Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold10
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: 3842500
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.31
Warning! 348197 characters in sequence are not A, C, G, or T
File 6 of 25
Found at i:786279 original size:28 final size:28
Alignment explanation
Indices: 786248--786443 Score: 141
Period size: 28 Copynumber: 7.1 Consensus size: 28
786238 TTTATGTATG
786248 AAAATTTAATTAAAAATTTTATATGTAA
1 AAAATTTAATTAAAAATTTTATATGTAA
* *
786276 AAAATTTAATTGAAGAA-TCTATATGTAA
1 AAAATTTAATT-AAAAATTTTATATGTAA
* * * *
786304 AAAGTTTAGTTGAAAATTCTATATGTAA
1 AAAATTTAATTAAAAATTTTATATGTAA
*** * *
786332 AGGTTTTAATTAAAAA-TTCACTA-GGAA
1 AAAATTTAATTAAAAATTTTA-TATGTAA
* * *
786359 AAAAGTTGA-TAAAAATTTTATGTGTAA
1 AAAATTTAATTAAAAATTTTATATGTAA
** * * *
786386 AAGTTTTGATTGAGAAA-TCTATATGTAA
1 AAAATTTAATT-AAAAATTTTATATGTAA
* *
786414 AAAGTTTAATTAAAAATCTTATATGTAA
1 AAAATTTAATTAAAAATTTTATATGTAA
786442 AA
1 AA
786444 GATTAAGGTT
Statistics
Matches: 126, Mismatches: 34, Indels: 16
0.72 0.19 0.09
Matches are distributed among these distances:
26 7 0.06
27 28 0.22
28 83 0.66
29 8 0.06
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (28 bp):
AAAATTTAATTAAAAATTTTATATGTAA
Found at i:786320 original size:56 final size:56
Alignment explanation
Indices: 786248--786444 Score: 199
Period size: 56 Copynumber: 3.6 Consensus size: 56
786238 TTTATGTATG
* **
786248 AAAA-TTTAATTAAAAATTTTATATGTAAAAAATTTAATTGAAGAATCTATATGTA
1 AAAAGTTTAGTTAAAAATTTTATATGTAAAAGTTTTAATTGAAGAATCTATATGTA
* * * * * *
786303 AAAAGTTTAGTTGAAAATTCTATATGTAAAGGTTTTAATT-AAAAAT-TCACTAGGAA
1 AAAAGTTTAGTTAAAAATTTTATATGTAAAAGTTTTAATTGAAGAATCT-A-TATGTA
* * *
786359 AAAAG-TT-GATAAAAATTTTATGTGTAAAAGTTTTGATTG-AGAAATCTATATGTA
1 AAAAGTTTAGTTAAAAATTTTATATGTAAAAGTTTTAATTGAAG-AATCTATATGTA
* *
786413 AAAAGTTTAATTAAAAATCTTATATGTAAAAG
1 AAAAGTTTAGTTAAAAATTTTATATGTAAAAG
786445 ATTAAGGTTT
Statistics
Matches: 112, Mismatches: 22, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
54 36 0.32
55 18 0.16
56 58 0.52
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (56 bp):
AAAAGTTTAGTTAAAAATTTTATATGTAAAAGTTTTAATTGAAGAATCTATATGTA
Found at i:787091 original size:22 final size:22
Alignment explanation
Indices: 787060--787109 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
787050 ATTCCTTCAA
*
787060 AAAAGATAATATATATATCTAGT
1 AAAA-ATAATATATATATCTAAT
* *
787083 AAAAATAATATGTATATTTAAT
1 AAAAATAATATATATATCTAAT
787105 AAAAA
1 AAAAA
787110 AAACATGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (22 bp):
AAAAATAATATATATATCTAAT
Found at i:787098 original size:24 final size:23
Alignment explanation
Indices: 787071--787123 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
787061 AAAGATAATA
* * *
787071 TATATATCTAGTAAAAATAATATG
1 TATATAT-TAATAAAAAAAACATG
787095 TATAT-TTAATAAAAAAAACATG
1 TATATATTAATAAAAAAAACATG
787117 TATATAT
1 TATATAT
787124 AGCATAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 18 0.72
23 2 0.08
24 5 0.20
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.38
Consensus pattern (23 bp):
TATATATTAATAAAAAAAACATG
Found at i:787589 original size:43 final size:44
Alignment explanation
Indices: 787536--787647 Score: 109
Period size: 50 Copynumber: 2.4 Consensus size: 44
787526 ATATTTTTTT
* ** *
787536 AAATTTTTTATTATTTTTAAATAGTAATTTGATATTTAATATAA
1 AAATATTTTATTATTTTTAAATAGTAATTCAAGATTTAATATAA
787580 AATATTTTATTTTTATTATTTTTTAAATAGTAATTCAAGATTTAATAT-A
1 AA-A---TA-TTTTATTA-TTTTTAAATAGTAATTCAAGATTTAATATAA
*
787629 AAATATGTTTTTTATTTTT
1 AAATAT-TTTATTATTTTT
787648 TATTATTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 14
0.75 0.07 0.19
Matches are distributed among these distances:
44 8 0.14
45 9 0.16
48 2 0.04
49 11 0.20
50 26 0.46
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (44 bp):
AAATATTTTATTATTTTTAAATAGTAATTCAAGATTTAATATAA
Found at i:787701 original size:52 final size:52
Alignment explanation
Indices: 787531--788258 Score: 769
Period size: 52 Copynumber: 14.1 Consensus size: 52
787521 TTGAAATATT
* *
787531 TTTTTAAATTTTTTATTATTTTTAAATAGTAATTTGATATTTAATATAAAATA
1 TTTTT-AATTTTTTATTATTTTTAAATAGTAATTTAAGATTTAATATAAAATA
*
787584 -TTTT-A-TTTTTATTATTTTTTAAATAGTAATTCAAGATTTAATATAAAATA
1 TTTTTAATTTTTTATTA-TTTTTAAATAGTAATTTAAGATTTAATATAAAATA
* * **
787634 TGTTTTTTATTTTTTATTATTTTTAAATAGTACTTTGGGATTTAATATAAAATA
1 --TTTTTAATTTTTTATTATTTTTAAATAGTAATTTAAGATTTAATATAAAATA
* * * *
787688 TTTTTAACTTTTTATTACTTTTAAATACTAA-TTCAGAATTTAATATAAAATA
1 TTTTTAATTTTTTATTATTTTTAAATAGTAATTTAAG-ATTTAATATAAAATA
* * * ** *
787740 TTTTT-AGTTTTTATTATTTTCAAAAAGTAATTTGGGA-TTAGTAT---AT-
1 TTTTTAATTTTTTATTATTTTTAAATAGTAATTTAAGATTTAATATAAAATA
*
787786 TTTTTAA--TTTTGTTATTTTTAAATAGTAATTTAAGATTTAATATAAAATA
1 TTTTTAATTTTTTATTATTTTTAAATAGTAATTTAAGATTTAATATAAAATA
* * *
787836 TATTTTAAATTTTTTATTATTTTTAAGTAGTAATTCAGGATTTAATATAAAATA
1 T-TTTT-AATTTTTTATTATTTTTAAATAGTAATTTAAGATTTAATATAAAATA
* * *
787890 TTTTTTAAAATTTTTTCTTATTTTTAAATAGTTATTTGAGATTTAATATAAAATA
1 -TTTTT--AATTTTTTATTATTTTTAAATAGTAATTTAAGATTTAATATAAAATA
* *
787945 TTTTTAATTTATTATTATTTTTAAATAGTAATTTGAGATTTAATATAAAATA
1 TTTTTAATTTTTTATTATTTTTAAATAGTAATTTAAGATTTAATATAAAATA
* * *
787997 TTTATTTAA--TTTTA-TATTTTCATATAGTAATTT-AGGTTTAATATAAAA-A
1 -TT-TTTAATTTTTTATTATTTTTAAATAGTAATTTAAGATTTAATATAAAATA
* ** * *
788046 TATTTT-ATTTTTTATTATGTTTAAATAAAAATTCAAGATTTAATAAAAATATA
1 T-TTTTAATTTTTTATTATTTTTAAATAGTAATTTAAGATTTAATATAAA-ATA
* * *
788099 TTTTTAATTTTTTATTATTTTTAAATAGTAATTTGAGATTTAATTTGAAATA
1 TTTTTAATTTTTTATTATTTTTAAATAGTAATTTAAGATTTAATATAAAATA
* * * *
788151 TTTTTAAATTTTTATTATTTTTAAACAATAATTCAAGATTTAATATAAAATA
1 TTTTTAATTTTTTATTATTTTTAAATAGTAATTTAAGATTTAATATAAAATA
** *
788203 TTTATGTAATTTTTTA-T-TTTTTAAATAGTAATTTGTG-TTTAACATAAAATA
1 TTT-T-TAATTTTTTATTATTTTTAAATAGTAATTTAAGATTTAATATAAAATA
788254 TTTTT
1 TTTTT
788259 TAATAGGGAA
Statistics
Matches: 568, Mismatches: 75, Indels: 68
0.80 0.11 0.10
Matches are distributed among these distances:
45 24 0.04
46 11 0.02
47 4 0.01
48 4 0.01
49 19 0.03
50 68 0.12
51 73 0.13
52 174 0.31
53 45 0.08
54 94 0.17
55 52 0.09
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (52 bp):
TTTTTAATTTTTTATTATTTTTAAATAGTAATTTAAGATTTAATATAAAATA
Found at i:787946 original size:257 final size:252
Alignment explanation
Indices: 787541--788258 Score: 841
Period size: 257 Copynumber: 2.8 Consensus size: 252
787531 TTTTTAAATT
* *
787541 TTTTATTATTTTTAAATAGTAATTTGATATTTAATAT-AAA-ATATTTT-A-TTTTTATTATTTT
1 TTTTATTATTTTTAAATAGTAATTTAAGATTTAATATAAAATATATTTTAATTTTTTATTA-TTT
* *
787602 TTAAATAGTAATTCAAGATTTAATATAAAATATGTTTTT-TATTTTTTATTATTTTTAAATAG-T
65 TTAAATAGTAATTCAGGATTTAATATAAAATAT-TTTTTAAATTTTTTATTATTTTTAAATAGTT
* * *
787665 ACTTTGGGATTTAATATAAAATATTTTTAACTTTTTATTACTTTTAAATACTAATTCAGAATTTA
129 A-TTTGAGATTTAATATAAAATATTTTTAA-TTTTTATTA-TTTTAAATAGTAATT-TGAATTTA
* * * *
787730 ATATAAAATATTTTTAGTTTTTATTATTTTCAAAAAGTAATTTGGGATTAGTAT-ATTTTTTA-A
190 ATATAAAATATTTTTA-ATTTTA-TATTTTCAAAAAGTAATTTAGGATTAATATAATATTTTATA
*
787793 TTTTGTTATTTTTAAATAGTAATTTAAGATTTAATATAAAATATATTTTAAATTTTTTATTATTT
1 TTTTATTATTTTTAAATAGTAATTTAAGATTTAATATAAAATATATTTT-AATTTTTTATTATTT
* *
787858 TTAAGTAGTAATTCAGGATTTAATATAAAATATTTTTTAAAATTTTTTCTTATTTTTAAATAGTT
65 TTAAATAGTAATTCAGGATTTAATATAAAATATTTTTT-AAATTTTTTATTATTTTTAAATAGTT
787923 ATTTGAGATTTAATATAAAATATTTTTAATTTATTATTATTTTTAAATAGTAATTTGAGATTTAA
129 ATTTGAGATTTAATATAAAATATTTTTAATTT-TTATTA-TTTTAAATAGTAATTTGA-ATTTAA
* * *
787988 TATAAAATATTTATTTAATTTTATATTTTCATATAGTAATTTAGGTTTAATATAAAAATATTTTA
191 TATAAAATA-TT-TTTAATTTTATATTTTCAAAAAGTAATTTAGGATTAATAT---AATATTTTA
*
788053 TT
251 TA
* ** *
788055 TTTTATTATGTTTAAATAAAAATTCAAGATTTAATA-AAAATATATTTTTAATTTTTTATTATTT
1 TTTTATTATTTTTAAATAGTAATTTAAGATTTAATATAAAATATA-TTTTAATTTTTTATTATTT
* * * * * *
788119 TTAAATAGTAATT-TGAGATTTAATTTGAAATA-TTTTTAAA-TTTTTATTATTTTTAAACAATA
65 TTAAATAGTAATTCAG-GATTTAATATAAAATATTTTTTAAATTTTTTATTATTTTTAAATAGTT
** **
788181 ATTCAAGATTTAATATAAAATATTTATGTAATTTTTTATT-TTTTAAATAGTAATTTGTGTTTAA
129 ATTTGAGATTTAATATAAAATATTT-T-TAA-TTTTTATTATTTTAAATAGTAATTTGAATTTAA
*
788245 CATAAAATATTTTT
191 TATAAAATATTTTT
788259 TAATAGGGAA
Statistics
Matches: 407, Mismatches: 37, Indels: 41
0.84 0.08 0.08
Matches are distributed among these distances:
252 34 0.08
253 3 0.01
254 7 0.02
255 8 0.02
256 42 0.10
257 130 0.32
258 67 0.16
259 8 0.02
260 14 0.03
261 59 0.14
262 35 0.09
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (252 bp):
TTTTATTATTTTTAAATAGTAATTTAAGATTTAATATAAAATATATTTTAATTTTTTATTATTTT
TAAATAGTAATTCAGGATTTAATATAAAATATTTTTTAAATTTTTTATTATTTTTAAATAGTTAT
TTGAGATTTAATATAAAATATTTTTAATTTTTATTATTTTAAATAGTAATTTGAATTTAATATAA
AATATTTTTAATTTTATATTTTCAAAAAGTAATTTAGGATTAATATAATATTTTATA
Found at i:788119 original size:206 final size:207
Alignment explanation
Indices: 787479--788260 Score: 845
Period size: 206 Copynumber: 3.8 Consensus size: 207
787469 TATATATAAA
* * *
787479 ATATTTTTAATTTTTTATTATTTTTAAATTG-TACTTT-AGACCTTGAA-AT---ATTTTTTTAA
1 ATATTTTTAATTTTTTATTATTTTTAAATAGTTA-TTTGAGA--TTTAATATAAAATATTTTTAA
*
787538 ATTTTTTATTATTTTTAAATAGTAATTTGATATTTAATATAAAATATTTTATTT--TTATTAT-T
63 A-TTTTTATTATTTTTAAATAGTAATTTGAGATTTAATATAAAATA-TTTATTTAATT-TTATAT
* *
787600 TTTTAAATAGTAATTCAAGATTTAATATAAAATATGTTTTTTATTTTTTATTATTTTTAAATAGT
125 TTTTAAATAGTAATT-TAGATTTAATATAAAATA--TATTTTATTTTTTATTATTTTTAAATAGT
* ** *
787665 ACTTTGGGATTTAATATAAA-
187 AATTCAGGATTTAATAAAAAT
* * * * * *
787685 ATATTTTTAACTTTTTATTACTTTTAAATA-CTAATTCAGAATTTAATATAAAATATTTTT-AGT
1 ATATTTTTAATTTTTTATTATTTTTAAATAGTTATTTGAG-ATTTAATATAAAATATTTTTAAAT
* * * * *
787748 TTTTATTATTTTCAAAAAGTAATTTGGGA-TT-A-GT---ATATTT-TTTAATTTTGTTATTTTT
65 TTTTATTATTTTTAAATAGTAATTTGAGATTTAATATAAAATATTTATTTAATTTT-ATATTTTT
*
787806 AAATAGTAATTTAAGATTTAATATAAAATATATTTTAAATTTTTTATTATTTTTAAGTAGTAATT
129 AAATAGTAATTT-AGATTTAATATAAAATATATTTT--ATTTTTTATTATTTTTAAATAGTAATT
787871 CAGGATTTAATATAAAAT
191 CAGGATTTAATA-AAAAT
*
787889 AT-TTTTTAAAATTTTTTCTTATTTTTAAATAGTTATTTGAGATTTAATATAAAATATTTTT-AA
1 ATATTTTT--AATTTTTTATTATTTTTAAATAGTTATTTGAGATTTAATATAAAATATTTTTAAA
787952 TTTATTATTATTTTTAAATAGTAATTTGAGATTTAATATAAAATATTTATTTAATTTTATATTTT
64 TTT-TTATTATTTTTAAATAGTAATTTGAGATTTAATATAAAATATTTATTTAATTTTATATTTT
* * * * **
788017 CATATAGTAATTTAGGTTTAATATAAAA-ATATTTTATTTTTTATTATGTTTAAATAAAAATTCA
128 TAAATAGTAATTTAGATTTAATATAAAATATATTTTATTTTTTATTATTTTTAAATAGTAATTCA
*
788081 AGATTTAATAAAAAT
193 GGATTTAATAAAAAT
* * *
788096 ATATTTTTAATTTTTTATTATTTTTAAATAGTAATTTGAGATTTAATTTGAAATATTTTTAAATT
1 ATATTTTTAATTTTTTATTATTTTTAAATAGTTATTTGAGATTTAATATAAAATATTTTTAAATT
* * ** * *
788161 TTTATTATTTTTAAACAATAATTCAAGATTTAATATAAAATATTTATGTAATTTTTTATTTTTTA
66 TTTATTATTTTTAAATAGTAATTTGAGATTTAATATAAAATATTTATTTAATTTTATA-TTTTTA
* * *
788226 AATAGTAATTT-GTGTTTAACATAAAATATTTTTTA
130 AATAGTAATTTAG-ATTTAATATAAAATATATTTTA
788261 ATAGGGAATT
Statistics
Matches: 490, Mismatches: 54, Indels: 62
0.81 0.09 0.10
Matches are distributed among these distances:
199 3 0.01
200 10 0.02
201 6 0.01
202 68 0.14
203 8 0.02
204 3 0.01
205 50 0.10
206 165 0.34
207 68 0.14
208 48 0.10
209 8 0.02
210 7 0.01
211 14 0.03
212 23 0.05
213 9 0.02
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (207 bp):
ATATTTTTAATTTTTTATTATTTTTAAATAGTTATTTGAGATTTAATATAAAATATTTTTAAATT
TTTATTATTTTTAAATAGTAATTTGAGATTTAATATAAAATATTTATTTAATTTTATATTTTTAA
ATAGTAATTTAGATTTAATATAAAATATATTTTATTTTTTATTATTTTTAAATAGTAATTCAGGA
TTTAATAAAAAT
Found at i:788353 original size:42 final size:41
Alignment explanation
Indices: 788297--788392 Score: 147
Period size: 42 Copynumber: 2.3 Consensus size: 41
788287 TCAATTCTGG
* *
788297 CCCGAACCCAATCCAACCTGAGTTGACTAAAAAAGTCAACAA
1 CCCGAAACCGATCCAACCTGAGTTGACT-AAAAAGTCAACAA
788339 CCCGAAACCGATCCAACCTGAGTTGACTAAAAAGTCAACAA
1 CCCGAAACCGATCCAACCTGAGTTGACTAAAAAGTCAACAA
* *
788380 CCCAAAACTGATC
1 CCCGAAACCGATC
788393 GATCAGAACC
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 24 0.48
42 26 0.52
ACGTcount: A:0.42, C:0.31, G:0.12, T:0.15
Consensus pattern (41 bp):
CCCGAAACCGATCCAACCTGAGTTGACTAAAAAGTCAACAA
Found at i:788437 original size:15 final size:16
Alignment explanation
Indices: 788413--788448 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
788403 TAAAAATAAC
*
788413 CCGAACCCG-AATGAT
1 CCGAAACCGAAATGAT
788428 CCGAAACCGAAATGAT
1 CCGAAACCGAAATGAT
788444 CCGAA
1 CCGAA
788449 CAATTAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.39, C:0.31, G:0.19, T:0.11
Consensus pattern (16 bp):
CCGAAACCGAAATGAT
Found at i:790856 original size:29 final size:29
Alignment explanation
Indices: 790807--790909 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
790797 ATGAAATTGC
* * *
790807 TATTAAATTTTATCATCATATTTTAATTT
1 TATTGAATTTTATTATTATATTTTAATTT
* * *
790836 TGTTGAGTTTTATTATTATATTTTCATTTT
1 TATTGAATTTTATTATTATATTTT-AATTT
* *
790866 TATTGAATTTTATTATTACATTTTTATTT
1 TATTGAATTTTATTATTATATTTTAATTT
790895 TATTGAATTTT-TTAT
1 TATTGAATTTTATTAT
790910 ATAATATAAC
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
28 4 0.06
29 33 0.53
30 25 0.40
ACGTcount: A:0.27, C:0.04, G:0.05, T:0.64
Consensus pattern (29 bp):
TATTGAATTTTATTATTATATTTTAATTT
Found at i:791597 original size:23 final size:23
Alignment explanation
Indices: 791571--791660 Score: 68
Period size: 23 Copynumber: 4.2 Consensus size: 23
791561 GGTTTGATAT
791571 AAAATTAAAAAAAATCAATCAAA
1 AAAATTAAAAAAAATCAATCAAA
791594 AAAATT----AAAAT-AATC-AA
1 AAAATTAAAAAAAATCAATCAAA
* *
791611 AAAA-TAAAAAAATTCAAGTTAAA
1 AAAATTAAAAAAAATCAA-TCAAA
* * * *
791634 AAAATCAAAAAAATTAAAGCAAA
1 AAAATTAAAAAAAATCAATCAAA
791657 AAAA
1 AAAA
791661 AAAAATGAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
16 1 0.02
17 6 0.11
18 4 0.08
19 5 0.09
20 4 0.08
21 2 0.04
22 1 0.02
23 19 0.36
24 11 0.21
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (23 bp):
AAAATTAAAAAAAATCAATCAAA
Found at i:791621 original size:18 final size:18
Alignment explanation
Indices: 791577--791621 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
791567 ATATAAAATT
791577 AAAAAAAATCAATCAAAA
1 AAAAAAAATCAATCAAAA
*
791595 AAATTAAAAT-AATCAAAA
1 AAA-AAAAATCAATCAAAA
791613 AATAAAAAA
1 AA-AAAAAA
791622 ATTCAAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.16
Consensus pattern (18 bp):
AAAAAAAATCAATCAAAA
Found at i:791627 original size:17 final size:17
Alignment explanation
Indices: 791587--791651 Score: 57
Period size: 18 Copynumber: 3.9 Consensus size: 17
791577 AAAAAAAATC
*
791587 AATCAAAAAAATTAAAAT
1 AATC-AAAAAATTAAAAA
791605 AATCAAAAAA-TAAAAA
1 AATCAAAAAATTAAAAA
*
791621 AATTC---AAGTTAAAAA
1 AA-TCAAAAAATTAAAAA
791636 AATCAAAAAAATTAAA
1 AATC-AAAAAATTAAA
791652 GCAAAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
14 4 0.11
15 8 0.21
16 7 0.18
17 8 0.21
18 11 0.29
ACGTcount: A:0.72, C:0.06, G:0.02, T:0.20
Consensus pattern (17 bp):
AATCAAAAAATTAAAAA
Found at i:791636 original size:24 final size:22
Alignment explanation
Indices: 791609--791665 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
791599 TAAAATAATC
* *
791609 AAAAAATAAAAAAATTCAAGTTA
1 AAAAAATAAAAAAATTAAAG-CA
791632 AAAAAATCAAAAAAATTAAAGCA
1 AAAAAAT-AAAAAAATTAAAGCA
791655 AAAAAA-AAAAA
1 AAAAAATAAAAA
791666 TGAAATGGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 5 0.16
23 14 0.45
24 12 0.39
ACGTcount: A:0.77, C:0.05, G:0.04, T:0.14
Consensus pattern (22 bp):
AAAAAATAAAAAAATTAAAGCA
Found at i:791660 original size:40 final size:37
Alignment explanation
Indices: 791577--791663 Score: 93
Period size: 40 Copynumber: 2.2 Consensus size: 37
791567 ATATAAAATT
* *
791577 AAAAAAAATCAATCAAAAAAATTAAAATAATCAAAAA
1 AAAAAAAATCAATCAAAAAAATCAAAAAAATCAAAAA
* *
791614 ATAAAAAAATTCAAGTTAAAAAAATCAAAAAAATTAAAGCAA
1 A-AAAAAAA-TCAA-TCAAAAAAATCAAAAAAATCAAA--AA
791656 AAAAAAAA
1 AAAAAAAA
791664 AATGAAATGG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
37 1 0.02
38 7 0.17
39 4 0.10
40 19 0.46
41 7 0.17
42 3 0.07
ACGTcount: A:0.75, C:0.07, G:0.02, T:0.16
Consensus pattern (37 bp):
AAAAAAAATCAATCAAAAAAATCAAAAAAATCAAAAA
Found at i:797553 original size:2 final size:2
Alignment explanation
Indices: 797546--797580 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
797536 TAATAACTTA
797546 AT 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 AT A
797581 CACTCTATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:799886 original size:17 final size:17
Alignment explanation
Indices: 799864--799924 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
799854 ATATAAAATC
799864 AATAAAAAATATTTAAA
1 AATAAAAAATATTTAAA
* *
799881 AATAAAATATGGTTATAAA
1 AATAAAAAAT-ATT-TAAA
*
799900 AAT--AAATTATTTAAA
1 AATAAAAAATATTTAAA
*
799915 AGTAAAAAAT
1 AATAAAAAAT
799925 TAATATAATA
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
15 6 0.18
16 2 0.06
17 16 0.48
18 2 0.06
19 7 0.21
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (17 bp):
AATAAAAAATATTTAAA
Found at i:799889 original size:15 final size:15
Alignment explanation
Indices: 799869--799921 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
799859 AAATCAATAA
799869 AAAATATTTAAAAAT
1 AAAATATTTAAAAAT
799884 AAAATATGGTTATAAAAAT
1 AAAATA---TT-TAAAAAT
* *
799903 AAATTATTTAAAAGT
1 AAAATATTTAAAAAT
799918 AAAA
1 AAAA
799922 AATTAATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 15 0.48
16 2 0.06
18 2 0.06
19 12 0.39
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
AAAATATTTAAAAAT
Found at i:800830 original size:2 final size:2
Alignment explanation
Indices: 800825--800868 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
800815 AATAAAACAT
800825 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
800867 TA
1 TA
800869 CACACACACA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:801220 original size:27 final size:26
Alignment explanation
Indices: 801184--801254 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 26
801174 TTTTAATATT
* *
801184 TTAAAAATAATTTAATATTAAATAATA
1 TTAAATATAATTTAATATT-AATAAAA
801211 TTAAATATAATTT-ATAATTAATAAAA
1 TTAAATATAATTTAAT-ATTAATAAAA
* *
801237 TATATATTTAATTTAATA
1 T-TAAATATAATTTAATA
801255 ATATAATCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
26 9 0.24
27 26 0.70
28 2 0.05
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
TTAAATATAATTTAATATTAATAAAA
Found at i:801233 original size:16 final size:16
Alignment explanation
Indices: 801214--801284 Score: 58
Period size: 16 Copynumber: 4.5 Consensus size: 16
801204 AATAATATTA
*
801214 AATATAATTTATAATT
1 AATATAATATATAATT
* *
801230 AATAAAATATATATTT
1 AATATAATATATAATT
*
801246 AATTTAATAATATAATCT
1 AATATAAT-ATATAAT-T
*
801264 --T-TAATATAAAATT
1 AATATAATATATAATT
801277 AATATAAT
1 AATATAAT
801285 CAAAGTTCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
13 1 0.02
14 6 0.14
15 5 0.12
16 24 0.56
17 6 0.14
18 1 0.02
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (16 bp):
AATATAATATATAATT
Found at i:801238 original size:21 final size:21
Alignment explanation
Indices: 801213--801255 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
801203 AAATAATATT
801213 AAATATA-ATTTATAATTAATA
1 AAATATATATTTA-AATTAATA
*
801234 AAATATATATTTAATTTAATA
1 AAATATATATTTAAATTAATA
801255 A
1 A
801256 TATAATCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATATATATTTAAATTAATA
Found at i:801248 original size:20 final size:19
Alignment explanation
Indices: 801212--801281 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 19
801202 TAAATAATAT
801212 TAAATATAAT-TTATAATTAA
1 TAAA-ATAATATT-TAATTAA
801232 TAAAATATATATTTAATTTAA
1 TAAAATA-ATATTTAA-TTAA
* *
801253 TAATATAATCTTTAA-T-A
1 TAAAATAATATTTAATTAA
801270 TAAAATTAATAT
1 TAAAA-TAATAT
801282 AATCAAAGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
17 5 0.12
18 6 0.14
19 3 0.07
20 16 0.38
21 12 0.29
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (19 bp):
TAAAATAATATTTAATTAA
Found at i:801564 original size:21 final size:21
Alignment explanation
Indices: 801511--801564 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
801501 ATGCAAATAC
** *
801511 ATTATTTAAAATTAAATTTAA
1 ATTATTTAATTTTAAATTAAA
*
801532 ATCATGTT-ATTTTAAATTAAA
1 ATTAT-TTAATTTTAAATTAAA
801553 ATTATTTAATTT
1 ATTATTTAATTT
801565 ATTTTTATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
20 2 0.08
21 22 0.85
22 2 0.08
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
ATTATTTAATTTTAAATTAAA
Found at i:801622 original size:16 final size:17
Alignment explanation
Indices: 801596--801647 Score: 72
Period size: 16 Copynumber: 3.2 Consensus size: 17
801586 TCGATCTTGA
*
801596 TTATGATTATTTTAAAT
1 TTATAATTATTTTAAAT
*
801613 TTAT-ATTATTTAAAAT
1 TTATAATTATTTTAAAT
801629 TT-TAATTATTTTAAAT
1 TTATAATTATTTTAAAT
801645 TTA
1 TTA
801648 AATCATTAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 1 0.03
16 26 0.84
17 4 0.13
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
TTATAATTATTTTAAAT
Found at i:804711 original size:13 final size:13
Alignment explanation
Indices: 804693--804718 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
804683 CATTTTTCTG
804693 TGTATCGATACAT
1 TGTATCGATACAT
804706 TGTATCGATACAT
1 TGTATCGATACAT
804719 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:804715 original size:33 final size:33
Alignment explanation
Indices: 804673--804739 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
804663 GCCAAGGAAA
***
804673 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
804706 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
804739 T
1 T
804740 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:807190 original size:52 final size:51
Alignment explanation
Indices: 807071--807203 Score: 149
Period size: 52 Copynumber: 2.6 Consensus size: 51
807061 TTGAGTTTAT
* * * * *
807071 CAATTCTCCACAATCGGGGATATTTCAACTACGATTTTATTTTCAAAACGC
1 CAATTTTCCACAATCGGGGATACTCCAACTACGATTTTATTTCCAAAACAC
** * *
807122 CAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATAC
1 CAATTTTCC-ACAATCGGGGATACTCCAACTACGATTTTATTTCC-AAAACAC
* *
807175 CAATTTTTCACAATCGAGGATACTCCAAC
1 CAATTTTCCACAATCGGGGATACTCCAAC
807204 CTCGTTATTT
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
51 8 0.12
52 46 0.69
53 13 0.19
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.33
Consensus pattern (51 bp):
CAATTTTCCACAATCGGGGATACTCCAACTACGATTTTATTTCCAAAACAC
Found at i:807223 original size:28 final size:28
Alignment explanation
Indices: 807187--807263 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
807177 ATTTTTCACA
* * *
807187 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
807215 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
807243 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
807264 GCTTTATTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:807833 original size:33 final size:33
Alignment explanation
Indices: 807796--807862 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
807786 TTCAATGATT
807796 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
807829 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
807862 T
1 T
807863 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:807834 original size:13 final size:13
Alignment explanation
Indices: 807816--807840 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
807806 CATAAAATGT
807816 TGTATCGATACAA
1 TGTATCGATACAA
807829 TGTATCGATACA
1 TGTATCGATACA
807841 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:807924 original size:13 final size:13
Alignment explanation
Indices: 807906--807930 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
807896 ATTACTCACA
807906 TGTATCGATACAT
1 TGTATCGATACAT
807919 TGTATCGATACA
1 TGTATCGATACA
807931 CTGATTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:807995 original size:52 final size:52
Alignment explanation
Indices: 807939--808059 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
807929 CACTGATTTT
*
807939 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
807991 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
808043 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
808060 TAACTTTTCA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:815301 original size:15 final size:15
Alignment explanation
Indices: 815281--815314 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
815271 CCAAACACAA
*
815281 AAAAAAAGAAAAAAG
1 AAAAAAACAAAAAAG
*
815296 AAAAAAACAAAACAG
1 AAAAAAACAAAAAAG
815311 AAAA
1 AAAA
815315 TCTCGGTGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.85, C:0.06, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAACAAAAAAG
Found at i:816386 original size:31 final size:30
Alignment explanation
Indices: 816348--816497 Score: 149
Period size: 31 Copynumber: 4.9 Consensus size: 30
816338 AAAAAAAAAA
*
816348 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGC-ATCTTTGCTC
* *
816379 AAAGTCCACGACTCAGTGGCATCTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATC-TTTGC-TC
816411 AAAGTCCACGACTCAGTGGCAT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCTTTG-CTC
* * * *
816441 AAGGTCCACGACTCAATGGCATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTGC-TC
* * * *
816472 AAAGCCCACAACTCCGTGGCACCTTT
1 AAAGTCCACGACTCAGTGGCATCTTT
816498 TCCTTTAAAG
Statistics
Matches: 99, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
30 28 0.28
31 48 0.48
32 23 0.23
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATCTTTGCTC
Found at i:816420 original size:32 final size:32
Alignment explanation
Indices: 816348--816564 Score: 192
Period size: 32 Copynumber: 6.8 Consensus size: 32
816338 AAAAAAAAAA
* *
816348 AAAGTCCACGACTCAGTGGCAATC-TCTGC-TC
1 AAAGTCCACGACTCAGTGGC-ATCTTTTTCTTC
*
816379 AAAGTCCACGACTCAGTGGCATCTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATCTTTTTCTTC
*
816411 AAAGTCCACGACTCAGTGGCAT-TTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATCTTTTTCTTC
* *
816441 AAGGTCCACGACTCAATGGCAT-TTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTTTCTTC
* * * * * *
816472 AAAGCCCACAACTCCGTGGCACCTTTTCCTTT
1 AAAGTCCACGACTCAGTGGCATCTTTTTCTTC
* * * *
816504 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
1 AAAGTCCACGACTCAGTGGCA-TCTTTTT--CTTC
* * *
816539 TAAGTCCACAACTCCGTGGCATCTTT
1 AAAGTCCACGACTCAGTGGCATCTTT
816565 CTCCCTTCCT
Statistics
Matches: 159, Mismatches: 20, Indels: 11
0.84 0.11 0.06
Matches are distributed among these distances:
30 29 0.18
31 46 0.29
32 51 0.32
33 5 0.03
34 5 0.03
35 23 0.14
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.31
Consensus pattern (32 bp):
AAAGTCCACGACTCAGTGGCATCTTTTTCTTC
Found at i:816523 original size:93 final size:93
Alignment explanation
Indices: 816351--816524 Score: 224
Period size: 93 Copynumber: 1.9 Consensus size: 93
816341 AAAAAAAAAA
* * * * * *
816351 GTCCACGACTCAGTGGCAATCTCTGCTCAAAGTCCACGACTCAGTGGCATCTTTTTCTTTAAAGT
1 GTCCACGACTCAATGGCAATCTCTGCTCAAAGCCCACAACTCAGTGGCACCTTTTCCTTTAAAGC
*
816416 CCACGACTCAGTGGCATTTTGTCTCAAG
66 CCACAACTCAGTGGCATTTTGTCTCAAG
* * * *
816444 GTCCACGACTCAATGGC-ATTTTTTCTTCAAAGCCCACAACTCCGTGGCACCTTTTCCTTTAAAG
1 GTCCACGACTCAATGGCAATCTCTGC-TCAAAGCCCACAACTCAGTGGCACCTTTTCCTTTAAAG
*
816508 CCCACAACTCCGTGGCA
65 CCCACAACTCAGTGGCA
816525 CTCTTTTTCC
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
92 5 0.07
93 63 0.93
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (93 bp):
GTCCACGACTCAATGGCAATCTCTGCTCAAAGCCCACAACTCAGTGGCACCTTTTCCTTTAAAGC
CCACAACTCAGTGGCATTTTGTCTCAAG
Found at i:816548 original size:35 final size:35
Alignment explanation
Indices: 816472--816584 Score: 153
Period size: 35 Copynumber: 3.3 Consensus size: 35
816462 TTTTTTCTTC
816472 AAAGCCCACAACTCCGTGGCAC-C-TTTT-CCTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
816504 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
* * *
816539 TAAGTCCACAACTCCGTGGCA-TCTTTCTCCCTTCCT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT--T
816575 AAAGCCCACA
1 AAAGCCCACA
816585 CAAGTCGGTG
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
32 22 0.31
33 1 0.01
34 15 0.21
35 24 0.34
36 9 0.13
ACGTcount: A:0.22, C:0.38, G:0.12, T:0.28
Consensus pattern (35 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
Found at i:816612 original size:33 final size:35
Alignment explanation
Indices: 816569--816638 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
816559 ATCTTTCTCC
816569 CTTCCTAAAGCCCACACAAGTCGGTGGCAA-CCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
816603 CTTCC-AAAGCCCACACAAGTCGGTGGCAACCCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
816637 CT
1 CT
816639 AAGCCCAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 24 0.69
34 11 0.31
ACGTcount: A:0.26, C:0.37, G:0.17, T:0.20
Consensus pattern (35 bp):
CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
Found at i:816696 original size:49 final size:49
Alignment explanation
Indices: 816638--816799 Score: 228
Period size: 49 Copynumber: 3.4 Consensus size: 49
816628 GCAACCCTTC
* *
816638 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
816687 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
816730 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
816779 TAAGTCCAATGTAGCTGGCCT
1 TAAGTCCAATATAGCTGGCCT
816800 ATAAATATAT
Statistics
Matches: 98, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
43 39 0.40
45 1 0.01
47 1 0.01
49 57 0.58
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.30
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:816747 original size:43 final size:43
Alignment explanation
Indices: 816684--816772 Score: 151
Period size: 43 Copynumber: 2.1 Consensus size: 43
816674 GCACCTTCAT
*
816684 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
816727 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
816770 CTT
1 CTT
816773 CATCTTTAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:828214 original size:16 final size:16
Alignment explanation
Indices: 828190--828233 Score: 67
Period size: 15 Copynumber: 2.9 Consensus size: 16
828180 ATTCTTTTTC
828190 AAAAA-AACACAAAAA
1 AAAAACAACACAAAAA
828205 AAAAACAACA-AAAAA
1 AAAAACAACACAAAAA
828220 AAAAACAA-ACAAAA
1 AAAAACAACACAAAA
828234 CAAACCAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 1 0.04
15 22 0.81
16 4 0.15
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAACAACACAAAAA
Found at i:828219 original size:26 final size:29
Alignment explanation
Indices: 828190--828251 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 29
828180 ATTCTTTTTC
* *
828190 AAAAAAACACAAA-AAAA-AAA-CAACAA
1 AAAAAAAAACAAACAAAACAAACCAAAAA
828216 AAAAAAAAACAAACAAAACAAACCAAAAA
1 AAAAAAAAACAAACAAAACAAACCAAAAA
828245 AAAAAAA
1 AAAAAAA
828252 GAAAAATCTG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
26 12 0.39
27 4 0.13
28 3 0.10
29 12 0.39
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (29 bp):
AAAAAAAAACAAACAAAACAAACCAAAAA
Found at i:828222 original size:28 final size:27
Alignment explanation
Indices: 828190--828251 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 27
828180 ATTCTTTTTC
828190 AAAAAAACACAA-AAAAAAAACAACAAAA
1 AAAAAAACA-AACAAAAAAAACAA-AAAA
* *
828218 AAAAAAACAAACAAAACAAACCAAAAA
1 AAAAAAACAAACAAAAAAAACAAAAAA
828245 AAAAAAA
1 AAAAAAA
828252 GAAAAATCTG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 13 0.42
28 18 0.58
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (27 bp):
AAAAAAACAAACAAAAAAAACAAAAAA
Found at i:828256 original size:13 final size:13
Alignment explanation
Indices: 828190--828257 Score: 75
Period size: 13 Copynumber: 5.2 Consensus size: 13
828180 ATTCTTTTTC
*
828190 AAAAAAACACAAA
1 AAAAAAAAACAAA
828203 AAAAAAACAAC-AA
1 AAAAAAA-AACAAA
828216 AAAAAAAAACAAA
1 AAAAAAAAACAAA
* *
828229 CAAAACAAACCAAA
1 -AAAAAAAAACAAA
*
828243 AAAAAAAAAGAAA
1 AAAAAAAAACAAA
828256 AA
1 AA
828258 TCTGCTTAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
12 3 0.07
13 30 0.65
14 13 0.28
ACGTcount: A:0.85, C:0.13, G:0.01, T:0.00
Consensus pattern (13 bp):
AAAAAAAAACAAA
Found at i:829274 original size:26 final size:26
Alignment explanation
Indices: 829244--829333 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 26
829234 AAGTTGGTGG
*
829244 CACCTTTCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
* * * **
829270 CACCTCTTAAAGCCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCACA-AAG-AGCAGGA
*
829299 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
829325 CACCTTTCA
1 CACCTTTCA
829334 AAGCCCACCC
Statistics
Matches: 47, Mismatches: 12, Indels: 10
0.68 0.17 0.14
Matches are distributed among these distances:
25 3 0.06
26 17 0.36
27 8 0.17
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (26 bp):
CACCTTTCAGTCCACAAAGAGCAGGA
Found at i:829281 original size:55 final size:55
Alignment explanation
Indices: 829197--830050 Score: 1091
Period size: 55 Copynumber: 15.3 Consensus size: 55
829187 TCCGCTTTTT
829197 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
829252 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
829307 AGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
829362 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
829417 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
829472 AGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
829527 AATCCTCAAAGAGCAGGACAGCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
829582 AGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGTA--TTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
* * * **
829636 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCATACAGGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
** * *
829691 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAGGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGA--C---ACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* *
829752 AGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
* * **
829807 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
** *
829862 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGA--C---ACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* *
829923 AGTCCCCAAAGAGCAGGACATCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
829978 AGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
830033 ACTCCTCAATGAGAAGGA
1 AGTCCTCAAAGAGCAGGA
830051 TACACTTTAT
Statistics
Matches: 719, Mismatches: 51, Indels: 58
0.87 0.06 0.07
Matches are distributed among these distances:
53 3 0.00
54 60 0.08
55 530 0.74
56 26 0.04
57 2 0.00
59 2 0.00
60 10 0.01
61 86 0.12
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:829484 original size:165 final size:165
Alignment explanation
Indices: 829197--830031 Score: 1248
Period size: 165 Copynumber: 5.0 Consensus size: 165
829187 TCCGCTTTTT
*
829197 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAA
*
829262 GAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCCCAAAGAGCAGGAC
66 GAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCTCAAAGAGCAGGAC
*
829326 ACCTTTCAAAGCCCACCCAAGTTGGTGGCATTTTCC
130 ACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
829362 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAA
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAA
* *
829427 GAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG
66 GAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACA
829492 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
131 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
829527 AATCCTCAAAGAGCAGGACAGCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAA
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAA
*
829592 GAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGTA-TTTCCAGTCCTCAAAGAGCAGGAC
66 GAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGAC
* * * *
829655 ACCTTTTAAAGCCCATACAGGTTGGTGGCATTTTTC
130 ACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
** * *
829691 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAGGTTGGTGGCACCTTTCAGTC
1 AGTCCTCAAAGAGCAGGA--C---ACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
*
829756 CCCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAG
60 CCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAG
* * *
829820 CAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTC
124 CAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
** *
829862 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 AGTCCTCAAAGAGCAGGA--C---ACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
*
829927 CCCAAAGAGCAGGACATCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAG
60 CCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCTCAAAGAG
* *
829991 CAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTT
124 CAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTT
830032 TACTCCTCAA
Statistics
Matches: 631, Mismatches: 27, Indels: 17
0.93 0.04 0.03
Matches are distributed among these distances:
164 77 0.12
165 254 0.40
166 1 0.00
169 4 0.01
170 76 0.12
171 210 0.33
172 9 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (165 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAA
GAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACA
CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:830880 original size:19 final size:19
Alignment explanation
Indices: 830856--830923 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
830846 AATTCAACGA
830856 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
830875 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
830890 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
830907 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
830924 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:830894 original size:32 final size:32
Alignment explanation
Indices: 830858--830920 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
830848 TTCAACGATT
*
830858 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
830890 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
830921 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:830895 original size:13 final size:13
Alignment explanation
Indices: 830877--830901 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
830867 ACATAAGTTT
830877 TGTATCGATACAA
1 TGTATCGATACAA
830890 TGTATCGATACA
1 TGTATCGATACA
830902 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:830981 original size:13 final size:13
Alignment explanation
Indices: 830963--830988 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
830953 CATTTTTCTG
830963 TGTATCGATACAT
1 TGTATCGATACAT
830976 TGTATCGATACAT
1 TGTATCGATACAT
830989 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:830985 original size:33 final size:33
Alignment explanation
Indices: 830943--831009 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
830933 GCCAAGGAAA
***
830943 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
830976 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
831009 T
1 T
831010 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:833439 original size:28 final size:28
Alignment explanation
Indices: 833403--833479 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
833393 ATTTTTCACA
* * *
833403 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
833431 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
833459 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
833480 GCTTTATTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:839176 original size:61 final size:61
Alignment explanation
Indices: 839081--839204 Score: 212
Period size: 61 Copynumber: 2.0 Consensus size: 61
839071 GAAGCAAAAT
* ** *
839081 TGTGACTTTTTCATATTTTTTGCCTTTTGGACACCTTATTTCAACTAAGGATGATAGGAAA
1 TGTGACTTTTTCATACTTTTTGCCTCCTGGACACCTTATCTCAACTAAGGATGATAGGAAA
839142 TGTGACTTTTTCATACTTTTTGCCTCCTGGACACCTTATCTCAACTAAGGATGATAGGAAA
1 TGTGACTTTTTCATACTTTTTGCCTCCTGGACACCTTATCTCAACTAAGGATGATAGGAAA
839203 TG
1 TG
839205 GATCCGGGCT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.40
Consensus pattern (61 bp):
TGTGACTTTTTCATACTTTTTGCCTCCTGGACACCTTATCTCAACTAAGGATGATAGGAAA
Found at i:840164 original size:3 final size:3
Alignment explanation
Indices: 840156--840242 Score: 156
Period size: 3 Copynumber: 29.0 Consensus size: 3
840146 GGCAAATATT
840156 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
840204 ACA ATA ATA ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
840243 TTAAGTTTGA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:846379 original size:16 final size:16
Alignment explanation
Indices: 846358--846390 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
846348 ATTTAATTAA
846358 AATTAAAAAATTAATT
1 AATTAAAAAATTAATT
846374 AATTAAAAAATTAATT
1 AATTAAAAAATTAATT
846390 A
1 A
846391 CTTTTTGGAC
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AATTAAAAAATTAATT
Found at i:850123 original size:83 final size:83
Alignment explanation
Indices: 849978--850145 Score: 291
Period size: 83 Copynumber: 2.0 Consensus size: 83
849968 AATGTTGACC
*
849978 ATCGTATTAAGTCTATACGATAGAAGAAGCAAAAATTCACCCCAAAAAGAATTCAGGCGATTAAA
1 ATCGTATTAAGTCTATACGATAGAAGAAGCAAAAATTCACCCCAAAAAGAATTCAAGCGATTAAA
850043 GCAGAAGTCGACAAATTA
66 GCAGAAGTCGACAAATTA
* * * *
850061 ATCGTATTAAGTTTATATGATAGATGAAGCAAAAATTCACCCCAAAAAGAATTCAAGTGATTAAA
1 ATCGTATTAAGTCTATACGATAGAAGAAGCAAAAATTCACCCCAAAAAGAATTCAAGCGATTAAA
850126 GCAGAAGTCGACAAATTA
66 GCAGAAGTCGACAAATTA
850144 AT
1 AT
850146 AGCTGCTAGG
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 80 1.00
ACGTcount: A:0.46, C:0.15, G:0.16, T:0.23
Consensus pattern (83 bp):
ATCGTATTAAGTCTATACGATAGAAGAAGCAAAAATTCACCCCAAAAAGAATTCAAGCGATTAAA
GCAGAAGTCGACAAATTA
Found at i:856068 original size:91 final size:91
Alignment explanation
Indices: 855913--856119 Score: 283
Period size: 91 Copynumber: 2.3 Consensus size: 91
855903 TGACATTTAC
* * *
855913 AATTGATTCTCAAATATAATTCATACATTAGTTTAATCCTTACAGTCTAACATTTACAATCAATC
1 AATTGATTTTCAGATATAATTCATACATTAGTCTAATCCTTACAGTCTAACATTTACAATCAATC
* *
855978 AACTTTTCTTTTTTTTCTATAAAAAA-
66 AACTTTTC-TTTTTGTCCATAAAAAAG
* ** *
856004 AATTGATTTTCAGATATAATTCATGCATTAGTCTAATCCTTGTAGTCTAACATTTATAATCAATC
1 AATTGATTTTCAGATATAATTCATACATTAGTCTAATCCTTACAGTCTAACATTTACAATCAATC
856069 AACTTTTCTTTTTGTCCATAAAAAAG
66 AACTTTTCTTTTTGTCCATAAAAAAG
* *
856095 AATCTAATTTTAAGATATAA-TCATA
1 AAT-TGATTTTCAGATATAATTCATA
856120 TTTGTTTTAA
Statistics
Matches: 102, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
90 15 0.15
91 73 0.72
92 14 0.14
ACGTcount: A:0.37, C:0.15, G:0.06, T:0.42
Consensus pattern (91 bp):
AATTGATTTTCAGATATAATTCATACATTAGTCTAATCCTTACAGTCTAACATTTACAATCAATC
AACTTTTCTTTTTGTCCATAAAAAAG
Found at i:857023 original size:112 final size:111
Alignment explanation
Indices: 856828--857042 Score: 271
Period size: 112 Copynumber: 1.9 Consensus size: 111
856818 GTTAAATTAT
*
856828 TTTTTAATAAAAAAAAAAATATTTAATTAAGTTAAAAAATACATTACAACAAATGAAAATTTAAT
1 TTTTTAATAAAAAAAAAAATATTTAATAAAGTT-AAAAATACATTACAACAAATGAAAATTTAAT
856893 TATTATTTTTATTAAAATAAAAAATTTTGAAAATAAAAATGGATATAA
65 TATTATTTTTATTAAAATAAAAAATTTT-AAAATAAAAATGGATATAA
* * *
856941 TTTTTAATAAATAAAAAATAATATTTAATAAAGTT-TAAA-ACTTTACATA-AAATTAAAATATT
1 TTTTTAATAAA-AAAAAA-AATATTTAATAAAGTTAAAAATACATTACA-ACAAATGAAAAT-TT
*
857003 -ATTATT-TTTGTT-TTAAAAATAAAAAATTTTAAATTAAAAA
62 AATTATTATTT-TTATT-AAAATAAAAAATTTTAAAATAAAAA
857043 AATTTATTAT
Statistics
Matches: 91, Mismatches: 5, Indels: 14
0.83 0.05 0.13
Matches are distributed among these distances:
111 14 0.15
112 39 0.43
113 17 0.19
114 6 0.07
115 15 0.16
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.39
Consensus pattern (111 bp):
TTTTTAATAAAAAAAAAAATATTTAATAAAGTTAAAAATACATTACAACAAATGAAAATTTAATT
ATTATTTTTATTAAAATAAAAAATTTTAAAATAAAAATGGATATAA
Found at i:857043 original size:112 final size:114
Alignment explanation
Indices: 856784--857043 Score: 270
Period size: 112 Copynumber: 2.3 Consensus size: 114
856774 AATTTAATTA
* *
856784 TTTTAAAAATAAAAAAAATTTAAATAAAAAAGGGGTTAAATTATTTTTTAATAAAAAAAAAAATA
1 TTTTAAAAAT-AAAAAATTTTAAATAAAAAAGGGG-TAAATTAATTTTTAATAAAAAAAAAAATA
*
856849 TTTAATTAAGTTAAAAAATACATTACAACAAATGAAAATTTAATTATTATTT
64 TTTAATAAAGTT-AAAAATACATTACAACAAATGAAAATTTAATTATTATTT
* *
856901 TTATT-AAAATAAAAAATTTTGAAA-ATAAAAA-TGG-ATA-TAATTTTTAATAAATAAAAAATA
1 TT-TTAAAAATAAAAAATTTT-AAATA-AAAAAGGGGTAAATTAATTTTTAATAAA-AAAAAA-A
* * *
856961 ATATTTAATAAAGTT-TAAA-ACTTTACATA-AAATTAAAATATT-ATTATT-TTT
61 ATATTTAATAAAGTTAAAAATACATTACA-ACAAATGAAAAT-TTAATTATTATTT
857012 GTTTTAAAAATAAAAAATTTTAAATTAAAAAA
1 -TTTTAAAAATAAAAAATTTTAAA-TAAAAAA
857044 ATTTATTATA
Statistics
Matches: 124, Mismatches: 8, Indels: 27
0.78 0.05 0.17
Matches are distributed among these distances:
111 8 0.06
112 44 0.35
113 20 0.16
114 8 0.06
115 15 0.12
116 12 0.10
117 15 0.12
118 2 0.02
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (114 bp):
TTTTAAAAATAAAAAATTTTAAATAAAAAAGGGGTAAATTAATTTTTAATAAAAAAAAAAATATT
TAATAAAGTTAAAAATACATTACAACAAATGAAAATTTAATTATTATTT
Found at i:857582 original size:33 final size:34
Alignment explanation
Indices: 857519--857596 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 34
857509 ATTAACAATT
*
857519 ATTTTTAATTT-AGTAAATAAAATAATAATAATC
1 ATTTTTAATTTAAGTAAATAAAATAATAATAATA
**
857552 ATTTTTAATTTAAGTGATTTAAAA-AA-AATAATA
1 ATTTTTAATTTAAGT-AAATAAAATAATAATAATA
*
857585 ATATTTAATTTA
1 ATTTTTAATTTA
857597 TTAATTTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
33 28 0.72
34 5 0.13
35 6 0.15
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.45
Consensus pattern (34 bp):
ATTTTTAATTTAAGTAAATAAAATAATAATAATA
Found at i:857640 original size:20 final size:23
Alignment explanation
Indices: 857617--857668 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 23
857607 TTTTTTAAAG
857617 TTAATTAAAT-ATTAT-TT-TTA
1 TTAATTAAATAATTATATTATTA
**
857637 TTAAAAAAATAATTATATTATTA
1 TTAATTAAATAATTATATTATTA
*
857660 TTTATTAAA
1 TTAATTAAA
857669 ATTTTAAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
20 8 0.33
21 5 0.21
22 2 0.08
23 9 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TTAATTAAATAATTATATTATTA
Found at i:857866 original size:21 final size:21
Alignment explanation
Indices: 857828--857868 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
857818 TATATCATTA
*
857828 ATTAAATATATATTTTTATTG
1 ATTAAATATATATATTTATTG
857849 ATTATAATATA-ATATTTATT
1 ATTA-AATATATATATTTATT
857869 TAATATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTAAATATATATATTTATTG
Found at i:858420 original size:19 final size:19
Alignment explanation
Indices: 858407--858452 Score: 69
Period size: 17 Copynumber: 2.5 Consensus size: 19
858397 TATTTTTTAT
858407 ATAATTTTAAATTTATTAA
1 ATAATTTTAAATTTATTAA
858426 AT-A-TTTAAATTTATTAA
1 ATAATTTTAAATTTATTAA
858443 ATATATTTTA
1 ATA-ATTTTA
858453 TTTTATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 16 0.67
18 1 0.04
19 3 0.12
20 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATAATTTTAAATTTATTAA
Found at i:858432 original size:17 final size:17
Alignment explanation
Indices: 858412--858446 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
858402 TTTATATAAT
858412 TTTAAATTTATTAAATA
1 TTTAAATTTATTAAATA
858429 TTTAAATTTATTAAATA
1 TTTAAATTTATTAAATA
858446 T
1 T
858447 ATTTTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTAAATA
Found at i:858464 original size:19 final size:18
Alignment explanation
Indices: 858390--858466 Score: 70
Period size: 19 Copynumber: 4.2 Consensus size: 18
858380 ATTAAAATAT
*
858390 TATATTTT-ATTT-TTTA
1 TATATTTTAATTTATTAA
858406 TATAATTTTAAATTTATTAA
1 TAT-ATTTT-AATTTATTAA
*
858426 -ATATTTAAATTTATTAAA
1 TATATTTTAATTTATT-AA
*
858444 TATATTTTATTTTATATAA
1 TATATTTTAATTTAT-TAA
858463 TATA
1 TATA
858467 CAATATTATC
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
16 3 0.06
17 13 0.26
18 6 0.12
19 24 0.48
20 4 0.08
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATATTTTAATTTATTAA
Found at i:858465 original size:17 final size:17
Alignment explanation
Indices: 858402--858465 Score: 60
Period size: 17 Copynumber: 3.7 Consensus size: 17
858392 TATTTTATTT
858402 TTTATATAAT-TTTAAA
1 TTTATATAATATTTAAA
858418 TTTAT-TAAATATTTAAA
1 TTTATAT-AATATTTAAA
* * *
858435 TTTATTAAATATATTTTAT
1 TTTA-TATA-ATATTTAAA
858454 TTTATATAATAT
1 TTTATATAATAT
858466 ACAATATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
15 1 0.03
16 8 0.21
17 14 0.36
18 5 0.13
19 11 0.28
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTATATAATATTTAAA
Found at i:858610 original size:20 final size:20
Alignment explanation
Indices: 858587--858628 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
858577 TATTATTAAA
*
858587 TATATTATTCGTATATTTAT
1 TATATAATTCGTATATTTAT
858607 TATATAATTCGTATATTTAT
1 TATATAATTCGTATATTTAT
858627 TA
1 TA
858629 AATCTACCGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (20 bp):
TATATAATTCGTATATTTAT
Found at i:862693 original size:26 final size:27
Alignment explanation
Indices: 862641--862700 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
862631 ATAATTTAAA
* *
862641 TTAAATTAATTTAAATTTTAAGATA-T
1 TTAAGTTAATTTAAATTTCAAGATATT
*
862667 TTAAGTTAATTTTAAATTTCAA-TTATT
1 TTAAGTTAA-TTTAAATTTCAAGATATT
862694 TTAAGTT
1 TTAAGTT
862701 TGAATTGTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 10 0.34
27 19 0.66
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (27 bp):
TTAAGTTAATTTAAATTTCAAGATATT
Found at i:862834 original size:308 final size:307
Alignment explanation
Indices: 862210--862834 Score: 882
Period size: 309 Copynumber: 2.0 Consensus size: 307
862200 TTTTTTGTAC
862210 TGTAATTTACCGCTACCTTTGTAAAACTTAGACATAAAGATCTTTAAGTCAACCAAAATTAAAGA
1 TGTAATTTACCGCTACCTTTGTAAAACTTAGACATAAAGATCTTTAAGTCAACCAAAATTAAAGA
* *
862275 GCACTAAGAGAAGCTCCTTTCTTAAACTTATCAATGGGATGGATCACGATAATTTAATTAAATCA
66 GCACTAAGAGAAGCTCCTTTCTTAAACTTATCAATCGGATAGATCACGATAATTTAATTAAATCA
* *
862340 ATTCGAATTTTAAGATATTTAAGTTAATTTTAAATTTTAATCATTTTAAGTTTGAATTGTCATCG
131 ATTCAAATTTTAAGATATTTAAGTTAATTTTAAATTTCAATCATTTTAAGTTTGAATTGTCATCG
* * *
862405 AATTTAAAGAATTTTTCTTTAATATTCAAATCATTTAGATTCAAATCATTTTATGTAGAAATAGT
196 AATTCAAAAAATTTTCCTTTAATATTCAAATCATTTAGATTCAAATCATTTTATGTAGAAATAGT
* * * * *** ** * * *
862470 TAGTTTTAAATGCATTCTCATATGTAATACATATTCAGTTTTTTGTTC
261 TAATTTTAAA-GAATTATCATATGTAAAACATAAAAAAATATATGTTA
862518 TGTAATTTACCGCTACCTTTGTAAAACTTAGACATAAAGATCTTTAAGTCAACCAAAATTAAAGA
1 TGTAATTTACCGCTACCTTTGTAAAACTTAGACATAAAGATCTTTAAGTCAACCAAAATTAAAGA
* *
862583 GCACTAAGAGAAGCTCCTTTCTTAAACTTATCAATCGGATAGATCACTATAATTTAAATTAAATT
66 GCACTAAGAGAAGCTCCTTTCTTAAACTTATCAATCGGATAGATCACGATAATTT-AATTAAATC
* *
862648 AATTTAAATTTTAAGATATTTAAGTTAATTTTAAATTTCAATTATTTTAAGTTTGAATTGTCATC
130 AATTCAAATTTTAAGATATTTAAGTTAATTTTAAATTTCAATCATTTTAAGTTTGAATTGTCATC
* * **
862713 -AGATTCAAAAAATTTTCCTTTAATATTCAAATCATTTAGATTCAAATCATTTTATATTTGATTT
195 GA-ATTCAAAAAATTTTCCTTTAATATTCAAATCATTTAGATTCAAATCATTTTAT-GTAGAAAT
**
862777 A-TTAATTTTAAA-AATTAAATCATAT-TAAAATTTAAAAAAAATATAT-TTA
258 AGTTAATTTTAAAGAATT--ATCATATGTAAAACAT-AAAAAAATATATGTTA
*
862826 TTTAATTTA
1 TGTAATTTA
862835 TATGTTATTA
Statistics
Matches: 281, Mismatches: 30, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
307 3 0.01
308 133 0.47
309 140 0.50
310 5 0.02
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (307 bp):
TGTAATTTACCGCTACCTTTGTAAAACTTAGACATAAAGATCTTTAAGTCAACCAAAATTAAAGA
GCACTAAGAGAAGCTCCTTTCTTAAACTTATCAATCGGATAGATCACGATAATTTAATTAAATCA
ATTCAAATTTTAAGATATTTAAGTTAATTTTAAATTTCAATCATTTTAAGTTTGAATTGTCATCG
AATTCAAAAAATTTTCCTTTAATATTCAAATCATTTAGATTCAAATCATTTTATGTAGAAATAGT
TAATTTTAAAGAATTATCATATGTAAAACATAAAAAAATATATGTTA
Found at i:863321 original size:20 final size:22
Alignment explanation
Indices: 863285--863325 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
863275 ATAATAAAAT
863285 ATTATTATAACATAAGATATAA
1 ATTATTATAACATAAGATATAA
863307 ATTATTAT-A-ATAAGATATA
1 ATTATTATAACATAAGATATA
863326 CATATTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 1 0.05
22 8 0.42
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (22 bp):
ATTATTATAACATAAGATATAA
Found at i:863361 original size:25 final size:28
Alignment explanation
Indices: 863333--863393 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 28
863323 ATACATATTT
863333 AGTTTTTATT-TT-AT-TTATAGTTTGA
1 AGTTTTTATTGTTCATATTATAGTTTGA
*
863358 AGTTTTTTTTTGGTTCATATTATAGTTTGA
1 AG-TTTTTATT-GTTCATATTATAGTTTGA
863388 AGTTTT
1 AGTTTT
863394 GGAAGTTGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 2 0.07
26 7 0.23
28 2 0.07
29 6 0.20
30 13 0.43
ACGTcount: A:0.21, C:0.02, G:0.15, T:0.62
Consensus pattern (28 bp):
AGTTTTTATTGTTCATATTATAGTTTGA
Found at i:864425 original size:16 final size:15
Alignment explanation
Indices: 864403--864476 Score: 61
Period size: 13 Copynumber: 5.1 Consensus size: 15
864393 ATGTTCAATT
864403 AAAATTTTAAATATA
1 AAAATTTTAAATATA
864418 ATAAA-TTT-AAT-TA
1 A-AAATTTTAAATATA
864431 AAAA-TTTAATTATATA
1 AAAATTTTAA--ATATA
864447 AAAATTTT-AAT-TA
1 AAAATTTTAAATATA
*
864460 AAAATTTATAAAAATA
1 AAAATTT-TAAATATA
864476 A
1 A
864477 TTGAATAGAT
Statistics
Matches: 49, Mismatches: 1, Indels: 17
0.73 0.01 0.25
Matches are distributed among these distances:
12 6 0.12
13 13 0.27
14 6 0.12
15 8 0.16
16 13 0.27
17 3 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAAATTTTAAATATA
Found at i:864438 original size:27 final size:28
Alignment explanation
Indices: 864390--864467 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 28
864380 TGTATATATT
*
864390 TAAATGTTCAATTAAAATTTTAA-ATATAA
1 TAAAT-TT-AATTAAAAATTTAATATATAA
864419 TAAATTTAATTAAAAATTTAATTATATAA
1 TAAATTTAATTAAAAATTTAA-TATATAA
864448 -AAATTTTAATTAAAAATTTA
1 TAAA-TTTAATTAAAAATTTA
864468 TAAAAATAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
27 13 0.29
28 5 0.11
29 27 0.60
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (28 bp):
TAAATTTAATTAAAAATTTAATATATAA
Found at i:864476 original size:29 final size:29
Alignment explanation
Indices: 864390--864477 Score: 94
Period size: 29 Copynumber: 3.0 Consensus size: 29
864380 TGTATATATT
864390 TAAATGTTCAATT-AAAATTT-TAAATATAA
1 TAAAT-TT-AATTAAAAATTTATAAATATAA
*
864419 TAAATTTAATTAAAAATTTA-ATTATATAA
1 TAAATTTAATTAAAAATTTATA-AATATAA
*
864448 -AAATTTTAATTAAAAATTTATAAAAATAA
1 TAAA-TTTAATTAAAAATTTATAAATATAA
864477 T
1 T
864478 TGAATAGATA
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
27 4 0.08
28 13 0.26
29 32 0.64
30 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (29 bp):
TAAATTTAATTAAAAATTTATAAATATAA
Found at i:864941 original size:15 final size:15
Alignment explanation
Indices: 864896--864941 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
864886 AAAAATTAAT
*
864896 TTGAATATGAAAATA
1 TTGAATTTGAAAATA
* *
864911 ATGAATTTCAAAATA
1 TTGAATTTGAAAATA
*
864926 TTTAATTTGAAAATA
1 TTGAATTTGAAAATA
864941 T
1 T
864942 AAAAAGTCAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (15 bp):
TTGAATTTGAAAATA
Found at i:866258 original size:3 final size:3
Alignment explanation
Indices: 866250--866299 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
866240 AACTCAACAT
866250 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
866298 TA
1 TA
866300 TCATATTTTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:872081 original size:130 final size:130
Alignment explanation
Indices: 871848--872113 Score: 383
Period size: 130 Copynumber: 2.0 Consensus size: 130
871838 CCAATATCAA
*
871848 AAAATAAGAAAAGGCAAGACAAATCCCAAGCATGATAACGCAGGGAGATTAACAATTCTTTTTTA
1 AAAATAAGAAAAGGCAAGACAAATCCCAAGCATGATAACGCAGGGAGACTAACAATTCTTTTTTA
* *
871913 GTTTGGCTTATGGTAATTGATTACTTTGATTTAGAATATTGGTAAGTCCTAAGATGT-AGCTTAT
66 GTTTGGCTTATGGTAACTAATTACTTTGATTTAGAATATTGGTAAGTCCTAAGAT-TCAGCTTAT
871977 C
130 C
* * * * * * *
871978 AAAATAAGAAAAGGCAGGACAAATCCCCATCATGTTAATGCTGGGAGACTAGCAATTCTTTTTTA
1 AAAATAAGAAAAGGCAAGACAAATCCCAAGCATGATAACGCAGGGAGACTAACAATTCTTTTTTA
* *
872043 GTTCT-GCTTATGGTAACTAATTATTTTGATTTAGAATATTGGTGAGTCCTAAGATTCAGCTTAT
66 GTT-TGGCTTATGGTAACTAATTACTTTGATTTAGAATATTGGTAAGTCCTAAGATTCAGCTTAT
872107 C
130 C
872108 ATAAAT
1 A-AAAT
872114 GATTGGAAAT
Statistics
Matches: 121, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
129 1 0.01
130 115 0.95
131 5 0.04
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.33
Consensus pattern (130 bp):
AAAATAAGAAAAGGCAAGACAAATCCCAAGCATGATAACGCAGGGAGACTAACAATTCTTTTTTA
GTTTGGCTTATGGTAACTAATTACTTTGATTTAGAATATTGGTAAGTCCTAAGATTCAGCTTATC
Found at i:875854 original size:28 final size:29
Alignment explanation
Indices: 875812--875893 Score: 105
Period size: 29 Copynumber: 2.9 Consensus size: 29
875802 AAAATTATGG
* *
875812 TGTTTTAGTTAACTTTTAATTTCTTT-CA
1 TGTTTTAGTTGACTTTTAATTCCTTTCCA
*
875840 -GTTTTTGGTTGACTTTTAATTCCTTTCCA
1 TG-TTTTAGTTGACTTTTAATTCCTTTCCA
*
875869 TGTTTTAATTGACTTTTAATTCCTT
1 TGTTTTAGTTGACTTTTAATTCCTT
875894 AGCTTTATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
27 1 0.02
28 21 0.46
29 23 0.50
30 1 0.02
ACGTcount: A:0.18, C:0.13, G:0.10, T:0.59
Consensus pattern (29 bp):
TGTTTTAGTTGACTTTTAATTCCTTTCCA
Found at i:876274 original size:16 final size:16
Alignment explanation
Indices: 876249--876279 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
876239 ATTTCTTATC
876249 TTTTTCTTTTGTTTTT
1 TTTTTCTTTTGTTTTT
*
876265 TTTTTTTTTTGTTTT
1 TTTTTCTTTTGTTTT
876280 AAATGGTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.03, G:0.06, T:0.90
Consensus pattern (16 bp):
TTTTTCTTTTGTTTTT
Found at i:879761 original size:29 final size:29
Alignment explanation
Indices: 879687--879766 Score: 99
Period size: 28 Copynumber: 2.8 Consensus size: 29
879677 AGGAAGTTCT
* * *
879687 GGTGTCTTAGTTGACTTTTCATTCCTTTC
1 GGTGTTTTAGTTAACTTTTAATTCCTTTC
* *
879716 GGT-TTTTAGTTTACTTTTAATTCCTTTT
1 GGTGTTTTAGTTAACTTTTAATTCCTTTC
*
879744 TGTGTTTTAGTTAACTTTTAATT
1 GGTGTTTTAGTTAACTTTTAATT
879767 TCTTAGCTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
28 23 0.52
29 21 0.48
ACGTcount: A:0.15, C:0.12, G:0.14, T:0.59
Consensus pattern (29 bp):
GGTGTTTTAGTTAACTTTTAATTCCTTTC
Found at i:884209 original size:16 final size:16
Alignment explanation
Indices: 884190--884271 Score: 87
Period size: 15 Copynumber: 5.1 Consensus size: 16
884180 TTAAATATGT
884190 AATAATTTAAAATTAA
1 AATAATTTAAAATTAA
*
884206 AATAA-TTAAAATTTTA
1 AATAATTTAAAA-TTAA
*
884222 AATAATTTTAAATTTAA
1 AATAA-TTTAAAATTAA
*
884239 AATAA-TTAAACTTAA
1 AATAATTTAAAATTAA
*
884254 AATAATATAAAACTTAA
1 AATAATTTAAAA-TTAA
884271 A
1 A
884272 TTTATTTCAA
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
15 20 0.36
16 17 0.31
17 13 0.24
18 5 0.09
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (16 bp):
AATAATTTAAAATTAA
Found at i:884212 original size:32 final size:33
Alignment explanation
Indices: 884176--884248 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 33
884166 AATTTGGCTT
*
884176 TAATTTAAATATGT-AATAA-TTTAAAATTAAAA
1 TAATTAAAAT-TGTAAATAATTTTAAAATTAAAA
* *
884208 TAATTAAAATTTTAAATAATTTTAAATTTAAAA
1 TAATTAAAATTGTAAATAATTTTAAAATTAAAA
884241 TAATTAAA
1 TAATTAAA
884249 CTTAAAATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 2 0.06
32 14 0.39
33 20 0.56
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (33 bp):
TAATTAAAATTGTAAATAATTTTAAAATTAAAA
Found at i:884234 original size:17 final size:16
Alignment explanation
Indices: 884176--884264 Score: 90
Period size: 16 Copynumber: 5.6 Consensus size: 16
884166 AATTTGGCTT
* **
884176 TAATTTAAATATGTAA
1 TAATTTAAATTTAAAA
*
884192 TAATTTAAAATTAAAA
1 TAATTTAAATTTAAAA
* *
884208 TAATTAAAATTTTAAA
1 TAATTTAAATTTAAAA
884224 TAATTTTAAATTTAAAA
1 TAA-TTTAAATTTAAAA
*
884241 TAA-TTAAACTTAAAA
1 TAATTTAAATTTAAAA
*
884256 TAATATAAA
1 TAATTTAAA
884265 ACTTAAATTT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
15 14 0.23
16 32 0.53
17 14 0.23
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (16 bp):
TAATTTAAATTTAAAA
Found at i:884271 original size:32 final size:32
Alignment explanation
Indices: 884190--884271 Score: 103
Period size: 32 Copynumber: 2.5 Consensus size: 32
884180 TTAAATATGT
* *
884190 AATAATTTAAAATTAAAATAATTAAAATTTTA
1 AATAATTTAAAATTAAAATAATTAAAACTTAA
*
884222 AATAATTTTAAATTTAAAATAATT-AAACTTAA
1 AATAA-TTTAAAATTAAAATAATTAAAACTTAA
*
884254 AATAATATAAAACTTAAA
1 AATAATTTAAAA-TTAAA
884272 TTTATTTCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
31 5 0.12
32 21 0.49
33 17 0.40
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (32 bp):
AATAATTTAAAATTAAAATAATTAAAACTTAA
Found at i:884272 original size:16 final size:16
Alignment explanation
Indices: 884190--884271 Score: 87
Period size: 17 Copynumber: 5.1 Consensus size: 16
884180 TTAAATATGT
884190 AATAATTTAAAA-TTAA
1 AATAA-TTAAAACTTAA
* *
884206 AATAATTAAAATTTTA
1 AATAATTAAAACTTAA
* *
884222 AATAATTTTAAATTTAA
1 AATAA-TTAAAACTTAA
884239 AATAATT-AAACTTAA
1 AATAATTAAAACTTAA
884254 AATAATATAAAACTTAA
1 AATAAT-TAAAACTTAA
884271 A
1 A
884272 TTTATTTCAA
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
15 19 0.33
16 16 0.28
17 23 0.40
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (16 bp):
AATAATTAAAACTTAA
Found at i:884512 original size:22 final size:22
Alignment explanation
Indices: 884476--884517 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
884466 TAAAATTTAA
884476 TTAAAAATAATTTTATATATTTT
1 TTAAAAATAATTTTAT-TATTTT
*
884499 TTAAAAATTA-TTTATTATT
1 TTAAAAATAATTTTATTATT
884518 GATAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 5 0.28
23 9 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTAAAAATAATTTTATTATTTT
Found at i:884616 original size:40 final size:37
Alignment explanation
Indices: 884524--884639 Score: 99
Period size: 40 Copynumber: 2.9 Consensus size: 37
884514 TATTGATAAA
*
884524 ATTTAAAATTTAAATTTATAAATTTTATATTAAAAATCAT
1 ATTT-AAA-TTAAATTTAT-ATTTTTATATTAAAAATCAT
* *
884564 ATCATTAAATTAAATTTATATTTTTATTAATTATAAATTAT
1 AT--TTAAATTAAATTTATATTTTTA-T-ATTAAAAATCAT
*
884605 ATTTAATATTAAAATTAT-TTTTTAAATATTAAAAA
1 ATTTAA-ATTAAATTTATATTTTT--ATATTAAAAA
884640 AATTTAATTA
Statistics
Matches: 64, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
39 22 0.34
40 24 0.38
41 16 0.25
42 2 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (37 bp):
ATTTAAATTAAATTTATATTTTTATATTAAAAATCAT
Found at i:898519 original size:156 final size:156
Alignment explanation
Indices: 898233--898548 Score: 623
Period size: 156 Copynumber: 2.0 Consensus size: 156
898223 TGTTGAGCTT
898233 TATAAAGTAATTGATCCTTCCAAGAGCACCGGAAACCTCTCCGTAGTTGCTGGCACTGTAGGTTA
1 TATAAAGTAATTGATCCTTCCAAGAGCACCGGAAACCTCTCCGTAGTTGCTGGCACTGTAGGTTA
*
898298 TATTCCTCCAGGTGAATAACTTCGACATGCATGATTTTACATCAGAAATTTTTAAGTGAATCAAC
66 TATTCCTCCAGGTGAATAACTTCGACATGCATGATTTTACATCAGAAATTTTTAAGTGAACCAAC
898363 TGACTTGATAAACAATTATCATTGCA
131 TGACTTGATAAACAATTATCATTGCA
898389 TATAAAGTAATTGATCCTTCCAAGAGCACCGGAAACCTCTCCGTAGTTGCTGGCACTGTAGGTTA
1 TATAAAGTAATTGATCCTTCCAAGAGCACCGGAAACCTCTCCGTAGTTGCTGGCACTGTAGGTTA
898454 TATTCCTCCAGGTGAATAACTTCGACATGCATGATTTTACATCAGAAATTTTTAAGTGAACCAAC
66 TATTCCTCCAGGTGAATAACTTCGACATGCATGATTTTACATCAGAAATTTTTAAGTGAACCAAC
898519 TGACTTGATAAACAATTATCATTGCA
131 TGACTTGATAAACAATTATCATTGCA
898545 TATA
1 TATA
898549 GTTTAGCTAA
Statistics
Matches: 159, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
156 159 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.31
Consensus pattern (156 bp):
TATAAAGTAATTGATCCTTCCAAGAGCACCGGAAACCTCTCCGTAGTTGCTGGCACTGTAGGTTA
TATTCCTCCAGGTGAATAACTTCGACATGCATGATTTTACATCAGAAATTTTTAAGTGAACCAAC
TGACTTGATAAACAATTATCATTGCA
Found at i:899110 original size:16 final size:16
Alignment explanation
Indices: 899086--899121 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
899076 TTTTTTAATT
*
899086 TTAAAAATTAAATTAAA
1 TTAAAATTTAAA-TAAA
899103 TTAAAATTTAAATAAA
1 TTAAAATTTAAATAAA
899119 TTA
1 TTA
899122 TTTGCTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TTAAAATTTAAATAAA
Found at i:907794 original size:19 final size:19
Alignment explanation
Indices: 907747--907795 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 19
907737 CTTTGTATCC
907747 AAATTAATAATTAGAACTTA
1 AAATTAATAATTAGAAC-TA
907767 AAAGTTTAATAACTTAGAA-TA
1 AAA--TTAATAA-TTAGAACTA
907788 AAATTAAT
1 AAATTAAT
907796 TTTAATGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 5 0.19
20 3 0.12
21 5 0.19
22 7 0.27
23 6 0.23
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (19 bp):
AAATTAATAATTAGAACTA
Found at i:910728 original size:20 final size:22
Alignment explanation
Indices: 910701--910758 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 22
910691 CTGGACATGT
910701 TAAAAAAAA-CATGAAACATAA
1 TAAAAAAAAGCATGAAACATAA
910722 TAAAAAAAATGCATGAAACATAA
1 TAAAAAAAA-GCATGAAACATAA
*
910745 TAAAAAAATGCATG
1 TAAAAAAAAGCATG
910759 GTCAAAGGCT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 9 0.26
22 5 0.15
23 20 0.59
ACGTcount: A:0.66, C:0.09, G:0.09, T:0.17
Consensus pattern (22 bp):
TAAAAAAAAGCATGAAACATAA
Found at i:910736 original size:23 final size:23
Alignment explanation
Indices: 910701--910758 Score: 95
Period size: 22 Copynumber: 2.7 Consensus size: 23
910691 CTGGACATGT
910701 TAAAAAAAA--CATGAAACATAA
1 TAAAAAAAATGCATGAAACATAA
910722 TAAAAAAAATGCATGAAACATAA
1 TAAAAAAAATGCATGAAACATAA
910745 T-AAAAAAATGCATG
1 TAAAAAAAATGCATG
910759 GTCAAAGGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
21 9 0.26
22 13 0.37
23 13 0.37
ACGTcount: A:0.66, C:0.09, G:0.09, T:0.17
Consensus pattern (23 bp):
TAAAAAAAATGCATGAAACATAA
Found at i:911714 original size:20 final size:20
Alignment explanation
Indices: 911667--911741 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
911657 AAAAAGACAT
*
911667 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
911686 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
911707 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
911727 AATGTATCGATACAT
1 AATGTATCGATACAT
911742 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:911735 original size:40 final size:39
Alignment explanation
Indices: 911664--911741 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
911654 GGTAAAAAGA
* *
911664 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
911703 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
911742 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:912447 original size:25 final size:24
Alignment explanation
Indices: 912419--912493 Score: 60
Period size: 27 Copynumber: 2.9 Consensus size: 24
912409 CAATTATATA
912419 TTTAAATTTGTAAATTTAAAATAAT
1 TTTAAATTT-TAAATTTAAAATAAT
* * *
912444 TTTATAGTTTTTAATTATTAAAAAAAT
1 TTTA-A-ATTTTAAAT-TTAAAATAAT
*
912471 ATTAAATTTTAATATTTATAAAT
1 TTTAAATTTTAA-ATTTA-AAAT
912494 TTAAAATTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
25 13 0.34
26 10 0.26
27 15 0.39
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (24 bp):
TTTAAATTTTAAATTTAAAATAAT
Found at i:912751 original size:24 final size:21
Alignment explanation
Indices: 912708--912787 Score: 72
Period size: 22 Copynumber: 3.6 Consensus size: 21
912698 ATTTTTTATA
* *
912708 TAAAAAAGTTAAATGTAAATGT
1 TAAAAAATTTAAATCTAAAT-T
912730 TAAAAAATTTAATATCTAAAATT
1 TAAAAAATTTAA-ATCT-AAATT
*
912753 TAAAAAAATTTAAAAT-TATATT
1 T-AAAAAATTT-AAATCTAAATT
*
912775 TTAAAAATTTAAA
1 TAAAAAATTTAAA
912788 AGTTAAATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 3 0.06
21 8 0.16
22 16 0.32
23 6 0.12
24 15 0.30
25 2 0.04
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (21 bp):
TAAAAAATTTAAATCTAAATT
Found at i:913340 original size:21 final size:21
Alignment explanation
Indices: 913297--913340 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
913287 GATGCATTGG
* ** *
913297 TTGGATGAAAGAATGGTATTT
1 TTGGATGAAAAAATGCAACTT
913318 TTGGATGAAAAAATGCAACTT
1 TTGGATGAAAAAATGCAACTT
913339 TT
1 TT
913341 AATAACCAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.36
Consensus pattern (21 bp):
TTGGATGAAAAAATGCAACTT
Found at i:913466 original size:14 final size:15
Alignment explanation
Indices: 913447--913475 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
913437 TTGCTAAAAT
913447 TTTCA-TTCAATCTA
1 TTTCATTTCAATCTA
913461 TTTCATTTCAATCTA
1 TTTCATTTCAATCTA
913476 AATCATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTCATTTCAATCTA
Found at i:914463 original size:5 final size:5
Alignment explanation
Indices: 914453--914488 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
914443 GAGATTTGAG
* *
914453 ATTTA ATTTA ATTTA ATTTA ATTTA AATTG ATTTA A
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA A
914489 AAAAATTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (5 bp):
ATTTA
Found at i:914540 original size:15 final size:15
Alignment explanation
Indices: 914522--914551 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
914512 AAGAAAATCA
*
914522 AAATTTAAAAAAATT
1 AAATATAAAAAAATT
914537 AAATATAAAAAAATT
1 AAATATAAAAAAATT
914552 TGAACTCGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATATAAAAAAATT
Found at i:916019 original size:19 final size:19
Alignment explanation
Indices: 915995--916031 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
915985 CAATTTACAT
*
915995 TATTTTTTAAATCCAAATC
1 TATTTTTGAAATCCAAATC
916014 TATTTTTGAAATCCAAAT
1 TATTTTTGAAATCCAAAT
916032 TTCCAAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.14, G:0.03, T:0.46
Consensus pattern (19 bp):
TATTTTTGAAATCCAAATC
Found at i:916700 original size:20 final size:21
Alignment explanation
Indices: 916668--916706 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
916658 AATTAATTGT
916668 TATATTTGAAA-TTAAAAATA
1 TATATTTGAAATTTAAAAATA
916688 TATATTT-ATAATTTAAAAA
1 TATATTTGA-AATTTAAAAA
916707 ATTCTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.06
20 9 0.53
21 7 0.41
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (21 bp):
TATATTTGAAATTTAAAAATA
Found at i:916844 original size:16 final size:17
Alignment explanation
Indices: 916796--916849 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
916786 ATTTGTATTC
* * *
916796 AAAATAATTCAAACTTT
1 AAAAAAATTTAAAATTT
916813 AAAAAAATTTAAAATTT
1 AAAAAAATTTAAAATTT
* *
916830 AAAAATATTT-GAATTT
1 AAAAAAATTTAAAATTT
916846 AAAA
1 AAAA
916850 TAATCCGTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 9 0.28
17 23 0.72
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (17 bp):
AAAAAAATTTAAAATTT
Found at i:916881 original size:15 final size:15
Alignment explanation
Indices: 916862--916896 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
916852 ATCCGTATCT
*
916862 AAAAAATATATATTTA
1 AAAAAAT-TAAATTTA
916878 AAAAAATTAAATTTA
1 AAAAAATTAAATTTA
916893 AAAA
1 AAAA
916897 TAACTCGATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAAAATTAAATTTA
Found at i:923365 original size:18 final size:16
Alignment explanation
Indices: 923315--923383 Score: 50
Period size: 17 Copynumber: 4.0 Consensus size: 16
923305 AAAAAATCAT
923315 TTAATTAAATTAAATTTA
1 TTAATT-AATTAAA-TTA
**
923333 TATTTTTAATT-AATTA
1 T-TAATTAATTAAATTA
*
923349 TTTATTATATTTAAATTAA
1 TTAATTA-A-TTAAATT-A
923368 TTAATTAATTAAATTA
1 TTAATTAATTAAATTA
923384 AAAAAATAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
15 5 0.12
16 6 0.14
17 11 0.26
18 10 0.24
19 10 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAATTAATTAAATTA
Found at i:923365 original size:22 final size:20
Alignment explanation
Indices: 923319--923370 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 20
923309 AATCATTTAA
923319 TTAAATTAA--ATTTATATT
1 TTAAATTAATTATTTATATT
*
923337 TTTAATTAATTATTTATTATAT
1 TTAAATTAATTATTTA-TAT-T
923359 TTAAATTAATTA
1 TTAAATTAATTA
923371 ATTAATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 8 0.29
20 5 0.18
21 3 0.11
22 12 0.43
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTAAATTAATTATTTATATT
Found at i:923378 original size:23 final size:24
Alignment explanation
Indices: 923315--923378 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 24
923305 AAAAAATCAT
*
923315 TTAATTAAATTAAATTTATATTTTTAA
1 TTAATT-AATT-AA-TTATATTTTAAA
*
923342 TTAATT-ATTTATTATA-TTTAAA
1 TTAATTAATTAATTATATTTTAAA
923364 TTAATTAATTAATTA
1 TTAATTAATTAATTA
923379 AATTAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 11 0.33
23 12 0.36
24 1 0.03
25 3 0.09
27 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TTAATTAATTAATTATATTTTAAA
Found at i:923384 original size:22 final size:22
Alignment explanation
Indices: 923340--923385 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
923330 TTATATTTTT
* *
923340 AATTAATTATTTATTATATTTA
1 AATTAATTATTAATTATAATTA
923362 AATTAATTAATTAATTA-AATTA
1 AATTAATT-ATTAATTATAATTA
923384 AA
1 AA
923386 AAAATAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATTAATTATTAATTATAATTA
Found at i:923615 original size:26 final size:25
Alignment explanation
Indices: 923572--923624 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
923562 TTTATTAATG
*
923572 TTTTTTTAAAAAAGTAAAAATTAAAA
1 TTTTTTTAAAAAAGT-AAAATAAAAA
*
923598 TTTTTATT-AAAAATTAAAATAAAAA
1 TTTTT-TTAAAAAAGTAAAATAAAAA
923623 TT
1 TT
923625 GAAAAGGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 11 0.46
26 11 0.46
27 2 0.08
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
TTTTTTTAAAAAAGTAAAATAAAAA
Found at i:924530 original size:22 final size:21
Alignment explanation
Indices: 924504--924544 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
924494 CTAATAAATT
* *
924504 TATTTTTATATTAATATTTATA
1 TATTTTAAAATTAA-ATTTATA
924526 TATTTTAAAATTAAATTTA
1 TATTTTAAAATTAAATTTA
924545 AATAAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTTTAAAATTAAATTTATA
Found at i:924577 original size:18 final size:20
Alignment explanation
Indices: 924549--924588 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
924539 AATTTAAATA
*
924549 AAAATATATTATTTTAA-TT
1 AAAATATATTACTTTAAGTT
924568 AAAA-ATATTACTTTAAGTT
1 AAAATATATTACTTTAAGTT
924587 AA
1 AA
924589 TCTAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (20 bp):
AAAATATATTACTTTAAGTT
Found at i:924753 original size:8 final size:7
Alignment explanation
Indices: 924734--924767 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
924724 AAACCTGAAA
924734 AAAATTAT
1 AAAATT-T
*
924742 AAATTTT
1 AAAATTT
924749 AAAATTT
1 AAAATTT
924756 AAAATTT
1 AAAATTT
924763 AAAAT
1 AAAAT
924768 ATTTAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 19 0.79
8 5 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
AAAATTT
Found at i:925944 original size:23 final size:23
Alignment explanation
Indices: 925901--925944 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
925891 AAATACGATT
* *
925901 ATATAAATATGATAAATATAAAA
1 ATATAAAAATGATAAACATAAAA
925924 ATATAAAAAT-ATAACACATAA
1 ATATAAAAATGATAA-ACATAA
925945 CTTAAAATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (23 bp):
ATATAAAAATGATAAACATAAAA
Found at i:926597 original size:15 final size:15
Alignment explanation
Indices: 926566--926646 Score: 55
Period size: 15 Copynumber: 5.6 Consensus size: 15
926556 CAATGATAAA
926566 ATTTA-ATA-ATT-T
1 ATTTATATATATTAT
*
926578 ATTTATTTATATTAT
1 ATTTATATATATTAT
*
926593 ATTTATATATTTTAT
1 ATTTATATATATTAT
926608 CATTT-TATA-ATTAT
1 -ATTTATATATATTAT
* * * *
926622 TTTTAAAATGTTTTAT
1 ATTT-ATATATATTAT
926638 ATTTATATA
1 ATTTATATA
926647 AATTTTGATA
Statistics
Matches: 51, Mismatches: 11, Indels: 11
0.70 0.15 0.15
Matches are distributed among these distances:
12 5 0.10
13 5 0.10
14 7 0.14
15 23 0.45
16 11 0.22
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (15 bp):
ATTTATATATATTAT
Found at i:926642 original size:28 final size:27
Alignment explanation
Indices: 926581--926644 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
926571 ATAATTTATT
*
926581 TATTTAT-ATTATATTTATATATTTTA
1 TATTTATAATTATATTTAAATATTTTA
* *
926607 TCATTTTATAATTATTTTTAAAATGTTTTA
1 T-A-TTTATAATTATATTT-AAATATTTTA
926637 TATTTATA
1 TATTTATA
926645 TAAATTTTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
26 1 0.03
27 1 0.03
28 11 0.35
29 9 0.29
30 9 0.29
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (27 bp):
TATTTATAATTATATTTAAATATTTTA
Found at i:928525 original size:10 final size:10
Alignment explanation
Indices: 928510--928584 Score: 61
Period size: 10 Copynumber: 7.8 Consensus size: 10
928500 AATTACCCTA
928510 ATATATAAAT
1 ATATATAAAT
*
928520 ATATATATAT
1 ATATATAAAT
*
928530 ATAATATGAAT
1 AT-ATATAAAT
* *
928541 TTATATTAAT
1 ATATATAAAT
928551 -TATGATAAAT
1 ATAT-ATAAAT
928561 AT-T-TAAAT
1 ATATATAAAT
928569 -T-TATAAAT
1 ATATATAAAT
928577 ATATATAA
1 ATATATAA
928585 TTTATGAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
7 2 0.04
8 10 0.19
9 4 0.08
10 29 0.55
11 8 0.15
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (10 bp):
ATATATAAAT
Found at i:928936 original size:22 final size:22
Alignment explanation
Indices: 928896--928938 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
928886 ATTTTTTATT
*
928896 TATTAATAATTGATTTTAAATA
1 TATTAATAATTGATATTAAATA
* *
928918 TATTAATATTTTATATTAAAT
1 TATTAATAATTGATATTAAAT
928939 TACTCATATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TATTAATAATTGATATTAAATA
Done.