Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 40 of 129
Found at i:8193280 original size:24 final size:26
Alignment explanation
Indices: 8193253--8193320 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 26
8193243 ATAGGCTTAA
8193253 ATTTTTGTTAATTTAA-TAAATT-TT
1 ATTTTTGTTAATTTAATTAAATTATT
* *
8193277 ATTTTTATT-A-TCAATTAAATTATT
1 ATTTTTGTTAATTTAATTAAATTATT
8193301 ATTTTTGTTAGATTTGAATT
1 ATTTTTGTTA-ATTT-AATT
8193321 GTTAGTGCTG
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
22 3 0.09
23 7 0.21
24 18 0.53
26 1 0.03
27 1 0.03
28 4 0.12
ACGTcount: A:0.32, C:0.01, G:0.06, T:0.60
Consensus pattern (26 bp):
ATTTTTGTTAATTTAATTAAATTATT
Found at i:8193559 original size:22 final size:21
Alignment explanation
Indices: 8193526--8193566 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
8193516 TTTTTATTAA
* *
8193526 GAAAAGAAAAAGAGTAAAAGG
1 GAAAAAAAAAAGAGAAAAAGG
8193547 GAAAAAAATAAAGAGAAAAA
1 GAAAAAAA-AAAGAGAAAAA
8193567 ATGGGGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.05
Consensus pattern (21 bp):
GAAAAAAAAAAGAGAAAAAGG
Found at i:8193590 original size:23 final size:23
Alignment explanation
Indices: 8193550--8193600 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
8193540 TAAAAGGGAA
* * *
8193550 AAAAATAAAGAGAAAAAATGGGG
1 AAAAATAAAGAAAAAAAATAGAG
8193573 AAAAATAAA-AAAATAAAATAGAG
1 AAAAATAAAGAAAA-AAAATAGAG
8193596 AAAAA
1 AAAAA
8193601 GGAAAAAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 3 0.12
23 21 0.88
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.10
Consensus pattern (23 bp):
AAAAATAAAGAAAAAAAATAGAG
Found at i:8193615 original size:32 final size:31
Alignment explanation
Indices: 8193530--8193617 Score: 81
Period size: 31 Copynumber: 2.8 Consensus size: 31
8193520 TATTAAGAAA
* *
8193530 AGAAAAAGAGTAAAAGGGAAAAAAATAAAGAG
1 AGAAAAAG-GAAAAAAGGAAAAAAATAAAGAG
* * *
8193562 A-AAAAATGGGGAAAAA-TAAAAAAATAAAATAG
1 AGAAAAA--GGAAAAAAGGAAAAAAAT-AAAGAG
8193594 AGAAAAAGGAAAAAAGGAAAAAAA
1 AGAAAAAGGAAAAAAGGAAAAAAA
8193618 AAGGGGGAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
31 20 0.44
32 19 0.42
33 6 0.13
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (31 bp):
AGAAAAAGGAAAAAAGGAAAAAAATAAAGAG
Found at i:8193619 original size:29 final size:30
Alignment explanation
Indices: 8193581--8193637 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
8193571 GGAAAAATAA
*
8193581 AAAAATAAAATAGAGAAAAAGGAAAAAAGG
1 AAAAATAAAAGAGAGAAAAAGGAAAAAAGG
* * *
8193611 AAAAA-AAAAGGGGGAAAATGGAAAAAA
1 AAAAATAAAAGAGAGAAAAAGGAAAAAA
8193638 TGTTTAAGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 18 0.78
30 5 0.22
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (30 bp):
AAAAATAAAAGAGAGAAAAAGGAAAAAAGG
Found at i:8194077 original size:64 final size:65
Alignment explanation
Indices: 8193952--8194079 Score: 186
Period size: 64 Copynumber: 2.0 Consensus size: 65
8193942 TTGGGAATAA
* *
8193952 CCACTTCCAAGATAAATTCCTTGTCAGACTACATAAATATATTTATATATATAATTCTACATATG
1 CCACTTCCAAGATAAATTCCTTATCAGACTACATAAATATATATATATATATAATTCTACATATG
* ** * *
8194017 CCACTTCCAAGATAAATTCCTTATCGGA-TATTTATATATATATATATATATAATTTTACATAT
1 CCACTTCCAAGATAAATTCCTTATCAGACTACATAAATATATATATATATATAATTCTACATAT
8194080 ACTTTTTGTT
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
64 30 0.54
65 26 0.46
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.40
Consensus pattern (65 bp):
CCACTTCCAAGATAAATTCCTTATCAGACTACATAAATATATATATATATATAATTCTACATATG
Found at i:8194163 original size:29 final size:29
Alignment explanation
Indices: 8194130--8194200 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 29
8194120 TTTTATTTAG
*
8194130 ATAAATTTTTATATTTTTA-TTGTATCAAA
1 ATAAATTTTTA-ATTTTTACTTGCATCAAA
*
8194159 ATAAATTTTTAATTTTTACTTTGCATCTAA
1 ATAAATTTTTAATTTTTAC-TTGCATCAAA
*
8194189 ATAAACTTTTAA
1 ATAAATTTTTAA
8194201 ACTTTAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.19
29 11 0.30
30 19 0.51
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (29 bp):
ATAAATTTTTAATTTTTACTTGCATCAAA
Found at i:8194425 original size:62 final size:61
Alignment explanation
Indices: 8194357--8194498 Score: 153
Period size: 62 Copynumber: 2.3 Consensus size: 61
8194347 ATTACTCTCA
*** * * * *
8194357 TATTATAATTATGAAAAT-ACCTCTTA-TTTTATAATTAGTTAAAATTACTATACTATCTTTTC
1 TATTATAATTATGAAAATGACC-C-TACTACCATAATTAATAAAAATTACTATAATATC-CTTC
* *
8194419 TATTATAATTATAAAAATGTCCCTACTACCATAATTAATAAAAATTACTATAATATCCTTC
1 TATTATAATTATGAAAATGACCCTACTACCATAATTAATAAAAATTACTATAATATCCTTC
*
8194480 TATCATAATTATGAAAATG
1 TATTATAATTATGAAAATG
8194499 TTTTTTTATC
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
61 22 0.33
62 43 0.64
63 2 0.03
ACGTcount: A:0.42, C:0.13, G:0.04, T:0.42
Consensus pattern (61 bp):
TATTATAATTATGAAAATGACCCTACTACCATAATTAATAAAAATTACTATAATATCCTTC
Found at i:8197444 original size:2 final size:2
Alignment explanation
Indices: 8197437--8197461 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8197427 TTGCTAGTGT
8197437 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8197462 TTGTTAATAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8198945 original size:30 final size:30
Alignment explanation
Indices: 8198873--8198948 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 30
8198863 TATATTTTTA
8198873 TTGTATCAAAATAAATTCTTAAATTTAACT
1 TTGTATCAAAATAAATTCTTAAATTTAACT
* *
8198903 TTGCATCTAAATAAACTT-TTAAATTTTAA-T
1 TTGTATCAAAATAAA-TTCTTAAA-TTTAACT
8198933 TTGTATTC-AAATAAAT
1 TTGTA-TCAAAATAAAT
8198949 ACTATAATTG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
29 1 0.03
30 30 0.75
31 9 0.22
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (30 bp):
TTGTATCAAAATAAATTCTTAAATTTAACT
Found at i:8199621 original size:3 final size:3
Alignment explanation
Indices: 8199606--8199671 Score: 79
Period size: 3 Copynumber: 23.7 Consensus size: 3
8199596 TCATTTCACT
* *
8199606 ATA ATA TTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8199653 A-A A-A ATA A-A ATA A-A ATA AT
1 ATA ATA ATA ATA ATA ATA ATA AT
8199672 TATTAATAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 9 0.16
3 46 0.84
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8201210 original size:17 final size:17
Alignment explanation
Indices: 8201188--8201234 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
8201178 CTAAAACCCT
8201188 TAAAATCCAAAATCTCC
1 TAAAATCCAAAATCTCC
8201205 TAAAATCC-AAA-CTCC
1 TAAAATCCAAAATCTCC
8201220 TAAAAATCCAAAATC
1 T-AAAATCCAAAATC
8201235 CTTTAAATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 5 0.19
16 10 0.37
17 11 0.41
18 1 0.04
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (17 bp):
TAAAATCCAAAATCTCC
Found at i:8201256 original size:33 final size:34
Alignment explanation
Indices: 8201181--8201257 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 34
8201171 TAAGTTTCTA
8201181 AAACCCT-T-AAAATCCAAAATCTCCTAAAATCC
1 AAACCCTCTAAAAATCCAAAATCTCCTAAAATCC
* * * *
8201213 AAACTC-CTAAAAATCCAAAATC-CTTTAAATTC
1 AAACCCTCTAAAAATCCAAAATCTCCTAAAATCC
8201245 AAACCCTCTAAAA
1 AAACCCTCTAAAA
8201258 TTTGAAACCC
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
32 18 0.49
33 19 0.51
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (34 bp):
AAACCCTCTAAAAATCCAAAATCTCCTAAAATCC
Found at i:8201258 original size:32 final size:32
Alignment explanation
Indices: 8201181--8201258 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
8201171 TAAGTTTCTA
8201181 AAACCCTTAAAATCCAAAATCTCCTAAAATCC
1 AAACCCTTAAAATCCAAAATCTCCTAAAATCC
* * * *
8201213 AAACTCCTAAAAATCCAAAATC-CTTTAAATTC
1 AAAC-CCTTAAAATCCAAAATCTCCTAAAATCC
8201245 AAACCCTCTAAAAT
1 AAACCCT-TAAAAT
8201259 TTGAAACCCC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
31 3 0.08
32 20 0.51
33 16 0.41
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.24
Consensus pattern (32 bp):
AAACCCTTAAAATCCAAAATCTCCTAAAATCC
Found at i:8201286 original size:17 final size:17
Alignment explanation
Indices: 8201188--8201302 Score: 69
Period size: 17 Copynumber: 6.9 Consensus size: 17
8201178 CTAAAACCCT
* *
8201188 TAAAATCCAAAATCTCC
1 TAAAATTCAAAATCCCC
* *
8201205 TAAAA-TCCAAA-CTCC
1 TAAAATTCAAAATCCCC
* *
8201220 TAAAAATCCAAAAT-CCT
1 T-AAAATTCAAAATCCCC
*
8201237 TTAAATTC-AAA-CCCTC
1 TAAAATTCAAAATCCC-C
** *
8201253 TAAAATTTGAAACCCCC
1 TAAAATTCAAAATCCCC
8201270 TAAAATTCAAAATCCCC
1 TAAAATTCAAAATCCCC
* *
8201287 AAAAATTCGAAATCCC
1 TAAAATTCAAAATCCC
8201303 AAATCTTAAA
Statistics
Matches: 75, Mismatches: 16, Indels: 14
0.71 0.15 0.13
Matches are distributed among these distances:
15 10 0.13
16 19 0.25
17 43 0.57
18 3 0.04
ACGTcount: A:0.46, C:0.29, G:0.02, T:0.23
Consensus pattern (17 bp):
TAAAATTCAAAATCCCC
Found at i:8201356 original size:16 final size:16
Alignment explanation
Indices: 8201161--8201377 Score: 75
Period size: 16 Copynumber: 13.9 Consensus size: 16
8201151 TTTTTTAATT
**
8201161 TTCAAAAT-CCTAAGT
1 TTCAAAATCCCTAAAA
8201176 TTCTAAAA-CCCTTAAAA
1 TTC-AAAATCCC-TAAAA
*
8201193 TCCAAAATCTCCTAAAA
1 TTCAAAATC-CCTAAAA
* *
8201210 TCCAAACT-CCTAAAAA
1 TTCAAAATCCCT-AAAA
* * *
8201226 TCCAAAATCCTTTAAA
1 TTCAAAATCCCTAAAA
*
8201242 TTC-AAACCCTCTAAAA
1 TTCAAAATCC-CTAAAA
* **
8201258 TTTGAAACCCCCTAAAA
1 -TTCAAAATCCCTAAAA
*
8201275 TTCAAAATCCCCAAAAA
1 TTCAAAAT-CCCTAAAA
*
8201292 TTCGAAATCCC--AAA
1 TTCAAAATCCCTAAAA
* * *
8201306 -TCTTAAA-CTCTTAAA
1 TTC-AAAATCCCTAAAA
* *
8201321 -TCCAAA-CCCCAAAA
1 TTCAAAATCCCTAAAA
*
8201335 TCCAAAATCCCTAAAA
1 TTCAAAATCCCTAAAA
*
8201351 TTC-AAA-CCCTTAAA
1 TTCAAAATCCCTAAAA
8201365 -TCAAAA-CCCTAAA
1 TTCAAAATCCCTAAA
8201378 CCTTAAAACC
Statistics
Matches: 155, Mismatches: 30, Indels: 35
0.70 0.14 0.16
Matches are distributed among these distances:
13 6 0.04
14 30 0.19
15 23 0.15
16 47 0.30
17 42 0.27
18 7 0.05
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (16 bp):
TTCAAAATCCCTAAAA
Found at i:8201379 original size:21 final size:21
Alignment explanation
Indices: 8201358--8201398 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8201348 AAATTCAAAC
*
8201358 CCTT-AAATCAAAACCCTAAA
1 CCTTAAAACCAAAACCCTAAA
*
8201378 CCTTAAAACCCAAACCCTAAA
1 CCTTAAAACCAAAACCCTAAA
8201399 ATCTCCAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (21 bp):
CCTTAAAACCAAAACCCTAAA
Found at i:8201379 original size:51 final size:51
Alignment explanation
Indices: 8201324--8201430 Score: 137
Period size: 51 Copynumber: 2.1 Consensus size: 51
8201314 TCTTAAATCC
*
8201324 AAACCCCAAAATCCAAAATCCCTAAAAT-T-CAAACCCTTAAATCAAAACCCT
1 AAACCCCAAAA-CCAAAA-CCCTAAAATCTCCAAACCCTAAAATCAAAACCCT
** * *
8201375 AAACCTTAAAACCCAAACCCTAAAATCTCCAAACTCTAAAATCAAAACCCT
1 AAACCCCAAAACCAAAACCCTAAAATCTCCAAACCCTAAAATCAAAACCCT
8201426 AAACC
1 AAACC
8201431 TTTCATATCC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
49 9 0.18
50 6 0.12
51 34 0.69
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.17
Consensus pattern (51 bp):
AAACCCCAAAACCAAAACCCTAAAATCTCCAAACCCTAAAATCAAAACCCT
Found at i:8201387 original size:15 final size:14
Alignment explanation
Indices: 8201367--8201428 Score: 61
Period size: 14 Copynumber: 4.2 Consensus size: 14
8201357 CCCTTAAATC
*
8201367 AAAACCCTAAACCTT
1 AAAACCC-AAACCCT
8201382 AAAACCCAAACCCT
1 AAAACCCAAACCCT
*
8201396 AAAATCTCCAAACTCT
1 AAAA-C-CCAAACCCT
* *
8201412 AAAATCAAAACCCT
1 AAAACCCAAACCCT
8201426 AAA
1 AAA
8201429 CCTTTCATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
14 20 0.50
15 8 0.20
16 12 0.30
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAACCCAAACCCT
Found at i:8201408 original size:16 final size:15
Alignment explanation
Indices: 8201318--8201428 Score: 59
Period size: 14 Copynumber: 7.1 Consensus size: 15
8201308 TTAAACTCTT
*
8201318 AAAT-CCAAACCCCA
1 AAATCCCAAACCCTA
*
8201332 AAATCCAAAATCCCTA
1 AAATCCCAAA-CCCTA
*
8201348 AAAT-TCAAACCCTTAAA
1 AAATCCCAAACCC-T--A
* *
8201365 TCAAAACCCTAAACCTTA
1 --AAATCCC-AAACCCTA
8201383 AAA-CCCAAACCCTA
1 AAATCCCAAACCCTA
*
8201397 AAATCTCCAAACTCTA
1 AAATC-CCAAACCCTA
*
8201413 AAAT-CAAAACCCTA
1 AAATCCCAAACCCTA
8201427 AA
1 AA
8201429 CCTTTCATAT
Statistics
Matches: 75, Mismatches: 11, Indels: 22
0.69 0.10 0.20
Matches are distributed among these distances:
14 27 0.36
15 12 0.16
16 24 0.32
17 1 0.01
18 1 0.01
19 3 0.04
20 2 0.03
21 5 0.07
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.17
Consensus pattern (15 bp):
AAATCCCAAACCCTA
Found at i:8201428 original size:14 final size:14
Alignment explanation
Indices: 8201318--8201377 Score: 66
Period size: 14 Copynumber: 4.1 Consensus size: 14
8201308 TTAAACTCTT
*
8201318 AAATCCAAACCCCA
1 AAATCCAAACCCTA
8201332 AAATCCAAAATCCCTA
1 AAATCC-AAA-CCCTA
* *
8201348 AAATTCAAACCCTT
1 AAATCCAAACCCTA
*
8201362 AAATCAAAACCCTA
1 AAATCCAAACCCTA
8201376 AA
1 AA
8201378 CCTTAAAACC
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
14 23 0.61
15 6 0.16
16 9 0.24
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.17
Consensus pattern (14 bp):
AAATCCAAACCCTA
Found at i:8211916 original size:25 final size:26
Alignment explanation
Indices: 8211880--8211933 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
8211870 TTCTAAAATC
8211880 ATTATAACAATACCCTT-ATATTATA
1 ATTATAACAATACCCTTCATATTATA
* *
8211905 ATTATGAA-AATACCTTTCATTTTATA
1 ATTAT-AACAATACCCTTCATATTATA
8211931 ATT
1 ATT
8211934 GGCTAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 13 0.52
26 12 0.48
ACGTcount: A:0.41, C:0.13, G:0.02, T:0.44
Consensus pattern (26 bp):
ATTATAACAATACCCTTCATATTATA
Found at i:8217989 original size:2 final size:2
Alignment explanation
Indices: 8217982--8218013 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8217972 ACGTAAGAAC
8217982 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8218014 CAGAGTCTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8220724 original size:52 final size:52
Alignment explanation
Indices: 8220646--8220802 Score: 246
Period size: 52 Copynumber: 3.0 Consensus size: 52
8220636 TATAACCATA
* *
8220646 CAAACTTGCCCATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTACCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGCAAGT
* *
8220698 CAAACTTACCTATTAAGAATCCCTTTCTTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTACCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGCAAGT
8220750 CAAACTTACCTATTAAGAATCCTCTTT-CTCTTAGAATTCTTCAT-TTGCAAGT
1 CAAACTTACCTATTAAGAATCC-CTTTCCTCTTAGAATTCTTC-TCTTGCAAGT
8220802 C
1 C
8220803 TTCTTATCAA
Statistics
Matches: 97, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
52 92 0.95
53 5 0.05
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.39
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGCAAGT
Found at i:8220845 original size:11 final size:11
Alignment explanation
Indices: 8220827--8220869 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
8220817 GCAATATCTG
*
8220827 ACAAATCTCAA
1 ACAAATCTCTA
*
8220838 ATAAATCTCTA
1 ACAAATCTCTA
8220849 ACAAATCTCTA
1 ACAAATCTCTA
8220860 ACAAATCTCT
1 ACAAATCTCT
8220870 TATGGGATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.28
Consensus pattern (11 bp):
ACAAATCTCTA
Found at i:8221126 original size:23 final size:25
Alignment explanation
Indices: 8221100--8221146 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
8221090 CCCATGTCTC
8221100 AAACC-AT-GCACTTCTCACATCTA
1 AAACCTATAGCACTTCTCACATCTA
* *
8221123 AAACCTTTAGCTCTTCTCACATCT
1 AAACCTATAGCACTTCTCACATCT
8221147 CGAACTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 1 0.05
25 14 0.70
ACGTcount: A:0.30, C:0.34, G:0.04, T:0.32
Consensus pattern (25 bp):
AAACCTATAGCACTTCTCACATCTA
Found at i:8221161 original size:25 final size:25
Alignment explanation
Indices: 8221110--8221171 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
8221100 AAACCATGCA
* *
8221110 CTTCTCACATCTAAAACCTTTAGCT
1 CTTCTCACATCTCAAACCTTTAACT
*
8221135 CTTCTCACATCTCGAA-CTTTCAACT
1 CTTCTCACATCTCAAACCTTT-AACT
8221160 CTT-TCACATCTC
1 CTTCTCACATCTC
8221172 TTTCACATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 13 0.39
25 20 0.61
ACGTcount: A:0.24, C:0.35, G:0.03, T:0.37
Consensus pattern (25 bp):
CTTCTCACATCTCAAACCTTTAACT
Found at i:8221231 original size:31 final size:30
Alignment explanation
Indices: 8221196--8221303 Score: 144
Period size: 31 Copynumber: 3.5 Consensus size: 30
8221186 CTTTCAGTTT
* *
8221196 TGATACCACTTGTTGAGAAATACCATAGCTC
1 TGATACCATTTGTTGAG-AATACCACAGCTC
* *
8221227 TGATACCATTTGTTAGGGAACACCACAGCTC
1 TGATACCATTTGTT-GAGAATACCACAGCTC
*
8221258 TGATACCATTTGTTGAGGATCACCACAGCTC
1 TGATACCATTTGTTGAGAAT-ACCACAGCTC
8221289 TGATACCATTTGTTG
1 TGATACCATTTGTTG
8221304 GGCTAAAAGC
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
30 3 0.04
31 63 0.93
32 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (30 bp):
TGATACCATTTGTTGAGAATACCACAGCTC
Found at i:8224009 original size:55 final size:58
Alignment explanation
Indices: 8223949--8224087 Score: 203
Period size: 58 Copynumber: 2.4 Consensus size: 58
8223939 TAGTATAAAA
* * *
8223949 AAAAATTGATACTTTTAACTTTTTCTC-AAAATATTTTTTA-AAA-CTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCCTCGAAAATATTTTTTAGAAAGCTTATTTTCAAG
* *
8224004 GAAAATTGATGCTTTCAACTTTTCCTCGAAAATATTTTTTAGAAAGCTTATTTTCAAG
1 AAAAATTGATACTTTCAACTTTTCCTCGAAAATATTTTTTAGAAAGCTTATTTTCAAG
*
8224062 AAAAATTAATACTTTCAACTTTTCCT
1 AAAAATTGATACTTTCAACTTTTCCT
8224088 TAAAAAAAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
55 23 0.32
56 13 0.18
57 3 0.04
58 34 0.47
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (58 bp):
AAAAATTGATACTTTCAACTTTTCCTCGAAAATATTTTTTAGAAAGCTTATTTTCAAG
Found at i:8227837 original size:22 final size:22
Alignment explanation
Indices: 8227811--8227855 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
8227801 TAATTATAAT
8227811 TTAAAATTATATAT-AAGATTTA
1 TTAAAATTATATATGAA-ATTTA
*
8227833 TTAAAATTTTATATGAAATTTA
1 TTAAAATTATATATGAAATTTA
8227855 T
1 T
8227856 GTTTATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (22 bp):
TTAAAATTATATATGAAATTTA
Found at i:8228563 original size:26 final size:26
Alignment explanation
Indices: 8228527--8228577 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
8228517 GAACATTGAT
8228527 TCAAAGAAACTTATTCTAAAAATTAC
1 TCAAAGAAACTTATTCTAAAAATTAC
8228553 TCAAAGAAACTTATTCTAAAAATTA
1 TCAAAGAAACTTATTCTAAAAATTA
8228578 ACTAACAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.51, C:0.14, G:0.04, T:0.31
Consensus pattern (26 bp):
TCAAAGAAACTTATTCTAAAAATTAC
Found at i:8230653 original size:10 final size:11
Alignment explanation
Indices: 8230627--8230719 Score: 55
Period size: 11 Copynumber: 7.9 Consensus size: 11
8230617 AATTAAGTGT
*
8230627 ATAAATTTTTA
1 ATAAAATTTTA
*
8230638 A-AAAAATTTA
1 ATAAAATTTTA
8230648 ATAAAATTTTA
1 ATAAAATTTTA
8230659 AT-AAATTTTGA
1 ATAAAATTTT-A
*
8230670 TATATATATTTTTAA
1 -ATA-A-AATTTT-A
8230685 ATAAATATTTTTA
1 ATAAA-A-TTTTA
* *
8230698 ATAATAATATTG
1 ATAA-AATTTTA
8230710 ATAAAATTTT
1 ATAAAATTTT
8230720 TACCATTGAA
Statistics
Matches: 64, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
10 15 0.23
11 17 0.27
12 10 0.16
13 7 0.11
14 9 0.14
15 6 0.09
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.48
Consensus pattern (11 bp):
ATAAAATTTTA
Found at i:8232303 original size:83 final size:83
Alignment explanation
Indices: 8232205--8232371 Score: 298
Period size: 83 Copynumber: 2.0 Consensus size: 83
8232195 TTGTACATAT
8232205 ATATATATATATATATACATGCACACATGCATGTGAATTAAATATTTATAGGAGAGAAATGAGTT
1 ATATATATATATATATACATGCACACATGCATGTGAATTAAATATTTATAGGAGAGAAATGAGTT
8232270 GAAAAATAAAAAAGTGGA
66 GAAAAATAAAAAAGTGGA
* *
8232288 ATATATATATATATATATATGCACACATGCATGTGAATTAAATATTTATGGGAGAGAAATGAGTT
1 ATATATATATATATATACATGCACACATGCATGTGAATTAAATATTTATAGGAGAGAAATGAGTT
* *
8232353 GAAAAATCAAATAGTGGA
66 GAAAAATAAAAAAGTGGA
8232371 A
1 A
8232372 CTTTTTGTTT
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 80 1.00
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.30
Consensus pattern (83 bp):
ATATATATATATATATACATGCACACATGCATGTGAATTAAATATTTATAGGAGAGAAATGAGTT
GAAAAATAAAAAAGTGGA
Found at i:8237289 original size:14 final size:14
Alignment explanation
Indices: 8237270--8237296 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8237260 ATCAACAATG
8237270 GATGAAAAAAAAAT
1 GATGAAAAAAAAAT
8237284 GATGAAAAAAAAA
1 GATGAAAAAAAAA
8237297 AAGAAGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (14 bp):
GATGAAAAAAAAAT
Found at i:8237292 original size:15 final size:15
Alignment explanation
Indices: 8237270--8237308 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
8237260 ATCAACAATG
*
8237270 GATG-AAAAAAAAAT
1 GATGAAAAAAAAAAA
8237284 GATGAAAAAAAAAAA
1 GATGAAAAAAAAAAA
*
8237299 GAAGAAAAAA
1 GATGAAAAAA
8237309 GGAAAAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (15 bp):
GATGAAAAAAAAAAA
Found at i:8237314 original size:16 final size:18
Alignment explanation
Indices: 8237294--8237338 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
8237284 GATGAAAAAA
8237294 AAAAAGAAGAAAAAA-G-G
1 AAAAA-AAGAAAAAATGAG
8237311 AAAAAAAGAAAAAATGAG
1 AAAAAAAGAAAAAATGAG
8237329 AAAAAAAGAA
1 AAAAAAAGAA
8237339 GGAAAAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.35
17 6 0.23
18 11 0.42
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (18 bp):
AAAAAAAGAAAAAATGAG
Found at i:8237323 original size:30 final size:32
Alignment explanation
Indices: 8237289--8237364 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 32
8237279 AAAATGATGA
*
8237289 AAAAAAAAAAGAAGAAAA-AAGGAAAAAA-AG
1 AAAAAAAAAAGAAAAAAAGAAGGAAAAAAGAG
**
8237319 -AAAAAATGAGAAAAAAAGAAGGAAAAAATGAG
1 AAAAAAAAAAGAAAAAAAGAAGGAAAAAA-GAG
8237351 AAAATGAAAAAAGA
1 AAAA--AAAAAAGA
8237365 GATCCAAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
29 14 0.40
30 10 0.29
32 2 0.06
33 3 0.09
35 6 0.17
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (32 bp):
AAAAAAAAAAGAAAAAAAGAAGGAAAAAAGAG
Found at i:8237333 original size:37 final size:37
Alignment explanation
Indices: 8237292--8237366 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 37
8237282 ATGATGAAAA
8237292 AAAAAAAGAA-GAAAAAAGGAAAAAAAGAAAAAATGAG
1 AAAAAAAGAAGGAAAAAAGGAAAAAAAGAAAAAA-GAG
* * *
8237329 AAAAAAAGAAGGAAAAAATGAGAAAATGAAAAAAGAG
1 AAAAAAAGAAGGAAAAAAGGAAAAAAAGAAAAAAGAG
8237366 A
1 A
8237367 TCCAAATTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 14 0.41
38 20 0.59
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (37 bp):
AAAAAAAGAAGGAAAAAAGGAAAAAAAGAAAAAAGAG
Found at i:8237346 original size:22 final size:21
Alignment explanation
Indices: 8237292--8237354 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 21
8237282 ATGATGAAAA
8237292 AAAAAAAGAAGAAAAAA-G-G
1 AAAAAAAGAAGAAAAAATGAG
8237311 --AAAAA-AAGAAAAAATGAG
1 AAAAAAAGAAGAAAAAATGAG
8237329 AAAAAAAGAAGGAAAAAATGAG
1 AAAAAAAGAA-GAAAAAATGAG
8237351 AAAA
1 AAAA
8237355 TGAAAAAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
16 9 0.24
17 6 0.16
18 1 0.03
20 5 0.13
21 2 0.05
22 15 0.39
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (21 bp):
AAAAAAAGAAGAAAAAATGAG
Found at i:8237353 original size:10 final size:9
Alignment explanation
Indices: 8237293--8237354 Score: 56
Period size: 10 Copynumber: 6.4 Consensus size: 9
8237283 TGATGAAAAA
8237293 AAAAAAGAAG
1 AAAAAAG-AG
8237303 AAAAAAG-G
1 AAAAAAGAG
8237311 AAAAAA-AG
1 AAAAAAGAG
8237319 AAAAAATGAG
1 AAAAAA-GAG
8237329 AAAAAAAGAAGG
1 -AAAAAAG-A-G
8237341 AAAAAATGAG
1 AAAAAA-GAG
8237351 AAAA
1 AAAA
8237355 TGAAAAAAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
8 14 0.31
10 15 0.33
11 14 0.31
12 2 0.04
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.03
Consensus pattern (9 bp):
AAAAAAGAG
Found at i:8238609 original size:42 final size:41
Alignment explanation
Indices: 8238543--8238989 Score: 569
Period size: 42 Copynumber: 11.0 Consensus size: 41
8238533 GTCTAGGAGT
*
8238543 ATTTACTTTTCCAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
* *
8238583 ATTTATTTTTTTAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTA-CTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
8238625 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTGAGAGGAGCAA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGC-A
8238666 ATTTTAC-TTTCAAAGTCGT-GTGCCTCTG-TTAGA-GAGCA
1 A-TTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
8238704 ATTTACTTTTCCAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
* *
8238744 ATTTATTTTTTTAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTA-CTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
8238786 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
8238827 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
8238869 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
8238911 ATTTACTTTCCAAAGTCCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGT-CGTGGTGCCTCTGTTTAGAGGAGCA
* * *
8238951 ATTTAC-TTTCAAAGTCGTTGAGTCTCTGTTTAGAGGAGC
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
8238990 TTCGGCCAAA
Statistics
Matches: 368, Mismatches: 21, Indels: 36
0.87 0.05 0.08
Matches are distributed among these distances:
37 5 0.01
38 20 0.05
39 21 0.06
40 91 0.25
41 88 0.24
42 143 0.39
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (41 bp):
ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:8238681 original size:82 final size:80
Alignment explanation
Indices: 8238543--8238989 Score: 559
Period size: 82 Copynumber: 5.5 Consensus size: 80
8238533 GTCTAGGAGT
* * * *
8238543 ATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTTTAAAGTCGTGGTGC
1 ATTTACTTTTCAAAG-TCGTTGCCTCTGTTGAGAGGAGCAATTT-TATTTTCAAAGTCGTGGTGC
8238608 CTCTGTTTAGAGGAGCA
64 CTCTGTTTAGAGGAGCA
*
8238625 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTGAGAGGAGCAAATTTTACTTTCAAAGTCGT-GTGC
1 ATTTACTTTTCAAAG-TCGTTGCCTCTGTTGAGAGGAGC-AATTTTATTTTCAAAGTCGTGGTGC
8238689 CTCTG-TTAGA-GAGCA
64 CTCTGTTTAGAGGAGCA
* * * *
8238704 ATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTTTAAAGTCGTGGTGC
1 ATTTACTTTTCAAAG-TCGTTGCCTCTGTTGAGAGGAGCAATTT-TATTTTCAAAGTCGTGGTGC
8238769 CTCTGTTTAGAGGAGCA
64 CTCTGTTTAGAGGAGCA
8238786 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAA-TTTATTTTTCCAAAGTCGTGGT
1 ATTTACTTTTCAAAGTCGT--TGCCTCTGTTGAGAGGAGCAATTTTA-TTTT-CAAAGTCGTGGT
*
8238850 GCCTCTGTTGAGAGGAGCA
62 GCCTCTGTTTAGAGGAGCA
* *
8238869 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAA-TTTACTTTCCAAAGTCCGT--
1 ATTTACTTTT-CAAAGTCGT--TGCCTCTGTTGAGAGGAGCAATTTTA-TTTTCAAAGT-CGTGG
8238931 TGCCTCTGTTTAGAGGAGCA
61 TGCCTCTGTTTAGAGGAGCA
* *
8238951 ATTTAC-TTTCAAAGTCGTTGAGTCTCTGTTTAGAGGAGC
1 ATTTACTTTTCAAAGTCGTT--GCCTCTGTTGAGAGGAGC
8238990 TTCGGCCAAA
Statistics
Matches: 330, Mismatches: 22, Indels: 28
0.87 0.06 0.07
Matches are distributed among these distances:
78 6 0.02
79 54 0.16
80 39 0.12
81 22 0.07
82 98 0.30
83 69 0.21
84 42 0.13
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (80 bp):
ATTTACTTTTCAAAGTCGTTGCCTCTGTTGAGAGGAGCAATTTTATTTTCAAAGTCGTGGTGCCT
CTGTTTAGAGGAGCA
Found at i:8239018 original size:16 final size:16
Alignment explanation
Indices: 8238997--8239065 Score: 95
Period size: 16 Copynumber: 4.2 Consensus size: 16
8238987 AGCTTCGGCC
8238997 AAAAAAAAAAACAAAA
1 AAAAAAAAAAACAAAA
8239013 AAAAAAAAAAACAAAA
1 AAAAAAAAAAACAAAA
* *
8239029 AAACAAAAAAATAAAA
1 AAAAAAAAAAACAAAA
8239045 AAAAATCAAAAAA-AAAA
1 AAAAA--AAAAAACAAAA
8239062 AAAA
1 AAAA
8239066 TCAAAAATGA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
16 34 0.71
17 8 0.17
18 6 0.12
ACGTcount: A:0.91, C:0.06, G:0.00, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAAACAAAA
Found at i:8239072 original size:1 final size:1
Alignment explanation
Indices: 8238997--8239065 Score: 84
Period size: 1 Copynumber: 69.0 Consensus size: 1
8238987 AGCTTCGGCC
* * * * **
8238997 AAAAAAAAAAACAAAAAAAAAAAAAAACAAAAAAACAAAAAAATAAAAAAAAATCAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
8239062 AAAA
1 AAAA
8239066 TCAAAAATGA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.91, C:0.06, G:0.00, T:0.03
Consensus pattern (1 bp):
A
Found at i:8239288 original size:16 final size:15
Alignment explanation
Indices: 8239267--8239296 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
8239257 ATTCTTTATT
8239267 TTTTATTTTTATTTTA
1 TTTTATTTTT-TTTTA
8239283 TTTTATTTTTTTTT
1 TTTTATTTTTTTTT
8239297 CTCTCTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTATTTTTTTTTA
Found at i:8239992 original size:20 final size:19
Alignment explanation
Indices: 8239950--8239992 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
8239940 CCGGCCAACT
* *
8239950 TCCGGCGAAATTTCTAGAT
1 TCCGGCGAAATTTCCAGAA
*
8239969 TCCGGCGACATTTTCCAGAA
1 TCCGGCGA-AATTTCCAGAA
8239989 TCCG
1 TCCG
8239993 ACGTCGGTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (19 bp):
TCCGGCGAAATTTCCAGAA
Found at i:8240351 original size:12 final size:12
Alignment explanation
Indices: 8240336--8240375 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
8240326 TTTCTTTGAA
8240336 TTTTTTTTATTT
1 TTTTTTTTATTT
*
8240348 TTTTGTTTATTT
1 TTTTTTTTATTT
*
8240360 GTTTATTTTATTT
1 -TTTTTTTTATTT
8240373 TTT
1 TTT
8240376 ATTTATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.10, C:0.00, G:0.05, T:0.85
Consensus pattern (12 bp):
TTTTTTTTATTT
Found at i:8240364 original size:20 final size:20
Alignment explanation
Indices: 8240341--8240379 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
8240331 TTGAATTTTT
8240341 TTTATTTT-TTTGTTTATTTG
1 TTTATTTTATTT-TTTATTTG
8240361 TTTATTTTATTTTTTATTT
1 TTTATTTTATTTTTTATTT
8240380 ATTAAATTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.13, C:0.00, G:0.05, T:0.82
Consensus pattern (20 bp):
TTTATTTTATTTTTTATTTG
Found at i:8240376 original size:12 final size:11
Alignment explanation
Indices: 8240336--8240382 Score: 58
Period size: 11 Copynumber: 4.0 Consensus size: 11
8240326 TTTCTTTGAA
8240336 TTTTTTTTATT
1 TTTTTTTTATT
8240347 TTTTTGTTTATT
1 TTTTT-TTTATT
8240359 TGTTTATTTTATT
1 T-TTT-TTTTATT
*
8240372 TTTTATTTATT
1 TTTTTTTTATT
8240383 AAATTAGGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
11 11 0.34
12 10 0.31
13 10 0.31
14 1 0.03
ACGTcount: A:0.13, C:0.00, G:0.04, T:0.83
Consensus pattern (11 bp):
TTTTTTTTATT
Found at i:8240542 original size:65 final size:60
Alignment explanation
Indices: 8240460--8240746 Score: 420
Period size: 64 Copynumber: 4.7 Consensus size: 60
8240450 AAAATTCCAA
8240460 AAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 AAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT--AAG--AAATAAATTTCC
8240525 AAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATTTCC
1 AAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTCC
* * *
8240585 --AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC-TCAGAAATAAATTTCA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTCC
*
8240642 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTTC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT--AAG--AAATAAATTTCC
8240706 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
8240747 TCCTACAAAA
Statistics
Matches: 208, Mismatches: 6, Indels: 17
0.90 0.03 0.07
Matches are distributed among these distances:
56 1 0.00
57 48 0.23
58 5 0.02
59 40 0.19
60 13 0.06
62 4 0.02
64 51 0.25
65 46 0.22
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.33
Consensus pattern (60 bp):
AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTCC
Found at i:8240761 original size:65 final size:62
Alignment explanation
Indices: 8240460--8240762 Score: 417
Period size: 65 Copynumber: 4.9 Consensus size: 62
8240450 AAAATTCCAA
8240460 AAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 AAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC-TAAAAGAAAAATAAATTT-C
*
8240525 AAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT--TAG--AAATAAATTTC
1 AAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTAAAAGAAAAATAAATTTC
* * *
8240584 -CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT--CAG--AAATAAATTTC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTAAAAGAAAAATAAATTTC
8240641 AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTTC
1 -AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC-TAAAAGAAAAATAAA-TTTC
*
8240706 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCCTACAAAAAAAAAT
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAA-TTTTCCTA-AAAGAAAAAT
8240763 CATTCTTTTC
Statistics
Matches: 220, Mismatches: 8, Indels: 20
0.89 0.03 0.08
Matches are distributed among these distances:
57 49 0.22
58 5 0.02
59 41 0.19
60 11 0.05
62 4 0.02
64 47 0.21
65 63 0.29
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.33
Consensus pattern (62 bp):
AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTAAAAGAAAAATAAATTTC
Found at i:8241706 original size:54 final size:54
Alignment explanation
Indices: 8241624--8241726 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 54
8241614 TTTATCACTA
* * **
8241624 AATGAGAAAGAAAAAATTAATGTTTCTTCATCTTGGCTTACAAATGAAACTTCG
1 AATGAGAAAGAAAAAATCAATGTTTCTTCATCTAGAATTACAAATGAAACTTCG
8241678 AATGAGAAA-AGAAAAATCAATGTTTCTTCATCTAGAATTACAAATGAAA
1 AATGAGAAAGA-AAAAATCAATGTTTCTTCATCTAGAATTACAAATGAAA
8241727 GTTCAAATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
53 1 0.02
54 43 0.98
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.29
Consensus pattern (54 bp):
AATGAGAAAGAAAAAATCAATGTTTCTTCATCTAGAATTACAAATGAAACTTCG
Found at i:8242363 original size:13 final size:14
Alignment explanation
Indices: 8242345--8242374 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
8242335 CCTTTTCACA
8242345 TTTTTCATA-TTTC
1 TTTTTCATATTTTC
8242358 TTTTTCATATTTTC
1 TTTTTCATATTTTC
8242372 TTT
1 TTT
8242375 CTTTGTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTTCATATTTTC
Found at i:8242742 original size:10 final size:11
Alignment explanation
Indices: 8242727--8242767 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
8242717 GTTACTATAA
8242727 ATTTTTTTT-C
1 ATTTTTTTTGC
8242737 ATTTTTTTTGC
1 ATTTTTTTTGC
*
8242748 TTTTTTTTTTGC
1 -ATTTTTTTTGC
8242760 -TTTTTTTT
1 ATTTTTTTT
8242768 TACAACTCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 17 0.61
11 1 0.04
12 10 0.36
ACGTcount: A:0.05, C:0.07, G:0.05, T:0.83
Consensus pattern (11 bp):
ATTTTTTTTGC
Found at i:8242745 original size:12 final size:11
Alignment explanation
Indices: 8242728--8242768 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
8242718 TTACTATAAA
*
8242728 TTTTTTTTCAT
1 TTTTTTTTCTT
*
8242739 TTTTTTTGCTT
1 TTTTTTTTCTT
8242750 TTTTTTTTGCTT
1 TTTTTTTT-CTT
8242762 TTTTTTT
1 TTTTTTT
8242769 ACAACTCACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.02, C:0.07, G:0.05, T:0.85
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:8243868 original size:131 final size:133
Alignment explanation
Indices: 8243554--8244423 Score: 500
Period size: 139 Copynumber: 6.6 Consensus size: 133
8243544 ATAAGTTTAC
*
8243554 TGGATGAAAAATTGTATATGCAAATACATGTATGCAATACATAGT-AAAAA-AA-AATTTTCATA
1 TGGAT-AAAAA-TGTATATGCAAATACATGTATGCAATATATAGTGAAAAACAAGAA--TTCATA
** * * * *
8243616 TTCAAAACTATGTACAAAATTG-AAAGGCAAAG-TTTGCCCCAAACAAATGATATAATGTATAGA
62 TTCAAAACTATGTACAAAATTGAAAAGGCAAAGATTT-TTCCAAGCAAATAAAATAATG--TACA
* *
8243679 CAAAAATGTTTACT
124 TAAAAA----TACA
* * * * * * *
8243693 TAGATAAAAATGTATATACAAGT--A--TAT--AATGTATAAT-AATAACAAGAATCCATATTCA
1 TGGATAAAAATGTATATGCAAATACATGTATGCAATATATAGTGAAAAACAAGAATTCATATTCA
* * * * *
8243751 CAACTATGTACAAAATTGAAAATGCAAAGA-TTCTCCTAAGCCAATAAAATAATGTACATATAAA
66 AAACTATGTACAAAATTGAAAAGGCAAAGATTTTTCC-AAGCAAATAAAATAATGTACATAAAAA
8243815 -A-A
130 TACA
* * *
8243817 TGGATAAAAATGTATATGCAAATATATG-ATTGCAATATATAGTGAAAAACAAGAATTTATATCC
1 TGGATAAAAATGTATATGCAAATACATGTA-TGCAATATATAGTGAAAAACAAGAATTCATATTC
** * *
8243881 AAAACTATGTACAAAATTGAAAAGGCAAAGATTTTTCCAAGTGAATAAAATAATGAATATACAAA
65 AAAACTATGTACAAAATTGAAAAGGCAAAGATTTTTCCAAGCAAATAAAATAATG--TACATAAA
8243946 AATGTTTACA
128 AA----TACA
* *
8243956 TGGATAAAAATGTATATGTAAATGCATGTATGCAATATATAGTGAAAAACAAGAATTCATATAT-
1 TGGATAAAAATGTATATGCAAATACATGTATGCAATATATAGTGAAAAACAAGAATTCATAT-TC
* * * *
8244020 AAAACTATGTATAAAATTGAAAAGGCAAAAATTTTTCCAAACAAATGAAATAATGTACATACAAA
65 AAAACTATGTACAAAATTGAAAAGGCAAAGATTTTTCCAAGCAAATAAAATAATGTACATA-AAA
8244085 GATGTTTACA
129 -A----TACA
** * ** * *
8244095 TGGAT--GTATGTATATGCAAATACATGTATGTAATGCATAGT-------AAGAATTTATATTTA
1 TGGATAAAAATGTATATGCAAATACATGTATGCAATATATAGTGAAAAACAAGAATTCATATTCA
* * ** *** * **
8244151 CAACTATATACAAAA-CAAGAAAGGCAAAGATTGCCCCAAACAAAT-GGATAATGTACATATAAA
66 AAACTATGTACAAAATTGA-AAAGGCAAAGATTTTTCCAAGCAAATAAAATAATGTACATA-AAA
8244214 A-A-A
129 ATACA
**** *** * * * * *
8244217 T-G-TTTGCATG-A-ATGCAAATACATGTATATGATACATAGT-AACACCCAGAACTCATATTCA
1 TGGATAAAAATGTATATGCAAATACATGTATGCAATATATAGTGAAAAACAAGAATTCATATTCA
* * * * * *
8244277 CAACTATGTACAAAATTGAAAA-GCGAAAGATTTTTCTAAACAAATGAAATAATATACATACAAA
66 AAACTATGTACAAAATTGAAAAGGC-AAAGATTTTTCCAAGCAAATAAAATAATGTACATAAAAA
* *
8244341 GATA
130 TACA
** * * * * * *
8244345 TTTACATAGATGTATATGCAAATACAAGTATGCAATACATAGTG-AAAACAAAAATTCATATTCA
1 TGGATAAAAATGTATATGCAAATACATGTATGCAATATATAGTGAAAAACAAGAATTCATATTCA
*
8244409 AAACTATGCACAAAA
66 AAACTATGTACAAAA
8244424 CTAAAAAAAT
Statistics
Matches: 581, Mismatches: 104, Indels: 99
0.74 0.13 0.13
Matches are distributed among these distances:
120 26 0.04
121 2 0.00
122 6 0.01
123 1 0.00
124 20 0.03
125 3 0.01
126 48 0.08
127 14 0.02
128 4 0.01
129 17 0.03
130 65 0.11
131 101 0.17
132 83 0.14
133 12 0.02
135 1 0.00
137 44 0.08
138 9 0.02
139 124 0.21
140 1 0.00
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.28
Consensus pattern (133 bp):
TGGATAAAAATGTATATGCAAATACATGTATGCAATATATAGTGAAAAACAAGAATTCATATTCA
AAACTATGTACAAAATTGAAAAGGCAAAGATTTTTCCAAGCAAATAAAATAATGTACATAAAAAT
ACA
Found at i:8244508 original size:16 final size:16
Alignment explanation
Indices: 8244487--8244524 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
8244477 GAAAAAGTGA
*
8244487 AATGAAATAATGTATG
1 AATGAAAGAATGTATG
8244503 AATGAAAGAATGTATG
1 AATGAAAGAATGTATG
*
8244519 CATGAA
1 AATGAA
8244525 TGCAATAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.03, G:0.21, T:0.26
Consensus pattern (16 bp):
AATGAAAGAATGTATG
Found at i:8245761 original size:71 final size:70
Alignment explanation
Indices: 8245680--8245819 Score: 165
Period size: 71 Copynumber: 2.0 Consensus size: 70
8245670 TGTGCAAATA
* * ** * *
8245680 AATCATACAAATAAATATTAAT-AATCATGCAATCACACATGTAAATATATTAGGTAATCTTGCA
1 AATCAGACAAAT--ATATTAATAAATCATGCAATCAAACACATAAATATATTAGATAATCATGCA
8245744 AATAACT
64 AATAACT
* * *
8245751 AATCAGACAAATATATTAATAAAATGATGTAATTAAACACATAAATATATTAGATAATCATGCAA
1 AATCAGACAAATATATTAAT-AAATCATGCAATCAAACACATAAATATATTAGATAATCATGCAA
8245816 ATAA
65 ATAA
8245820 ATATATTAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
69 8 0.14
71 50 0.86
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.30
Consensus pattern (70 bp):
AATCAGACAAATATATTAATAAATCATGCAATCAAACACATAAATATATTAGATAATCATGCAAA
TAACT
Found at i:8245836 original size:24 final size:24
Alignment explanation
Indices: 8245791--8245860 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
8245781 AATTAAACAC
8245791 ATAAATATATTAGATAATCATGCAA
1 ATAAATATATTA-ATAATCATGCAA
*
8245816 ATAAATATATTAATAATCATGGAA
1 ATAAATATATTAATAATCATGCAA
* *
8245840 TTAAAT-TAAT-A-AATCATGCAA
1 ATAAATATATTAATAATCATGCAA
8245861 GCAAATTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 9 0.22
22 1 0.02
23 3 0.07
24 16 0.39
25 12 0.29
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (24 bp):
ATAAATATATTAATAATCATGCAA
Found at i:8245866 original size:21 final size:20
Alignment explanation
Indices: 8245824--8245879 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
8245814 AAATAAATAT
* **
8245824 ATTAATAATCATGGAATTAA
1 ATTAATAATCATGCAAGCAA
8245844 ATTAATAAATCATGCAAGCAA
1 ATTAAT-AATCATGCAAGCAA
*
8245865 ATTAA-ATTCATGCAA
1 ATTAATAATCATGCAA
8245880 ATGTATTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 9 0.29
20 6 0.19
21 16 0.52
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (20 bp):
ATTAATAATCATGCAAGCAA
Found at i:8245966 original size:26 final size:27
Alignment explanation
Indices: 8245931--8245984 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
8245921 TTAATTTTGC
8245931 AAAAAAATAAATACCATA-CAA-TAAAT
1 AAAAAAAT-AATACCATAGCAATTAAAT
*
8245957 AAAAAAATAATACTATAGCAATTAAAT
1 AAAAAAATAATACCATAGCAATTAAAT
8245984 A
1 A
8245985 TTATAAAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 8 0.32
26 11 0.44
27 6 0.24
ACGTcount: A:0.67, C:0.09, G:0.02, T:0.22
Consensus pattern (27 bp):
AAAAAAATAATACCATAGCAATTAAAT
Found at i:8246442 original size:12 final size:12
Alignment explanation
Indices: 8246425--8246468 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
8246415 ATAAATTTTA
8246425 GAATCCAAAATT
1 GAATCCAAAATT
*
8246437 GAATCCAAAATC
1 GAATCCAAAATT
** *
8246449 GAATATAAAAGT
1 GAATCCAAAATT
8246461 GAATCCAA
1 GAATCCAA
8246469 GATTTTCTAC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.52, C:0.16, G:0.11, T:0.20
Consensus pattern (12 bp):
GAATCCAAAATT
Found at i:8247596 original size:21 final size:21
Alignment explanation
Indices: 8247570--8247611 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
8247560 ATAATATTAC
8247570 ATTAAAACATACATCTACTAT
1 ATTAAAACATACATCTACTAT
* *
8247591 ATTAAAAGATACATGTACTAT
1 ATTAAAACATACATCTACTAT
8247612 GCTTGCGACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (21 bp):
ATTAAAACATACATCTACTAT
Found at i:8248181 original size:18 final size:18
Alignment explanation
Indices: 8248150--8248207 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
8248140 CGATTTGAGT
* * *
8248150 AATTTGTAAATTTAATCA
1 AATTTTTAATTTTAATAA
8248168 AATTTTTAATTTTAATAA
1 AATTTTTAATTTTAATAA
*
8248186 AATTTTATTATTTTAATTAA
1 AATTTT-TAATTTTAA-TAA
8248206 AA
1 AA
8248208 ATTATTATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 21 0.62
19 8 0.24
20 5 0.15
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (18 bp):
AATTTTTAATTTTAATAA
Found at i:8248200 original size:19 final size:19
Alignment explanation
Indices: 8248160--8248219 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
8248150 AATTTGTAAA
* *
8248160 TTTAATCAAATTTT-TAAT
1 TTTAATAAAATTTTATTAT
8248178 TTTAATAAAATTTTATTAT
1 TTTAATAAAATTTTATTAT
*
8248197 TTTAATTAAAA-ATTATTAT
1 TTTAA-TAAAATTTTATTAT
8248216 TTTA
1 TTTA
8248220 TTTATATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
18 13 0.35
19 19 0.51
20 5 0.14
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTAATAAAATTTTATTAT
Found at i:8248447 original size:12 final size:11
Alignment explanation
Indices: 8248417--8248448 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
8248407 AATTTTAAAT
8248417 AATCAAATTTA
1 AATCAAATTTA
8248428 AATCAAATTTA
1 AATCAAATTTA
8248439 AACTCAAATT
1 AA-TCAAATT
8248449 ACTTATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.65
12 7 0.35
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (11 bp):
AATCAAATTTA
Found at i:8250740 original size:35 final size:35
Alignment explanation
Indices: 8250699--8250768 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
8250689 ATTAAAATAC
8250699 TTATAAACTTTAATTTGAAAAAATAAAATATAAAA
1 TTATAAACTTTAATTTGAAAAAATAAAATATAAAA
* * *
8250734 TTATAAATTTTTATTTGAAAAAATAAAGTATAAAA
1 TTATAAACTTTAATTTGAAAAAATAAAATATAAAA
8250769 GAAAACAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.37
Consensus pattern (35 bp):
TTATAAACTTTAATTTGAAAAAATAAAATATAAAA
Found at i:8251503 original size:102 final size:101
Alignment explanation
Indices: 8251394--8251669 Score: 322
Period size: 102 Copynumber: 2.7 Consensus size: 101
8251384 TATAAAAAAA
* *
8251394 TTTTAATCCTACCAAACTATTAGAAAATTTAAATTTTAAATTAAATCTTACTAAATTATTGGAGG
1 TTTTAATCCTACCAAACTATT-GAAAATTTAAATCTTAAATTAAATCTTACCAAATTATTGGAGG
* *
8251459 GTTTAATTA-TTTTTTTAAAAAATGCATTTATAAATAC
65 GTTTAATTATTTTTTTTAAAAAATGAAATTAT-AATAC
* * * *
8251496 TTTTAATCCTA-CAACACTATTGAAGAATTTAAATCTCAAATTGAATCTTACCAAATTATAGAAG
1 TTTTAATCCTACCAA-ACTATTGAA-AATTTAAATCTTAAATTAAATCTTACCAAATTATTGGAG
* * * * **
8251560 GGTTTAATTATTTTTTTTAGAAAGTTAAATTATATTTT
64 GGTTTAATTATTTTTTTTAAAAAATGAAATTATAATAC
* * * *
8251598 TTTTAATCCGACCAAATTATTGTAGAATTTAAATCTTAAATTAAATCTTACCAAATTATTGGAAG
1 TTTTAATCCTACCAAACTATTG-AAAATTTAAATCTTAAATTAAATCTTACCAAATTATTGGAGG
*
8251663 ATTTAAT
65 GTTTAAT
8251670 GATGTTTTAA
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
101 6 0.04
102 119 0.82
103 21 0.14
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (101 bp):
TTTTAATCCTACCAAACTATTGAAAATTTAAATCTTAAATTAAATCTTACCAAATTATTGGAGGG
TTTAATTATTTTTTTTAAAAAATGAAATTATAATAC
Found at i:8254961 original size:6 final size:5
Alignment explanation
Indices: 8254932--8255052 Score: 58
Period size: 5 Copynumber: 23.2 Consensus size: 5
8254922 TTAGATAAAC
*
8254932 AAATA ATAATG AAATA AAATA AAGATA AAGATA TGAAGA-A AAATAA AAATA
1 AAATA A-AATA AAATA AAATA AA-ATA AA-ATA --AA-ATA AAAT-A AAATA
*
8254983 AAAGTA AAAGTAA AAATA AAATA AAGAT- AAAT- AAATA AAA-G AAA-A
1 AAA-TA AAA-T-A AAATA AAATA AA-ATA AAATA AAATA AAATA AAATA
*
8255028 AAAT- AAATA AAA-A AGATA AATATA A
1 AAATA AAATA AAATA AAATA AA-ATA A
8255053 GGAAAAATAT
Statistics
Matches: 96, Mismatches: 6, Indels: 27
0.74 0.05 0.21
Matches are distributed among these distances:
4 20 0.21
5 35 0.36
6 32 0.33
7 5 0.05
8 4 0.04
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:8254990 original size:12 final size:11
Alignment explanation
Indices: 8254932--8255040 Score: 66
Period size: 12 Copynumber: 9.8 Consensus size: 11
8254922 TTAGATAAAC
* *
8254932 AAATAATAATG
1 AAATAAAAATA
8254943 AAAT-AAAATA
1 AAATAAAAATA
*
8254953 AAGATAAAGATA
1 AA-ATAAAAATA
* *
8254965 TGAAGAAAAATAA
1 -AAATAAAAAT-A
*
8254978 AAATAAAAGTA
1 AAATAAAAATA
8254989 AAAGTAAAAATA
1 AAA-TAAAAATA
*
8255001 AAATAAAGAT-
1 AAATAAAAATA
8255011 AAATAAATAA-A
1 AAATAAA-AATA
8255022 AGAA-AAAAAT-
1 A-AATAAAAATA
8255032 AAATAAAAA
1 AAATAAAAA
8255041 AGATAAATAT
Statistics
Matches: 76, Mismatches: 12, Indels: 21
0.70 0.11 0.19
Matches are distributed among these distances:
9 2 0.03
10 21 0.28
11 21 0.28
12 30 0.39
13 2 0.03
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.17
Consensus pattern (11 bp):
AAATAAAAATA
Found at i:8255022 original size:24 final size:24
Alignment explanation
Indices: 8254943--8255085 Score: 68
Period size: 24 Copynumber: 5.8 Consensus size: 24
8254933 AATAATAATG
* *
8254943 AAATAAAATAAAGATAAAGATATGA
1 AAATAAAATAAAGATAAATAAAT-A
* *
8254968 AGA-AAAATAAAAATAAAAGTAAAAGTAA
1 AAATAAAATAAAGAT-AAA-T-AAA-T-A
8254996 AAATAAAATAAAGATAAATAAATA
1 AAATAAAATAAAGATAAATAAATA
*
8255020 AAA-GAAA-AAA-ATAAATAAA-A
1 AAATAAAATAAAGATAAATAAATA
* *
8255040 AAGATAAATATAAGGA-AAA-ATATA
1 AA-ATAAA-ATAAAGATAAATAAATA
8255064 AATTATAAAATAATAG-TAAATA
1 AA--ATAAAATAA-AGATAAATA
8255086 TATTCATAAA
Statistics
Matches: 90, Mismatches: 13, Indels: 29
0.68 0.10 0.22
Matches are distributed among these distances:
20 3 0.03
21 10 0.11
22 5 0.06
23 6 0.07
24 26 0.29
25 16 0.18
26 4 0.04
27 3 0.03
28 7 0.08
29 10 0.11
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (24 bp):
AAATAAAATAAAGATAAATAAATA
Found at i:8255039 original size:17 final size:17
Alignment explanation
Indices: 8254967--8255039 Score: 60
Period size: 17 Copynumber: 4.1 Consensus size: 17
8254957 TAAAGATATG
8254967 AAGAAAA-ATAAAAATAA
1 AAGAAAAGA-AAAAATAA
*
8254984 AAGTAAAAGTAAAAATAA
1 AAG-AAAAGAAAAAATAA
* *
8255002 AATAAAGATAAATAAATAA
1 AAGAAA-AGAAA-AAATAA
8255021 AAGAAAA-AAATAAATAA
1 AAGAAAAGAAA-AAATAA
8255038 AA
1 AA
8255040 AAGATAAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
17 18 0.38
18 18 0.38
19 11 0.23
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (17 bp):
AAGAAAAGAAAAAATAA
Found at i:8255047 original size:30 final size:32
Alignment explanation
Indices: 8254994--8255066 Score: 89
Period size: 31 Copynumber: 2.3 Consensus size: 32
8254984 AAGTAAAAGT
8254994 AAAAATAAAATAAAGATAAATAAATA-AAAGAA
1 AAAAAT-AAATAAAGATAAATAAATATAAAGAA
*
8255026 AAAAATAAATAAA-A-AAGATAAATATAAGGAA
1 AAAAATAAATAAAGATAA-ATAAATATAAAGAA
*
8255057 AAATATAAAT
1 AAAAATAAAT
8255067 TATAAAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
29 2 0.05
30 8 0.22
31 21 0.57
32 6 0.16
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (32 bp):
AAAAATAAATAAAGATAAATAAATATAAAGAA
Found at i:8255370 original size:32 final size:32
Alignment explanation
Indices: 8255290--8255401 Score: 143
Period size: 32 Copynumber: 3.5 Consensus size: 32
8255280 GCCATAATCA
* ** * *
8255290 GAAAATGAAATGACTTAAACTTAGTTAAAATT
1 GAAAATGATATGACTTGGACTTAGTTGAAGTT
*
8255322 GAAAATGATATGACTTGGACTTAGTCGAAGTT
1 GAAAATGATATGACTTGGACTTAGTTGAAGTT
* *
8255354 GAAAATGATATGACTTGGTCTTAGTTGAAGAT
1 GAAAATGATATGACTTGGACTTAGTTGAAGTT
*
8255386 GAAAATAATATGACTT
1 GAAAATGATATGACTT
8255402 TGTTTGAGCT
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 70 1.00
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (32 bp):
GAAAATGATATGACTTGGACTTAGTTGAAGTT
Found at i:8255463 original size:37 final size:37
Alignment explanation
Indices: 8255395--8255479 Score: 86
Period size: 37 Copynumber: 2.3 Consensus size: 37
8255385 TGAAAATAAT
* * * *
8255395 ATGACTTTGTTTGAGCTTATAAGTCATAATGA-ATATA
1 ATGACTTAGTCTGAGCCTATAAATCATAATGACA-ATA
*
8255432 ATGACTTAGTCTGAGCCTATAAATCGA-AATGACAATG
1 ATGACTTAGTCTGAGCCTATAAATC-ATAATGACAATA
8255469 ATGA-TTAGTCT
1 ATGACTTAGTCT
8255480 AACCCTATGA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
36 7 0.17
37 32 0.78
38 2 0.05
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (37 bp):
ATGACTTAGTCTGAGCCTATAAATCATAATGACAATA
Found at i:8259711 original size:26 final size:26
Alignment explanation
Indices: 8259615--8259712 Score: 87
Period size: 26 Copynumber: 3.9 Consensus size: 26
8259605 AATATTCCTT
* *
8259615 ATATGACAATTAAAATGATGCAAATA
1 ATATGACAATTGAAATGATACAAATA
* *
8259641 ATATGACAATTGAAATGATGCCAAT-
1 ATATGACAATTGAAATGATACAAATA
* * * *
8259666 GTAT-A-AAATCAAATCA-ACAAATA
1 ATATGACAATTGAAATGATACAAATA
*
8259689 ATATGATAATTGAAATGATACAAA
1 ATATGACAATTGAAATGATACAAA
8259713 GGCACAAAGT
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
22 4 0.07
23 11 0.20
24 2 0.04
25 11 0.20
26 28 0.50
ACGTcount: A:0.53, C:0.09, G:0.11, T:0.27
Consensus pattern (26 bp):
ATATGACAATTGAAATGATACAAATA
Found at i:8259726 original size:48 final size:48
Alignment explanation
Indices: 8259635--8259727 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
8259625 TAAAATGATG
* * * * *
8259635 CAAATAATATGACAATTGAAATGATGCCAATGTATAAAATCAAATCAA
1 CAAATAATATGACAATTGAAATGATACAAAGGCACAAAATCAAATCAA
* *
8259683 CAAATAATATGATAATTGAAATGATACAAAGGCACAAAGTCAAAT
1 CAAATAATATGACAATTGAAATGATACAAAGGCACAAAATCAAAT
8259728 GGTTAAATAA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.24
Consensus pattern (48 bp):
CAAATAATATGACAATTGAAATGATACAAAGGCACAAAATCAAATCAA
Found at i:8262545 original size:12 final size:11
Alignment explanation
Indices: 8262524--8262605 Score: 58
Period size: 12 Copynumber: 6.8 Consensus size: 11
8262514 ATGAAATAAC
8262524 ATAAAGATAAAG
1 ATAAA-ATAAAG
8262536 ATAAGAATAAAG
1 ATAA-AATAAAG
*
8262548 ATAAAAATACA-
1 AT-AAAATAAAG
8262559 ATAAAATAAAAAG
1 ATAAAAT--AAAG
*
8262572 ATAAATATAAAA
1 ATAAA-ATAAAG
*
8262584 ATAAATATAAAAT
1 ATAAA-AT-AAAG
8262597 ATAAAATAA
1 ATAAAATAA
8262606 TAATAAATAT
Statistics
Matches: 59, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
10 5 0.08
11 4 0.07
12 32 0.54
13 16 0.27
14 2 0.03
ACGTcount: A:0.72, C:0.01, G:0.06, T:0.21
Consensus pattern (11 bp):
ATAAAATAAAG
Found at i:8262578 original size:17 final size:17
Alignment explanation
Indices: 8262524--8262570 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
8262514 ATGAAATAAC
* *
8262524 ATAAAGATAAAGATAAGA
1 ATAAAGATAAAAAT-ACA
8262542 ATAAAGATAAAAATACA
1 ATAAAGATAAAAATACA
8262559 ATAAA-ATAAAAA
1 ATAAAGATAAAAA
8262571 GATAAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 7 0.26
17 7 0.26
18 13 0.48
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.17
Consensus pattern (17 bp):
ATAAAGATAAAAATACA
Found at i:8262583 original size:19 final size:20
Alignment explanation
Indices: 8262559--8262605 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
8262549 TAAAAATACA
8262559 ATAAAATAAAAAGAT-AAAT
1 ATAAAATAAAAAGATAAAAT
* *
8262578 ATAAAA-ATAAATATAAAAT
1 ATAAAATAAAAAGATAAAAT
8262597 ATAAAATAA
1 ATAAAATAA
8262606 TAATAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 6 0.26
19 16 0.70
20 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (20 bp):
ATAAAATAAAAAGATAAAAT
Found at i:8262589 original size:24 final size:24
Alignment explanation
Indices: 8262544--8262616 Score: 78
Period size: 24 Copynumber: 3.0 Consensus size: 24
8262534 AGATAAGAAT
*
8262544 AAAGATAAAA-ATACAATAAA-ATAA
1 AAAGATAAAATA-AAAATAAATAT-A
8262568 AAAGATAAATATAAAAATAAATATA
1 AAAGATAAA-ATAAAAATAAATATA
* *
8262593 AAATATAAAATAATAATAAATATA
1 AAAGATAAAATAAAAATAAATATA
8262617 CTCATAAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
24 23 0.53
25 17 0.40
26 3 0.07
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (24 bp):
AAAGATAAAATAAAAATAAATATA
Found at i:8262610 original size:6 final size:5
Alignment explanation
Indices: 8262517--8262612 Score: 52
Period size: 6 Copynumber: 17.4 Consensus size: 5
8262507 ACTAGTAATG
* *
8262517 AAATA ACATA AAGATA AAGATA AGAATA AAGATAA AAATA CAATA AAAT-
1 AAATA AAATA AA-ATA AA-ATA A-AATA AA-AT-A AAATA AAATA AAATA
*
8262566 AAA-A AGATA AATATAA AAATA AATATAA AATATA AAATA ATAATA AA
1 AAATA AAATA AA-AT-A AAATA AA-AT-A AA-ATA AAATA A-AATA AA
8262613 TATACTCATA
Statistics
Matches: 74, Mismatches: 6, Indels: 22
0.73 0.06 0.22
Matches are distributed among these distances:
4 5 0.07
5 24 0.32
6 32 0.43
7 13 0.18
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:8264738 original size:11 final size:11
Alignment explanation
Indices: 8264722--8264752 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
8264712 AAAAGGTCAA
8264722 CAATATTATAT
1 CAATATTATAT
8264733 CAATATTATAT
1 CAATATTATAT
8264744 CAATATTAT
1 CAATATTAT
8264753 CCATATGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (11 bp):
CAATATTATAT
Found at i:8266106 original size:17 final size:17
Alignment explanation
Indices: 8266059--8266106 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
8266049 TTAGATATTT
*
8266059 TTAAATTTAAA-TAAAT
1 TTAAATTTAAATTAAAA
* *
8266075 TTAAATTTGAGTTAAAA
1 TTAAATTTAAATTAAAA
*
8266092 TTAAATTCAAATTAA
1 TTAAATTTAAATTAA
8266107 TCAGGTATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 9 0.36
17 16 0.64
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (17 bp):
TTAAATTTAAATTAAAA
Found at i:8266464 original size:17 final size:17
Alignment explanation
Indices: 8266442--8266489 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
8266432 TTATCAATAA
8266442 ATTAATAATATTATTTT
1 ATTAATAATATTATTTT
8266459 ATTAATGAATAAATTATTTT
1 ATTAAT-AAT--ATTATTTT
8266479 -TTAA-AATATTA
1 ATTAATAATATTA
8266490 AATTTTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 4 0.14
17 9 0.32
18 3 0.11
19 4 0.14
20 8 0.29
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
ATTAATAATATTATTTT
Found at i:8266474 original size:20 final size:20
Alignment explanation
Indices: 8266445--8266482 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8266435 TCAATAAATT
8266445 AATAATATTATTTTATTAATG
1 AATAATATTATTTT-TTAATG
8266466 AATAA-ATTATTTTTTAA
1 AATAATATTATTTTTTAA
8266483 AATATTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 8 0.47
21 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
AATAATATTATTTTTTAATG
Found at i:8266573 original size:24 final size:24
Alignment explanation
Indices: 8266519--8266594 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 24
8266509 AAAAATTAAT
* *
8266519 ATTTATTTATTAATAAAATATCATCA
1 ATTTATTTATTAATAATATAT-A-AA
* *
8266545 TTTTATTTATTGATAATATATAAA
1 ATTTATTTATTAATAATATATAAA
* * *
8266569 ATTTATATATTAATAATTTATCAA
1 ATTTATTTATTAATAATATATAAA
8266593 AT
1 AT
8266595 ATAAACTCAA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
24 22 0.54
25 1 0.02
26 18 0.44
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (24 bp):
ATTTATTTATTAATAATATATAAA
Found at i:8269834 original size:16 final size:15
Alignment explanation
Indices: 8269809--8269838 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
8269799 CTTCATTTCC
8269809 TTTTTTTAAATTAAT
1 TTTTTTTAAATTAAT
8269824 TTTTTTATAAATTAA
1 TTTTTT-TAAATTAA
8269839 ATTCGATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTTTTAAATTAAT
Found at i:8270802 original size:117 final size:117
Alignment explanation
Indices: 8270596--8270832 Score: 456
Period size: 117 Copynumber: 2.0 Consensus size: 117
8270586 GACCTGGACT
8270596 TGATGGTTACCAATCTTTGTCATCAAGGAACAATGCAGAGCTCAAAAAGAGGAGCAAATCTAAAG
1 TGATGGTTACCAATCTTTGTCATCAAGGAACAATGCAGAGCTCAAAAAGAGGAGCAAATCTAAAG
*
8270661 ACATCTTCGAGTTCGATGAAAACAATGCCCAGATCTTCGGGCTGAAACTCGA
66 ACATCTTCGAGTTCGATGAAAACAATGCCCAGATCTTCAGGCTGAAACTCGA
8270713 TGATGGTTACCAATCTTTGTCATCAAGGAACAATGCAGAGCTCAAAAAGAGGAGCAAATCTAAAG
1 TGATGGTTACCAATCTTTGTCATCAAGGAACAATGCAGAGCTCAAAAAGAGGAGCAAATCTAAAG
*
8270778 ACATGTTCGAGTTCGATGAAAACAATGCCCAGATCTTCAGGCTGAAACTCGA
66 ACATCTTCGAGTTCGATGAAAACAATGCCCAGATCTTCAGGCTGAAACTCGA
8270830 TGA
1 TGA
8270833 GGGTCCTCTT
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
117 118 1.00
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (117 bp):
TGATGGTTACCAATCTTTGTCATCAAGGAACAATGCAGAGCTCAAAAAGAGGAGCAAATCTAAAG
ACATCTTCGAGTTCGATGAAAACAATGCCCAGATCTTCAGGCTGAAACTCGA
Found at i:8272282 original size:126 final size:126
Alignment explanation
Indices: 8272048--8272300 Score: 382
Period size: 126 Copynumber: 2.0 Consensus size: 126
8272038 TCAAATGTTG
* * * *
8272048 TTTCATTTCAGTTTATTTCATTTATTGTTTCTATAATCATGCCTGTCTAAAGATGTAGTTGGAAC
1 TTTCATTTCAGTTTATTACATTTATGGGTTCTATAATCATGCCTGTCTAAAGATGTAGTTGAAAC
* * * *
8272113 TTTGCAGAAGTGTGCAGGTGTAGGATGATGTGAAGCGTAGTTGAATTTTTTTGGTTTCATA
66 TTTGCAGAAATGTGCAAGTGTAGGATGATGTGAACCATAGTTGAATTTTTTTGGTTTCATA
**
8272174 TTTCATTTCAGTTTA-TACAATTTATGGGTTCTATGGTCATGCCTGTCTAAAGATGTAGTTGAAA
1 TTTCATTTCAGTTTATTAC-ATTTATGGGTTCTATAATCATGCCTGTCTAAAGATGTAGTTGAAA
* *
8272238 CTTTGCAGAAATGTGCAAGTGTAGGGTGATGTGAACCATGGTTGAATTTTTTTGGTTTCATA
65 CTTTGCAGAAATGTGCAAGTGTAGGATGATGTGAACCATAGTTGAATTTTTTTGGTTTCATA
8272300 T
1 T
8272301 CTATTATTCA
Statistics
Matches: 114, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
125 2 0.02
126 112 0.98
ACGTcount: A:0.25, C:0.11, G:0.23, T:0.42
Consensus pattern (126 bp):
TTTCATTTCAGTTTATTACATTTATGGGTTCTATAATCATGCCTGTCTAAAGATGTAGTTGAAAC
TTTGCAGAAATGTGCAAGTGTAGGATGATGTGAACCATAGTTGAATTTTTTTGGTTTCATA
Found at i:8274189 original size:7 final size:7
Alignment explanation
Indices: 8274177--8274206 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
8274167 CTTTCGCCCC
8274177 GCCTATG
1 GCCTATG
*
8274184 GCCTATA
1 GCCTATG
8274191 GCCTATG
1 GCCTATG
8274198 GCCTATG
1 GCCTATG
8274205 GC
1 GC
8274207 TCAAGGGGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.17, C:0.30, G:0.27, T:0.27
Consensus pattern (7 bp):
GCCTATG
Found at i:8276528 original size:9 final size:9
Alignment explanation
Indices: 8276516--8276540 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
8276506 AAAAAAAATA
8276516 AATAATAGT
1 AATAATAGT
8276525 AATAATAGT
1 AATAATAGT
8276534 AATAATA
1 AATAATA
8276541 AAAATTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (9 bp):
AATAATAGT
Found at i:8276598 original size:6 final size:6
Alignment explanation
Indices: 8276509--8276598 Score: 56
Period size: 6 Copynumber: 14.8 Consensus size: 6
8276499 TTTTTTTAAA
** * * * * *
8276509 AAAAAT AAATAAT AGTAAT AATAGT AATAAT AAAAATT AAAAAT TAGAAT
1 AAAAAT AAA-AAT AAAAAT AAAAAT AAAAAT AAAAA-T AAAAAT AAAAAT
* * * *
8276559 TAGAAT TAGAAT AAAAAT AAAAAT AAAAAT -AAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
8276599 CAAGAAGGGA
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
5 5 0.07
6 56 0.79
7 10 0.14
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (6 bp):
AAAAAT
Found at i:8276892 original size:15 final size:15
Alignment explanation
Indices: 8276872--8276900 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8276862 TAATAAAAAA
8276872 GTAATAAAAATATAT
1 GTAATAAAAATATAT
8276887 GTAATAAAAATATA
1 GTAATAAAAATATA
8276901 ATAAAAAAAA
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:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (15 bp):
GTAATAAAAATATAT
Found at i:8278338 original size:40 final size:40
Alignment explanation
Indices: 8278300--8278788 Score: 718
Period size: 40 Copynumber: 12.0 Consensus size: 40
8278290 GTCTAGGAGT
8278300 ATTTACTTCTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTT-TTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
8278341 ATTTACTTTTCCCAAAG-TCGTGGTGCCTCTGTTTAGAGAAGCA
1 ATTTACTTTT--CAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
*
8278384 ATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
8278424 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
8278464 ATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
*
8278505 ATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
8278545 ATTTACTTTTCAAAGTTCTTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
8278585 ATTTACTTTTCCAAAG-TCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
*
8278627 ATTTACTTTTCAAAGTTCGTTGCCTTTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
8278667 ATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
* *
8278707 ATTTACTTTCCAAAG-TCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
8278748 ATTTACTTTTCAAAAG-TCGTGGTGCCTCTGTTTAGAGGAGC
1 ATTTACTTTTC-AAAGTTCGT--TGCCTCTGTTTAGAGGAGC
8278789 TTTGGTAAAA
Statistics
Matches: 413, Mismatches: 20, Indels: 29
0.89 0.04 0.06
Matches are distributed among these distances:
39 8 0.02
40 214 0.52
41 88 0.21
42 74 0.18
43 29 0.07
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (40 bp):
ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
Found at i:8278519 original size:121 final size:122
Alignment explanation
Indices: 8278300--8278788 Score: 840
Period size: 121 Copynumber: 4.0 Consensus size: 122
8278290 GTCTAGGAGT
8278300 ATTTACTTCTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCCAAAGTCGTGGT
1 ATTTACTT-TTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CCAAAGTCGTGGT
* * *
8278365 GCCTCTGTTTAGAGAAGCAATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCA
64 ACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
8278424 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAGTCGTGGTGC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTAC
*
8278488 CTCTGTTTAGAGGAGCAATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCA
66 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
8278545 ATTTACTTTTCAAAGTTCTTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTAC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTAC
*
8278610 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTTTGTTTAGAGGAGCA
66 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
8278667 ATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAGTCGTGGTAC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTAC
8278731 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAAG-TCGTGGTGCCTCTGTTTAGAGGAGC
66 CTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTTCGT--TGCCTCTGTTTAGAGGAGC
8278789 TTTGGTAAAA
Statistics
Matches: 353, Mismatches: 8, Indels: 9
0.95 0.02 0.02
Matches are distributed among these distances:
121 166 0.47
122 123 0.35
123 56 0.16
124 8 0.02
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (122 bp):
ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTAC
CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
Found at i:8278738 original size:243 final size:246
Alignment explanation
Indices: 8278300--8278788 Score: 860
Period size: 243 Copynumber: 2.0 Consensus size: 246
8278290 GTCTAGGAGT
8278300 ATTTACTTCTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCCAAAGTCGTGGT
1 ATTTACTTCTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCCAAAGTCGTGGT
* *
8278365 GCCTCTGTTTAGAGAAGCAATTTACTTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTAC
66 ACCTCTGTTTAGAGAAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTAC
*
8278430 TTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTT
131 TTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACCTCTGTT
*
8278495 TAGAGGAGCAATTTACTTTTC-CAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
196 TAGAGGAGCAATTTACTTTTCAAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
*
8278545 ATTTACTT-TTCAAAGTTCTTTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CCAAAGTCGTGGT
1 ATTTACTTCTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCCAAAGTCGTGGT
* *
8278608 ACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTTTGTTTAGAGGAGCAATTTAC
66 ACCTCTGTTTAGAGAAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTAC
*
8278673 TTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACCTCTGTT
131 TTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACCTCTGTT
8278738 TAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
196 TAGAGGAGCAATTTACTTTTCAAAAGTCGT-GTGCCTCTGTTTAGAGGAGC
8278789 TTTGGTAAAA
Statistics
Matches: 233, Mismatches: 8, Indels: 6
0.94 0.03 0.02
Matches are distributed among these distances:
243 162 0.70
244 44 0.19
245 27 0.12
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (246 bp):
ATTTACTTCTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCCAAAGTCGTGGT
ACCTCTGTTTAGAGAAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTAC
TTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACCTCTGTT
TAGAGGAGCAATTTACTTTTCAAAAGTCGTGTGCCTCTGTTTAGAGGAGCA
Found at i:8278855 original size:8 final size:8
Alignment explanation
Indices: 8278811--8278862 Score: 74
Period size: 7 Copynumber: 6.8 Consensus size: 8
8278801 AAAAAATAAA
8278811 AAAAAAAC
1 AAAAAAAC
8278819 AAAAAAAC
1 AAAAAAAC
8278827 -AAAAAAC
1 AAAAAAAC
8278834 -AAAAAA-
1 AAAAAAAC
8278840 AAAAAAAC
1 AAAAAAAC
8278848 AAAAAAACC
1 AAAAAAA-C
8278857 AAAAAA
1 AAAAAA
8278863 TGTTGAGTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
7 19 0.46
8 15 0.37
9 7 0.17
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:8278860 original size:14 final size:14
Alignment explanation
Indices: 8278795--8278861 Score: 84
Period size: 14 Copynumber: 4.7 Consensus size: 14
8278785 GAGCTTTGGT
8278795 AAAACAAAAA-AATA
1 AAAACAAAAACAA-A
8278809 AAAA-AAAAACAAA
1 AAAACAAAAACAAA
8278822 AAAACAAAAAACAAA
1 AAAAC-AAAAACAAA
*
8278837 AAAAAAAAAACAAA
1 AAAACAAAAACAAA
8278851 AAAACCAAAAA
1 AAAA-CAAAAA
8278862 ATGTTGAGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
13 10 0.21
14 19 0.40
15 18 0.38
ACGTcount: A:0.88, C:0.10, G:0.00, T:0.01
Consensus pattern (14 bp):
AAAACAAAAACAAA
Found at i:8278861 original size:7 final size:7
Alignment explanation
Indices: 8278795--8278853 Score: 77
Period size: 7 Copynumber: 8.6 Consensus size: 7
8278785 GAGCTTTGGT
8278795 AAAACAA
1 AAAACAA
*
8278802 AAAA-AT
1 AAAACAA
8278808 AAAA-AA
1 AAAACAA
8278814 AAAACAAA
1 AAAAC-AA
8278822 AAAACAA
1 AAAACAA
8278829 AAAACAA
1 AAAACAA
*
8278836 AAAAAAA
1 AAAACAA
8278843 AAAACAA
1 AAAACAA
8278850 AAAA
1 AAAA
8278854 ACCAAAAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
6 10 0.22
7 29 0.63
8 7 0.15
ACGTcount: A:0.90, C:0.08, G:0.00, T:0.02
Consensus pattern (7 bp):
AAAACAA
Found at i:8278862 original size:1 final size:1
Alignment explanation
Indices: 8278795--8278854 Score: 66
Period size: 1 Copynumber: 60.0 Consensus size: 1
8278785 GAGCTTTGGT
* * * * * *
8278795 AAAACAAAAAAATAAAAAAAAAACAAAAAAACAAAAAACAAAAAAAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
8278855 CCAAAAAATG
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.90, C:0.08, G:0.00, T:0.02
Consensus pattern (1 bp):
A
Found at i:8278975 original size:20 final size:20
Alignment explanation
Indices: 8278950--8278987 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8278940 CTGTAGACAC
8278950 TCAATTGGGTCC-GGCCCAGA
1 TCAATTGGG-CCTGGCCCAGA
8278970 TCAATTGGGCCTGGCCCA
1 TCAATTGGGCCTGGCCCA
8278988 AATGGGTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.18, C:0.32, G:0.29, T:0.21
Consensus pattern (20 bp):
TCAATTGGGCCTGGCCCAGA
Found at i:8279167 original size:18 final size:17
Alignment explanation
Indices: 8279050--8279168 Score: 56
Period size: 16 Copynumber: 7.2 Consensus size: 17
8279040 TCTTTTGTAT
8279050 TTTATGTAT-TGTAT-TA
1 TTTATGTATAT-TATATA
8279066 TTTAT-TATTATTAT-TA
1 TTTATGTA-TATTATATA
*
8279082 -TTATGTAT-TAATATA
1 TTTATGTATATTATATA
* * *
8279097 TGTATATAT-TTATTTA
1 TTTATGTATATTATATA
* * *
8279113 TTTATTTTTTGTTA-ATA
1 TTTA-TGTATATTATATA
* *
8279130 TTTATGTGTATTTTATTA
1 TTTATGTATATTATA-TA
8279148 TTTATGTATATATATATA
1 TTTATGTATAT-TATATA
8279166 TTT
1 TTT
8279169 TTTATCTTTT
Statistics
Matches: 78, Mismatches: 15, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
14 3 0.04
15 9 0.12
16 32 0.41
17 11 0.14
18 20 0.26
19 3 0.04
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (17 bp):
TTTATGTATATTATATA
Found at i:8280455 original size:122 final size:117
Alignment explanation
Indices: 8280214--8280683 Score: 637
Period size: 122 Copynumber: 3.9 Consensus size: 117
8280204 TAAAAATAAA
* * *
8280214 AAATTTCAAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTCAGAAATAAATTTA
1 AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTC
8280279 AAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAAT
66 AAAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AAT
* *
8280332 AAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAA
1 AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC-T--CAG--AAATAA
* *
8280397 ATTTCCAAAAAAAATATTTTTAGGGAAAAGTTAAAAGTATCAATTTTCCTTAGAAAT
61 ATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
*
8280454 AAATTTC-CAAAAAATATTTTT-GGGAAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTT
1 AAATTTCAAAAAAAATATTTTTAGGG-AAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTT
8280517 CAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAAT
65 CAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT
* *
8280570 CAAAATTTCAAAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAA
1 --AAATTTC---AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAA
***
8280635 ATTTTC-AAAAAAAGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCC
61 A-TTTCAAAAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCC
8280684 CTAAAAAAAA
Statistics
Matches: 319, Mismatches: 16, Indels: 30
0.87 0.04 0.08
Matches are distributed among these distances:
115 1 0.00
116 59 0.18
118 56 0.18
119 1 0.00
120 4 0.01
121 40 0.13
122 133 0.42
123 25 0.08
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (117 bp):
AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTC
AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
Found at i:8280525 original size:59 final size:58
Alignment explanation
Indices: 8280214--8280683 Score: 626
Period size: 59 Copynumber: 7.9 Consensus size: 58
8280204 TAAAAATAAA
* * *
8280214 AAATTTCAAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTCAGAAAT
1 AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
*
8280272 AAATTTAAAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAAT
1 AAATTT-CAAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AAT
*
8280332 AAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAAT
1 AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAAT
*
8280395 AAATTTCCAAAAAAAATATTTTTAGGGAAAAGTTAAAAGTATCAATTTTCCTTAGAAAT
1 AAATTT-CAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
* *
8280454 AAATTTC-CAAAAAATATTTTT-GGGAAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
1 AAATTTCAAAAAAAATATTTTTAGGG-AAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
8280511 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAAT
1 AAATTTC-AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT
*
8280570 CAAAATTTCAAAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 --AAATTTC---AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
***
8280633 AAATTTTCAAAAAAAGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCC
1 AAA-TTTCAAAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCC
8280684 CTAAAAAAAA
Statistics
Matches: 373, Mismatches: 17, Indels: 43
0.86 0.04 0.10
Matches are distributed among these distances:
56 3 0.01
57 50 0.13
58 47 0.13
59 104 0.28
60 48 0.13
61 13 0.03
62 4 0.01
63 58 0.16
64 46 0.12
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (58 bp):
AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
Found at i:8280588 original size:179 final size:178
Alignment explanation
Indices: 8280214--8280683 Score: 655
Period size: 179 Copynumber: 2.6 Consensus size: 178
8280204 TAAAAATAAA
* * *
8280214 AAATTTC-AAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTCAGAAATAAATTT
1 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
* * *
8280278 AAAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCCAAA
66 --ACAAAAA-ATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTCAAGAATAAATTTCAAAA
8280343 AAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAAT
127 AAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAAT
* *
8280395 AAATTTCCAAAAAAAATATTTTTAGGGAAAAGTTAAAAGTATCAATTTTCCTTAGAAATAAATTT
1 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
*
8280460 CCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTC-AGAAATAAATTTCAAAAAA
66 ACAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTCAAG-AATAAATTTC-AAAAA
* **
8280524 AAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAA-AATCA-
128 AAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAAT
*
8280572 AAATTTCAAAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 AAATTTC--AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
*
8280637 TTTCAAAAAA-AGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
64 TTACAAAAAATA---TTTTTG-GGAAAAGTTGAAAGTATCAATTTTCC
8280684 CTAAAAAAAA
Statistics
Matches: 264, Mismatches: 15, Indels: 20
0.88 0.05 0.07
Matches are distributed among these distances:
177 7 0.03
178 9 0.03
179 107 0.41
180 49 0.19
181 37 0.14
182 55 0.21
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (178 bp):
AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
ACAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTCAAGAATAAATTTCAAAAAAAA
TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAAT
Found at i:8284238 original size:25 final size:26
Alignment explanation
Indices: 8284210--8284260 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
8284200 ATATAAATTT
*
8284210 TTATATTATCAATAAATTAA-TAATA
1 TTATATTATCAATAAATAAATTAATA
* *
8284235 TTATTTTATTAATAAATAAATTAATA
1 TTATATTATCAATAAATAAATTAATA
8284261 ATATCAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (26 bp):
TTATATTATCAATAAATAAATTAATA
Found at i:8284259 original size:29 final size:29
Alignment explanation
Indices: 8284220--8284284 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 29
8284210 TTATATTATC
*
8284220 AATAAATTAATAATAT-TATTTTATTAATA
1 AATAAATTAATAATATCAATTTTA-TAATA
*
8284249 AATAAATTAATAATATCAATTTTATAATG
1 AATAAATTAATAATATCAATTTTATAATA
8284278 AATAAAT
1 AATAAAT
8284285 ATTTTTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 27 0.82
30 6 0.18
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (29 bp):
AATAAATTAATAATATCAATTTTATAATA
Found at i:8284340 original size:27 final size:27
Alignment explanation
Indices: 8284284--8284341 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
8284274 AATGAATAAA
*
8284284 TATT-TTTTTAAAATATTAATTTTATG
1 TATTATTTTTAAAATATTAATTGTATG
*
8284310 TATTATTTTTAAAA-ATTAATATGTATT
1 TATTATTTTTAAAATATTAAT-TGTATG
8284337 TATTA
1 TATTA
8284342 GATAAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 10 0.36
27 18 0.64
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (27 bp):
TATTATTTTTAAAATATTAATTGTATG
Found at i:8284390 original size:24 final size:24
Alignment explanation
Indices: 8284356--8284405 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
8284346 AAATATCATC
* *
8284356 ATTTATTTATTGATAATATATAAA
1 ATTTATATATTAATAATATATAAA
* *
8284380 ATTTATATATTAATAATTTATCAA
1 ATTTATATATTAATAATATATAAA
8284404 AT
1 AT
8284406 ATAAACTCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (24 bp):
ATTTATATATTAATAATATATAAA
Found at i:8287675 original size:16 final size:15
Alignment explanation
Indices: 8287650--8287679 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
8287640 CTTCATTTCC
8287650 TTTTTTTAAATTAAT
1 TTTTTTTAAATTAAT
8287665 TTTTTTATAAATTAA
1 TTTTTT-TAAATTAA
8287680 ATTCGATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTTTTAAATTAAT
Found at i:8288643 original size:117 final size:118
Alignment explanation
Indices: 8288436--8288673 Score: 451
Period size: 117 Copynumber: 2.0 Consensus size: 118
8288426 GACCTGGACT
8288436 TGATGGTTACCAATCTTTGTCATCAAGGAACAATGCAGAGCTCAAAAAAGAGGAGCAAATCTAAA
1 TGATGGTTACCAATCTTTGTCATCAAGGAACAATGCAGAGCTCAAAAAAGAGGAGCAAATCTAAA
8288501 GACATGTTCGAGTTCGATGAAAACAATGCCCAGATCTTCAGGCTGAAACTCGA
66 GACATGTTCGAGTTCGATGAAAACAATGCCCAGATCTTCAGGCTGAAACTCGA
*
8288554 TGATGGTTACCAATCTTTGTCATCAAGGAACAATGCAGAGCTC-TAAAAGAGGAGCAAATCTAAA
1 TGATGGTTACCAATCTTTGTCATCAAGGAACAATGCAGAGCTCAAAAAAGAGGAGCAAATCTAAA
*
8288618 GACATTTTCGAGTTCGATGAAAACAATGCCCAGATCTTCAGGCTGAAACTCGA
66 GACATGTTCGAGTTCGATGAAAACAATGCCCAGATCTTCAGGCTGAAACTCGA
8288671 TGA
1 TGA
8288674 GGGTCCTCTT
Statistics
Matches: 118, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
117 75 0.64
118 43 0.36
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (118 bp):
TGATGGTTACCAATCTTTGTCATCAAGGAACAATGCAGAGCTCAAAAAAGAGGAGCAAATCTAAA
GACATGTTCGAGTTCGATGAAAACAATGCCCAGATCTTCAGGCTGAAACTCGA
Found at i:8288979 original size:16 final size:16
Alignment explanation
Indices: 8288958--8288989 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
8288948 CGGATTATGA
8288958 TTTGTTCTGGAATTGG
1 TTTGTTCTGGAATTGG
8288974 TTTGTTCTGGAATTGG
1 TTTGTTCTGGAATTGG
8288990 ACCGTCGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.31, T:0.50
Consensus pattern (16 bp):
TTTGTTCTGGAATTGG
Found at i:8290752 original size:30 final size:29
Alignment explanation
Indices: 8290718--8290790 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
8290708 CAATTTGAGT
*
8290718 TTAATTGATCAAATATTAAAT-TTAAACAAC
1 TTAATTGAT-AAATATAAAATATTAAA-AAC
*
8290748 TTAATTGATTAAA-ATAAAATATTAAAGAC
1 TTAATTGA-TAAATATAAAATATTAAAAAC
8290777 TTAATTGATAAATA
1 TTAATTGATAAATA
8290791 AATTTTTGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
28 4 0.11
29 17 0.45
30 16 0.42
31 1 0.03
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.37
Consensus pattern (29 bp):
TTAATTGATAAATATAAAATATTAAAAAC
Found at i:8290779 original size:29 final size:29
Alignment explanation
Indices: 8290718--8290792 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 29
8290708 CAATTTGAGT
* *
8290718 TTAATTGATCAAATATTAAATTTAAACAAC
1 TTAATTGATTAAA-ATAAAATTTAAACAAC
*
8290748 TTAATTGATTAAAATAAAATATTAAA-GAC
1 TTAATTGATTAAAATAAAAT-TTAAACAAC
8290777 TTAATTGA-T-AAATAAA
1 TTAATTGATTAAAATAAA
8290793 TTTTTGTTTG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 7 0.17
28 1 0.02
29 16 0.39
30 17 0.41
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.36
Consensus pattern (29 bp):
TTAATTGATTAAAATAAAATTTAAACAAC
Found at i:8295978 original size:22 final size:22
Alignment explanation
Indices: 8295881--8296037 Score: 122
Period size: 22 Copynumber: 7.2 Consensus size: 22
8295871 ATTGTCCATC
*
8295881 ATTTACTATTTATATTATTAATC
1 ATTTACTA-TTATATTATTAATA
* * * *
8295904 ATTTACTA-AATGTGATTTATA
1 ATTTACTATTATATTATTAATA
* ** * * *
8295925 ACTTGTTACTATATAATTAATC
1 ATTTACTATTATATTATTAATA
* * *
8295947 ATTTATTATTGTATTATTCATA
1 ATTTACTATTATATTATTAATA
* *
8295969 ATTTACTATTATATCA-TCATA
1 ATTTACTATTATATTATTAATA
8295990 ATTTACTATTATATTATTAATTA
1 ATTTACTATTATATTATTAA-TA
*
8296013 A-TTAATATTATATTATTAATA
1 ATTTACTATTATATTATTAATA
8296034 ATTT
1 ATTT
8296038 GTTACTATAT
Statistics
Matches: 104, Mismatches: 26, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
21 36 0.35
22 57 0.55
23 11 0.11
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (22 bp):
ATTTACTATTATATTATTAATA
Found at i:8295990 original size:21 final size:21
Alignment explanation
Indices: 8295964--8296003 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
8295954 ATTGTATTAT
8295964 TCATAATTTACTATTATATCA
1 TCATAATTTACTATTATATCA
8295985 TCATAATTTACTATTATAT
1 TCATAATTTACTATTATAT
8296004 TATTAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (21 bp):
TCATAATTTACTATTATATCA
Found at i:8302426 original size:17 final size:17
Alignment explanation
Indices: 8302404--8302438 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
8302394 CCTCCATTGA
8302404 TCCCCTTATTTTTTTGG
1 TCCCCTTATTTTTTTGG
8302421 TCCCCTTATTTTTTTGG
1 TCCCCTTATTTTTTTGG
8302438 T
1 T
8302439 TTCTACTTTC
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:0.06, C:0.23, G:0.11, T:0.60
Consensus pattern (17 bp):
TCCCCTTATTTTTTTGG
Found at i:8302888 original size:2 final size:2
Alignment explanation
Indices: 8302875--8302919 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
8302865 TTTGTATCTA
*
8302875 TC TC TA TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
8302917 TC T
1 TC T
8302920 TGATCATAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.02, C:0.47, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:8314889 original size:37 final size:37
Alignment explanation
Indices: 8314839--8314912 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
8314829 ACTTTTTTAA
8314839 CTTAAACAATAACTCATTTATTGTTTGATATAATAGT
1 CTTAAACAATAACTCATTTATTGTTTGATATAATAGT
* *
8314876 CTTAAGCAATAACTCGTTTATTGTTTGATATAATAGT
1 CTTAAACAATAACTCATTTATTGTTTGATATAATAGT
8314913 GTTATGACAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (37 bp):
CTTAAACAATAACTCATTTATTGTTTGATATAATAGT
Done.