Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009266.1 Hibiscus syriacus cultivar Beakdansim tig00112921_pilon, 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: 1543912
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 7
Found at i:730358 original size:34 final size:35
Alignment explanation
Indices: 730297--730380 Score: 86
Period size: 34 Copynumber: 2.4 Consensus size: 35
730287 AATAAGAAAA
730297 AATAAAAA-AAATAGAGAGAAAAGATAGAAGAAAA-GAAG
1 AATAAAAAGAAA-AG-G-GAAAAGATAGAA-AAAATG-AG
*
730335 AA-AAGAAGAAAAGGGAAAA-ATAGAAAAAATGAG
1 AATAAAAAGAAAAGGGAAAAGATAGAAAAAATGAG
730368 AATAAAAAGAAAA
1 AATAAAAAGAAAA
730381 AGAAAAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
33 8 0.20
34 16 0.39
35 5 0.12
36 1 0.02
37 6 0.15
38 5 0.12
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (35 bp):
AATAAAAAGAAAAGGGAAAAGATAGAAAAAATGAG
Found at i:730358 original size:77 final size:83
Alignment explanation
Indices: 730271--730421 Score: 190
Period size: 84 Copynumber: 1.9 Consensus size: 83
730261 ATAAAAGAGA
* * * *
730271 GAAAAGATAG-AAAA-AGAAT-AAGA-AAAAATAAAAAAAATAG-AGAGAAAAGATAGA-AGAAA
1 GAAAAGATAGAAAAAGAGAATAAAAAGAAAAAGAAAAAAAAAAGAAGAGAAAAGATAAAGAGAAA
730330 AGAAGAAAAGAAGAAAAGG
66 AG-AGAAAAGAAGAAAAGG
730349 GAAAA-ATAGAAAAAATGAGAATAAAAAGAAAAAGAAAAAAAAAAGAAGAGAAAAGATAAAGAGA
1 GAAAAGATAG-AAAAA-GAGAATAAAAAGAAAAAGAAAAAAAAAAGAAGAGAAAAGATAAAGAGA
730413 AAAGAGAAA
64 AAAGAGAAA
730422 GAAAATAAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
77 4 0.07
78 5 0.08
79 4 0.07
81 5 0.08
82 3 0.05
83 15 0.25
84 18 0.30
85 7 0.11
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.06
Consensus pattern (83 bp):
GAAAAGATAGAAAAAGAGAATAAAAAGAAAAAGAAAAAAAAAAGAAGAGAAAAGATAAAGAGAAA
AGAGAAAAGAAGAAAAGG
Found at i:730369 original size:10 final size:9
Alignment explanation
Indices: 730270--730381 Score: 52
Period size: 9 Copynumber: 11.8 Consensus size: 9
730260 CATAAAAGAG
*
730270 AGAAAAGAT
1 AGAAAAAAT
730279 AGAAAAAGAAT
1 AG-AAAA-AAT
730290 AAGAAAAAAT
1 -AGAAAAAAT
*
730300 AAAAAAAAT
1 AGAAAAAAT
730309 AGAGAGAAAAGAT
1 --AGA-AAAA-AT
*
730322 AGAAGAAA-
1 AGAAAAAAT
*
730330 AGAAGAAA-
1 AGAAAAAAT
730338 AGAAGAAAA-
1 AGAA-AAAAT
* *
730347 GGGAAAAAT
1 AGAAAAAAT
730356 AGAAAAAAT
1 AGAAAAAAT
730365 GAGAATAAAA-
1 -AGAA-AAAAT
730375 AGAAAAA
1 AGAAAAA
730382 GAAAAAAAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 23
0.72 0.08 0.20
Matches are distributed among these distances:
8 19 0.23
9 27 0.33
10 14 0.17
11 15 0.18
12 6 0.07
13 2 0.02
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (9 bp):
AGAAAAAAT
Found at i:730382 original size:6 final size:6
Alignment explanation
Indices: 730371--730426 Score: 55
Period size: 6 Copynumber: 9.7 Consensus size: 6
730361 AAATGAGAAT
* *
730371 AAAAAG AAAAAG AAAAA- AAAAAG -AAGAG -AAAAG ATAAAG AGAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A-AAAAG
*
730417 AGAAAG AAAA
1 AAAAAG AAAA
730427 TAAATCAAGT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
5 13 0.32
6 23 0.56
7 5 0.12
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:730388 original size:34 final size:34
Alignment explanation
Indices: 730313--730388 Score: 84
Period size: 34 Copynumber: 2.2 Consensus size: 34
730303 AAAAATAGAG
* *
730313 AGAAAAGATAGAAGAAAAGAAGAAAAGAAGAAAA
1 AGAAAAAATAGAAGAAAAGAAGAAAAAAAGAAAA
* *
730347 GGGAAAAATAGAA-AAAATG-AGAATAAAAAGAAAA
1 AGAAAAAATAGAAGAAAA-GAAGAA-AAAAAGAAAA
730381 AGAAAAAA
1 AGAAAAAA
730389 AAAAGAAGAG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
33 8 0.24
34 26 0.76
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (34 bp):
AGAAAAAATAGAAGAAAAGAAGAAAAAAAGAAAA
Found at i:730403 original size:56 final size:56
Alignment explanation
Indices: 730270--730397 Score: 135
Period size: 56 Copynumber: 2.3 Consensus size: 56
730260 CATAAAAGAG
* * *
730270 AGAAAAGATAG-AAA-AAGAATAA-GAAAAAATAAAAAAAATAGAGAGAAAAGATAGA
1 AGAAAAGA-AGAAAAGAAGAA-AAGGGAAAAATAAAAAAAATAGAGAAAAAAGATAAA
*
730325 AGAAAAGAAGAAAAGAAGAAAAGGGAAAAATAGAAAAAAT-GAGAATAAAAAGA-AAA
1 AGAAAAGAAGAAAAGAAGAAAAGGGAAAAATAAAAAAAATAGAG-A-AAAAAGATAAA
730381 AGAAAA-AA-AAAAGAAGA
1 AGAAAAGAAGAAAAGAAGA
730398 GAAAAGATAA
Statistics
Matches: 64, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
54 11 0.17
55 18 0.28
56 29 0.45
57 6 0.09
ACGTcount: A:0.74, C:0.00, G:0.20, T:0.06
Consensus pattern (56 bp):
AGAAAAGAAGAAAAGAAGAAAAGGGAAAAATAAAAAAAATAGAGAAAAAAGATAAA
Found at i:732822 original size:190 final size:191
Alignment explanation
Indices: 732481--732882 Score: 585
Period size: 190 Copynumber: 2.1 Consensus size: 191
732471 TCCTTAGGTT
* * * * *
732481 CATCTGTAAGTCTTTCAAGCAAGATGATAAGTCCTTCGGGATATCTATAAGACCTTCGGGCATGA
1 CATCAGTAAGTCTTTCAAGCAAGATAATAAGTCCTTCGGGACATCCATAAGACCTTCGAGCATGA
* * *
732546 TGTTTTCACGTGTCTTTCGAAAAATGAGAAAGGTTTATCATTTAAATCTAAAAATTGAAATTTTT
66 TGTTTTCACGTGTCTTTCGAAAAATAAGAAAGGTTTATCATTTAAATATAAAAATTCAAATTTTT
* * *
732611 TAAAAGTAAAAAAAGTTTCTTACCTAGTAAACTA-TCCCAAATTTGGTAAGTCCTTTGGGC
131 AAAAAGTAAAAAAAGTTTCTTACCTAGTAAACCATTCCCAAATTTGGTAAGTCCTTCGGGC
* * * *
732671 CATCAGTAAGTCTTTCAAGCAATATAATAAGTCTTTTGGGCCATCCATAAGACCTTCGAGC-TGG
1 CATCAGTAAGTCTTTCAAGCAAGATAATAAGTCCTTCGGGACATCCATAAGACCTTCGAGCAT-G
* * *
732735 ATGTTTTCACGTGTCTTTCGAAAAATAAGAAAGGTTTCTCATTTAAATATGAAAATTCAAGTTTT
65 ATGTTTTCACGTGTCTTTCGAAAAATAAGAAAGGTTTATCATTTAAATATAAAAATTCAAATTTT
* *
732800 TAAAAAG-AAAGAAAATTTTCTTACCTAGTAAACCATTCCCAAATTTGGTAAGTCCTTCGGGT
130 TAAAAAGTAAA-AAAAGTTTCTTACCTAGTAAACCATTCCCAAATTTGGTAAGTCCTTCGGGC
732862 CATCAGTAAGTCTTTCAAGCA
1 CATCAGTAAGTCTTTCAAGCA
732883 TGATGCTTAA
Statistics
Matches: 189, Mismatches: 20, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
189 4 0.02
190 140 0.74
191 45 0.24
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (191 bp):
CATCAGTAAGTCTTTCAAGCAAGATAATAAGTCCTTCGGGACATCCATAAGACCTTCGAGCATGA
TGTTTTCACGTGTCTTTCGAAAAATAAGAAAGGTTTATCATTTAAATATAAAAATTCAAATTTTT
AAAAAGTAAAAAAAGTTTCTTACCTAGTAAACCATTCCCAAATTTGGTAAGTCCTTCGGGC
Found at i:733577 original size:15 final size:17
Alignment explanation
Indices: 733542--733578 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
733532 TATTTAATTT
733542 TTATTATTATTAATAATA
1 TTATTATTATT-ATAATA
733560 TTATTATTATT-TAA-A
1 TTATTATTATTATAATA
733575 TTAT
1 TTAT
733579 ATTTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.26
16 3 0.16
18 11 0.58
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTATTATTATTATAATA
Found at i:737392 original size:18 final size:18
Alignment explanation
Indices: 737369--737409 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
737359 AAACTGAAGG
737369 GGCAAATAAAAATGCCAA
1 GGCAAATAAAAATGCCAA
737387 GGCAAATAAAAATGCCAA
1 GGCAAATAAAAATGCCAA
737405 GGCAA
1 GGCAA
737410 CTTCTGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.54, C:0.17, G:0.20, T:0.10
Consensus pattern (18 bp):
GGCAAATAAAAATGCCAA
Found at i:747186 original size:8 final size:8
Alignment explanation
Indices: 747175--747208 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
747165 TATGCATGTA
*
747175 TGCGTATG
1 TGCGTGTG
747183 TGCGTGTG
1 TGCGTGTG
747191 TGCGTGTG
1 TGCGTGTG
747199 TGCGTGTG
1 TGCGTGTG
747207 TG
1 TG
747209 TTGTATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.03, C:0.12, G:0.47, T:0.38
Consensus pattern (8 bp):
TGCGTGTG
Found at i:747416 original size:205 final size:207
Alignment explanation
Indices: 747187--747601 Score: 807
Period size: 205 Copynumber: 2.0 Consensus size: 207
747177 CGTATGTGCG
747187 TGTGTGCGTGTGTGCGTGTGTGTTGTATATTTATTTGTTATGTTTTTTTATATATGAATATTGGA
1 TGTGTGCGTGTGTGCGTGTGTGTTGTATATTTATTTGTTATGTTTTTTTATATATGAATATTGGA
747252 ATTTTTAGAATTAATACCTTCATTTTATTAACTATTAACACTATAGTATATTACTATATATGTAT
66 ATTTTTAGAATTAATACCTTCATTTTATTAACTATTAACACTATAGTATATTACTATATATGTAT
747317 TTAGTTTTTG-TTT-TGTCATAAAATATGCATATATACATATAAGATATTTGTGTGATTTATTGC
131 TTAGTTTTTGTTTTATGTCATAAAATATGCATATATACATATAAGATATTTGTGTGATTTATTGC
747380 ATAAGTTTAGGT
196 ATAAGTTTAGGT
747392 TGTGTGCGTGTGTGCGTGTGTGTTGTATATTTATTTGTTATGTTTTTTTATATATGAATATTGGA
1 TGTGTGCGTGTGTGCGTGTGTGTTGTATATTTATTTGTTATGTTTTTTTATATATGAATATTGGA
*
747457 ATTTTTAGAATTAATACCTTCATTTTCTTAACTATTAACACTATAGTATATTACTATATATGTAT
66 ATTTTTAGAATTAATACCTTCATTTTATTAACTATTAACACTATAGTATATTACTATATATGTAT
747522 TTAGTTTTTGTTTTATGTCATAAAATATGCATATATACATATAAGATATTTGTGTGATTTATTGC
131 TTAGTTTTTGTTTTATGTCATAAAATATGCATATATACATATAAGATATTTGTGTGATTTATTGC
747587 ATAAGTTTAGGT
196 ATAAGTTTAGGT
747599 TGT
1 TGT
747602 TAGTTTTAAA
Statistics
Matches: 207, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
205 139 0.67
206 3 0.01
207 65 0.31
ACGTcount: A:0.28, C:0.07, G:0.16, T:0.50
Consensus pattern (207 bp):
TGTGTGCGTGTGTGCGTGTGTGTTGTATATTTATTTGTTATGTTTTTTTATATATGAATATTGGA
ATTTTTAGAATTAATACCTTCATTTTATTAACTATTAACACTATAGTATATTACTATATATGTAT
TTAGTTTTTGTTTTATGTCATAAAATATGCATATATACATATAAGATATTTGTGTGATTTATTGC
ATAAGTTTAGGT
Found at i:748393 original size:130 final size:125
Alignment explanation
Indices: 748045--748393 Score: 371
Period size: 125 Copynumber: 2.8 Consensus size: 125
748035 AGAATATTAT
* ** * *
748045 TATCTTTTCATTTCGGTTAATGCAATAAATGAATGCTTTAAGGCATGAGAGGTCATCTATTCTCG
1 TATCTTTTCATTTTGGTTGGTGCAATAAATGAATGCTTTAAGGAATGAGAGGTCATTTATTCTCG
* * ** *
748110 ATTGGAAATAATTTGATATTATTGTTTTCTCTCGAATCATTATTTAAGAGGGAATAGTGA
66 ATTGGAAATAATTAGATATTATTGTTTTCACTCGAATCATTATTTAAGACAGAATAATGA
* * * * * * *
748170 TATCTCTTCATTTTGATTGGAGCAATAAATGACTGCTTTAAGGTATAAGAGGTCATTTATTATCG
1 TATCTTTTCATTTTGGTTGGTGCAATAAATGAATGCTTTAAGGAATGAGAGGTCATTTATTCTCG
* * *
748235 ATTGAAAACT-ATTAGATATTATCGTTTTCACTCGGATCGATATTGAATTTTAAGACAGAATAAT
66 ATTGGAAA-TAATTAGATATTATTGTTTTCACTCGAATC---ATT--A-TTTAAGACAGAATAAT
748299 GA
124 GA
* * * *
748301 TATCTTTTCATTTTGGTTGGTGTAAT-AATTATTGTTTTAAGGAATGAGAGGT-AGTTTATTCTC
1 TATCTTTTCATTTTGGTTGGTGCAATAAATGAATGCTTTAAGGAATGAGAGGTCA-TTTATTCTC
* *
748364 AATTGGAAATAATTAGATATTATTATTTTC
65 GATTGGAAATAATTAGATATTATTGTTTTC
748394 TCTCTTAAAT
Statistics
Matches: 182, Mismatches: 33, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
125 85 0.47
126 1 0.01
128 3 0.02
129 2 0.01
130 54 0.30
131 37 0.20
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (125 bp):
TATCTTTTCATTTTGGTTGGTGCAATAAATGAATGCTTTAAGGAATGAGAGGTCATTTATTCTCG
ATTGGAAATAATTAGATATTATTGTTTTCACTCGAATCATTATTTAAGACAGAATAATGA
Found at i:752290 original size:18 final size:18
Alignment explanation
Indices: 752267--752301 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
752257 TTACATCCGG
*
752267 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
752285 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
752302 CTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:762486 original size:33 final size:33
Alignment explanation
Indices: 762443--762523 Score: 135
Period size: 33 Copynumber: 2.4 Consensus size: 33
762433 ACAGTAAAAC
762443 TAATAAACAAAATCACACAGCAAGAACATTTCTT
1 TAAT-AACAAAATCACACAGCAAGAACATTTCTT
762477 TAATAACAAAATCACACAGCAAGAACATTTCTT
1 TAATAACAAAATCACACAGCAAGAACATTTCTT
* *
762510 TAGTAACAATATCA
1 TAATAACAAAATCA
762524 TAGAAGAAGT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
33 41 0.91
34 4 0.09
ACGTcount: A:0.49, C:0.20, G:0.06, T:0.25
Consensus pattern (33 bp):
TAATAACAAAATCACACAGCAAGAACATTTCTT
Found at i:764338 original size:20 final size:20
Alignment explanation
Indices: 764288--764341 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
764278 GGAGCGTGGG
* * *
764288 GGGAATCGGTACCCCCTATG
1 GGGAATCGATTCCCCCTATA
764308 GGGAATCGATTCCCCCTATA
1 GGGAATCGATTCCCCCTATA
764328 GGGAATCGATTCCC
1 GGGAATCGATTCCC
764342 TAAGTGTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.22, C:0.30, G:0.26, T:0.22
Consensus pattern (20 bp):
GGGAATCGATTCCCCCTATA
Found at i:772764 original size:16 final size:16
Alignment explanation
Indices: 772706--772765 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
772696 GCGGTCTATG
*
772706 AAAATTAATATTATTAT
1 AAAATTAATATT-TTTT
*
772723 AAAATTTAATAAATTTTT
1 AAAA-TTAAT-ATTTTTT
**
772741 AATTTTAATATTTTTT
1 AAAATTAATATTTTTT
772757 AAAATTAAT
1 AAAATTAAT
772766 TAGTGGTTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
16 13 0.38
17 9 0.26
18 10 0.29
19 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AAAATTAATATTTTTT
Found at i:773704 original size:20 final size:21
Alignment explanation
Indices: 773647--773706 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
773637 AATATTATAA
773647 TATATATATATATATATAAAC
1 TATATATATATATATATAAAC
*
773668 TATATAGT-T-TATGTATAAAC
1 TATATA-TATATATATATAAAC
*
773688 TATATATATAAATTATATA
1 TATATATATATA-TATATA
773707 GTTTATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 1 0.03
20 17 0.53
21 8 0.25
22 6 0.19
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (21 bp):
TATATATATATATATATAAAC
Found at i:774896 original size:16 final size:16
Alignment explanation
Indices: 774875--774907 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
774865 CTCATTTATC
774875 ATTTTAAAACACACTT
1 ATTTTAAAACACACTT
774891 ATTTTAAAACACACTT
1 ATTTTAAAACACACTT
774907 A
1 A
774908 AAACATACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (16 bp):
ATTTTAAAACACACTT
Found at i:783343 original size:20 final size:20
Alignment explanation
Indices: 783306--783367 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
783296 TTTATATTAT
* * *
783306 TATATACTATATACAAACTA
1 TATATACCATGTATAAACTA
* **
783326 TGTATATTATGTATAAACTA
1 TATATACCATGTATAAACTA
783346 TATATACCATGTATAAACTA
1 TATATACCATGTATAAACTA
783366 TA
1 TA
783368 GAGTTTATAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (20 bp):
TATATACCATGTATAAACTA
Found at i:783357 original size:29 final size:29
Alignment explanation
Indices: 783298--783360 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 29
783288 TCAACATATT
* *
783298 TATATTATTATATACTATATACAAACTATG
1 TATATTATTATAAACTATATA-AAACCATG
*
783328 TATATTATGTATAAACTATAT-ATACCATG
1 TATATTAT-TATAAACTATATAAAACCATG
783357 TATA
1 TATA
783361 AACTATAGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 10 0.34
30 8 0.28
31 11 0.38
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.43
Consensus pattern (29 bp):
TATATTATTATAAACTATATAAAACCATG
Found at i:783449 original size:20 final size:20
Alignment explanation
Indices: 783392--783449 Score: 80
Period size: 22 Copynumber: 2.8 Consensus size: 20
783382 ACTGTTGAAC
*
783392 TATATATAAACTATATAGTT
1 TATATATAAATTATATAGTT
783412 TATTAATATAAATTATATAGTT
1 TA-T-ATATAAATTATATAGTT
*
783434 TATATATGAATTATAT
1 TATATATAAATTATAT
783450 TTAAATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.41
21 2 0.06
22 18 0.53
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (20 bp):
TATATATAAATTATATAGTT
Found at i:783486 original size:17 final size:17
Alignment explanation
Indices: 783466--783521 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
783456 ATATACAGCT
* * *
783466 TATATTTATATATTATG
1 TATAATTATAAATTATA
783483 TATAATTATAAATTATA
1 TATAATTATAAATTATA
783500 TATACTATGTATAAATTATA
1 TATA--AT-TATAAATTATA
783520 TA
1 TA
783522 GTTTTTATAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
17 18 0.55
19 2 0.06
20 13 0.39
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (17 bp):
TATAATTATAAATTATA
Found at i:783599 original size:22 final size:22
Alignment explanation
Indices: 783553--783600 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
783543 AGTATTTAAG
*
783553 TATATATATAAACTATAAATTA
1 TATATATATAAACTATAAATAA
*
783575 TATATATATACA-TATATAATAA
1 TATATATATAAACTATA-AATAA
783597 TATA
1 TATA
783601 AAGTAGAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (22 bp):
TATATATATAAACTATAAATAA
Found at i:783626 original size:36 final size:35
Alignment explanation
Indices: 783575--784143 Score: 175
Period size: 36 Copynumber: 16.3 Consensus size: 35
783565 CTATAAATTA
* *
783575 TATATATATACATATATAATAATATAAAGTAGAAG
1 TATATATATATATATATAATAATATAAAGTATAAG
* *
783610 TATAT-TATATATATATAATATAATTACAAAGAATAA-
1 TATATATATATATATAT-A-ATAA-TATAAAGTATAAG
* *
783646 AATATATAAAGTATATATAATAATATAAAGTATAAG
1 TATATATATA-TATATATAATAATATAAAGTATAAG
* *
783682 TATATAT-TATATATATAA-AGTAT-AATTATAAAG
1 TATATATATATATATATAATAATATAAAGTAT-AAG
* * * *
783715 -ACTAGAGTAAATAAACAT-ATAATATAAAGTATATAAG
1 TA-TATA-TATATATATATAATAATATAAAG--TATAAG
*
783752 TATATA-ATATA-AAATATATAAGTATTAAA-TATAAAG
1 TATATATATATATATATA-ATAA-TA-TAAAGTAT-AAG
* * * *
783788 TATATATATATATGTAT-GT-ATGT-ATGTAT--G
1 TATATATATATATATATAATAATATAAAGTATAAG
783818 TATATA-ATA-ATATA-AAGT-ATAT-AAGTATATAG
1 TATATATATATATATATAA-TAATATAAAGTATA-AG
* *
783850 TATAAAGTATATAAAGTATAAT--TATAAAG-ACTAA-
1 TATATA-TATATATA-TATAATAATATAAAGTA-TAAG
* *
783884 -AT-TATATA-AGTATATAA-AGTAT-AATTATAAAG
1 TATATATATATA-TATATAATAATATAAAGTAT-AAG
* *
783916 -ACTAAAGTATATA-AGCAT-ATAATATAAAGTATATAAG
1 TA-TATA-TATATATA-TATAATAATATAAAG--TATAAG
*
783953 TATATAATATATATAATATAA-AATATATAAGTATTAAA
1 TATAT-ATATATAT-ATATAATAATATA-AAGTA-TAAG
* *
783991 TATAAAGTATATATACGTGTAATAA-ATAAA-TAT-A-
1 TATATA-TATATATA--TATAATAATATAAAGTATAAG
* *
784025 TATGTA-ATATAAAGTAT-ATAATATAAAGTATTTAAG
1 TATATATATATATA-TATAATAATATAAAGTA--TAAG
*
784061 TAT-TAAATATA-AGTAT-ATAAATATTAAA-TATAAAG
1 TATATATATATATA-TATAAT-AATA-TAAAGTAT-AAG
784096 TATATATATA-ACTATA-AAGTATATATAAAGTATAAG
1 TATATATATATA-TATATAA-TA-ATATAAAGTATAAG
*
784132 TATAAATATATA
1 TATATATATATA
784144 CTTTATATTA
Statistics
Matches: 405, Mismatches: 50, Indels: 156
0.66 0.08 0.26
Matches are distributed among these distances:
28 4 0.01
29 12 0.03
30 20 0.05
31 19 0.05
32 23 0.06
33 17 0.04
34 37 0.09
35 70 0.17
36 85 0.21
37 58 0.14
38 46 0.11
39 12 0.03
40 2 0.00
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.37
Consensus pattern (35 bp):
TATATATATATATATATAATAATATAAAGTATAAG
Found at i:783704 original size:26 final size:25
Alignment explanation
Indices: 783586--783711 Score: 109
Period size: 25 Copynumber: 5.1 Consensus size: 25
783576 ATATATATAC
*
783586 ATATATAATAATATAAAGTAGAAGT
1 ATATATAATAATATAAAGTATAAGT
*
783611 ATAT-T-ATATATATATAA-TATAATT
1 ATATATAATA-ATATA-AAGTATAAGT
* * * * *
783635 ACAAAGAATAAAATATA-TA-AAGT
1 ATATATAATAATATAAAGTATAAGT
783658 ATATATAATAATATAAAGTATAAGT
1 ATATATAATAATATAAAGTATAAGT
* *
783683 ATATATTATATATATAAAGTATAATT
1 ATATATAATA-ATATAAAGTATAAGT
783709 ATA
1 ATA
783712 AAGACTAGAG
Statistics
Matches: 79, Mismatches: 15, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
23 18 0.23
24 18 0.23
25 23 0.29
26 20 0.25
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.37
Consensus pattern (25 bp):
ATATATAATAATATAAAGTATAAGT
Found at i:783745 original size:22 final size:22
Alignment explanation
Indices: 783720--783764 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
783710 TAAAGACTAG
783720 AGTAAATAAACATATAATATAA
1 AGTAAATAAACATATAATATAA
* **
783742 AGTATATAAGTATATAATATAA
1 AGTAAATAAACATATAATATAA
783764 A
1 A
783765 ATATATAAGT
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:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (22 bp):
AGTAAATAAACATATAATATAA
Found at i:783769 original size:22 final size:22
Alignment explanation
Indices: 783731--784120 Score: 151
Period size: 22 Copynumber: 18.2 Consensus size: 22
783721 GTAAATAAAC
*
783731 ATATAATATAAAGTATATAAGT
1 ATATAATATAAAATATATAAGT
783753 ATATAATATAAAATATATAAGT
1 ATATAATATAAAATATATAAGT
*
783775 AT-TAAATATAAAGTATAT-A-T
1 ATAT-AATATAAAATATATAAGT
* ** * *
783795 ATAT-ATGT-ATGTATGTATGT
1 ATATAATATAAAATATATAAGT
*
783815 ATGT-ATATAATAATATA-AAGT
1 ATATAATATAA-AATATATAAGT
* *
783836 ATATAAGTATATAGTATA-AAGT
1 ATATAA-TATAAAATATATAAGT
*
783858 ATATAA-AGTATAAT-TATAAAG-
1 ATATAATA-TAAAATATAT-AAGT
*
783879 ACTA-AATTATATAAGTATATAAAGT
1 A-TATAA-TATA-AAATATAT-AAGT
* *
783904 ATA-ATTATAAAGA-CTA-AAGT
1 ATATAATATAAA-ATATATAAGT
* *
783924 ATATAAGCATATAATATA-AAGT
1 ATATAA-TATAAAATATATAAGT
783946 ATATAAGTAT---ATA-AT-A-T
1 ATATAA-TATAAAATATATAAGT
783963 ATATAATATAAAATATATAAGT
1 ATATAATATAAAATATATAAGT
*
783985 AT-TAAATATAAAGTATATATACGT
1 ATAT-AATATAAA--ATATATAAGT
* *
784009 GTAATAA-AT-AAATATATATGT
1 AT-ATAATATAAAATATATAAGT
*
784030 AATATAAAGTATATAATATA-AAGT
1 -ATAT-AA-TATAAAATATATAAGT
* *
784054 ATTTAAGTAT-TAA-ATATAAGT
1 ATATAA-TATAAAATATATAAGT
*
784075 ATATAAATATTAAATATA-AAGT
1 ATAT-AATATAAAATATATAAGT
*
784097 ATAT-ATAT-AACTATA-AAGT
1 ATATAATATAAAATATATAAGT
784116 ATATA
1 ATATA
784121 TAAAGTATAA
Statistics
Matches: 289, Mismatches: 36, Indels: 88
0.70 0.09 0.21
Matches are distributed among these distances:
16 3 0.01
17 7 0.02
18 8 0.03
19 23 0.08
20 29 0.10
21 46 0.16
22 117 0.40
23 19 0.07
24 27 0.09
25 9 0.03
26 1 0.00
ACGTcount: A:0.53, C:0.01, G:0.08, T:0.37
Consensus pattern (22 bp):
ATATAATATAAAATATATAAGT
Found at i:783900 original size:37 final size:37
Alignment explanation
Indices: 783848--783937 Score: 155
Period size: 37 Copynumber: 2.5 Consensus size: 37
783838 ATAAGTATAT
783848 AGTATA-AAGTATATAAAGTATAATTATAAAGACTAA
1 AGTATATAAGTATATAAAGTATAATTATAAAGACTAA
*
783884 ATTATATAAGTATATAAAGTATAATTATAAAGACTAA
1 AGTATATAAGTATATAAAGTATAATTATAAAGACTAA
*
783921 AGTATATAAGCATATAA
1 AGTATATAAGTATATAA
783938 TATAAAGTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
36 5 0.10
37 45 0.90
ACGTcount: A:0.54, C:0.03, G:0.10, T:0.32
Consensus pattern (37 bp):
AGTATATAAGTATATAAAGTATAATTATAAAGACTAA
Found at i:783979 original size:88 final size:86
Alignment explanation
Indices: 783830--783995 Score: 228
Period size: 88 Copynumber: 1.9 Consensus size: 86
783820 TATAATAATA
* * *
783830 TAAAGTATATAAGTATATAGTATAAAGTATATAAAGTATAATTATAAAGACTAAATTATATAAGT
1 TAAAGTATATAAGCATATAATATAAAGTATATAAAGTATAATTATAAAGACTAAAATATATAAGT
783895 ATATAAAGTATAATTATAAAGAC
66 AT-TAAA-TATAATTATAAAGAC
*
783918 TAAAGTATATAAGCATATAATATAAAGTATAT-AAGTATATAATATATATAATA-TAAAATATAT
1 TAAAGTATATAAGCATATAATATAAAGTATATAAAG--TATAAT-TATA-AAGACTAAAATATAT
783981 AAGTATTAAATATAA
62 AAGTATTAAATATAA
783996 AGTATATATA
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
87 3 0.04
88 35 0.50
89 10 0.14
90 19 0.27
91 3 0.04
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.35
Consensus pattern (86 bp):
TAAAGTATATAAGCATATAATATAAAGTATATAAAGTATAATTATAAAGACTAAAATATATAAGT
ATTAAATATAATTATAAAGAC
Found at i:784043 original size:77 final size:76
Alignment explanation
Indices: 783920--784120 Score: 234
Period size: 77 Copynumber: 2.7 Consensus size: 76
783910 ATAAAGACTA
* *
783920 AAGTATATAAGCA-T-ATAATATAAAGTATATAAGT-ATATAATA-TATATAATATAAAATATAT
1 AAGTATATAAACATTAATAA-ATAAAGTATATATGTAATATAA-AGTATATAATATAAAATATAT
783981 AAGTATTAAATAT
64 AAGTATTAAATAT
* * * *
783994 AAAGTATATATACGTGTAATAAATAAA-TATATATGTAATATAAAGTATATAATATAAAGTATTT
1 -AAGTATATAAACAT-TAATAAATAAAGTATATATGTAATATAAAGTATATAATATAAAATATAT
784058 AAGTATTAAATAT
64 AAGTATTAAATAT
* * *
784071 AAGTATATAAATATTAA-ATATAAAGTATATATATAACTATAAAGTATATA
1 AAGTATATAAACATTAATAAATAAAGTATATATGTAA-TATAAAGTATATA
784121 TAAAGTATAA
Statistics
Matches: 108, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
74 6 0.06
75 23 0.21
76 33 0.31
77 42 0.39
78 4 0.04
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.37
Consensus pattern (76 bp):
AAGTATATAAACATTAATAAATAAAGTATATATGTAATATAAAGTATATAATATAAAATATATAA
GTATTAAATAT
Found at i:784125 original size:210 final size:195
Alignment explanation
Indices: 783536--784125 Score: 510
Period size: 201 Copynumber: 2.9 Consensus size: 195
783526 TTATAGTTTA
* * * * *
783536 AATATAAAGTATTTAAGTATAT-ATATAAACTATA-AATTATATATATATACA-TATATAATAAT
1 AATATAAAGTATATAAGTATATAATATAAAATATATAAGTAT-TAAATATAAAGTATAT-AT-AT
* *
783598 ATAAAGTAGAAGTATATTATATATATATAAT-ATAATTACAAAG-A-ATAA--A-AT-ATATAAA
63 ATAAA-TA-AA-TATA-TATGTATATA-AATAATAA-TATAAAGTATATAAGTATATAATATAAA
*
783656 GTATATATAATAATATAAAGTAT-AAGTATATATTATATATATAAAGTATAATTATAAAGACTAG
122 GTATATA-AAT-AT-TAAA-TATAAAGTATATA-TATA-ATATAAAGTATAATTATAAAGACTAA
783720 AGTAAATAAACATAT
181 AGTAAATAAACATAT
783735 AATATAAAGTATATAAGTATATAATATAAAATATATAAGTATTAAATATAAAGTATATATATATA
1 AATATAAAGTATATAAGTATATAATATAAAATATATAAGTATTAAATATAAAGTATATATATATA
** ** * * * *
783800 TGTATGTATGTATGTATGTATATAATAATATAAAGTATATAAGTATATAGTATAAAGTATATAAA
66 AATAAATATATATGTATATAAATAATAATATAAAGTATATAAGTATATAATATAAAGTATATAAA
* * *
783865 GTA-TAATTATAAAGACTAAATTATATAAGTATATAAAGTATAATTATAAAGACTAAAGTATATA
131 -TATTAAATATAAAG--TATA-TATAT-A--ATATAAAGTATAATTATAAAGACTAAAGTAAATA
*
783929 AGCATAT
189 AACATAT
783936 AATATAAAGTATATAAGTATATAATATATATAATATAAAATATATAAGTATTAAATATAAAGTAT
1 AATATAAAGTATATAAG---------TATATAATATAAAATATATAAGTATTAAATATAAAGTAT
*
784001 ATATACGTGTAATAAATAAATATATATGTAATATAAAGTATATAATATAAAGTATTTAAGTAT-T
57 ATATA----T-ATAAATAAATATATATGT-ATATAAA-TA-ATAATATAAAGTATATAAGTATAT
784065 AA-ATATAAGTATATAAATATTAAATATAAAGTATATATATAACTATAAAGTAT-A-TATAAAG
114 AATATA-AAGTATATAAATATTAAATATAAAGTATATATATAA-TATAAAGTATAATTATAAAG
784126 TATAAGTATA
Statistics
Matches: 323, Mismatches: 31, Indels: 63
0.77 0.07 0.15
Matches are distributed among these distances:
194 8 0.02
195 13 0.04
196 10 0.03
197 6 0.02
198 3 0.01
199 37 0.11
200 38 0.12
201 66 0.20
210 51 0.16
211 2 0.01
212 10 0.03
213 1 0.00
214 6 0.02
215 16 0.05
216 10 0.03
217 25 0.08
218 21 0.07
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.37
Consensus pattern (195 bp):
AATATAAAGTATATAAGTATATAATATAAAATATATAAGTATTAAATATAAAGTATATATATATA
AATAAATATATATGTATATAAATAATAATATAAAGTATATAAGTATATAATATAAAGTATATAAA
TATTAAATATAAAGTATATATATAATATAAAGTATAATTATAAAGACTAAAGTAAATAAACATAT
Found at i:784137 original size:43 final size:42
Alignment explanation
Indices: 783667--784135 Score: 90
Period size: 37 Copynumber: 11.8 Consensus size: 42
783657 TATATATAAT
*
783667 AATATAAAGTATA-AGTA-TATAT-TATA-TATATAAAGTATA
1 AATATAAAGTATATAGTATTAAATATA-AGTATATAAAGTATA
* * * *
783706 ATTATAAAG-A-CTAG-AGTAAATA-AA-CATAT-AA-TATA
1 AATATAAAGTATATAGTATTAAATATAAGTATATAAAGTATA
* *
783741 AAGTATATAAGTATATAATATAAAATATATAAGTAT-TAAA-TATA
1 AA-TATA-AAGTATATAGTAT-TAA-ATATAAGTATATAAAGTATA
* * * * *
783785 AAGTATATA-TATATATGTATGT--ATGTATGTATGTATA-TA-A
1 AA-TATAAAGTATATA-GTAT-TAAATATAAGTATATAAAGTATA
*
783825 TAATATAAAGTATATAAGTA-TATAGTATAAAGTATATAAAGTATA
1 -AATATAAAGTATAT-AGTATTA-AATAT-AAGTATATAAAGTATA
*
783870 ATTATAAAG-ACTA-A--ATT--ATATAAGTATATAAAGTATA
1 AATATAAAGTA-TATAGTATTAAATATAAGTATATAAAGTATA
* * *
783907 ATTATAAAG-ACTA-A--AGT--ATATAAGCATAT-AA-TATA
1 AATATAAAGTA-TATAGTATTAAATATAAGTATATAAAGTATA
* *
783942 AAGTATATAAGTATATAATATATATAATATAA-AATATATAAGTATTA
1 AA-TATA-AAGTATATAGTAT-TA-AATATAAGTATATA-AAGTA-TA
* * *
783989 AATATAAAGTATATA-TACGTGT-AATA-AA-TAAATATA-TATGT
1 AATATAAAGTATATAGTA--T-TAAATATAAGTATATAAAGTAT-A
*
784030 AATATAAAGTATATA--A-T--ATA-AAGTAT-TTAAGTATTA
1 AATATAAAGTATATAGTATTAAATATAAGTATATAAAGTA-TA
*
784066 AATAT-AAGTATATAAATATTAAATATAAAGTATAT--A-TATA
1 AATATAAAGTATAT-AGTATTAAATAT-AAGTATATAAAGTATA
* *
784106 ACTATAAAGTATATA-TA--AAGTATAAGTATA
1 AATATAAAGTATATAGTATTAAATATAAGTATA
784136 AATATATACT
Statistics
Matches: 333, Mismatches: 41, Indels: 115
0.68 0.08 0.24
Matches are distributed among these distances:
35 25 0.08
36 30 0.09
37 63 0.19
38 15 0.05
39 14 0.04
40 26 0.08
41 49 0.15
42 15 0.05
43 32 0.10
44 40 0.12
45 12 0.04
46 8 0.02
47 4 0.01
ACGTcount: A:0.53, C:0.01, G:0.09, T:0.36
Consensus pattern (42 bp):
AATATAAAGTATATAGTATTAAATATAAGTATATAAAGTATA
Found at i:784151 original size:30 final size:30
Alignment explanation
Indices: 784088--784151 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
784078 TAAATATTAA
* *
784088 ATATAAAGTATATATATAACTATAAAGTAT
1 ATATAAAGTATATATATAAATATAAACTAT
* *
784118 ATATAAAGTATA-AGTATAAATATATACTTT
1 ATATAAAGTATATA-TATAAATATAAACTAT
784148 ATAT
1 ATAT
784152 TATATACTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 1 0.03
30 28 0.97
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (30 bp):
ATATAAAGTATATATATAAATATAAACTAT
Found at i:784162 original size:8 final size:8
Alignment explanation
Indices: 784138--784640 Score: 113
Period size: 8 Copynumber: 64.1 Consensus size: 8
784128 TAAGTATAAA
784138 TATATACT
1 TATATACT
784146 T-TATA-T
1 TATATACT
784152 TATATACT
1 TATATACT
784160 TATATACT
1 TATATACT
784168 T-TAGT-C-
1 TATA-TACT
*
784174 TATATAAT
1 TATATACT
*
784182 TATACTCTCT
1 TATA-T-ACT
784192 CTATATA-T
1 -TATATACT
*
784200 AATATACT
1 TATATACT
784208 T-TATA-T
1 TATATACT
784214 TATATATCT
1 TATATA-CT
784223 ATATATACT
1 -TATATACT
784232 T-TATAC-
1 TATATACT
*
784238 TA-AAACAT
1 TATATAC-T
784246 TATATA-T
1 TATATACT
784253 ATATATA-T
1 -TATATACT
784261 ATATATA-T
1 -TATATACT
784269 ATATATA-T
1 -TATATACT
784277 ATATATA-T
1 -TATATACT
784285 ATATATA-T
1 -TATATACT
784293 ATATATA-T
1 -TATATACT
784301 ATATATA-T
1 -TATATACT
784309 ATATATA-T
1 -TATATACT
784317 ATATATA-T
1 -TATATACT
*
784325 TATAGT-TT
1 TATA-TACT
784333 ATATATACT
1 -TATATACT
784342 TATATACTT
1 TATATAC-T
784351 TATATTA-T
1 TATA-TACT
784359 TATATACGT
1 TATATAC-T
784368 GTATAT-CT
1 -TATATACT
784376 ATACTTATACTT
1 -TA--TATAC-T
784388 TATAATA-T
1 TAT-ATACT
*
784396 TATAT-GT
1 TATATACT
784403 ATATATACT
1 -TATATACT
*
784412 TATAAGAAAACT
1 TAT----ATACT
784424 T-TATA-T
1 TATATACT
784430 ATATATA-T
1 -TATATACT
784438 ATATATA-T
1 -TATATACT
784446 ATATATA-T
1 -TATATACT
784454 ATATATA-T
1 -TATATACT
784462 ATATATACT
1 -TATATACT
*
784471 T-TATAGTTT
1 TATATA--CT
784480 ATATATACT
1 -TATATACT
784489 TATATACT
1 TATATACT
*
784497 T-TATATT
1 TATATACT
784504 TA-ATACT
1 TATATACT
784511 TATATACT
1 TATATACT
*
784519 TACATACT
1 TATATACT
784527 T-TATA-T
1 TATATACT
784533 TATATACT
1 TATATACT
*
784541 TAAATA-T
1 TATATACT
*
784548 TTTATA-T
1 TATATACT
784555 TAT-TA--
1 TATATACT
*
784560 TATATAGT
1 TATATACT
784568 T-TATAC-
1 TATATACT
*
784574 TA-AAACT
1 TATATACT
784581 T-TATA--
1 TATATACT
784586 TATATAC-
1 TATATACT
784593 T-TATACTT
1 TATATAC-T
784601 TATATA-T
1 TATATACT
*
784608 ATATATAGGT
1 -TATATA-CT
784618 TATATACT
1 TATATACT
784626 T-TATA-T
1 TATATACT
784632 TATATACT
1 TATATACT
784640 T
1 T
784641 TAGTCTTTAT
Statistics
Matches: 401, Mismatches: 27, Indels: 134
0.71 0.05 0.24
Matches are distributed among these distances:
5 4 0.01
6 32 0.08
7 92 0.23
8 199 0.50
9 33 0.08
10 23 0.06
11 12 0.03
12 6 0.01
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (8 bp):
TATATACT
Found at i:784163 original size:22 final size:22
Alignment explanation
Indices: 784138--784541 Score: 109
Period size: 22 Copynumber: 18.4 Consensus size: 22
784128 TAAGTATAAA
784138 TATATACTTTATATTATATACT
1 TATATACTTTATATTATATACT
* *
784160 TATATACTTTAGT-CTATATAAT
1 TATATACTTTA-TATTATATACT
784182 TATACT-CTCTCTATATATAATATACT
1 TATA-TACT-T-TATAT-T-ATATACT
*
784208 T-TATA--TTATA-TATCTA--
1 TATATACTTTATATTATATACT
* *
784224 TATATACTTTATACTA-AAACAT
1 TATATACTTTATATTATATAC-T
*
784246 TATATA-TATATATATATATA-T
1 TATATACTTTATAT-TATATACT
*
784267 ATATATA-TATATATATATATA-T
1 -TATATACTTTATAT-TATATACT
*
784289 ATATATA-TATATATATATATA-T
1 -TATATACTTTATAT-TATATACT
* *
784311 ATATATA-TATATATTATAGT-TT
1 -TATATACTTTATATTATA-TACT
784333 ATATATACTTATATACTTTATATTA-T
1 -TATATACTT-TATA--TTATA-TACT
* *
784359 TATATACGTGTATA-TCTATAC-
1 TATATAC-TTTATATTATATACT
* *
784380 T-TATACTTTATAATATTATATGT
1 TATATACTTTATATTA-TATA-CT
** *
784403 ATATATAC-TTATAAGA-AAACTT
1 -TATATACTTTATATTATATAC-T
784425 TATATA-TATATATATATATATA-T
1 TATATACT-T-TATAT-TATATACT
*
784448 ATATATA-TATATATATATATACT
1 -TATATACTTTATAT-TATATACT
*
784471 T-TATA-GTT-TA-TATATACT
1 TATATACTTTATATTATATACT
784489 TATATACTTTATATT-TAATACT
1 TATATACTTTATATTAT-ATACT
*
784511 TATATACTTACATACTT-TATA-T
1 TATATACTT-TATA-TTATATACT
784533 TATATACTT
1 TATATACTT
784542 AAATATTTTA
Statistics
Matches: 306, Mismatches: 28, Indels: 96
0.71 0.07 0.22
Matches are distributed among these distances:
16 1 0.00
17 4 0.01
18 13 0.04
19 16 0.05
20 12 0.04
21 35 0.11
22 144 0.47
23 19 0.06
24 26 0.08
25 21 0.07
26 15 0.05
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (22 bp):
TATATACTTTATATTATATACT
Found at i:784198 original size:2 final size:2
Alignment explanation
Indices: 784193--784714 Score: 230
Period size: 2 Copynumber: 264.0 Consensus size: 2
784183 ATACTCTCTC
* * *
784193 TA TA TA TA -A TA TA CTT TA TA T- TA TA TA TC TA TA TA TA CTT TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* *
784235 TA CTA -A AA CA T- 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
784276 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
* *
784318 TA TA TA T- TA TA GTT TA TA TA TA CT- TA TA TA CTT TA TA T- TA
1 TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA
** * * *
784358 T- TA TA TA CG TG TA TA TC TA TA CT- TA TA CTT TA TA -A TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA
* * * *
784398 TA TG TA TA TA TA CT- TA TA -A GA -A AA CTT 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
* *
784439 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CTT TA TA GTT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA
* * *
784483 TA TA CT- TA TA TA CTT TA TA TT TA -A TA CT- TA TA TA CT- TA CA
1 TA TA -TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA
* * *
784523 TA CTT TA TA T- TA TA TA CT- TA AA TA T- TT TA TA T- TA T- TA TA
1 TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
784562 TA TA GTT TA TA CTA -A AA CTT TA TA TA TA TA CT- TA TA CTT TA TA
1 TA TA -TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA TA -TA TA TA
** * * *
784605 TA TA TA TA TA GG T- TA TA TA CTT TA TA T- TA TA TA CTT TA GTC
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA -TA
*
784646 TT TA TA -A T- TA TA T- TA TA TA TA TA TA TA TA TA -A TA TA CT-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* *
784684 TA TA GTT TA TA T- TA T- TA TA TA TG TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
784715 CTTTATGTAA
Statistics
Matches: 397, Mismatches: 61, Indels: 124
0.68 0.10 0.21
Matches are distributed among these distances:
1 34 0.09
2 335 0.84
3 28 0.07
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:784480 original size:7 final size:7
Alignment explanation
Indices: 784465--784604 Score: 59
Period size: 7 Copynumber: 20.6 Consensus size: 7
784455 TATATATATA
784465 TATACTT
1 TATACTT
*
784472 TATAGTT
1 TATACTT
784479 TATA---
1 TATACTT
784483 TATACTT
1 TATACTT
784490 ATATACTT
1 -TATACTT
784498 TATA-TT
1 TATACTT
784504 TAATACTT
1 T-ATACTT
784512 ATATACTT
1 -TATACTT
*
784520 ACATACTT
1 -TATACTT
784528 TATA-TT
1 TATACTT
784534 ATATACTT
1 -TATACTT
* *
784542 AAATATTT
1 -TATACTT
784550 TATA--T
1 TATACTT
*
784555 TATTA-TA
1 TA-TACTT
*
784562 TATAGTT
1 TATACTT
784569 TATAC-T
1 TATACTT
* *
784575 AAAACTT
1 TATACTT
*
784582 TATA-TA
1 TATACTT
784588 TATAC-T
1 TATACTT
784594 TATACTT
1 TATACTT
784601 TATA
1 TATA
784605 TATATATATA
Statistics
Matches: 103, Mismatches: 15, Indels: 30
0.70 0.10 0.20
Matches are distributed among these distances:
4 4 0.04
5 3 0.03
6 23 0.22
7 42 0.41
8 30 0.29
9 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.52
Consensus pattern (7 bp):
TATACTT
Found at i:784540 original size:129 final size:131
Alignment explanation
Indices: 784278--784714 Score: 353
Period size: 147 Copynumber: 3.2 Consensus size: 131
784268 TATATATATA
784278 TATATATATATATATATATATATATATATATATATATATATATA-TATTATAGTTTATATATACT
1 TATAT-TAT-TATATATATATATATATATATATATATATATATACT-TTATAGTTTATATATACT
784342 TATATACTTTATATTATTATATACGTGTATATCTATACTTATACTTTATAATATTATATGTATAT
63 TATATACTTTATA-T-TTATATAC---T-TA-CTATACTTATAC--TATAATATTATA-GTATAT
784407 ATACTTATAAGAAAACTT
118 ATAC-T-T-A-AAAACTT
784425 TATATATATATATATATATATATATATATATATATATATATATACTTTATAGTTTATATATACTT
1 TATAT-TAT-TATATATATATATATATATATATATATATATATACTTTATAGTTTATATATACTT
* *
784490 ATATACTTTATATTTA-ATACTTA-TATAC-T-TAC-ATACT-TTATA-T-TATATACTTAAATA
64 ATATACTTTATATTTATATACTTACTATACTTATACTATAATATTATAGTATATATACTTAAAAA
*
784547 TTT
129 CTT
* * * *
784550 TATATTATTATATATAGTTTATACTAAAACTTTATATATATACTTATACTTTATA-TATATATAT
1 TATATTATTATATATA-TATATA-T-ATA-TATATATATATA--TATACTTTATAGTTTATATAT
* * *
784614 AGGTTATATACTTTATA-TTATATACTTTAGTCTTTATAATTATATTATATATATATATA-TATA
60 A-CTTATATACTTTATATTTATATAC-TTA--C--TATACTTATACTATA-ATAT-TATAGTAT-
* *
784677 ATATACTT--ATAGTT
116 ATATACTTAAAAACTT
*
784691 TATATTATTATATATGTATATATA
1 TATATTATTATATATATATATATA
784715 CTTTATGTAA
Statistics
Matches: 253, Mismatches: 14, Indels: 55
0.79 0.04 0.17
Matches are distributed among these distances:
123 8 0.03
124 8 0.03
125 11 0.04
126 3 0.01
127 12 0.05
128 13 0.05
129 36 0.14
130 4 0.02
132 5 0.02
133 4 0.02
135 4 0.02
136 4 0.02
137 3 0.01
138 9 0.04
139 2 0.01
140 8 0.03
141 26 0.10
142 1 0.00
143 8 0.03
144 4 0.02
145 3 0.01
146 1 0.00
147 75 0.30
148 1 0.00
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (131 bp):
TATATTATTATATATATATATATATATATATATATATATATACTTTATAGTTTATATATACTTAT
ATACTTTATATTTATATACTTACTATACTTATACTATAATATTATAGTATATATACTTAAAAACT
T
Found at i:785904 original size:44 final size:46
Alignment explanation
Indices: 785784--785909 Score: 150
Period size: 47 Copynumber: 2.8 Consensus size: 46
785774 TATAAAATCT
*
785784 CTTACCATTT-ATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTAATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
785829 CTTACCATTTAAATTCCATAAGCTTGTAAGCTTATTTTTCCAATATA
1 CTTACCATTT-AATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
** * *
785876 CTTTTCA-TT-ATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTAATTCCATAAGCTCGTAAGCTTATTT
785910 GCATGGTTAC
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
44 22 0.31
45 10 0.14
46 2 0.03
47 36 0.51
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.41
Consensus pattern (46 bp):
CTTACCATTTAATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:786058 original size:40 final size:40
Alignment explanation
Indices: 786014--786135 Score: 226
Period size: 40 Copynumber: 3.0 Consensus size: 40
786004 ACCGTAGTGC
*
786014 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTTT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
786054 TACACATAAGGTCGTGCCCATCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
786094 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
786134 TA
1 TA
786136 TAAACCTGCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:788477 original size:19 final size:19
Alignment explanation
Indices: 788431--788477 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
788421 AAATAGAGAT
788431 CAGAAATCAAAGATCAGAA
1 CAGAAATCAAAGATCAGAA
* *
788450 CA-AATATCAAAGTTCATAA
1 CAGAA-ATCAAAGATCAGAA
788469 CAGAAATCA
1 CAGAAATCA
788478 GAGGTCAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 2 0.08
19 20 0.83
20 2 0.08
ACGTcount: A:0.55, C:0.17, G:0.11, T:0.17
Consensus pattern (19 bp):
CAGAAATCAAAGATCAGAA
Found at i:789150 original size:23 final size:22
Alignment explanation
Indices: 789114--789170 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
789104 GGTATATATA
* *
789114 TATATATATATAAACTATAAGG
1 TATATATATATAAACTAAAAAG
* *
789136 TATATATACTTTAAAGTAAAAAG
1 TATATATA-TATAAACTAAAAAG
*
789159 TATATATTTATA
1 TATATATATATA
789171 TATATAAACT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
22 11 0.39
23 17 0.61
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (22 bp):
TATATATATATAAACTAAAAAG
Found at i:789342 original size:85 final size:85
Alignment explanation
Indices: 789237--789393 Score: 210
Period size: 85 Copynumber: 1.8 Consensus size: 85
789227 AAGATATTCT
* * * *
789237 TATACTTTATACTTTATATATATGTATATAATATA-TTTATACTTTATAGTTTATATATA-AAAT
1 TATACCTTATACTTTATATATATAT-TAT-ATATACTTTATACTTTACACTTTATATATATAAAT
789300 ATACTTTTTACTTTAAAGTATA
64 ATACTTTTTACTTTAAAGTATA
* * **
789322 TATACCTTATAGTTTATATATATATTATATATACTTTATAGTTTACACTTTATATATATACTTAT
1 TATACCTTATACTTTATATATATATTATATATACTTTATACTTTACACTTTATATATATAAATAT
789387 ACTTTTT
66 ACTTTTT
789394 TATATATGTA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
83 5 0.08
84 24 0.39
85 33 0.53
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (85 bp):
TATACCTTATACTTTATATATATATTATATATACTTTATACTTTACACTTTATATATATAAATAT
ACTTTTTACTTTAAAGTATA
Found at i:789376 original size:52 final size:48
Alignment explanation
Indices: 789274--789377 Score: 118
Period size: 52 Copynumber: 2.1 Consensus size: 48
789264 ATAATATATT
* * *
789274 TATACTTTATAGTTTATATATAAAATATACTTTTTACTTTAAAGTATA
1 TATACCTTATAGTTTATATATAAAATATACTTTATACTTTAAACTATA
* * *
789322 TATACCTTATAGTTTATATATATATTATATATACTTTATAGTTTACACTTTA
1 TATACCTTATAGTTTATATATA-A--A-ATATACTTTATACTTTAAACTATA
789374 TATA
1 TATA
789378 TATACTTATA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
48 21 0.46
49 1 0.02
51 1 0.02
52 23 0.50
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.51
Consensus pattern (48 bp):
TATACCTTATAGTTTATATATAAAATATACTTTATACTTTAAACTATA
Found at i:789425 original size:2 final size:2
Alignment explanation
Indices: 789418--790016 Score: 87
Period size: 2 Copynumber: 300.0 Consensus size: 2
789408 TAAATAAGTG
* *
789418 TA TA TA TA CT- TA TA TG TA TA TA CTT TA TA T- TA -A 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
*
789459 CT- TA TA TA TA TA TA TA TA TA TA TA CT- TT TA TA T- TA -A TA TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* *
789499 TA TA CT- TA TA TA TA TA CTT TA TA T- TA TA CTT TA TA T- TA T-
1 TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA
* *
789538 TA TA TA CT- TT TA TA TA TA CT- TA TA CTT TA TA -A TA T- TA TA
1 TA TA TA -TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA
* * * * *
789577 TA TG TT TA TA TA CTT TA TA CTA -A AA TT TCA TA TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA -TA TA TA TA T-A TA TA TA TA TA TA
* * * * * * *
789619 TA CA CA CA CTT TA TA GTT TA TA TA TA TA CT- TA TA TA CTT TA TT
1 TA TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA TA TA -TA TA TA
* *
789662 TT TA -A TA CT- TA TA T- TCA -A TA CT- TA TA TA CTT TA TA T- TA
1 TA TA TA TA -TA TA TA TA T-A TA TA -TA TA TA TA -TA TA TA TA TA
* * *
789700 TA TA CT- TA TA TA CT- TA TA TT TA -A TA TA TA CTT TA TA T- TC
1 TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
*
789739 TA TA CT- TA TA TA CTT 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
* * * *
789782 TA TA GTT TA TA TA CT- TA TA TA CTT TA TA -A T- TA TA CTT TG TA
1 TA TA -TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA
* * *
789823 TA CA TA TA -A TA TA CT- TA TA CTT TA TA T- TA T- TA TA TA TG TA
1 TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * * * *
789863 TA TA TA CTT TA TA CTA -A AA CTT TT TA TG TA TA TA -A GTA TA TA
1 TA TA TA -TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA
* * * * *
789905 -A TA TA AA GTA TA TA -A TA TA TA TA AA GA TT TA -A TA TA AA GTA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * *
789946 TA TA TA CTT TA TA GTT TA TA TA TA TA CT- TA TA -A TA TA TT TA
1 TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * *
789987 TA CTT TA T- TG TT 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
790017 CACACACACA
Statistics
Matches: 434, Mismatches: 78, Indels: 170
0.64 0.11 0.25
Matches are distributed among these distances:
1 43 0.10
2 350 0.81
3 41 0.09
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:789728 original size:17 final size:19
Alignment explanation
Indices: 789244--789815 Score: 202
Period size: 18 Copynumber: 29.9 Consensus size: 19
789234 TCTTATACTT
* *
789244 TATACTTTATATATATGTA
1 TATACTTTATATTTATATA
* *
789263 TATA--ATATATTTATACTT
1 TATACTTTATATTTATA-TA
* * *
789281 TATAGTTTATATATA-AAA
1 TATACTTTATATTTATATA
*
789299 TATACTTTTTACTTTAAAGTATA
1 TATACTTTATA-TTT--A-TATA
*
789322 TATACCTTATAGTTTATATA
1 TATACTTTATA-TTTATATA
*
789342 TATA--TTATA--TATACTT
1 TATACTTTATATTTATA-TA
* *
789358 TATAGTTTACACTTTATATA
1 TATACTTTATA-TTTATATA
*
789378 TATAC-TTATACTTT-TTTA
1 TATACTTTATA-TTTATATA
* *
789396 TATA-TGTATATTTAAATAA
1 TATACTTTATATTTATAT-A
* * *
789415 GTGTA-TATATACTTATATGTA
1 -TATACTTTATA-TT-TATATA
*
789436 TATACTTTATATTAATATA
1 TATACTTTATATTTATATA
*
789455 TATAC-TTATATATATATA
1 TATACTTTATATTTATATA
*
789473 TATA-TATATACTTT-TATA
1 TATACTTTATA-TTTATATA
* *
789491 TTAATA-TATATACTTATATA
1 -T-ATACTTTATATTTATATA
*
789511 TATACTTTATATTATACTTTA
1 TATACTTTATATT-TA-TATA
789532 TATTA-TTATATACTTT-TATA
1 TA-TACTT-TATA-TTTATATA
789552 TATAC-TTATACTTTATA-A
1 TATACTTTATA-TTTATATA
* *
789570 TAT--TATATATGT-T-TA
1 TATACTTTATATTTATATA
* * * *
789585 TATACTTTATACTAAAATT
1 TATACTTTATATTTATATA
* * *
789604 TCATA-TATATATATATACA
1 T-ATACTTTATATTTATATA
* *
789623 CACACTTTATAGTTTATATA
1 TATACTTTATA-TTTATATA
* *
789643 TATACTTATATACTTTATTTT
1 TATACTT-TATA-TTTATATA
*
789664 TAATAC-TTATATTCAATACTTA
1 T-ATACTTTATATT-TATA--TA
789686 TATACTTTATATTATATACTTA
1 TATACTTTATATT-TATA--TA
789708 TATAC-TTATATTTA-ATA
1 TATACTTTATATTTATATA
789725 TATACTTTATATTCTATACTTA
1 TATACTTTATATT-TATA--TA
789747 TATACTTTATA--TATATA
1 TATACTTTATATTTATATA
* *
789764 TATA-TATATATATATATA
1 TATACTTTATATTTATATA
*
789782 TATAGTTTATA--TACT-TA
1 TATACTTTATATTTA-TATA
*
789799 TATACTTTATAATTATA
1 TATACTTTATATTTATA
789816 CTTTGTATAC
Statistics
Matches: 418, Mismatches: 74, Indels: 122
0.68 0.12 0.20
Matches are distributed among these distances:
15 9 0.02
16 12 0.03
17 47 0.11
18 94 0.22
19 72 0.17
20 76 0.18
21 44 0.11
22 48 0.11
23 16 0.04
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.52
Consensus pattern (19 bp):
TATACTTTATATTTATATA
Found at i:789732 original size:39 final size:42
Alignment explanation
Indices: 789428--789841 Score: 204
Period size: 43 Copynumber: 10.0 Consensus size: 42
789418 TATATATACT
*
789428 TATATGTATATACTTTATATTA-ATA--TATATACTTATATA
1 TATATATATATACTTTATATTATATACTTATATACTTATATA
* * *
789467 TATATATATATA-TATACTTTTATATTAATATATATACTTATATA
1 TATATATATATACTTTA-TATTATA-TACT-TATATACTTATATA
789511 TATACT-T-TATA--TTATACTTTATATTA-TTATATACTT-T-TA
1 TATA-TATATATACTTTATA--TTATA-TACTTATATACTTATATA
*
789550 TATATACT-TATACTTTATAATATTATATATGTTTATATACTT-TATA
1 TATATA-TATATAC-TT-T-ATATTATATA--CTTATATACTTATATA
* * * * *
789596 CTA-AAATTTCATA-TATATA-TATATAC--ACACACTT-TATA
1 -TATATATAT-ATACTTTATATTATATACTTATATACTTATATA
* **
789634 GTTTATATATATACTTATATACTT-TATTTTTA-ATACTTATAT-
1 -TATATATATATACTT-TATA-TTATATACTTATATACTTATATA
789676 TCA-ATACTTATATACTTTATATTATATACTTATATACTTATAT-
1 T-ATATA--TATATACTTTATATTATATACTTATATACTTATATA
*
789719 T-TA-ATATATACTTTATATTCTATACTTATATACTTTATATA
1 TATATATATATACTTTATATTATATACTTATATAC-TTATATA
* *
789760 TATATATATATA-TATATATATATATAGTTTATATACTTATATA
1 TATATATATATACTTTATAT-TATATA-CTTATATACTTATATA
* * * *
789803 CTTTATA-ATTATACTTTGTA-TACATA-TAATATACTTATA
1 -TATATATA-TATACTTTATATTATATACTTATATACTTATA
789842 CTTTATATTA
Statistics
Matches: 299, Mismatches: 30, Indels: 90
0.71 0.07 0.21
Matches are distributed among these distances:
38 18 0.06
39 54 0.18
40 17 0.06
41 35 0.12
42 36 0.12
43 70 0.23
44 38 0.13
45 21 0.07
46 5 0.02
47 5 0.02
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.52
Consensus pattern (42 bp):
TATATATATATACTTTATATTATATACTTATATACTTATATA
Found at i:789762 original size:52 final size:53
Alignment explanation
Indices: 789418--789835 Score: 209
Period size: 52 Copynumber: 8.1 Consensus size: 53
789408 TAAATAAGTG
* *
789418 TATATATACTTATAT--GTATATACTTTATAT-TA-A--TATATATACTTATATA
1 TATATATAGTTATATACTTATATACTTTATATATATACTTATATATA--TATATA
* * *
789467 TATATATA-TATATATACTTTTATA-TTAATATATATACTTATATATATACTTTA
1 TATATATAGT-TATATACTTATATACTTTATATATATACTTATATATATA-TATA
* *
789520 TAT-TATACTTTATATTA-TTATATACTTT-TATATATACTTATACTTTATA-ATA
1 TATATATA-GTTATA-TACTTATATACTTTATATATATACTTATA-TATATATATA
* * * * *
789572 T-TATATATGTTTATATACTT-TATAC-TAAAATTTCATA-TATATATATATACACA
1 TATATATA-G-TTATATACTTATATACTTTATATAT-ATACT-TATATATATATATA
* * * * *
789625 CACTTTATAGTT-TATA--TATATAC-TTATATACTTTATTTTTA-ATACT-TATA
1 TA-TATATAGTTATATACTTATATACTTTATATA-TATACTTATATATA-TATATA
* *
789675 T-TCA-ATACTTATATACTT-TATA-TTATATACTTATATACTTATATTTA-ATATA
1 TAT-ATATAGTTATATACTTATATACTT-TATA--TATATACTTATATATATATATA
* *
789727 TACTTTATA-TTCTATACTTATATACTTTATATATATA--TATATATATATATA
1 TA-TATATAGTTATATACTTATATACTTTATATATATACTTATATATATATATA
* *
789778 TATATATAGTTTATATACTTATATACTTTATA-ATTATACTT-TGTATACATATA
1 TATATATAG-TTATATACTTATATACTTTATATA-TATACTTATATATATATATA
789831 -ATATA
1 TATATA
789836 CTTATACTTT
Statistics
Matches: 284, Mismatches: 38, Indels: 91
0.69 0.09 0.22
Matches are distributed among these distances:
48 7 0.02
49 17 0.06
50 29 0.10
51 37 0.13
52 84 0.30
53 71 0.25
54 32 0.11
55 7 0.02
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.52
Consensus pattern (53 bp):
TATATATAGTTATATACTTATATACTTTATATATATACTTATATATATATATA
Found at i:789762 original size:74 final size:70
Alignment explanation
Indices: 789450--789875 Score: 218
Period size: 74 Copynumber: 6.0 Consensus size: 70
789440 CTTTATATTA
* * *
789450 ATATATATACTTATAT--ATATATATATA-TATATACTTTTATATTA-ATA-TATATACTTATAT
1 ATATTTATACTTATATACATATATATATACTTTATA-TTATATATTATATATTATATA--TA-AT
789510 ATATACTTT
62 ATATACTTT
* *
789519 ATA-TTATACTT-TATA-TTAT-TATATACTTT-TA-TATATACTTATACT-TTATAATATTATA
1 ATATTTATACTTATATACATATATATATACTTTATATTATATA-TTATA-TATTAT-ATATAATA
**
789577 TATGTTTAT
63 TATACTT-T
* * * * * * *
789586 ATACTTTATACTAAAATTTCATATATATATA-TATACA-CACACT-TTATAGT-TTATATATATA
1 ATA-TTTATACTTATA-TACATATATATATACTTTATATTATA-TATTATA-TATTATATATA-A
789647 CTTATATACTTT
61 --TATATACTTT
* * *
789659 ATTTTTAATACTTATATTCA-ATACTTATATACTTTATATTATATACTTATATACTTATATTTAA
1 ATATTT-ATACTTATATACATATA--TATATACTTTATATTATATA-TTATATA-TTATATATAA
789723 TATATACTTT
61 TATATACTTT
* *
789733 ATATTCTATACTTATATACTTTATATATATA-TATATATATATATATATATATAGTT-TATATAC
1 ATATT-TATACTTATATAC-ATATATATATACTTTATAT-TATATAT-TATATA-TTATATATA-
*
789796 TTATATACTTT
60 ATATATACTTT
* * *
789807 ATAATTATACTTTGTATACATATA-ATATAC-TTATACTT-TATATTAT-TA-TATATGT-ATAT
1 ATATTTATAC-TTATATACATATATATATACTTTATA-TTATATATTATATATTATATATAATAT
789866 ATACTTT
64 ATACTTT
789873 ATA
1 ATA
789876 CTAAAACTTT
Statistics
Matches: 279, Mismatches: 40, Indels: 79
0.70 0.10 0.20
Matches are distributed among these distances:
65 5 0.02
66 24 0.09
67 18 0.06
68 20 0.07
69 15 0.05
70 4 0.01
71 13 0.05
72 33 0.12
73 47 0.17
74 79 0.28
75 4 0.01
76 9 0.03
77 8 0.03
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.52
Consensus pattern (70 bp):
ATATTTATACTTATATACATATATATATACTTTATATTATATATTATATATTATATATAATATAT
ACTTT
Found at i:789848 original size:91 final size:88
Alignment explanation
Indices: 789697--789868 Score: 224
Period size: 91 Copynumber: 1.9 Consensus size: 88
789687 ATACTTTATA
* *
789697 TTATATACTTATATACTTATATTTAATATATACTTTATATTCTATACTTATATACTTTATATATA
1 TTATATACTTATATACTTATA-TTAATATATACTTTATATACTATAATTATATACTTTATAT-TA
789762 TATATATATATATATATATATATAGT
64 T-TATATATATATATATATATATAGT
*
789788 TTATATACTTATATACTT-TA-TAAT-TATACTTTGTATACATATAATATACTTATACTTTATAT
1 TTATATACTTATATACTTATATTAATATATACTTTATATAC-TATAAT-TA--TATACTTTATAT
*
789850 TATTATATATGTATATATA
62 TATTATATATATATATATA
789869 CTTTATACTA
Statistics
Matches: 73, Mismatches: 4, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
87 12 0.16
88 9 0.12
89 17 0.23
90 5 0.07
91 30 0.41
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (88 bp):
TTATATACTTATATACTTATATTAATATATACTTTATATACTATAATTATATACTTTATATTATT
ATATATATATATATATATATAGT
Found at i:789923 original size:7 final size:8
Alignment explanation
Indices: 789890--789925 Score: 51
Period size: 7 Copynumber: 4.9 Consensus size: 8
789880 AACTTTTTAT
789890 GTATATAA
1 GTATATAA
789898 GTATATAA
1 GTATATAA
789906 -TATA-AA
1 GTATATAA
789912 GTATATAA
1 GTATATAA
789920 -TATATA
1 GTATATA
789926 TAAAGATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
6 2 0.08
7 14 0.54
8 10 0.38
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (8 bp):
GTATATAA
Found at i:789939 original size:17 final size:18
Alignment explanation
Indices: 789900--789940 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
789890 GTATATAAGT
789900 ATATAATATAAAGTATATA
1 ATAT-ATATAAAGTATATA
*
789919 ATATATATAAAG-ATTTA
1 ATATATATAAAGTATATA
789936 ATATA
1 ATATA
789941 AAGTATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.43
18 8 0.38
19 4 0.19
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (18 bp):
ATATATATAAAGTATATA
Found at i:789988 original size:19 final size:20
Alignment explanation
Indices: 789428--790008 Score: 175
Period size: 20 Copynumber: 28.6 Consensus size: 20
789418 TATATATACT
* *
789428 TATATGTATATACTTTATAT
1 TATATATATATACTTTATAA
789448 TA-ATATATATACTTATATATATA
1 TATATATATATAC-T-T-TATA-A
*
789471 TATATATATATACTTTTATAT
1 TATATATATATAC-TTTATAA
789492 TA-ATATATATACTTATATATA
1 TATATATATATACTT-TATA-A
*
789513 TACTTTATATTATACTTTAT-A
1 TA-TATATA-TATACTTTATAA
789534 T-TAT-TATATACTTT-T-A
1 TATATATATATACTTTATAA
789550 TATATACT-TATACTTTATAA
1 TATATA-TATATACTTTATAA
*
789570 TAT-TATATAT-GTTTAT-A
1 TATATATATATACTTTATAA
* * *
789587 TACTTTATACTAAAATTTCATATA
1 TA-TATATA-TATACTTT-ATA-A
* *
789611 TATATATATACACACACTTTATAG
1 TATATATAT----ATACTTTATAA
* *
789635 TTTATATATATACTTATATAC
1 TATATATATATACTT-TATAA
* * * *
789656 TTTATTTTTAATAC-TTATAT
1 TATATATAT-ATACTTTATAA
*
789676 TCA-ATACTTATATACTTTATAT
1 T-ATATA--TATATACTTTATAA
789698 TATATACTTATATAC-TTAT-A
1 TATATA--TATATACTTTATAA
* *
789718 TTTA-ATATATACTTTATAT
1 TATATATATATACTTTATAA
*
789737 TCTATACTTATATACTTTAT-A
1 TATATA--TATATACTTTATAA
789758 TATATATATATA---TAT-A
1 TATATATATATACTTTATAA
*
789774 TATATATATATAGTTTAT-A
1 TATATATATATACTTTATAA
*
789793 TA-CT-TATATACTTTATAA
1 TATATATATATACTTTATAA
* * *
789811 TTATACTTTGTATAC-ATATAA
1 -TATA-TATATATACTTTATAA
*
789832 TATACTTATACTTTA-TATTATTATA
1 TATA--TATA-TATACT-TTA-TA-A
* *
789857 TATGTATATATACTTTATAC
1 TATATATATATACTTTATAA
* * *
789877 TA-AAACTTTTTA-TGTATATAA
1 TATATA-TATATACT-T-TATAA
* * *
789898 GTATATAATATAAAGTATATAA
1 -TATAT-ATATATACTTTATAA
* *
789920 TATATATAAAGA-TTTA-ATA
1 TATATATATATACTTTATA-A
* *
789939 TAAAGTATATATACTTTATAG
1 TATA-TATATATACTTTATAA
*
789960 TTTATATATATAC-TTATAA
1 TATATATATATACTTTATAA
**
789979 TATAT-T-TATACTTTATTG
1 TATATATATATACTTTATAA
*
789997 TTTATATATATA
1 TATATATATATA
790009 TATATATACA
Statistics
Matches: 428, Mismatches: 65, Indels: 136
0.68 0.10 0.22
Matches are distributed among these distances:
16 19 0.04
17 37 0.09
18 33 0.08
19 61 0.14
20 74 0.17
21 61 0.14
22 71 0.17
23 26 0.06
24 34 0.08
25 7 0.02
26 5 0.01
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (20 bp):
TATATATATATACTTTATAA
Found at i:790093 original size:57 final size:57
Alignment explanation
Indices: 790003--790114 Score: 145
Period size: 57 Copynumber: 1.9 Consensus size: 57
789993 ATTGTTTATA
*
790003 TATATATATATATACACACACACACTTTTTACTTTAAAG-TATATATACCTTATAGTT
1 TATATATATATATACACACACACACTTTATACTTTAAAGTTATATATA-CTTATAGTT
* * ** *
790060 TATATATATATATATATACACTTACTTTATACTTTATAGTTTATATATACTTATA
1 TATATATATATATACACACACACACTTTATACTTTAAAG-TTATATATACTTATA
790115 CTTATTTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 33 0.70
58 6 0.13
59 8 0.17
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.46
Consensus pattern (57 bp):
TATATATATATATACACACACACACTTTATACTTTAAAGTTATATATACTTATAGTT
Found at i:790241 original size:2 final size:2
Alignment explanation
Indices: 790234--790262 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
790224 TAATATTCAT
790234 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
790263 ATTGTTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:790613 original size:24 final size:24
Alignment explanation
Indices: 790568--790613 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
790558 TTAGTCCATT
*
790568 TTTTATATTAATATCAGCTTCACA
1 TTTTATATTAATATCAACTTCACA
*
790592 TTTTATAATTAAT-TCAATTTCA
1 TTTTAT-ATTAATATCAACTTCA
790614 TCCCTCGTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.35, C:0.13, G:0.02, T:0.50
Consensus pattern (24 bp):
TTTTATATTAATATCAACTTCACA
Found at i:790761 original size:4 final size:4
Alignment explanation
Indices: 790752--790786 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
790742 AATGTACATT
790752 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
790787 TGTATTATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:792705 original size:35 final size:35
Alignment explanation
Indices: 792659--792726 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
792649 CAAACTTCAC
792659 AAGCTTACATTTGTTAAAATATATATTATCTTTGT
1 AAGCTTACATTTGTTAAAATATATATTATCTTTGT
* *
792694 AAGCTTGCATTTGTTAAAATATATATTCTCTTT
1 AAGCTTACATTTGTTAAAATATATATTATCTTT
792727 ACTTTTGTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.49
Consensus pattern (35 bp):
AAGCTTACATTTGTTAAAATATATATTATCTTTGT
Found at i:793231 original size:2 final size:2
Alignment explanation
Indices: 793224--793284 Score: 81
Period size: 2 Copynumber: 31.0 Consensus size: 2
793214 CTAATAAGTG
*
793224 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
793266 GTA TA -A AA TA TA TA -A TA TA
1 -TA TA TA TA TA TA TA TA TA TA
793285 AAGTATTAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.04
2 50 0.94
3 1 0.02
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (2 bp):
TA
Found at i:793285 original size:14 final size:14
Alignment explanation
Indices: 793225--793363 Score: 56
Period size: 16 Copynumber: 9.4 Consensus size: 14
793215 TAATAAGTGT
*
793225 ATATATATATATATAT
1 ATATATA-ATATA-AA
*
793241 ATATATATATATATAT
1 ATATATA-ATATA-AA
793257 ATATATAAAGTATAAA
1 ATATAT-AA-TATAAA
793273 ATATATAATATAAA
1 ATATATAATATAAA
*
793287 GTAT-TAA-ACTAGATA
1 ATATATAATA-TA-A-A
* * *
793302 ATATA-AGTTTTAA
1 ATATATAATATAAA
793315 ATATA-AAGTATTAAA
1 ATATATAA-TA-TAAA
793330 ATATATAA-ATATAA
1 ATATATAATATA-AA
*
793344 GTAT-TACATATAAA
1 ATATATA-ATATAAA
793358 ATATAT
1 ATATAT
793364 TAATTATCAT
Statistics
Matches: 98, Mismatches: 11, Indels: 29
0.71 0.08 0.21
Matches are distributed among these distances:
12 1 0.01
13 16 0.16
14 24 0.24
15 20 0.20
16 32 0.33
17 5 0.05
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.40
Consensus pattern (14 bp):
ATATATAATATAAA
Found at i:793294 original size:22 final size:22
Alignment explanation
Indices: 793251--793319 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
793241 ATATATATAT
793251 ATATATATATATAAAGTA-TAAA
1 ATATATA-ATATAAAGTATTAAA
793273 ATATATAATATAAAGTATTAAA
1 ATATATAATATAAAGTATTAAA
* * *
793295 CTAGATAATAT-AAGT-TTTAA
1 ATATATAATATAAAGTATTAAA
793315 ATATA
1 ATATA
793320 AAGTATTAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 7 0.17
21 14 0.34
22 20 0.49
ACGTcount: A:0.55, C:0.01, G:0.06, T:0.38
Consensus pattern (22 bp):
ATATATAATATAAAGTATTAAA
Found at i:793318 original size:35 final size:36
Alignment explanation
Indices: 793279--793357 Score: 115
Period size: 35 Copynumber: 2.2 Consensus size: 36
793269 TAAAATATAT
* *
793279 AATATAAAGTATTAAACTAGAT-AATATAAGTTTTA
1 AATATAAAGTATTAAAATAGATAAATATAAGTATTA
*
793314 AATATAAAGTATTAAAATATATAAATATAAGTATTA
1 AATATAAAGTATTAAAATAGATAAATATAAGTATTA
*
793350 CATATAAA
1 AATATAAA
793358 ATATATTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
35 20 0.51
36 19 0.49
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (36 bp):
AATATAAAGTATTAAAATAGATAAATATAAGTATTA
Found at i:793355 original size:36 final size:35
Alignment explanation
Indices: 793257--793357 Score: 114
Period size: 35 Copynumber: 2.8 Consensus size: 35
793247 ATATATATAT
*
793257 ATATATAAAGTATAAAATATATAATATAAAGTATTAAA
1 ATATATAAA-TAT-AAGTAT-TAATATAAAGTATTAAA
* * *
793295 CTAGAT-AATATAAGTTTTAAATATAAAGTATTAAA
1 ATATATAAATATAAGTATT-AATATAAAGTATTAAA
793330 ATATATAAATATAAGTATTACATATAAA
1 ATATATAAATATAAGTATTA-ATATAAA
793358 ATATATTAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
34 1 0.02
35 25 0.47
36 21 0.40
37 2 0.04
38 4 0.08
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (35 bp):
ATATATAAATATAAGTATTAATATAAAGTATTAAA
Found at i:793363 original size:22 final size:23
Alignment explanation
Indices: 793313--793363 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
793303 TATAAGTTTT
793313 AAATATA-AAGTATTAAAATATA
1 AAATATATAAGTATTAAAATATA
* *
793335 TAA-ATATAAGTATT-ACATATA
1 AAATATATAAGTATTAAAATATA
793356 AAATATAT
1 AAATATAT
793364 TAATTATCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (23 bp):
AAATATATAAGTATTAAAATATA
Found at i:793374 original size:21 final size:20
Alignment explanation
Indices: 793346--793387 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
793336 AAATATAAGT
793346 ATTACAT-ATAAAATATATTA
1 ATTACATAAT-AAATATATTA
*
793366 ATTATCATAATTAATATATTA
1 ATTA-CATAATAAATATATTA
793387 A
1 A
793388 ATATATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 13 0.68
22 2 0.11
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (20 bp):
ATTACATAATAAATATATTA
Found at i:793380 original size:13 final size:13
Alignment explanation
Indices: 793362--793419 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
793352 TATAAAATAT
793362 ATTAATTATCATA
1 ATTAATTATCATA
*
793375 ATTAATATATTA-A
1 ATTAAT-TATCATA
*
793388 ATATATTTAT--TA
1 AT-TAATTATCATA
793400 ATTTAATTATCATA
1 A-TTAATTATCATA
793414 ATTAAT
1 ATTAAT
793420 ATTTTATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
12 8 0.22
13 18 0.50
14 10 0.28
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTAATTATCATA
Found at i:793399 original size:21 final size:21
Alignment explanation
Indices: 793357--793421 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
793347 TTACATATAA
*
793357 AATATATTAATTATCATAATT
1 AATATATTAAATATCATAATT
793378 AATATATTAAATAT-AT--TT
1 AATATATTAAATATCATAATT
* *
793396 ATTA-ATTTAATTATCATAATT
1 AATATA-TTAAATATCATAATT
793417 AATAT
1 AATAT
793422 TTTATTATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
17 1 0.03
18 12 0.34
19 2 0.06
20 2 0.06
21 18 0.51
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATATTAAATATCATAATT
Found at i:793407 original size:30 final size:31
Alignment explanation
Indices: 793346--793428 Score: 79
Period size: 30 Copynumber: 2.8 Consensus size: 31
793336 AAATATAAGT
* *
793346 ATTA-CATATAAAATATATTAATT-ATCATA
1 ATTATCATATTAAATATATTTATTAATCATA
*
793375 ATTAAT-ATATTAAATATATTTATTAAT-TTA
1 ATT-ATCATATTAAATATATTTATTAATCATA
793405 ATTATCATAATT-AATAT-TTTATTA
1 ATTATCAT-ATTAAATATATTTATTA
793429 TAACATTTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
29 12 0.26
30 29 0.63
31 5 0.11
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (31 bp):
ATTATCATATTAAATATATTTATTAATCATA
Found at i:793597 original size:48 final size:50
Alignment explanation
Indices: 793510--793617 Score: 141
Period size: 48 Copynumber: 2.1 Consensus size: 50
793500 GGTAATATAT
*
793510 AAGTCGGATCATTTACATGTCATGTCAAATTCATAACAGGTCATGTT-AATAAC
1 AAGTCGGATCATTTACA--T-ATGTCAAATTCATAACAGGTCAAGTTGAA-AAC
793563 AAGTCGGATCATTTACA-A-GTCAAATTCATAACAGGTCAAGTTGAAAAC
1 AAGTCGGATCATTTACATATGTCAAATTCATAACAGGTCAAGTTGAAAAC
*
793611 AGGTCGG
1 AAGTCGG
793618 GTAATACCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
48 32 0.62
49 3 0.06
53 17 0.33
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.28
Consensus pattern (50 bp):
AAGTCGGATCATTTACATATGTCAAATTCATAACAGGTCAAGTTGAAAAC
Found at i:793600 original size:16 final size:16
Alignment explanation
Indices: 793533--793615 Score: 51
Period size: 16 Copynumber: 5.2 Consensus size: 16
793523 TACATGTCAT
793533 GTCAAATTCATAACAG
1 GTCAAATTCATAACAG
** * *
793549 GTCATGTTAATAACAA
1 GTCAAATTCATAACAG
** * *
793565 GTCGGA-TCATTTACAA
1 GTCAAATTCA-TAACAG
793581 GTCAAATTCATAACAG
1 GTCAAATTCATAACAG
* * *
793597 GTCAAGTTGAAAACAG
1 GTCAAATTCATAACAG
793613 GTC
1 GTC
793616 GGGTAATACC
Statistics
Matches: 49, Mismatches: 16, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
15 2 0.04
16 44 0.90
17 3 0.06
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (16 bp):
GTCAAATTCATAACAG
Found at i:796423 original size:14 final size:14
Alignment explanation
Indices: 796404--796433 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
796394 GGTATTTATG
796404 ACTATAGACTTGAA
1 ACTATAGACTTGAA
796418 ACTATAGACTTGAA
1 ACTATAGACTTGAA
796432 AC
1 AC
796434 ATTTCAAGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (14 bp):
ACTATAGACTTGAA
Found at i:798637 original size:18 final size:18
Alignment explanation
Indices: 798592--798626 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
798582 ATGTGTTATG
*
798592 ATTTGTTTTTGGATTTTT
1 ATTTGATTTTGGATTTTT
798610 ATTTGATTTTGGATTTT
1 ATTTGATTTTGGATTTT
798627 GTTTTGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.17, T:0.69
Consensus pattern (18 bp):
ATTTGATTTTGGATTTTT
Found at i:804012 original size:3 final size:3
Alignment explanation
Indices: 804004--804045 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
803994 TATGGGTTTG
*
804004 TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
804046 AGGTATCAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:804308 original size:44 final size:44
Alignment explanation
Indices: 804260--804356 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 44
804250 CACCTCATTC
* *
804260 TATGATGAAATCAAGCAAAAAAGTGATGCTAATCCAACTTCTTT
1 TATGATGAAATCAAGCAAAAAAGTGATGCTAATCCAACTCCTTA
* ** * * *
804304 TATGATGGAATCAAGCAAAGTATTGGTGCTGATCCAACTCCTTA
1 TATGATGAAATCAAGCAAAAAAGTGATGCTAATCCAACTCCTTA
804348 TATGATGAA
1 TATGATGAA
804357 TCGAGCTAAG
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (44 bp):
TATGATGAAATCAAGCAAAAAAGTGATGCTAATCCAACTCCTTA
Found at i:804521 original size:118 final size:118
Alignment explanation
Indices: 804375--804591 Score: 303
Period size: 118 Copynumber: 1.8 Consensus size: 118
804365 AGGTTGAACA
* *
804375 AGTTCTTCTCATTATGAACTTCATCATTGGAAATGTTGATCCACATTCTTCTGTGATGGAATCAA
1 AGTTCTTCTCATTACGAACTTCA-CATTGGAAATGTTGATCCACATCCTTCTGTGATGGAATCAA
*
804440 AT-CAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGTATG
65 ATGAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGTATG
* *
804493 AGTTCTTCTCATTACGAACCCTTC-CATTGGAAATGTTGATCCACCTCCTTCTGTGATGGAATCG
1 AGTTCTTCTCATTACGAA--CTTCACATTGGAAATGTTGATCCACATCCTTCTGTGATGGAATCA
* * * * *
804557 AGTGAAATGTTGAATAATTTTTTCTCATTATGAAC
64 AATGAAAGGTTGAACAAGTTCTTCTCATTATGAAC
804592 CCTTCCACCA
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
118 56 0.65
119 26 0.30
120 4 0.05
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.38
Consensus pattern (118 bp):
AGTTCTTCTCATTACGAACTTCACATTGGAAATGTTGATCCACATCCTTCTGTGATGGAATCAAA
TGAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGTATG
Found at i:805164 original size:37 final size:37
Alignment explanation
Indices: 805103--805186 Score: 96
Period size: 37 Copynumber: 2.3 Consensus size: 37
805093 GAGACAATCC
* * * *
805103 TAAGAATGACTCAAATAACATTCTAGAGAAATGGTCA
1 TAAGAAGGACTCAAACAACATTCTACAGAAATGATCA
** * *
805140 TAAGAAGGACTCAAACAATTTTCTACAGAATTGATCC
1 TAAGAAGGACTCAAACAACATTCTACAGAAATGATCA
805177 TAAGAAGGAC
1 TAAGAAGGAC
805187 AAAATAGTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (37 bp):
TAAGAAGGACTCAAACAACATTCTACAGAAATGATCA
Found at i:805361 original size:18 final size:18
Alignment explanation
Indices: 805335--805372 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
805325 ATAGGAATGG
805335 TTGCAAGAGCAGTCTTTA
1 TTGCAAGAGCAGTCTTTA
*
805353 TTGCTAGAGCAGTCTTTA
1 TTGCAAGAGCAGTCTTTA
805371 TT
1 TT
805373 CTCTATCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (18 bp):
TTGCAAGAGCAGTCTTTA
Found at i:806229 original size:55 final size:54
Alignment explanation
Indices: 806065--806488 Score: 343
Period size: 55 Copynumber: 7.7 Consensus size: 54
806055 TTATAGTTAT
* * * **
806065 CATCAAGAAACCCTTGAAAATCAGGCTTAGCTTCTTTAAAAATACATTTACAACTA
1 CATCAAGAAACCCCTGAAAATCAGGCTTAGCTTCTTTACAAATCCATTTGTAA--A
* * * * *
806121 TCATCAAGAAAACCCT-AAACATTAGGCTTAGTTTCTTTTCAAATCTATTTGTAAA
1 -CATCAAGAAACCCCTGAAA-ATCAGGCTTAGCTTCTTTACAAATCCATTTGTAAA
* * * *
806176 CATCAAAAAACCCTTGAAAATCAGGCTTAGCTCCTTTCCCAAATCCATTTGTAAA
1 CATCAAGAAACCCCTGAAAATCAGGCTTAGCTTCTTT-ACAAATCCATTTGTAAA
* * * ** *
806231 CATCAACAAGCCCCTGAAAATCAGGCTTAGC-TCATTTAAAAAATTTATTTGAAAA
1 CATCAAGAAACCCCTGAAAATCAGGCTTAGCTTC-TTT-ACAAATCCATTTGTAAA
* * *
806286 CATCAAGAAACCCCTGAAAATCAGGCATAACTTCTTTCCAAATCCATTTGTAAA
1 CATCAAGAAACCCCTGAAAATCAGGCTTAGCTTCTTTACAAATCCATTTGTAAA
** * * * *
806340 CATCAAGAAACCCCTGAAAATCATTCTTATTGCTCCTTTAAAAATTCATTTGAAAA
1 CATCAAGAAACCCCTGAAAATCAGGCTTA--GCTTCTTTACAAATCCATTTGTAAA
*** * * * * *
806396 CATCAAGAAATATCTAAAAATTAGACTTAGCTTCCTTTA-AAATTCATTTGAAGTAAT
1 CATCAAGAAACCCCTGAAAATCAGGCTTAGCTT-CTTTACAAATCCATTT---GTAAA
* *
806453 CATCAAGAAACCCCT-AAACATTAGGCTCAGCTTCTT
1 CATCAAGAAACCCCTGAAA-ATCAGGCTTAGCTTCTT
806489 AAAAAATCGT
Statistics
Matches: 294, Mismatches: 61, Indels: 25
0.77 0.16 0.07
Matches are distributed among these distances:
54 79 0.27
55 97 0.33
56 52 0.18
57 66 0.22
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (54 bp):
CATCAAGAAACCCCTGAAAATCAGGCTTAGCTTCTTTACAAATCCATTTGTAAA
Found at i:806357 original size:109 final size:107
Alignment explanation
Indices: 806065--806405 Score: 378
Period size: 110 Copynumber: 3.1 Consensus size: 107
806055 TTATAGTTAT
** * **
806065 CATCAAGAAACCCTTGAAAATCAGGCTTAGCTTCTTTAAAAATACATTTACAACTATCATCAAGA
1 CATCAAGAAACCCTTGAAAATCAGGCTTAGCTTCTTTCCAAATCCATTTGTAA--A-CATCAAGA
* * * ** * *
806130 AAACCCT-AAACATTAGGCTTAGTTTCTTTTCAAATCTATTTGTAAA
63 AACCCCTGAAA-ATCAGGCTTAG-CTCTTTAAAAATTTATTTGAAAA
* * * *
806176 CATCAAAAAACCCTTGAAAATCAGGCTTAGCTCCTTTCCCAAATCCATTTGTAAACATCAACAAG
1 CATCAAGAAACCCTTGAAAATCAGGCTTAGCTTCTTT-CCAAATCCATTTGTAAACATCAAGAAA
806241 CCCCTGAAAATCAGGCTTAGCTCATTTAAAAAATTTATTTGAAAA
65 CCCCTGAAAATCAGGCTTAGCTC-TTT-AAAAATTTATTTGAAAA
* * *
806286 CATCAAGAAACCCCTGAAAATCAGGCATAACTTCTTTCCAAATCCATTTGTAAACATCAAGAAAC
1 CATCAAGAAACCCTTGAAAATCAGGCTTAGCTTCTTTCCAAATCCATTTGTAAACATCAAGAAAC
** *
806351 CCCTGAAAATCATTCTTATTGCTCCTTTAAAAATTCATTTGAAAA
66 CCCTGAAAATCAGGCTTA--GCT-CTTTAAAAATTTATTTGAAAA
806396 CATCAAGAAA
1 CATCAAGAAA
806406 TATCTAAAAA
Statistics
Matches: 197, Mismatches: 26, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
108 2 0.01
109 67 0.34
110 75 0.38
111 41 0.21
112 12 0.06
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (107 bp):
CATCAAGAAACCCTTGAAAATCAGGCTTAGCTTCTTTCCAAATCCATTTGTAAACATCAAGAAAC
CCCTGAAAATCAGGCTTAGCTCTTTAAAAATTTATTTGAAAA
Found at i:808560 original size:14 final size:14
Alignment explanation
Indices: 808541--808579 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
808531 CATGATTGGA
808541 TTTCTTTTTTTCTT-
1 TTTCTTTTTTT-TTC
808555 TTTCTTTTTTTTTC
1 TTTCTTTTTTTTTC
808569 TTT-TTTTTTTT
1 TTTCTTTTTTTT
808580 GTTCTCGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 10 0.42
14 14 0.58
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTCTTTTTTTTTC
Found at i:808566 original size:16 final size:15
Alignment explanation
Indices: 808545--808584 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
808535 ATTGGATTTC
808545 TTTTTTTCTTTTTCTT
1 TTTTTTTCTTTTT-TT
808561 TTTTTTTCTTTTTTT
1 TTTTTTTCTTTTTTT
*
808576 TTTTGTTCT
1 TTTTTTTCT
808585 CGCATTGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.88
Consensus pattern (15 bp):
TTTTTTTCTTTTTTT
Found at i:808568 original size:10 final size:10
Alignment explanation
Indices: 808548--808577 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
808538 GGATTTCTTT
808548 TTTTCTTTTTC
1 TTTT-TTTTTC
808559 TTTTTTTTTC
1 TTTTTTTTTC
808569 TTTTTTTTT
1 TTTTTTTTT
808578 TTGTTCTCGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:810291 original size:28 final size:28
Alignment explanation
Indices: 810243--810297 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
810233 ATATTCTTGA
810243 GTCCAACTTGTTGCCTCAGTAGGTAGAT
1 GTCCAACTTGTTGCCTCAGTAGGTAGAT
* *
810271 GTCCTACTTGTCT-CCTTAGTAGGTAGA
1 GTCCAACTTGT-TGCCTCAGTAGGTAGA
810298 CTATATCTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.35
Consensus pattern (28 bp):
GTCCAACTTGTTGCCTCAGTAGGTAGAT
Found at i:811328 original size:15 final size:15
Alignment explanation
Indices: 811308--811336 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
811298 TGGTCGACCG
811308 AACCGAATTAACCAT
1 AACCGAATTAACCAT
811323 AACCGAATTAACCA
1 AACCGAATTAACCA
811337 AACTTTTTTT
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:0.48, C:0.28, G:0.07, T:0.17
Consensus pattern (15 bp):
AACCGAATTAACCAT
Found at i:811772 original size:182 final size:182
Alignment explanation
Indices: 811465--811849 Score: 623
Period size: 182 Copynumber: 2.1 Consensus size: 182
811455 TTTTCTAATT
* * * * * *
811465 TATATAA-AAATTAAATATTTTTTAATTCAAAAAAGTTTATAATTAATTTAAATAATATATGATT
1 TATATAATATATTTAATA-TTTTTAATTAAAAAAAGTTTACAAATAATTTAAATAATATATAATT
*
811529 ATAAAATAAAAATTTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTG
65 ATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTG
*
811594 GATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTT-AGCCCATATGTTA
130 GATCTTAAATTATTAATTGGGTTTTAAATGATTTGGG-TTGAGCCCATATGTTA
*
811647 TATATAATATTTTTAATATTTTTAATTAAAAAACAGTTTACAAATAATTTAAATAATATATAATT
1 TATATAATATATTTAATATTTTTAATTAAAAAA-AGTTTACAAATAATTTAAATAATATATAATT
*
811712 ATAAAATAAAAAATTTATAT-AATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTG
65 ATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTG
*
811776 GATCTTAAATTATTAATTGGGTTTTAAATGATTTGGGTTGAGCCTATATGTTA
130 GATCTTAAATTATTAATTGGGTTTTAAATGATTTGGGTTGAGCCCATATGTTA
811829 TATATAATATATTTAATATTT
1 TATATAATATATTTAATATTT
811850 AAAATTTAAT
Statistics
Matches: 188, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
181 2 0.01
182 133 0.71
183 53 0.28
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (182 bp):
TATATAATATATTTAATATTTTTAATTAAAAAAAGTTTACAAATAATTTAAATAATATATAATTA
TAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGG
ATCTTAAATTATTAATTGGGTTTTAAATGATTTGGGTTGAGCCCATATGTTA
Found at i:814124 original size:21 final size:21
Alignment explanation
Indices: 814099--814141 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
814089 CGAAACATCG
814099 TCGTTCGGTTGATCTATATAA
1 TCGTTCGGTTGATCTATATAA
814120 TCGTTCGGTTGATCTATATAA
1 TCGTTCGGTTGATCTATATAA
814141 T
1 T
814142 TCATTTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (21 bp):
TCGTTCGGTTGATCTATATAA
Found at i:815071 original size:3 final size:3
Alignment explanation
Indices: 815063--815096 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
815053 ATTTGAGTTT
815063 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
815097 AGGGATCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:816511 original size:20 final size:17
Alignment explanation
Indices: 816465--816501 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
816455 TTAAATATTA
*
816465 TTTTA-AATAATTACAT
1 TTTTACAATAATAACAT
816481 TTTTACAATAATAACAT
1 TTTTACAATAATAACAT
816498 TTTT
1 TTTT
816502 TACATCATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTTACAATAATAACAT
Found at i:819099 original size:43 final size:38
Alignment explanation
Indices: 819019--819094 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
819009 GGTCCTTGAG
819019 GCATAGCAATGCAAGAATCCTACCCTACTGCATAAACT
1 GCATAGCAATGCAAGAATCCTACCCTACTGCATAAACT
819057 GCATAGCAATGCAAGAATCCTACCCTACTGCATAAACT
1 GCATAGCAATGCAAGAATCCTACCCTACTGCATAAACT
819095 AAACTTGAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.37, C:0.29, G:0.13, T:0.21
Consensus pattern (38 bp):
GCATAGCAATGCAAGAATCCTACCCTACTGCATAAACT
Found at i:819529 original size:27 final size:27
Alignment explanation
Indices: 819491--819545 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
819481 CAAAGTAAAC
819491 AGCATCGAAGGAACAATCATATTTAAT
1 AGCATCGAAGGAACAATCATATTTAAT
819518 AGCATCGAAGGAACAATCATATTTAAT
1 AGCATCGAAGGAACAATCATATTTAAT
819545 A
1 A
819546 TGTATGTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (27 bp):
AGCATCGAAGGAACAATCATATTTAAT
Found at i:823227 original size:59 final size:58
Alignment explanation
Indices: 823105--823236 Score: 128
Period size: 59 Copynumber: 2.2 Consensus size: 58
823095 TTTGAGTAAT
* * *
823105 CATTTTATAACTTTTAATATTCAAAGGATTCAACAAAGCAACTTCTATAGTCAGAGGAT
1 CATTTTGTAACTTTTAATAGTCAAAGGATTCAACAAAGCAACTTCTATAGTCAGA-GAC
* * *
823164 CATTTTGTAATTTTTAGTAGTCAAAGGACTT-AACAAAGTAA-TATCTTATAGTCATGA-AC
1 CATTTTGTAACTTTTAATAGTCAAAGGA-TTCAACAAAGCAACT-TC-TATAGTCA-GAGAC
823223 CATTTGTGT-ACTTT
1 CATTT-TGTAACTTT
823237 ATCTTATGTT
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
58 1 0.02
59 45 0.74
60 13 0.21
61 2 0.03
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.38
Consensus pattern (58 bp):
CATTTTGTAACTTTTAATAGTCAAAGGATTCAACAAAGCAACTTCTATAGTCAGAGAC
Found at i:824321 original size:7 final size:7
Alignment explanation
Indices: 824305--824357 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
824295 CTATTACAAA
824305 TTTAGAG
1 TTTAGAG
*
824312 TTTAGGG
1 TTTAGAG
*
824319 TTTAAGAT
1 TTT-AGAG
824327 TTTAGAG
1 TTTAGAG
*
824334 TTTAGGG
1 TTTAGAG
824341 TTTA-AG
1 TTTAGAG
*
824347 TTTATAG
1 TTTAGAG
824354 TTTA
1 TTTA
824358 TGATTTAGGA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
6 5 0.13
7 28 0.74
8 5 0.13
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (7 bp):
TTTAGAG
Found at i:824331 original size:22 final size:22
Alignment explanation
Indices: 824305--824346 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
824295 CTATTACAAA
824305 TTTAGAGTTTAGGGTTTAAGAT
1 TTTAGAGTTTAGGGTTTAAGAT
824327 TTTAGAGTTTAGGGTTTAAG
1 TTTAGAGTTTAGGGTTTAAG
824347 TTTATAGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (22 bp):
TTTAGAGTTTAGGGTTTAAGAT
Found at i:824364 original size:20 final size:20
Alignment explanation
Indices: 824305--824364 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 20
824295 CTATTACAAA
*
824305 TTTAGAGTTTAGGGTTTAAG
1 TTTAGAGTTTAGGATTTAAG
*
824325 ATTTTAGAGTTTAGGGTTTAAG
1 --TTTAGAGTTTAGGATTTAAG
* *
824347 TTTATAGTTTATGATTTA
1 TTTAGAGTTTAGGATTTA
824365 GGATTTAGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
20 15 0.43
22 20 0.57
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (20 bp):
TTTAGAGTTTAGGATTTAAG
Found at i:826894 original size:23 final size:23
Alignment explanation
Indices: 826867--826913 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
826857 ATAATATATA
826867 CTTCTAAAGTTTAGGGTTTAATG
1 CTTCTAAAGTTTAGGGTTTAATG
826890 CTTCTAAAGTTTAGGGTTTAATG
1 CTTCTAAAGTTTAGGGTTTAATG
826913 C
1 C
826914 CTAGGGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.43
Consensus pattern (23 bp):
CTTCTAAAGTTTAGGGTTTAATG
Found at i:827047 original size:20 final size:20
Alignment explanation
Indices: 827007--827091 Score: 75
Period size: 20 Copynumber: 4.2 Consensus size: 20
826997 GTGTATTGGT
* *
827007 TTTAGGGTTCAATGTTTAGGA
1 TTTAAGGTTCAA-GGTTAGGA
827028 TTTAAGGTTCAAGGTTAGGA
1 TTTAAGGTTCAAGGTTAGGA
* * *
827048 TTTAATGTTCATGGTTTAAGA
1 TTTAAGGTTCAAGG-TTAGGA
*
827069 -TT-AGGATTTAAGGTTAGGA
1 TTTAAGG-TTCAAGGTTAGGA
827088 TTTA
1 TTTA
827092 TAATTTGAAC
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
19 7 0.14
20 28 0.55
21 16 0.31
ACGTcount: A:0.28, C:0.04, G:0.26, T:0.42
Consensus pattern (20 bp):
TTTAAGGTTCAAGGTTAGGA
Found at i:827080 original size:13 final size:13
Alignment explanation
Indices: 827062--827091 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
827052 ATGTTCATGG
827062 TTTAAGATTAGGA
1 TTTAAGATTAGGA
*
827075 TTTAAGGTTAGGA
1 TTTAAGATTAGGA
827088 TTTA
1 TTTA
827092 TAATTTGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.43
Consensus pattern (13 bp):
TTTAAGATTAGGA
Found at i:827115 original size:8 final size:8
Alignment explanation
Indices: 827102--827209 Score: 61
Period size: 8 Copynumber: 14.5 Consensus size: 8
827092 TAATTTGAAC
827102 TTTATGGT
1 TTTATGGT
827110 TTTATGG-
1 TTTATGGT
* *
827117 TTT-GGGG
1 TTTATGGT
*
827124 TTTAT-GA
1 TTTATGGT
*
827131 TTTAAGG-
1 TTTATGGT
*
827138 TTTAT-GA
1 TTTATGGT
827145 TTTATGGT
1 TTTATGGT
*
827153 TTTA-GGG
1 TTTATGGT
*
827160 TTTA-GGA
1 TTTATGGT
827167 TTTATGG-
1 TTTATGGT
*
827174 TTTAGGGT
1 TTTATGGT
*
827182 TTTAGGGT
1 TTTATGGT
*
827190 TTTAGGGT
1 TTTATGGT
*
827198 TTTAGGGT
1 TTTATGGT
827206 TTTA
1 TTTA
827210 GTCTATGTTT
Statistics
Matches: 84, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
6 3 0.04
7 38 0.45
8 43 0.51
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.53
Consensus pattern (8 bp):
TTTATGGT
Found at i:827129 original size:14 final size:14
Alignment explanation
Indices: 827110--827199 Score: 81
Period size: 14 Copynumber: 6.2 Consensus size: 14
827100 ACTTTATGGT
*
827110 TTTATGGTTTGGGG
1 TTTATGGTTTAGGG
* *
827124 TTTATGATTTAAGG
1 TTTATGGTTTAGGG
* *
827138 TTTATGATTTATGGT
1 TTTATGGTTTA-GGG
* *
827153 TTTAGGGTTTAGGA
1 TTTATGGTTTAGGG
827167 TTTATGGTTTAGGG
1 TTTATGGTTTAGGG
*
827181 TTTTAGGGTTTTAGGG
1 -TTTATGG-TTTAGGG
827197 TTT
1 TTT
827200 TAGGGTTTTA
Statistics
Matches: 62, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
14 36 0.58
15 19 0.31
16 7 0.11
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.52
Consensus pattern (14 bp):
TTTATGGTTTAGGG
Found at i:827149 original size:43 final size:43
Alignment explanation
Indices: 827102--827207 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 43
827092 TAATTTGAAC
* * *
827102 TTTATGGTTTTATGGTTTGGGGTTTATGATTTAAGGTTTATGA
1 TTTATGGTTTTAGGGTTTAGGATTTATGATTTAAGGTTTATGA
* * * *
827145 TTTATGGTTTTAGGGTTTAGGATTTATGGTTTAGGGTTTTAGGGT
1 TTTATGGTTTTAGGGTTTAGGATTTATGATTTAAGG-TTTA-TGA
*
827190 TTTAGGGTTTTAGGGTTT
1 TTTATGGTTTTAGGGTTT
827208 TAGTCTATGT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 31 0.58
44 4 0.08
45 18 0.34
ACGTcount: A:0.16, C:0.00, G:0.31, T:0.53
Consensus pattern (43 bp):
TTTATGGTTTTAGGGTTTAGGATTTATGATTTAAGGTTTATGA
Found at i:827163 original size:7 final size:7
Alignment explanation
Indices: 827110--827207 Score: 70
Period size: 7 Copynumber: 13.4 Consensus size: 7
827100 ACTTTATGGT
*
827110 TTTATGG
1 TTTAGGG
*
827117 TTTGGGG
1 TTTAGGG
* *
827124 TTTATGA
1 TTTAGGG
*
827131 TTTAAGG
1 TTTAGGG
* *
827138 TTTATGA
1 TTTAGGG
*
827145 TTTATGGT
1 TTTA-GGG
827153 TTTAGGG
1 TTTAGGG
*
827160 TTTAGGA
1 TTTAGGG
*
827167 TTTATGG
1 TTTAGGG
827174 TTTAGGG
1 TTTAGGG
827181 TTTTAGGG
1 -TTTAGGG
827189 TTTTAGGG
1 -TTTAGGG
827197 TTTTAGGG
1 -TTTAGGG
827205 TTT
1 TTT
827208 TAGTCTATGT
Statistics
Matches: 73, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
7 45 0.62
8 28 0.38
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (7 bp):
TTTAGGG
Found at i:827186 original size:29 final size:29
Alignment explanation
Indices: 827110--827191 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 29
827100 ACTTTATGGT
* * *
827110 TTTATGGTTT-GGGGTTTATGATTTAAGG
1 TTTATGGTTTAGGGTTTTAGGGTTTAAGG
* *
827138 TTTATGATTTATGGTTTTAGGGTTT-AGG
1 TTTATGGTTTAGGGTTTTAGGGTTTAAGG
827166 ATTTATGGTTTAGGGTTTTAGGGTTT
1 -TTTATGGTTTAGGGTTTTAGGGTTT
827192 TAGGGTTTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
28 12 0.27
29 33 0.73
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.52
Consensus pattern (29 bp):
TTTATGGTTTAGGGTTTTAGGGTTTAAGG
Found at i:827210 original size:8 final size:8
Alignment explanation
Indices: 827145--827210 Score: 84
Period size: 8 Copynumber: 8.6 Consensus size: 8
827135 AGGTTTATGA
*
827145 TTTATGGT
1 TTTAGGGT
827153 TTTAGGG-
1 TTTAGGGT
*
827160 TTTA-GGA
1 TTTAGGGT
*
827167 TTTATGG-
1 TTTAGGGT
827174 TTTAGGGT
1 TTTAGGGT
827182 TTTAGGGT
1 TTTAGGGT
827190 TTTAGGGT
1 TTTAGGGT
827198 TTTAGGGT
1 TTTAGGGT
827206 TTTAG
1 TTTAG
827211 TCTATGTTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
6 2 0.04
7 14 0.26
8 37 0.70
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.52
Consensus pattern (8 bp):
TTTAGGGT
Found at i:827210 original size:16 final size:15
Alignment explanation
Indices: 827145--827207 Score: 83
Period size: 15 Copynumber: 4.2 Consensus size: 15
827135 AGGTTTATGA
*
827145 TTTATGGTTTTAGGG
1 TTTAGGGTTTTAGGG
* *
827160 TTTA-GGATTTATGG
1 TTTAGGGTTTTAGGG
827174 TTTAGGGTTTTAGGG
1 TTTAGGGTTTTAGGG
827189 TTTTAGGGTTTTAGGG
1 -TTTAGGGTTTTAGGG
827205 TTT
1 TTT
827208 TAGTCTATGT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.29
15 15 0.36
16 15 0.36
ACGTcount: A:0.14, C:0.00, G:0.33, T:0.52
Consensus pattern (15 bp):
TTTAGGGTTTTAGGG
Found at i:830999 original size:41 final size:41
Alignment explanation
Indices: 830964--831079 Score: 153
Period size: 40 Copynumber: 2.9 Consensus size: 41
830954 AAACGTCGGT
* * * *
830964 AAATACTCATATTTTAATGGCGTTTTTATATAAACGCCGCG
1 AAATACTCGTACTTTAGTGGCGTTTTTATATAAACGCCGAG
* *
831005 AAAGACTCGTACTTTAGT-GCGTTTTTATATAAATGCCGAG
1 AAATACTCGTACTTTAGTGGCGTTTTTATATAAACGCCGAG
* *
831045 AAATACTCGTACTTTAGTGGCGTTTATATACAAAC
1 AAATACTCGTACTTTAGTGGCGTTTTTATATAAAC
831080 ACCACCAAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 37 0.58
41 27 0.42
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (41 bp):
AAATACTCGTACTTTAGTGGCGTTTTTATATAAACGCCGAG
Found at i:836357 original size:24 final size:23
Alignment explanation
Indices: 836319--836365 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
836309 CCTTAAATTT
*
836319 AACTACGTCAGTGGTGATGGAAA
1 AACTACGTCACTGGTGATGGAAA
836342 AACTACCGTCACTGGTGATGGAAA
1 AACTA-CGTCACTGGTGATGGAAA
836366 GACGCAGGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (23 bp):
AACTACGTCACTGGTGATGGAAA
Found at i:841895 original size:28 final size:28
Alignment explanation
Indices: 841828--841883 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
841818 AGCAGAGTGG
841828 CAGAAGCCTTTTACTGTATTTGGTTGGT
1 CAGAAGCCTTTTACTGTATTTGGTTGGT
841856 CAGAAGCCTTTTACTGTATTTGGTTGGT
1 CAGAAGCCTTTTACTGTATTTGGTTGGT
841884 TCTTAGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.18, C:0.14, G:0.25, T:0.43
Consensus pattern (28 bp):
CAGAAGCCTTTTACTGTATTTGGTTGGT
Found at i:847718 original size:16 final size:16
Alignment explanation
Indices: 847697--847731 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
847687 TATTTTCTGC
847697 TGATAAGTCATATATG
1 TGATAAGTCATATATG
847713 TGATAAGTCATATATG
1 TGATAAGTCATATATG
847729 TGA
1 TGA
847732 GATATGGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.37
Consensus pattern (16 bp):
TGATAAGTCATATATG
Found at i:852055 original size:30 final size:30
Alignment explanation
Indices: 852010--852084 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
852000 TCATTATGTA
* * *
852010 TGATATGACACATATTAAATCATTATTTTGAG
1 TGATAT-A-ACATATTAAATCACTACTATGAG
* *
852042 TGATCTAACATATTAAGTCACTACTATGAG
1 TGATATAACATATTAAATCACTACTATGAG
*
852072 TGATATAGCATAT
1 TGATATAACATAT
852085 GTCTAAAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 30 0.83
31 1 0.03
32 5 0.14
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.37
Consensus pattern (30 bp):
TGATATAACATATTAAATCACTACTATGAG
Found at i:853924 original size:21 final size:22
Alignment explanation
Indices: 853900--853952 Score: 54
Period size: 27 Copynumber: 2.2 Consensus size: 22
853890 TTTTATTGAG
853900 TTGTAA-TTTGAGTAGGATCTA
1 TTGTAATTTTGAGTAGGATCTA
853921 TTGTACCAATTGTTTGAGTAGGATCTA
1 TTGT---AA-T-TTTGAGTAGGATCTA
853948 TTGTA
1 TTGTA
853953 CCAATTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
21 4 0.15
24 3 0.12
27 19 0.73
ACGTcount: A:0.26, C:0.08, G:0.23, T:0.43
Consensus pattern (22 bp):
TTGTAATTTTGAGTAGGATCTA
Found at i:853937 original size:27 final size:27
Alignment explanation
Indices: 853906--853960 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
853896 TGAGTTGTAA
853906 TTTGAGTAGGATCTATTGTACCAATTG
1 TTTGAGTAGGATCTATTGTACCAATTG
853933 TTTGAGTAGGATCTATTGTACCAATTG
1 TTTGAGTAGGATCTATTGTACCAATTG
853960 T
1 T
853961 GTTTTGATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.11, G:0.22, T:0.42
Consensus pattern (27 bp):
TTTGAGTAGGATCTATTGTACCAATTG
Found at i:859635 original size:22 final size:22
Alignment explanation
Indices: 859608--859659 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
859598 TTTGGAAAAC
859608 CGCAACGACAACTGTAGACTAT
1 CGCAACGACAACTGTAGACTAT
*
859630 CGCAACAACAACTGTAGACTAT
1 CGCAACGACAACTGTAGACTAT
859652 CGCAACGA
1 CGCAACGA
859660 ATTTGGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.38, C:0.29, G:0.17, T:0.15
Consensus pattern (22 bp):
CGCAACGACAACTGTAGACTAT
Found at i:859785 original size:19 final size:19
Alignment explanation
Indices: 859761--859813 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
859751 TGCGATAGTG
859761 GAGATCGCAATGCGAATTA
1 GAGATCGCAATGCGAATTA
859780 GAGATCGCAATGCGAATTA
1 GAGATCGCAATGCGAATTA
*
859799 GAGATCGCATTGCGA
1 GAGATCGCAATGCGA
859814 TTTTGTTGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (19 bp):
GAGATCGCAATGCGAATTA
Found at i:871634 original size:30 final size:30
Alignment explanation
Indices: 871598--871681 Score: 132
Period size: 30 Copynumber: 2.8 Consensus size: 30
871588 GGGTTGGTGG
871598 AGCTGTGGGTGGTTGAGAGAGCGGAGGAAC
1 AGCTGTGGGTGGTTGAGAGAGCGGAGGAAC
*
871628 AGCTGTGGGTGGTTGAGAGAGCGGAGGAGC
1 AGCTGTGGGTGGTTGAGAGAGCGGAGGAAC
* * *
871658 AGCTGTAGGTGGTGGAGGGAGCGG
1 AGCTGTGGGTGGTTGAGAGAGCGG
871682 TGGAGGAGCC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.20, C:0.10, G:0.54, T:0.17
Consensus pattern (30 bp):
AGCTGTGGGTGGTTGAGAGAGCGGAGGAAC
Found at i:879462 original size:15 final size:15
Alignment explanation
Indices: 879444--879485 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
879434 TTTAATCAGT
879444 CTAATTTTTTTATTA
1 CTAATTTTTTTATTA
* *
879459 CTAATTTTTATGTTA
1 CTAATTTTTTTATTA
879474 -TGAATTTTTTTA
1 CT-AATTTTTTTA
879486 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 1 0.05
15 21 0.95
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (15 bp):
CTAATTTTTTTATTA
Found at i:880769 original size:424 final size:420
Alignment explanation
Indices: 879935--880778 Score: 1616
Period size: 424 Copynumber: 2.0 Consensus size: 420
879925 ACGTGATCAT
879935 TAAATAATTGATACAATAACATATTTAACCATCAATATTTATATTTTTAATTTAACCCATAATTA
1 TAAATAATTGATACAATAACATATTTAACCATCAATATTTATATTTTTAATTTAACCCATAATTA
880000 TAAAAATAGACTCCCAACATTTTCATATTTTTTTAAAAATTTGGTTCCTATTATAAGAAAAATAA
66 TAAAAATAGACTCCCAACATTTTCATATTTTTTTAAAAATTTGGTTCCTATTATAAGAAAAATAA
880065 CCATTAATGCCTTTACTTCTTTTCATTTTTATATTTTATTTCATTTTCCAAATCCATAAAATAAC
131 CCATTAATGCCTTTACTTCTTTTCATTTTTATATTTTATTTCATTTTCCAAATCCATAAAATAAC
880130 TCCAAACCAATTCTTAGCTAATATCAATTTGGTTCGTATTTATAAAAATACCCTAAATAGTTTCA
196 TCCAAACCAATTCTTAGCTAATATCAATTTGGTTCGTATTTATAAAAATACCCTAAATAGTTTCA
*
880195 TATTTATTTGGTATAACCACCGGTTTCGATCTATTGATCGACTAATCCAGATATGGTAAAAAAAC
261 TATTTATTTGGTATAACCACCGGTTTCGATCTATTGATCGACTAATCCAGATAGGGTAAAAAAAC
880260 ATGTAAAAAAGAACAAGATATAATTAAGAATGCGAAAAGGATGCATGCATATGATGTGTACACCC
326 ATGTAAAAAAGAACAAGATATAATTAAGAATGCGAAAAGGATGCATGCATATGATGTGTACACCC
880325 AAATTTTAGACAATTCAAAGAAGTCTTCTC
391 AAATTTTAGACAATTCAAAGAAGTCTTCTC
880355 TAAATAATTGATACAATAACATATTTAACCATCAATATTTATATATTTTATTAATTTAACCCATA
1 TAAATAATTGATACAATAACATATTTAACCATCAATA-TT-TATA-TTT-TTAATTTAACCCATA
880420 ATTATAAAAATAGACTCCCAACATTTTCATATTTTTTTAAAAATTTGGTTCCTATTATAAGAAAA
62 ATTATAAAAATAGACTCCCAACATTTTCATATTTTTTTAAAAATTTGGTTCCTATTATAAGAAAA
*
880485 ATAACCATTAATGCCTTTACTTCTTTTCATTTTTATCTTTTATTTCATTTTCCAAATCCATAAAA
127 ATAACCATTAATGCCTTTACTTCTTTTCATTTTTATATTTTATTTCATTTTCCAAATCCATAAAA
880550 TAACTCCAAACCAATTCTTAGCTAATATCAATTTGGTTCGTATTTATAAAAATACCCTAAATAGT
192 TAACTCCAAACCAATTCTTAGCTAATATCAATTTGGTTCGTATTTATAAAAATACCCTAAATAGT
* *
880615 TTCATATTTATTTGGTATAACCACCGGTTTTGATCTATTGATCGACTAATCTAGATAGGGTAAAA
257 TTCATATTTATTTGGTATAACCACCGGTTTCGATCTATTGATCGACTAATCCAGATAGGGTAAAA
880680 AAACATGTAAAAAAGAACAAGATATAATTAAGAATGCGAAAAGGATGCATGCATATGATGTGTAC
322 AAACATGTAAAAAAGAACAAGATATAATTAAGAATGCGAAAAGGATGCATGCATATGATGTGTAC
880745 ACCCAAATTTTAGACAATTCAAAGAAGTCTTCTC
387 ACCCAAATTTTAGACAATTCAAAGAAGTCTTCTC
880779 ATTTATGATG
Statistics
Matches: 416, Mismatches: 4, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
420 37 0.09
421 2 0.00
422 4 0.01
423 3 0.01
424 370 0.89
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (420 bp):
TAAATAATTGATACAATAACATATTTAACCATCAATATTTATATTTTTAATTTAACCCATAATTA
TAAAAATAGACTCCCAACATTTTCATATTTTTTTAAAAATTTGGTTCCTATTATAAGAAAAATAA
CCATTAATGCCTTTACTTCTTTTCATTTTTATATTTTATTTCATTTTCCAAATCCATAAAATAAC
TCCAAACCAATTCTTAGCTAATATCAATTTGGTTCGTATTTATAAAAATACCCTAAATAGTTTCA
TATTTATTTGGTATAACCACCGGTTTCGATCTATTGATCGACTAATCCAGATAGGGTAAAAAAAC
ATGTAAAAAAGAACAAGATATAATTAAGAATGCGAAAAGGATGCATGCATATGATGTGTACACCC
AAATTTTAGACAATTCAAAGAAGTCTTCTC
Found at i:883108 original size:2 final size:2
Alignment explanation
Indices: 883101--883125 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
883091 CCTTTCAGTA
883101 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
883126 ATGGTTGTAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:895597 original size:17 final size:17
Alignment explanation
Indices: 895565--895599 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
895555 TACAAACAAT
895565 ACCCACCAAAATACATA
1 ACCCACCAAAATACATA
895582 ACCCGACCAAAA-ACATA
1 ACCC-ACCAAAATACATA
895599 A
1 A
895600 AACACACACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.54, C:0.34, G:0.03, T:0.09
Consensus pattern (17 bp):
ACCCACCAAAATACATA
Found at i:910673 original size:188 final size:187
Alignment explanation
Indices: 910357--910728 Score: 566
Period size: 188 Copynumber: 2.0 Consensus size: 187
910347 ATTGTCGAGA
* **
910357 CATATCCTGTTATCAGAACTAATAGGAACACTGGAGAGGTTTACGCCAATCGAATTTGTTAGGGC
1 CATATCCTGTTATCAGAACTAATAGGAACACTGCAGAGGTTTACGCCAATCGAATTTGCCAGGGC
* **
910422 ATTTTTATCTGTCGAGTTTTTACTAGAGACAACTTAAGGCACTTCAGTAGACTCTGTCGGGCAGG
66 ATTTTTATCTATCGAGTCCTTACTAGAGACAACTTAAGGCACTTCAGTAGACTCTGTCGGGCAGG
910487 TTAATCATAGAGGAAATACCATTCGAAGAAATAAACTTAGATTTTCCTAGTGACTCC
131 TTAATCATAGAGGAAATACCATTCGAAGAAATAAACTTAGATTTTCCTAGTGACTCC
* * * * *
910544 CATATCCTGTTATCTGAACTAATATGATCACTGCAG-GGTTTACGCCAATCGGATTTGCCATGGC
1 CATATCCTGTTATCAGAACTAATAGGAACACTGCAGAGGTTTACGCCAATCGAATTTGCCAGGGC
* * *
910608 ATTTTTAATCTATCGAGTCCCTTACTAGAGATAGCTTAGGGCACTTCAGTAGACTCTGTCGGGCA
66 ATTTTT-ATCTATCGAGT-CCTTACTAGAGACAACTTAAGGCACTTCAGTAGACTCTGTCGGGCA
* * *
910673 GGTTAATCTTAGAGGAAATACCATTCGGAGAAATAGACTTAGATTTTCCTAGTGAC
129 GGTTAATCATAGAGGAAATACCATTCGAAGAAATAAACTTAGATTTTCCTAGTGAC
910729 ACCTATCACT
Statistics
Matches: 166, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
186 30 0.18
187 42 0.25
188 94 0.57
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (187 bp):
CATATCCTGTTATCAGAACTAATAGGAACACTGCAGAGGTTTACGCCAATCGAATTTGCCAGGGC
ATTTTTATCTATCGAGTCCTTACTAGAGACAACTTAAGGCACTTCAGTAGACTCTGTCGGGCAGG
TTAATCATAGAGGAAATACCATTCGAAGAAATAAACTTAGATTTTCCTAGTGACTCC
Found at i:913862 original size:2 final size:2
Alignment explanation
Indices: 913855--913887 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
913845 TTGAGAAACA
913855 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
913888 GTTTTCATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.