ATTTTT-ATATTAGTA
1 ATTTTTAATATTAGTA
*
567992 ATATTTAATAT
1 ATTTTTAATAT
568003 GTAATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 6 0.26
15 13 0.57
16 4 0.17
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
ATTTTTAATATTAGTA
Found at i:568651 original size:15 final size:15
Alignment explanation
Indices: 568627--568664 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
568617 AATAATAATA
568627 ATAA-AATTATTTAT
1 ATAATAATTATTTAT
568641 ATAATAATTATTTAT
1 ATAATAATTATTTAT
*
568656 -TAATTATTA
1 ATAATAATTA
568665 AAAGTGATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATAATAATTATTTAT
Found at i:569073 original size:22 final size:22
Alignment explanation
Indices: 569042--569086 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
569032 ATATATCAAT
* *
569042 TATTATTAATAATTATTATATA
1 TATTACTAATAATTAATATATA
569064 TATTACTAATAATTAATATATA
1 TATTACTAATAATTAATATATA
569086 T
1 T
569087 TAGTTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TATTACTAATAATTAATATATA
Found at i:569096 original size:22 final size:21
Alignment explanation
Indices: 569042--569096 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
569032 ATATATCAAT
*
569042 TATTATT-AATAATTATTATA
1 TATTATTAAATAATTAATATA
569062 TA-TATTACTAATAATTAATATA
1 TATTATTA--AATAATTAATATA
569084 TATTAGTTAAATA
1 TATTA-TTAAATA
569097 TAACAATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
19 4 0.14
20 2 0.07
22 18 0.62
23 2 0.07
24 3 0.10
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
TATTATTAAATAATTAATATA
Found at i:569943 original size:27 final size:23
Alignment explanation
Indices: 569913--569970 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 23
569903 TAATATCAAG
569913 TATAAATAATAATAATATAATAAATTA
1 TATAAATAA-AAT-ATAT-AT-AATTA
569940 TATAAAT-AAATATATATAATTA
1 TATAAATAAAATATATATAATTA
569962 TAATAAATA
1 T-ATAAATA
569971 TTATTATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 6 0.21
23 8 0.28
24 4 0.14
25 3 0.10
26 1 0.03
27 7 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
TATAAATAAAATATATATAATTA
Found at i:569944 original size:12 final size:12
Alignment explanation
Indices: 569918--569959 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
569908 TCAAGTATAA
*
569918 ATAAT-AATAAT
1 ATAATAAATTAT
569929 ATAATAAATTAT
1 ATAATAAATTAT
569941 ATAAATAAATATAT
1 AT-AATAAAT-TAT
569955 ATAAT
1 ATAAT
569960 TATAATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 5 0.19
12 7 0.26
13 10 0.37
14 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
ATAATAAATTAT
Found at i:569968 original size:19 final size:21
Alignment explanation
Indices: 569944--569983 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
569934 AAATTATATA
569944 AATAAATA-TA-TATAATTAT
1 AATAAATATTATTATAATTAT
569963 AATAAATATTATTATAATTAT
1 AATAAATATTATTATAATTAT
569984 TTAATCTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.42
20 2 0.11
21 9 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AATAAATATTATTATAATTAT
Found at i:569971 original size:15 final size:15
Alignment explanation
Indices: 569939--569980 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
569929 ATAATAAATT
* *
569939 ATATAAATA-AATAT
1 ATATAATTATAATAA
569953 ATATAATTATAATAA
1 ATATAATTATAATAA
*
569968 ATATTATTATAAT
1 ATATAATTATAAT
569981 TATTTAATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATATAATTATAATAA
Found at i:570102 original size:19 final size:20
Alignment explanation
Indices: 570059--570131 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 20
570049 TAATTTATAA
570059 AATAATATTTTATTAACTTACT
1 AATAATA-TTTATTAAC-TACT
*
570081 AATAATATTTATTAA-TATT
1 AATAATATTTATTAACTACT
* ***
570100 AATTATATTTTATTTGTTACT
1 AATAATA-TTTATTAACTACT
570121 AAT-ATATTTAT
1 AATAATATTTAT
570132 ATTATATAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
19 14 0.32
20 9 0.20
21 14 0.32
22 7 0.16
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (20 bp):
AATAATATTTATTAACTACT
Found at i:570157 original size:16 final size:18
Alignment explanation
Indices: 570120--570158 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
570110 TATTTGTTAC
570120 TAATATATTTATATTATA
1 TAATATATTTATATTATA
*
570138 TAATA-ATTTA-ATTGTA
1 TAATATATTTATATTATA
570154 TAATA
1 TAATA
570159 CGACAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 10 0.50
17 5 0.25
18 5 0.25
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TAATATATTTATATTATA
Found at i:570280 original size:26 final size:25
Alignment explanation
Indices: 570214--570281 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 25
570204 ATATTAATAA
* * *
570214 TATTAATAATTAATATTATTGTTTG
1 TATTAATAACTAATAATATTGTATG
* *
570239 TCAATATTAACT-ATAATAGTTGTATG
1 T-ATTAATAACTAATAATA-TTGTATG
570265 TATTAATAACTAATAAT
1 TATTAATAACTAATAAT
570282 TATTATAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
25 14 0.42
26 19 0.58
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.47
Consensus pattern (25 bp):
TATTAATAACTAATAATATTGTATG
Found at i:570372 original size:27 final size:26
Alignment explanation
Indices: 570337--570387 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
570327 ATAATATTTG
570337 ATTTATAGTATAATATAATATTATATA
1 ATTTATAGTATAATATAA-ATTATATA
*
570364 ATTTATAGTTTAATATAAATTATA
1 ATTTATAGTATAATATAAATTATA
570388 AGTAACAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (26 bp):
ATTTATAGTATAATATAAATTATATA
Found at i:570884 original size:10 final size:11
Alignment explanation
Indices: 570863--570902 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 11
570853 ATGTTTAACA
*
570863 TAATTCATAAT
1 TAATTAATAAT
570874 TAATT-ATAAT
1 TAATTAATAAT
570884 TAATTAATAA-
1 TAATTAATAAT
570894 T-ATTAATAA
1 TAATTAATAA
570903 ATAAATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 8 0.29
10 11 0.39
11 9 0.32
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (11 bp):
TAATTAATAAT
Found at i:570900 original size:13 final size:14
Alignment explanation
Indices: 570870--570912 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
570860 ACATAATTCA
*
570870 TAATTAATTATAAT
1 TAATTAATAATAAT
570884 TAATTAATAAT-AT
1 TAATTAATAATAAT
*
570897 TAATAAATAAATAAT
1 TAATTAAT-AATAAT
570912 T
1 T
570913 TATATAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.36
14 13 0.52
15 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TAATTAATAATAAT
Done.