Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 49 of 133
Found at i:10433986 original size:22 final size:22
Alignment explanation
Indices: 10433958--10433999 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
10433948 AATAAGACAC
*
10433958 AAAAATA-AAAATAGAATAAATA
1 AAAAATAGAAAA-AAAATAAATA
10433980 AAAAATAGAAAAAAAATAAA
1 AAAAATAGAAAAAAAATAAA
10434000 AATCAAACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (22 bp):
AAAAATAGAAAAAAAATAAATA
Found at i:10433998 original size:18 final size:18
Alignment explanation
Indices: 10433939--10434001 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
10433929 ATTAACAATT
* *
10433939 AAAATAATAAATAAGACACA
1 AAAATAAAAAAT-AGA-AAA
10433959 AAAAT-AAAAATAG--AA
1 AAAATAAAAAATAGAAAA
*
10433974 TAAATAAAAAATAGAAAA
1 AAAATAAAAAATAGAAAA
10433992 AAAATAAAAA
1 AAAATAAAAA
10434002 TCAAACCTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
15 5 0.14
16 8 0.22
18 13 0.36
19 5 0.14
20 5 0.14
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.14
Consensus pattern (18 bp):
AAAATAAAAAATAGAAAA
Found at i:10434000 original size:16 final size:17
Alignment explanation
Indices: 10433958--10434000 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
10433948 AATAAGACAC
10433958 AAAAATAAAAATAGAATA
1 AAAAAT-AAAATAGAATA
*
10433976 AATAA-AAAATAGAA-A
1 AAAAATAAAATAGAATA
10433991 AAAAATAAAA
1 AAAAATAAAA
10434001 ATCAAACCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 5 0.23
16 13 0.59
18 4 0.18
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (17 bp):
AAAAATAAAATAGAATA
Found at i:10435333 original size:12 final size:12
Alignment explanation
Indices: 10435306--10435354 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
10435296 CTTTGACCAA
10435306 TAAAAT-AAAA-
1 TAAAATCAAAAT
10435316 TAAAATCAAAAT
1 TAAAATCAAAAT
10435328 TAAAATCAAAAT
1 TAAAATCAAAAT
* * *
10435340 CAAAGTTAAAAT
1 TAAAATCAAAAT
10435352 TAA
1 TAA
10435355 GATTTTTGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
10 6 0.18
11 4 0.12
12 23 0.70
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.24
Consensus pattern (12 bp):
TAAAATCAAAAT
Found at i:10435340 original size:18 final size:17
Alignment explanation
Indices: 10435307--10435351 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
10435297 TTTGACCAAT
10435307 AAAA-TAAAATAAAATC
1 AAAATTAAAATAAAATC
10435323 AAAATTAAAATCAAAATC
1 AAAATTAAAAT-AAAATC
*
10435341 AAAGTTAAAAT
1 AAAATTAAAAT
10435352 TAAGATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 4 0.15
17 6 0.23
18 16 0.62
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.22
Consensus pattern (17 bp):
AAAATTAAAATAAAATC
Found at i:10435761 original size:37 final size:37
Alignment explanation
Indices: 10435622--10435866 Score: 135
Period size: 38 Copynumber: 6.6 Consensus size: 37
10435612 TTTTGAAACT
* * **
10435622 TTTGAAAAATAAAATA-TTCTTTCACTAAAGCTTCATT
1 TTTGAAAAATAAAATACTTC-TCCACCAAAGCTTCAAC
* * * **
10435659 TTTAAAAAAATAAAGTACTTTTCCA-CTGAGACTTCAAC
1 TTT-GAAAAATAAAATACTTCTCCACCAAAG-CTTCAAC
* * ***
10435697 TTTGAAAAAAAAAAAAAAGGAACTCCACCAAAGCTTCAAC
1 TTTG--AAAAATAAAATA-CTTCTCCACCAAAGCTTCAAC
* *
10435737 TTTGAAAAATAAAATACTTTTCCACCAAGGCTTCAAC
1 TTTGAAAAATAAAATACTTCTCCACCAAAGCTTCAAC
* ** *
10435774 -TT-AAAAA-AAAA-AATTCCTCCACTGAGGCTTCAAC
1 TTTGAAAAATAAAATACTT-CTCCACCAAAGCTTCAAC
* * * * *
10435808 TTTAAAAAATAAATTACTCCTCCACCAATGTTTCAAC
1 TTTGAAAAATAAAATACTTCTCCACCAAAGCTTCAAC
10435845 TTTTGAAAAAT-AAATGACTTCT
1 -TTTGAAAAATAAAAT-ACTTCT
10435867 TCGAGGCTTC
Statistics
Matches: 154, Mismatches: 40, Indels: 27
0.70 0.18 0.12
Matches are distributed among these distances:
33 3 0.02
34 19 0.12
35 7 0.05
36 7 0.05
37 41 0.27
38 48 0.31
39 11 0.07
40 15 0.10
41 3 0.02
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (37 bp):
TTTGAAAAATAAAATACTTCTCCACCAAAGCTTCAAC
Found at i:10436409 original size:48 final size:48
Alignment explanation
Indices: 10436322--10436413 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
10436312 TGAATGCAAT
*
10436322 AAATGCGATGATATATGCAACATGTAATGAATATAGTGAATATAGTGC
1 AAATGCGATGATATATGCAACATGTAATGAATACAGTGAATATAGTGC
* * *
10436370 AAATGCGATGATGTATGCAACATGTAATGAATGCCGTGAATATA
1 AAATGCGATGATATATGCAACATGTAATGAATACAGTGAATATA
10436414 ACTCATGATG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (48 bp):
AAATGCGATGATATATGCAACATGTAATGAATACAGTGAATATAGTGC
Found at i:10437437 original size:15 final size:15
Alignment explanation
Indices: 10437417--10437447 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10437407 TTCCTTTCTT
10437417 TATTAATAATGCAAA
1 TATTAATAATGCAAA
*
10437432 TATTAATCATGCAAA
1 TATTAATAATGCAAA
10437447 T
1 T
10437448 TCATGCCATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (15 bp):
TATTAATAATGCAAA
Found at i:10437570 original size:24 final size:24
Alignment explanation
Indices: 10437503--10437573 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
10437493 AAATAAATAT
*
10437503 AATCATA-CAATGCAATAAACATAA
1 AATCATATC-ATGCAATAATCATAA
* *
10437527 AATAATATCATACAATAATCATAA
1 AATCATATCATGCAATAATCATAA
*
10437551 AATCATATCATGCAACAATCATA
1 AATCATATCATGCAATAATCATA
10437574 TCATGCAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
24 39 0.98
25 1 0.03
ACGTcount: A:0.55, C:0.17, G:0.03, T:0.25
Consensus pattern (24 bp):
AATCATATCATGCAATAATCATAA
Found at i:10437572 original size:16 final size:16
Alignment explanation
Indices: 10437551--10437581 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
10437541 ATAATCATAA
10437551 AATCATATCATGCAAC
1 AATCATATCATGCAAC
10437567 AATCATATCATGCAA
1 AATCATATCATGCAA
10437582 TAATAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.23, G:0.06, T:0.26
Consensus pattern (16 bp):
AATCATATCATGCAAC
Found at i:10437651 original size:23 final size:24
Alignment explanation
Indices: 10437612--10437699 Score: 115
Period size: 24 Copynumber: 3.7 Consensus size: 24
10437602 TAACAAAAAC
10437612 CATGCAAATAAATATATTAATAAT
1 CATGCAAATAAATATATTAATAAT
* *
10437636 CATTCAAAT-AATATATAAATAAT
1 CATGCAAATAAATATATTAATAAT
* *
10437659 CATGCAAGTAAAAATATTAATAAT
1 CATGCAAATAAATATATTAATAAT
*
10437683 TATGCAAATAATATATA
1 CATGCAAATAA-ATATA
10437700 ATCATGCAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
23 20 0.38
24 29 0.55
25 4 0.08
ACGTcount: A:0.55, C:0.08, G:0.05, T:0.33
Consensus pattern (24 bp):
CATGCAAATAAATATATTAATAAT
Found at i:10437680 original size:24 final size:23
Alignment explanation
Indices: 10437612--10437760 Score: 82
Period size: 24 Copynumber: 6.7 Consensus size: 23
10437602 TAACAAAAAC
*
10437612 CATGCAAATAAATATATTAATAAT
1 CATGC-AATAAAAATATTAATAAT
* * *
10437636 CATTCAA-ATAATATATAAATAAT
1 CATGCAATA-AAAATATTAATAAT
10437659 CATGCAAGTAAAAATATTAATAAT
1 CATGCAA-TAAAAATATTAATAAT
* *
10437683 TATGC-A-AATAATA-T-ATAAT
1 CATGCAATAAAAATATTAATAAT
*
10437702 CATGCAAT-ATAATA--AATAAT
1 CATGCAATAAAAATATTAATAAT
* * *
10437722 CATAG-AAGTAAATATATTAATTAC
1 CAT-GCAA-TAAAAATATTAATAAT
* *
10437746 CATACAATAATAATA
1 CATGCAATAAAAATA
10437761 AATACTATTC
Statistics
Matches: 98, Mismatches: 15, Indels: 25
0.71 0.11 0.18
Matches are distributed among these distances:
19 9 0.09
20 18 0.18
21 8 0.08
22 5 0.05
23 28 0.29
24 29 0.30
25 1 0.01
ACGTcount: A:0.54, C:0.09, G:0.05, T:0.32
Consensus pattern (23 bp):
CATGCAATAAAAATATTAATAAT
Found at i:10437715 original size:23 final size:21
Alignment explanation
Indices: 10437631--10437724 Score: 61
Period size: 20 Copynumber: 4.4 Consensus size: 21
10437621 AAATATATTA
* *
10437631 ATAATCATTCAAATAATATATAA
1 ATAATCATGCAAA-AATA-ATAT
10437654 ATAATCATGCAAGTAAA-AATATT
1 ATAATCATGCAA--AAATAATA-T
*
10437677 AATAATTATGC--AAATAATAT
1 -ATAATCATGCAAAAATAATAT
* *
10437697 ATAATCATGC-AATATAATAA
1 ATAATCATGCAAAAATAATAT
10437717 ATAATCAT
1 ATAATCAT
10437725 AGAAGTAAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 15
0.74 0.08 0.19
Matches are distributed among these distances:
19 9 0.15
20 19 0.32
21 4 0.07
22 3 0.05
23 12 0.20
24 11 0.19
25 1 0.02
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (21 bp):
ATAATCATGCAAAAATAATAT
Found at i:10445683 original size:17 final size:17
Alignment explanation
Indices: 10445661--10445697 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
10445651 ATATGTTGGT
*
10445661 GTTATTTGGATTTAGGG
1 GTTATTTGAATTTAGGG
*
10445678 GTTATTTGAATTTGGGG
1 GTTATTTGAATTTAGGG
10445695 GTT
1 GTT
10445698 GCATGTGTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.35, T:0.49
Consensus pattern (17 bp):
GTTATTTGAATTTAGGG
Found at i:10447637 original size:29 final size:29
Alignment explanation
Indices: 10447605--10447663 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
10447595 TTTTTTTATT
*
10447605 TTTTTGGATATGGTTTATTTCA-AATTGAA
1 TTTTTGGATATGATTTATTTCATAA-TGAA
**
10447634 TTTTTTTATATGATTTATTTCATAATGAA
1 TTTTTGGATATGATTTATTTCATAATGAA
10447663 T
1 T
10447664 GATTATGGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 24 0.92
30 2 0.08
ACGTcount: A:0.29, C:0.03, G:0.12, T:0.56
Consensus pattern (29 bp):
TTTTTGGATATGATTTATTTCATAATGAA
Found at i:10448593 original size:26 final size:26
Alignment explanation
Indices: 10448564--10448614 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
10448554 ATTATTGTTA
*
10448564 GTTCATCATTGATCTTT-AAAGAGTTG
1 GTTCATCACTGAT-TTTCAAAGAGTTG
10448590 GTTCATCACTGATTTTCAAAGAGTT
1 GTTCATCACTGATTTTCAAAGAGTT
10448615 AAAAAATTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (26 bp):
GTTCATCACTGATTTTCAAAGAGTTG
Found at i:10449298 original size:18 final size:18
Alignment explanation
Indices: 10449275--10449350 Score: 64
Period size: 19 Copynumber: 4.1 Consensus size: 18
10449265 AAATTATTTT
10449275 AAAAATTATAAAATATCA
1 AAAAATTATAAAATATCA
* **
10449293 AAAAATT-TGAAATATGTTT
1 AAAAATTAT-AAA-ATATCA
* *
10449312 AAAAATTATAAAAAATTA
1 AAAAATTATAAAATATCA
*
10449330 AAAAATTACGAAAATATCA
1 AAAAATTA-TAAAATATCA
10449349 AA
1 AA
10449351 TATTCAAAAG
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
17 1 0.02
18 21 0.47
19 22 0.49
20 1 0.02
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (18 bp):
AAAAATTATAAAATATCA
Found at i:10449701 original size:19 final size:19
Alignment explanation
Indices: 10449673--10449726 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
10449663 ATAAAAATCC
* *
10449673 AAAAATAATTTAAAATTTAT
1 AAAAA-AATTAAAAATATAT
* *
10449693 GACAAAATTAAAAATATAT
1 AAAAAAATTAAAAATATAT
10449712 AAAAAAATTAAAAAT
1 AAAAAAATTAAAAAT
10449727 GTAAGAATAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 25 0.89
20 3 0.11
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAAAAATTAAAAATATAT
Found at i:10450028 original size:20 final size:21
Alignment explanation
Indices: 10450005--10450047 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
10449995 AAAATATTTC
10450005 ATATCTTTA-AAATTTTTGAA
1 ATATCTTTAGAAATTTTTGAA
* *
10450025 ATATTTTTAGAATTTTTTGAA
1 ATATCTTTAGAAATTTTTGAA
10450046 AT
1 AT
10450048 TTTCTTCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.53
Consensus pattern (21 bp):
ATATCTTTAGAAATTTTTGAA
Found at i:10464071 original size:21 final size:21
Alignment explanation
Indices: 10464039--10464090 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
10464029 AATTAATTAC
*
10464039 AATTTATT-ATAAAAAATAAT
1 AATTAATTAATAAAAAATAAT
* *
10464059 AATTAATTAATAAAAAGTCAT
1 AATTAATTAATAAAAAATAAT
*
10464080 TATTAATTAAT
1 AATTAATTAAT
10464091 TCATTTCTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
AATTAATTAATAAAAAATAAT
Found at i:10464238 original size:23 final size:24
Alignment explanation
Indices: 10464212--10464256 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
10464202 ATTTAAAATA
*
10464212 TTTTGATTT-TTTCTTT-CTTTTC
1 TTTTTATTTCTTTCTTTCCTTTTC
*
10464234 TTTTTTTTTCTTTCTTTCCTTTT
1 TTTTTATTTCTTTCTTTCCTTTT
10464257 TCTCTCCTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 7 0.37
24 5 0.26
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (24 bp):
TTTTTATTTCTTTCTTTCCTTTTC
Found at i:10464242 original size:19 final size:19
Alignment explanation
Indices: 10464218--10464257 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
10464208 AATATTTTGA
*
10464218 TTTTTTCTTTCTTTTCTTT
1 TTTTTTCTTTCTTTCCTTT
10464237 TTTTTTCTTTCTTTCCTTT
1 TTTTTTCTTTCTTTCCTTT
10464256 TT
1 TT
10464258 CTCTCCTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTTCTTTCTTTCCTTT
Found at i:10464899 original size:17 final size:17
Alignment explanation
Indices: 10464855--10464955 Score: 53
Period size: 18 Copynumber: 5.5 Consensus size: 17
10464845 TAAAAACCCA
*
10464855 ATTTTTTTTTATTATGTT
1 ATTTTTATTTATTAT-TT
**
10464873 AAGTTT-TTTATTATTT
1 ATTTTTATTTATTATTT
10464889 ATTTTTATTTATCT-TTAT
1 ATTTTTATTTAT-TATT-T
*
10464907 ATGTTATTTATCTTCATTAGTT
1 A--TT-TTTAT-TT-ATTATTT
*
10464929 ATTTTTATTTAGTAATTT
1 ATTTTTATTTA-TTATTT
10464947 ATTTCTTAT
1 ATTT-TTAT
10464956 ACATCTTTAT
Statistics
Matches: 65, Mismatches: 7, Indels: 21
0.70 0.08 0.23
Matches are distributed among these distances:
16 6 0.09
17 16 0.25
18 17 0.26
19 9 0.14
20 4 0.06
21 5 0.08
22 5 0.08
23 3 0.05
ACGTcount: A:0.23, C:0.04, G:0.05, T:0.68
Consensus pattern (17 bp):
ATTTTTATTTATTATTT
Found at i:10465457 original size:19 final size:19
Alignment explanation
Indices: 10465435--10465471 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
10465425 GGAAATTTTG
10465435 ATGAT-ATTTATAGATTTCA
1 ATGATGATTTATA-ATTTCA
10465454 ATGATGATTTATAATTTC
1 ATGATGATTTATAATTTC
10465472 TCCAAGCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.49
Consensus pattern (19 bp):
ATGATGATTTATAATTTCA
Found at i:10466436 original size:102 final size:103
Alignment explanation
Indices: 10466235--10466436 Score: 248
Period size: 102 Copynumber: 2.0 Consensus size: 103
10466225 ATGAAAATTA
*
10466235 TTTATTTTCAAAAATATCTTCCAATATGTTAGAAAAATTTTTTGTCAAAAATTATCCTCTAATAT
1 TTTATTTTCAAAAATATCTTCCAATATGTTAGAAAAATTTTTCGTCAAAAATTATCCTCTAATAT
* ***
10466300 ATTGGTAAGATTGAAAATATATTTGTTTGTGAAAACAG
66 ATTGGTAAGATTGAAAAAATATTTGTTCAAGAAAACAG
* * * * *
10466338 TTTATTTT-TAAAATATCTTCCAATATGTTGGTAAGATTTTTCGTCAAAAATTAT-CTTTCAATA
1 TTTATTTTCAAAAATATCTTCCAATATGTTAGAAAAATTTTTCGTCAAAAATTATCCTCT-AATA
* * *
10466401 TATTTGTAGGATTTTAAAAAATATTT-TTCAAGAAAA
65 TATTGGTAAGA-TTGAAAAAATATTTGTTCAAGAAAA
10466437 TCATTAAGTC
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
101 3 0.04
102 61 0.73
103 20 0.24
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (103 bp):
TTTATTTTCAAAAATATCTTCCAATATGTTAGAAAAATTTTTCGTCAAAAATTATCCTCTAATAT
ATTGGTAAGATTGAAAAAATATTTGTTCAAGAAAACAG
Found at i:10466628 original size:18 final size:19
Alignment explanation
Indices: 10466605--10466662 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 19
10466595 AGCATCATGC
*
10466605 AAATAATGTAA-ATATCAT
1 AAATAATATAATATATCAT
10466623 AAATAATATAAATATATCAT
1 AAATAATAT-AATATATCAT
10466643 ACAATAATATAATATATCAT
1 A-AATAATATAATATATCAT
10466663 GCAATTAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
18 8 0.22
19 2 0.06
20 18 0.50
21 8 0.22
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (19 bp):
AAATAATATAATATATCAT
Found at i:10466639 original size:20 final size:20
Alignment explanation
Indices: 10466606--10466688 Score: 91
Period size: 21 Copynumber: 4.2 Consensus size: 20
10466596 GCATCATGCA
*
10466606 AATAATGTAA-ATATCATA-
1 AATAATATAATATATCATAC
10466624 AATAATATAAATATATCATAC
1 AATAATAT-AATATATCATAC
*
10466645 AATAATATAATATATCATGC
1 AATAATATAATATATCATAC
*
10466665 AATTAATATAACT-TATCATGC
1 AA-TAATATAA-TATATCATAC
10466686 AAT
1 AAT
10466689 TATAATAAAG
Statistics
Matches: 58, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
18 7 0.12
19 2 0.03
20 22 0.38
21 26 0.45
22 1 0.02
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.35
Consensus pattern (20 bp):
AATAATATAATATATCATAC
Found at i:10466648 original size:21 final size:21
Alignment explanation
Indices: 10466616--10466697 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 21
10466606 AATAATGTAA
10466616 ATATCATA-AATAATATAAAT
1 ATATCATACAATAATATAAAT
10466636 ATATCATACAATAATAT-AAT
1 ATATCATACAATAATATAAAT
* *
10466656 ATATCATGCAATTAATATAACT
1 ATATCATACAA-TAATATAAAT
* *
10466678 -TATCATGCAATTATAATAAA
1 ATATCATACAATAAT-ATAAA
10466698 GCATCCTACA
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
20 24 0.44
21 28 0.52
22 2 0.04
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.35
Consensus pattern (21 bp):
ATATCATACAATAATATAAAT
Found at i:10467308 original size:11 final size:11
Alignment explanation
Indices: 10467265--10467310 Score: 58
Period size: 11 Copynumber: 4.0 Consensus size: 11
10467255 TTCAGAAATT
10467265 TAAATCACAAGCC
1 TAAATCA-AAG-C
10467278 TAAATCAAA-C
1 TAAATCAAAGC
10467288 TAAATACAAAGC
1 TAAAT-CAAAGC
10467300 TAAATCAAAGC
1 TAAATCAAAGC
10467311 CCAAAATTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
10 6 0.19
11 10 0.32
12 8 0.26
13 7 0.23
ACGTcount: A:0.54, C:0.22, G:0.07, T:0.17
Consensus pattern (11 bp):
TAAATCAAAGC
Found at i:10467466 original size:20 final size:20
Alignment explanation
Indices: 10467429--10467467 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
10467419 CCAAATTGAA
*
10467429 CTAGAATGCCAAGACAAAAT
1 CTAGAATGCCAAAACAAAAT
10467449 CTAGAAT-CCAAAATCAAAA
1 CTAGAATGCCAAAA-CAAAA
10467468 ATAAAAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.54, C:0.21, G:0.10, T:0.15
Consensus pattern (20 bp):
CTAGAATGCCAAAACAAAAT
Found at i:10474400 original size:23 final size:22
Alignment explanation
Indices: 10474355--10474396 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
10474345 AGCATTTTTA
*
10474355 AATAAAATTTTTAATTTAATAT
1 AATAAAATTTTTAATATAATAT
* *
10474377 AATAAATTTTTTTATATAAT
1 AATAAAATTTTTAATATAAT
10474397 TATAGGTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AATAAAATTTTTAATATAATAT
Found at i:10476006 original size:3 final size:3
Alignment explanation
Indices: 10475998--10476033 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
10475988 AATTTATGTT
10475998 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10476034 ATGTGTACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10477611 original size:17 final size:17
Alignment explanation
Indices: 10477579--10477611 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10477569 AATAAGGTAT
10477579 AATTATATAAATTATTA
1 AATTATATAAATTATTA
10477596 AATTA-ATAAATATATT
1 AATTATATAAAT-TATT
10477612 TATTGATAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTATATAAATTATTA
Found at i:10478271 original size:2 final size:2
Alignment explanation
Indices: 10478264--10478288 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10478254 AGCTGCGATT
10478264 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
10478289 GATTGCGTTA
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:10479871 original size:3 final size:3
Alignment explanation
Indices: 10479863--10479895 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
10479853 TTTGACATTT
10479863 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10479896 CCAAAGTCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10479984 original size:14 final size:14
Alignment explanation
Indices: 10479965--10479991 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10479955 TTTTATAAAT
10479965 AAAAAATTTATTTA
1 AAAAAATTTATTTA
10479979 AAAAAATTTATTT
1 AAAAAATTTATTT
10479992 TTTTTTTATA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AAAAAATTTATTTA
Found at i:10482729 original size:13 final size:13
Alignment explanation
Indices: 10482701--10482735 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
10482691 GGGAAATGCT
*
10482701 TTTAAA-TTAAAT
1 TTTAAATTTAAAA
10482713 TTTAAATTTAAAA
1 TTTAAATTTAAAA
10482726 TTTAAATTTA
1 TTTAAATTTA
10482736 TTAGATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TTTAAATTTAAAA
Found at i:10483874 original size:33 final size:33
Alignment explanation
Indices: 10483823--10483894 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
10483813 AGAAGGATAC
* *
10483823 AATTGATTTTAATCATAAAAAATAGTACTTAATT
1 AATTAATTTTAATAATAAAAAATAGTACTT-ATT
*
10483857 -ATTAATTTTAATAATAAAAAATGGTACTTATT
1 AATTAATTTTAATAATAAAAAATAGTACTTATT
10483889 AATTAA
1 AATTAA
10483895 GTTGAACGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 3 0.09
33 31 0.91
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.42
Consensus pattern (33 bp):
AATTAATTTTAATAATAAAAAATAGTACTTATT
Found at i:10487850 original size:5 final size:5
Alignment explanation
Indices: 10487842--10487936 Score: 56
Period size: 5 Copynumber: 18.8 Consensus size: 5
10487832 TTTTTTTTCG
* *
10487842 TTTTA TTTTTA TTTTA TTTTA TTTTA ATTCA TTTTATA TTTTCA GTTTT-
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA -TTT-TA TTTT-A -TTTTA
* * *
10487891 TTTT- TTTT- TTTTA GTTTTG TTTTC TTTCA -TTTA TTTTA -TTTA TTTT
1 TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
10487937 GCAAAATTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 17
0.73 0.09 0.17
Matches are distributed among these distances:
4 19 0.26
5 33 0.46
6 15 0.21
7 5 0.07
ACGTcount: A:0.16, C:0.04, G:0.03, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:10488353 original size:18 final size:18
Alignment explanation
Indices: 10488330--10488384 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 18
10488320 GTATTATATT
10488330 TATTATTTTAATAATTAA
1 TATTATTTTAATAATTAA
* * *
10488348 TATTATTTCATATAACCATAT
1 TATTATTTTA-ATAA--TTAA
10488369 TATTATTTTAATAATT
1 TATTATTTTAATAATT
10488385 CTTTTCATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
18 10 0.34
19 4 0.14
20 4 0.14
21 11 0.38
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (18 bp):
TATTATTTTAATAATTAA
Found at i:10488579 original size:24 final size:21
Alignment explanation
Indices: 10488550--10488601 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
10488540 ATTTCAATAA
10488550 AATATTTTAATATTATAAATACTT
1 AATATTTTAATA--ATAAATA-TT
10488574 AATA-TTTAATAATAAATATT
1 AATATTTTAATAATAAATATT
*
10488594 ACTATTTT
1 AATATTTT
10488602 TCATATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 5 0.19
21 10 0.38
23 7 0.27
24 4 0.15
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (21 bp):
AATATTTTAATAATAAATATT
Found at i:10490292 original size:10 final size:11
Alignment explanation
Indices: 10490277--10490305 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
10490267 TTAAGTTGAA
10490277 TTGAATTTG-T
1 TTGAATTTGTT
10490287 TTGAATTTGTT
1 TTGAATTTGTT
10490298 TTGAATTT
1 TTGAATTT
10490306 TGTTATTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.21, C:0.00, G:0.17, T:0.62
Consensus pattern (11 bp):
TTGAATTTGTT
Found at i:10494406 original size:20 final size:20
Alignment explanation
Indices: 10494381--10494418 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10494371 AATTTGAATG
10494381 TCATTTCATCTTTTACATTT
1 TCATTTCATCTTTTACATTT
*
10494401 TCATTTGATCTTTTACAT
1 TCATTTCATCTTTTACAT
10494419 ACACTTTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.18, G:0.03, T:0.58
Consensus pattern (20 bp):
TCATTTCATCTTTTACATTT
Found at i:10495369 original size:437 final size:437
Alignment explanation
Indices: 10494555--10495435 Score: 1708
Period size: 437 Copynumber: 2.0 Consensus size: 437
10494545 ATCTTATGCA
* *
10494555 CATCATAATAAGATAATACATGCATTTCATGTCATCCTATACACATCTTAATAGATAGTGCATGT
1 CATCATAATAAGATAATACATGCATTTCATGTCATCATATACACATATTAATAGATAGTGCATGT
*
10494620 ATTCAATCTCATTGTATATCTTAAGGCAGTGAAAACTTTATTAACTCAACACAATACATGCATTG
66 ATTCAATCTCATTATATATCTTAAGGCAGTGAAAACTTTATTAACTCAACACAATACATGCATTG
10494685 CATTCTATATAAATATATCTCATGCACACGTTAGGTTCGTGCATGTCATACAAGTAGGTGGCATT
131 CATTCTATATAAATATATCTCATGCACACGTTAGGTTCGTGCATGTCATACAAGTAGGTGGCATT
10494750 AGTCATAGATATATATCTTGTTACATATGAAGCATGTCGTTGCATTTCATGCATATGGATTCATG
196 AGTCATAGATATATATCTTGTTACATATGAAGCATGTCGTTGCATTTCATGCATATGGATTCATG
10494815 AATGGTAAAGTTTATAAAGCACATATTGCATTTCATAGCCTACCATCCTTACAACTTAACATTAT
261 AATGGTAAAGTTTATAAAGCACATATTGCATTTCATAGCCTACCATCCTTACAACTTAACATTAT
10494880 ATTCCTTGCATATACGTTTATGGATGACAAAGTTTTTATTATTTGAGGCCTTGTACATATAAAAA
326 ATTCCTTGCATATACGTTTATGGATGACAAAGTTTTTATTATTTGAGGCCTTGTACATATAAAAA
10494945 TCCATTATCTTGGGCATATTTGATTTTATGACATTTTTTCACATTCT
391 TCCATTATCTTGGGCATATTTGATTTTATGACATTTTTTCACATTCT
*
10494992 CATCATAATAAGATAATACATGCATTTCATTTCATCATATACACATATTAATAGATAGTGCATGT
1 CATCATAATAAGATAATACATGCATTTCATGTCATCATATACACATATTAATAGATAGTGCATGT
*
10495057 ATTCAATCTCATTATATATCTTAAGGCAGTGAAAACTTTATTAACTTAACACAATACATGCATTG
66 ATTCAATCTCATTATATATCTTAAGGCAGTGAAAACTTTATTAACTCAACACAATACATGCATTG
*
10495122 CATTCTATATAAATATATCTCATGCACACGTTAGGTTTGTGCATGTCATACAAGTAGGTGGCATT
131 CATTCTATATAAATATATCTCATGCACACGTTAGGTTCGTGCATGTCATACAAGTAGGTGGCATT
10495187 AGTCATAGATATATATCTTGTTACATATGAAGCATGTCGTTGCATTTCATGCATATGGATTCATG
196 AGTCATAGATATATATCTTGTTACATATGAAGCATGTCGTTGCATTTCATGCATATGGATTCATG
10495252 AATGGTAAAGTTTATAAAGCACATATTGCATTTCATAGCCTACCATCCTTACAACTTAACATTAT
261 AATGGTAAAGTTTATAAAGCACATATTGCATTTCATAGCCTACCATCCTTACAACTTAACATTAT
10495317 ATTCCTTGCATATACGTTTATGGATGACAAAGTTTTTATTATTTGAGGCCTTGTACATATAAAAA
326 ATTCCTTGCATATACGTTTATGGATGACAAAGTTTTTATTATTTGAGGCCTTGTACATATAAAAA
10495382 TCCATTATCTTGGGCATATTTGATTTTATGACATTTTTTCACATTCT
391 TCCATTATCTTGGGCATATTTGATTTTATGACATTTTTTCACATTCT
10495429 CATCATA
1 CATCATA
10495436 TTCATAAAAA
Statistics
Matches: 438, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
437 438 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.38
Consensus pattern (437 bp):
CATCATAATAAGATAATACATGCATTTCATGTCATCATATACACATATTAATAGATAGTGCATGT
ATTCAATCTCATTATATATCTTAAGGCAGTGAAAACTTTATTAACTCAACACAATACATGCATTG
CATTCTATATAAATATATCTCATGCACACGTTAGGTTCGTGCATGTCATACAAGTAGGTGGCATT
AGTCATAGATATATATCTTGTTACATATGAAGCATGTCGTTGCATTTCATGCATATGGATTCATG
AATGGTAAAGTTTATAAAGCACATATTGCATTTCATAGCCTACCATCCTTACAACTTAACATTAT
ATTCCTTGCATATACGTTTATGGATGACAAAGTTTTTATTATTTGAGGCCTTGTACATATAAAAA
TCCATTATCTTGGGCATATTTGATTTTATGACATTTTTTCACATTCT
Found at i:10502331 original size:22 final size:22
Alignment explanation
Indices: 10502304--10502448 Score: 96
Period size: 22 Copynumber: 6.5 Consensus size: 22
10502294 CATACTCAAT
*
10502304 TTAGCTAGCACCTAAGCTCAAA
1 TTAGCTAGCACCTAAGCTCAGA
* * * *
10502326 TCAGCTGGCACCCAAGCCCAGA
1 TTAGCTAGCACCTAAGCTCAGA
* * *
10502348 TAAGTTGGCACCTAAGC-CTAGA
1 TTAGCTAGCACCTAAGCTC-AGA
* * *
10502370 TTAACTAGTAACTAAG-TCTAGA
1 TTAGCTAGCACCTAAGCTC-AGA
* *
10502392 TTAGCTAGCACTTTAAGCTCAAA
1 TTAGCTAGCAC-CTAAGCTCAGA
* *
10502415 TTAGCTAGCACATAAGCCCAGA
1 TTAGCTAGCACCTAAGCTCAGA
* *
10502437 TCAACTAGCACC
1 TTAGCTAGCACC
10502449 CAAATGATAT
Statistics
Matches: 94, Mismatches: 25, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
21 1 0.01
22 74 0.79
23 17 0.18
24 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (22 bp):
TTAGCTAGCACCTAAGCTCAGA
Found at i:10502534 original size:23 final size:22
Alignment explanation
Indices: 10502490--10502559 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 22
10502480 TAGTTGAGAT
* *
10502490 TTTAAACCCAGTTTAACTGGCAC
1 TTTAAACCCAATTT-AGTGGCAC
10502513 TTTAAACCCAATTTAGTAGGCAC
1 TTTAAACCCAATTTAGT-GGCAC
* *
10502536 ATTAAGCCC-ATTCTAGTTGGCAC
1 TTTAAACCCAATT-TAG-TGGCAC
10502559 T
1 T
10502560 CAAAGCAAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
22 5 0.13
23 33 0.85
24 1 0.03
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.31
Consensus pattern (22 bp):
TTTAAACCCAATTTAGTGGCAC
Found at i:10502589 original size:32 final size:32
Alignment explanation
Indices: 10502547--10502617 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
10502537 TTAAGCCCAT
* *
10502547 TCTAGTTGGCACTCAAAGCAAACCAAGCTCAA
1 TCTAGCTGGCACTCAAAGCAAACCAAGCTAAA
* * * *
10502579 TCTAGCTGGCATTTAAATCAAACTAAGCTAAA
1 TCTAGCTGGCACTCAAAGCAAACCAAGCTAAA
*
10502611 TCAAGCT
1 TCTAGCT
10502618 AGCATCCAAG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (32 bp):
TCTAGCTGGCACTCAAAGCAAACCAAGCTAAA
Found at i:10502794 original size:97 final size:97
Alignment explanation
Indices: 10502628--10502813 Score: 264
Period size: 97 Copynumber: 1.9 Consensus size: 97
10502618 AGCATCCAAG
* * * * * **
10502628 ATAATCTCTTAGAACTCTGGGTAAAACTTTTTAAATTTTTTAAAGTCTCAACGTCTTTAATACGA
1 ATAATCTCTAAGAACTCTAGGTAAAACATTTTAAATTTGTTAAAATCTCAACACCTTTAATACGA
10502693 TGAGCATTCAAAGATTTGTAAGACTTTTGGGC
66 TGAGCATTCAAAGATTTGTAAGACTTTTGGGC
** * * *
10502725 ATAATCTCTAAGATTTCTAGGTAAAACATTTTAAATTTGTTAAAATTTTAACACCTTTGATACGA
1 ATAATCTCTAAGAACTCTAGGTAAAACATTTTAAATTTGTTAAAATCTCAACACCTTTAATACGA
10502790 TGAGCATTCAAAGATTTGTAAGAC
66 TGAGCATTCAAAGATTTGTAAGAC
10502814 CTCCAAACAT
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
97 77 1.00
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (97 bp):
ATAATCTCTAAGAACTCTAGGTAAAACATTTTAAATTTGTTAAAATCTCAACACCTTTAATACGA
TGAGCATTCAAAGATTTGTAAGACTTTTGGGC
Found at i:10502825 original size:97 final size:97
Alignment explanation
Indices: 10502628--10502834 Score: 243
Period size: 97 Copynumber: 2.1 Consensus size: 97
10502618 AGCATCCAAG
* * * * * **
10502628 ATAATCTCTTAGAACTCTGGGTAAAACTTTTTAAATTTTTTAAAGTCTCAACGTCTTTAATACGA
1 ATAATCTCTAAGAACTCTAGGTAAAACATTTTAAATTTGTTAAAATCTCAACACCTTTAATACGA
* *****
10502693 TGAGCATTCAAAGATTTGTAAGACTTTTGGGC
66 TGAGCATTCAAAGATTTGTAAGACCTCCAAAC
** * * *
10502725 ATAATCTCTAAGATTTCTAGGTAAAACATTTTAAATTTGTTAAAATTTTAACACCTTTGATACGA
1 ATAATCTCTAAGAACTCTAGGTAAAACATTTTAAATTTGTTAAAATCTCAACACCTTTAATACGA
10502790 TGAGCATTCAAAGATTTGTAAGACCTCCAAAC
66 TGAGCATTCAAAGATTTGTAAGACCTCCAAAC
*
10502822 ATAATCTTTAAGA
1 ATAATCTCTAAGA
10502835 CCTTCGGGCA
Statistics
Matches: 91, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
97 91 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (97 bp):
ATAATCTCTAAGAACTCTAGGTAAAACATTTTAAATTTGTTAAAATCTCAACACCTTTAATACGA
TGAGCATTCAAAGATTTGTAAGACCTCCAAAC
Found at i:10503598 original size:25 final size:23
Alignment explanation
Indices: 10503555--10503601 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
10503545 AAGTATACCA
*
10503555 AAAATAAAAAAATATTTTTAAAG
1 AAAATAAAAAAATAATTTTAAAG
10503578 AAAATAAAAAAATTAAATTTTAAA
1 AAAATAAAAAAA-T-AATTTTAAA
10503602 TTTCAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.57
24 1 0.05
25 8 0.38
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (23 bp):
AAAATAAAAAAATAATTTTAAAG
Found at i:10508368 original size:11 final size:11
Alignment explanation
Indices: 10508354--10508383 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
10508344 AAGTATTCAA
*
10508354 TCAGTAATCTG
1 TCAGTAATCAG
10508365 TCAGTAATCAG
1 TCAGTAATCAG
10508376 TCAGTAAT
1 TCAGTAAT
10508384 ATTGAAACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (11 bp):
TCAGTAATCAG
Found at i:10508670 original size:21 final size:21
Alignment explanation
Indices: 10508625--10508670 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
10508615 TATAATATTA
* * * *
10508625 AAAAATATTCATAACTTTCAT
1 AAAAATATCCATAACATCCAC
10508646 AAAAATATCCATAACATCCAC
1 AAAAATATCCATAACATCCAC
10508667 AAAA
1 AAAA
10508671 GTCCTCAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.54, C:0.20, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAAATATCCATAACATCCAC
Found at i:10509705 original size:160 final size:159
Alignment explanation
Indices: 10509380--10509705 Score: 347
Period size: 160 Copynumber: 2.0 Consensus size: 159
10509370 CTTTATCAAC
*
10509380 AATCACAAAGCAAAATATGTAATAATTTTCACATTTCACAAAGTTATTACATCTCAATAAGTACA
1 AATCACAAAGCAAAATACGTAATAATTTTCACATTTCACAAAGTTATTACATCTCAATAAGTACA
** * * * * ** * *
10509445 GTATACTGTATAGTTCAATATTGAATTTCCAATAATATTTAGTTTTTCAATTACTACACTATCTA
66 AAACACTATATAGTTCAATAATGAATTTCCAATAATATCTAGGCTTTCAATTACTACACAATCAA
* * * * *
10509510 TTTTATCAATAATCACAATATATCACCAG
131 CTTCATCAACAATCACAATATACCACCAA
** *
10509539 AATCACAAATTAAAATACGTAATAATTTTCACATTTCACAACA-TTAATCT-CATCTTAATACA-
1 AATCACAAAGCAAAATACGTAATAATTTTCACATTTCACAA-AGTT-AT-TACATCTCAATA-AG
* ** *
10509601 TACAAAACACTATCTAGTTCAATAATGAATTTCTTATAATGA-CTAGGCTTTCAATTATTACACA
62 TACAAAACACTATATAGTTCAATAATGAATTTCCAATAAT-ATCTAGGCTTTCAATTACTACACA
*
10509665 ATCAACTTCATCAACAATCACAATA-CCCAACCAA
126 ATCAACTTCATCAACAATCACAATATACC-ACCAA
10509699 AATCACA
1 AATCACA
10509706 TCACAAAATA
Statistics
Matches: 137, Mismatches: 24, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
159 41 0.30
160 93 0.68
161 3 0.02
ACGTcount: A:0.42, C:0.19, G:0.05, T:0.34
Consensus pattern (159 bp):
AATCACAAAGCAAAATACGTAATAATTTTCACATTTCACAAAGTTATTACATCTCAATAAGTACA
AAACACTATATAGTTCAATAATGAATTTCCAATAATATCTAGGCTTTCAATTACTACACAATCAA
CTTCATCAACAATCACAATATACCACCAA
Found at i:10514623 original size:3 final size:3
Alignment explanation
Indices: 10514611--10514643 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
10514601 GGCTACATTG
10514611 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
10514644 ATGTTATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:10529909 original size:5 final size:5
Alignment explanation
Indices: 10529899--10529943 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
10529889 TGCTAAGTCC
* *
10529899 ATTTT ATTTT ATTTT ATTTT ATTTTT GTTTTT ATCTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT A-TTTT -ATTTT ATTTT ATTTT ATT
10529944 CCATTAGTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
5 26 0.76
6 8 0.24
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:10529954 original size:27 final size:27
Alignment explanation
Indices: 10529900--10529960 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
10529890 GCTAAGTCCA
* ** **
10529900 TTTTATTTTATTTTATTTTATTTTTGT
1 TTTTATCTTATTTTATTCCATTAGTGT
10529927 TTTTATCTTATTTTATTCCATTAGTGT
1 TTTTATCTTATTTTATTCCATTAGTGT
10529954 TATTTAT
1 T-TTTAT
10529961 TTTTAGTTAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 23 0.82
28 5 0.18
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.72
Consensus pattern (27 bp):
TTTTATCTTATTTTATTCCATTAGTGT
Found at i:10529996 original size:11 final size:11
Alignment explanation
Indices: 10529980--10530032 Score: 65
Period size: 11 Copynumber: 4.8 Consensus size: 11
10529970 GTATTTTCAA
10529980 AAAAAAAATAG
1 AAAAAAAATAG
10529991 AAAAAAGAA-AG
1 AAAAAA-AATAG
10530002 AAAAAAAATAG
1 AAAAAAAATAG
10530013 AAAACAAAA-AG
1 AAAA-AAAATAG
*
10530024 AAGAAAAAT
1 AAAAAAAAT
10530033 TTTTAAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
10 6 0.16
11 25 0.68
12 6 0.16
ACGTcount: A:0.81, C:0.02, G:0.11, T:0.06
Consensus pattern (11 bp):
AAAAAAAATAG
Found at i:10530008 original size:22 final size:22
Alignment explanation
Indices: 10529980--10530032 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
10529970 GTATTTTCAA
10529980 AAAAAAAATAGAAAA-AAGAAAG
1 AAAAAAAATAGAAAACAA-AAAG
10530002 AAAAAAAATAGAAAACAAAAAG
1 AAAAAAAATAGAAAACAAAAAG
*
10530024 AAGAAAAAT
1 AAAAAAAAT
10530033 TTTTAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 27 0.93
23 2 0.07
ACGTcount: A:0.81, C:0.02, G:0.11, T:0.06
Consensus pattern (22 bp):
AAAAAAAATAGAAAACAAAAAG
Found at i:10531078 original size:28 final size:28
Alignment explanation
Indices: 10531025--10531079 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
10531015 GTTAATCCAA
*
10531025 ATTATTTTTTTCCTTTTTTTATTTTTTT
1 ATTATTTTTTTCCTTTTTTTACTTTTTT
*
10531053 ATTATTTTTCTT-CTTTTTTTGCTTTTT
1 ATTATTTTT-TTCCTTTTTTTACTTTTT
10531080 CTTTTTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.80
Consensus pattern (28 bp):
ATTATTTTTTTCCTTTTTTTACTTTTTT
Found at i:10532385 original size:24 final size:24
Alignment explanation
Indices: 10532333--10532382 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
10532323 AATGGTACCA
* *
10532333 ATTAATTATGTGTTATCTTTTAAT
1 ATTAATTATGTCTTATATTTTAAT
*
10532357 ATTAATTATGTCTTA-ATTTTGAT
1 ATTAATTATGTCTTATATTTTAAT
10532380 ATT
1 ATT
10532383 TAAAAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.30, C:0.04, G:0.08, T:0.58
Consensus pattern (24 bp):
ATTAATTATGTCTTATATTTTAAT
Found at i:10534693 original size:65 final size:65
Alignment explanation
Indices: 10534587--10534733 Score: 213
Period size: 65 Copynumber: 2.3 Consensus size: 65
10534577 TAAAAAGAAA
* * * *
10534587 TATTTATAAAAGGCTTTTTTTAATGAATTAATAGGATAATTCCAAGTGTTACCATCATATAACCT
1 TATTTATAAAAAGCTTTCTTTAATGAATTAATAGGATAATTCCAAATGTTACAATCATATAACCT
* * * * *
10534652 TTTTTATAAAAAGCTTTCTTTAATGATTTACTATGATAATTCCAAATGTTACAATCTTATAACCT
1 TATTTATAAAAAGCTTTCTTTAATGAATTAATAGGATAATTCCAAATGTTACAATCATATAACCT
10534717 TATTTATAAAAAGCTTT
1 TATTTATAAAAAGCTTT
10534734 TAATAAGATA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
65 72 1.00
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (65 bp):
TATTTATAAAAAGCTTTCTTTAATGAATTAATAGGATAATTCCAAATGTTACAATCATATAACCT
Found at i:10535177 original size:28 final size:29
Alignment explanation
Indices: 10535128--10535182 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
10535118 TTTACCATTA
* *
10535128 TATTTTTAATTTTGGAGTAAATTTAATGG
1 TATTTCTAATTTTGGAGCAAATTTAATGG
10535157 TATTTCTAA-TTTGGAGCAAATTTAAT
1 TATTTCTAATTTTGGAGCAAATTTAAT
10535183 CAAATGTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.49
Consensus pattern (29 bp):
TATTTCTAATTTTGGAGCAAATTTAATGG
Found at i:10536077 original size:23 final size:25
Alignment explanation
Indices: 10536029--10536077 Score: 75
Period size: 23 Copynumber: 2.0 Consensus size: 25
10536019 GATCGATCTC
10536029 AACCAAATTAACTAAAAAAAATCAA
1 AACCAAATTAACTAAAAAAAATCAA
*
10536054 AACCAAATT-A-TGAAAAAAATCAA
1 AACCAAATTAACTAAAAAAAATCAA
10536077 A
1 A
10536078 GCTACAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 13 0.57
24 1 0.04
25 9 0.39
ACGTcount: A:0.67, C:0.14, G:0.02, T:0.16
Consensus pattern (25 bp):
AACCAAATTAACTAAAAAAAATCAA
Found at i:10536138 original size:16 final size:15
Alignment explanation
Indices: 10536119--10536150 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
10536109 TCTAATAAAG
10536119 AATAATTTAAGTTTAA
1 AATAATTTAA-TTTAA
10536135 AATAATTTAATTTAA
1 AATAATTTAATTTAA
10536150 A
1 A
10536151 TTAAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
AATAATTTAATTTAA
Found at i:10536146 original size:21 final size:21
Alignment explanation
Indices: 10536121--10536165 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
10536111 TAATAAAGAA
* *
10536121 TAATTTAAGTTTAAAATAATT
1 TAATTTAAATTAAAAATAATT
10536142 TAATTTAAATTAAAAATAATT
1 TAATTTAAATTAAAAATAATT
10536163 TAA
1 TAA
10536166 ATTTGATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TAATTTAAATTAAAAATAATT
Found at i:10536695 original size:3 final size:3
Alignment explanation
Indices: 10536681--10536727 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
10536671 ATTTGCTCTT
*
10536681 TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10536728 GCTGAACAGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:10542466 original size:10 final size:10
Alignment explanation
Indices: 10542451--10542475 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
10542441 ATTAAACAAA
10542451 GATGGATGTT
1 GATGGATGTT
10542461 GATGGATGTT
1 GATGGATGTT
10542471 GATGG
1 GATGG
10542476 TTTAATGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.44, T:0.36
Consensus pattern (10 bp):
GATGGATGTT
Found at i:10544485 original size:12 final size:12
Alignment explanation
Indices: 10544464--10544536 Score: 53
Period size: 12 Copynumber: 6.1 Consensus size: 12
10544454 GAGAGACAAG
*
10544464 GCAGAGGAAGAA
1 GCAGAAGAAGAA
10544476 GCAGAAGAAGAA
1 GCAGAAGAAGAA
** *
10544488 GCAGCGGCAGAA
1 GCAGAAGAAGAA
10544500 G-AGGAAGAAGAA
1 GCA-GAAGAAGAA
*
10544512 GGC-GAAGAGGAA
1 -GCAGAAGAAGAA
10544524 G-AGGAAGAAGAA
1 GCA-GAAGAAGAA
10544536 G
1 G
10544537 AGGAGAAAGA
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
11 2 0.04
12 44 0.94
13 1 0.02
ACGTcount: A:0.49, C:0.08, G:0.42, T:0.00
Consensus pattern (12 bp):
GCAGAAGAAGAA
Found at i:10544491 original size:24 final size:24
Alignment explanation
Indices: 10544446--10544536 Score: 82
Period size: 24 Copynumber: 3.8 Consensus size: 24
10544436 CATGGAAAAA
*
10544446 GAAGAAGAG-AGAGACAAGGCAGAG
1 GAAGAAGAGAAGA-AGAAGGCAGAG
*
10544470 GAAGAAGCAGAAGAAGAA-GCAGCG
1 GAAGAAG-AGAAGAAGAAGGCAGAG
*
10544494 GCAGAAGAGGAAGAAGAAGGCGAAGAG
1 GAAGAAGA-GAAGAAGAAGGC--AGAG
10544521 GAAG-AG-GAAGAAGAAG
1 GAAGAAGAGAAGAAGAAG
10544537 AGGAGAAAGA
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
23 1 0.02
24 37 0.66
25 7 0.12
26 5 0.09
27 6 0.11
ACGTcount: A:0.51, C:0.08, G:0.42, T:0.00
Consensus pattern (24 bp):
GAAGAAGAGAAGAAGAAGGCAGAG
Found at i:10544518 original size:18 final size:18
Alignment explanation
Indices: 10544496--10544540 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
10544486 AAGCAGCGGC
*
10544496 AGAAGAGGAAGAAGAAGG
1 AGAAGAGGAAGAAGAAGA
* *
10544514 CGAAGAGGAAGAGGAAGA
1 AGAAGAGGAAGAAGAAGA
10544532 AGAAGAGGA
1 AGAAGAGGA
10544541 GAAAGAGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.44, T:0.00
Consensus pattern (18 bp):
AGAAGAGGAAGAAGAAGA
Found at i:10544546 original size:12 final size:12
Alignment explanation
Indices: 10544496--10544540 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
10544486 AAGCAGCGGC
10544496 AGAAGAGGAAGA
1 AGAAGAGGAAGA
10544508 AGAAG-GCGAAGA
1 AGAAGAG-GAAGA
*
10544520 GGAAGAGGAAGA
1 AGAAGAGGAAGA
10544532 AGAAGAGGA
1 AGAAGAGGA
10544541 GAAAGAGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 1 0.03
12 27 0.93
13 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.44, T:0.00
Consensus pattern (12 bp):
AGAAGAGGAAGA
Found at i:10544983 original size:51 final size:51
Alignment explanation
Indices: 10544928--10545027 Score: 173
Period size: 51 Copynumber: 2.0 Consensus size: 51
10544918 TGCTCATTCT
*
10544928 TTCTTTGTTTTGAAATCTTGACTGCTAAACAAAGCAAGATCCAGTTTGATA
1 TTCTTTGTTTCGAAATCTTGACTGCTAAACAAAGCAAGATCCAGTTTGATA
* *
10544979 TTCTTTGTTTCGAAATCTTGACTGCTAAACAAAGCGAGATCCTGTTTGA
1 TTCTTTGTTTCGAAATCTTGACTGCTAAACAAAGCAAGATCCAGTTTGA
10545028 AACTTGCTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (51 bp):
TTCTTTGTTTCGAAATCTTGACTGCTAAACAAAGCAAGATCCAGTTTGATA
Found at i:10546218 original size:126 final size:130
Alignment explanation
Indices: 10545723--10546248 Score: 385
Period size: 126 Copynumber: 4.1 Consensus size: 130
10545713 TTATGTTCCC
* * * * * *
10545723 ATATTATAATTATGAAAATATCTTTTTTTTATAATTATTTATTA-AATA-ATTCTTTA-AAAATT
1 ATATTATAATTACGAAAATATC--TCTCTTATAATTATTTACTATAATACCTTCCTTAGAAAATT
* * * * * * *
10545785 ACCAAAATAT--TTTTTTCATTATATGATAA-AAAGTT-A-ATGTGA-CTAACTAAATTATTATG
64 AACAAAATATCATTTTTT-ACTATTTGATAAGAAA-TTGACATGTGATC-AAATTAACTATTATA
10545844 C-CTT
126 CTCTT
** * * * * *
10545848 CATATTATAATTATAAAAATACCTCTATTTTTATAATTATTTATTA-AATA-ATTCCCTTTG-AA
1 -ATATTATAATTACGAAAATA--TCT-CTCTTATAATTATTTACTATAATACCTT-CCTTAGAAA
** * * * * *
10545910 ATTATTAAAATATCA-TTTTTATTATATGATAAGAAATTGATATATAATCAAATTAACTATTATA
61 ATTAACAAAATATCATTTTTTACTATTTGATAAGAAATTGACATGTGATCAAATTAACTATTATA
*
10545974 TTCTT
126 CTCTT
* * * *
10545979 ATATTATAATTATGAAAATATTCTTTCTTTTATAATTATTTACTATAATACCTTTCTTAGAAAGT
1 ATATTATAATTACGAAAATA-TC--TCTCTTATAATTATTTACTATAATACCTTCCTTAGAAAAT
* *
10546044 TAACAAAATATC-TTTTCTATCT-TTTGATAAGAAATTGACATGTGATCAAATTGACTATTATAC
63 TAACAAAATATCATTTTTTA-CTATTTGATAAGAAATTGACATGTGATCAAATTAACTATTATAC
10546107 -CTTT
127 TC-TT
* *
10546111 ATTTTATAATTACGAAAATA-C-CTCTTATAATTCTTTACTATAATACC-TCCTTA-ACAAATTA
1 ATATTATAATTACGAAAATATCTCTCTTATAATTATTTACTATAATACCTTCCTTAGA-AAATTA
* * *
10546172 CCAAAATA-CATTTTTTACTATTTGATAAGAAATTGACACGTGATCAAATTAACTATTATATTCT
65 ACAAAATATCATTTTTTACTATTTGATAAGAAATTGACATGTGATCAAATTAACTATTATACTCT
10546236 T
130 T
**
10546237 ATACCATAATTA
1 ATATTATAATTA
10546249 TAAGAAAAAA
Statistics
Matches: 332, Mismatches: 44, Indels: 48
0.78 0.10 0.11
Matches are distributed among these distances:
125 4 0.01
126 92 0.28
127 51 0.15
128 32 0.10
129 11 0.03
130 52 0.16
131 14 0.04
132 75 0.23
133 1 0.00
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.45
Consensus pattern (130 bp):
ATATTATAATTACGAAAATATCTCTCTTATAATTATTTACTATAATACCTTCCTTAGAAAATTAA
CAAAATATCATTTTTTACTATTTGATAAGAAATTGACATGTGATCAAATTAACTATTATACTCTT
Found at i:10546774 original size:25 final size:24
Alignment explanation
Indices: 10546739--10546804 Score: 62
Period size: 27 Copynumber: 2.6 Consensus size: 24
10546729 GTGTCCAAAT
* *
10546739 TTACTACAATATATTTATACTATAA
1 TTACTAAAATATATTTAGA-TATAA
*
10546764 TTACTAAAATACTTCTTTAGATATAA
1 TTACTAAAATA--TATTTAGATATAA
10546790 TTAGCTAAAAT-TATT
1 TTA-CTAAAATATATT
10546805 ATAATACACT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
24 3 0.09
25 10 0.29
26 8 0.24
27 13 0.38
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.44
Consensus pattern (24 bp):
TTACTAAAATATATTTAGATATAA
Found at i:10546834 original size:61 final size:64
Alignment explanation
Indices: 10546756--10546957 Score: 180
Period size: 61 Copynumber: 3.3 Consensus size: 64
10546746 AATATATTTA
* *
10546756 TACT-ATAATTACT-AAAATACT-TCT-TTAGATATAATTAGCTAAAATTATTATAATACACTC-
1 TACTAATAATTA-TAAAAATACTCTCTCCTA-ATATAATTAGCTAAAATTACTATAATAC-CTCT
10546816 C-
63 CT
*
10546817 TA-TAATAATTATAAAAATA-TCTCTCCTACTATAATTAGCTAAAATTACTATAATACCTCTCT
1 TACTAATAATTATAAAAATACTCTCTCCTAATATAATTAGCTAAAATTACTATAATACCTCTCT
* * * * *
10546879 TACTAA-AATTACAAAAATA--C-CTCCTAACATAATTAACCAAAAATTACTATAATGCCTCTCA
1 TACTAATAATTATAAAAATACTCTCTCCTAATATAATT-AGCTAAAATTACTATAATACCTCTC-
10546940 T
64 T
*
10546941 T--TAATAATTATATAAAT
1 TACTAATAATTATAAAAAT
10546958 GCTTTTATGA
Statistics
Matches: 120, Mismatches: 11, Indels: 20
0.79 0.07 0.13
Matches are distributed among these distances:
60 21 0.17
61 78 0.65
62 18 0.15
63 3 0.03
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.37
Consensus pattern (64 bp):
TACTAATAATTATAAAAATACTCTCTCCTAATATAATTAGCTAAAATTACTATAATACCTCTCT
Found at i:10547083 original size:18 final size:18
Alignment explanation
Indices: 10547035--10547089 Score: 64
Period size: 16 Copynumber: 3.2 Consensus size: 18
10547025 CAATAAAATG
10547035 ATATATTAAATT-TTAAT
1 ATATATTAAATTATTAAT
*
10547052 ATA-ATGTAAA--ATTACT
1 ATATAT-TAAATTATTAAT
10547068 ATATATTAAATTATTAAT
1 ATATATTAAATTATTAAT
10547086 ATAT
1 ATAT
10547090 TCTTGCCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
16 13 0.42
17 9 0.29
18 9 0.29
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATATTAAATTATTAAT
Found at i:10547090 original size:16 final size:16
Alignment explanation
Indices: 10547035--10547090 Score: 62
Period size: 15 Copynumber: 3.4 Consensus size: 16
10547025 CAATAAAATG
10547035 ATATATTAAATT-TTA
1 ATATATTAAATTATTA
*
10547050 ATATAATGTAAAATTACT-
1 ATAT-AT-T-AAATTATTA
10547068 ATATATTAAATTATTA
1 ATATATTAAATTATTA
10547084 ATATATT
1 ATATATT
10547091 CTTGCCATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
15 11 0.32
16 10 0.29
17 3 0.09
18 9 0.26
19 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (16 bp):
ATATATTAAATTATTA
Found at i:10547507 original size:61 final size:61
Alignment explanation
Indices: 10547462--10547576 Score: 176
Period size: 61 Copynumber: 1.9 Consensus size: 61
10547452 TATGCCATTC
* * * *
10547462 TATCATAATTATAAAAATGCCTCTCCTACTATAATTGACCCAAATTACTATAATGTTGTCT
1 TATCATAATTATAAAAATACCTCTCCTACCATAATTGACCAAAATTACTATAATGATGTCT
* *
10547523 TATCATAATTATGAAAATACCTCTCCTACCATAATTGATCAAAATTACTATAAT
1 TATCATAATTATAAAAATACCTCTCCTACCATAATTGACCAAAATTACTATAAT
10547577 ACACCTCATA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.37
Consensus pattern (61 bp):
TATCATAATTATAAAAATACCTCTCCTACCATAATTGACCAAAATTACTATAATGATGTCT
Found at i:10549013 original size:3 final size:3
Alignment explanation
Indices: 10548992--10549029 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
10548982 TTATGCCTTT
* *
10548992 CAC CAC TAC CAC TAC CAC CAC CAC CAC CAC CAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
10549030 AGCATGCACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.34, C:0.61, G:0.00, T:0.05
Consensus pattern (3 bp):
CAC
Found at i:10550481 original size:16 final size:16
Alignment explanation
Indices: 10550452--10550485 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
10550442 GTAGAATATT
10550452 TTATGATTTTAAAAAA
1 TTATGATTTTAAAAAA
*
10550468 TTAT-ATTTTGAAAAA
1 TTATGATTTTAAAAAA
10550483 TTA
1 TTA
10550486 ATTATAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
TTATGATTTTAAAAAA
Found at i:10550610 original size:23 final size:22
Alignment explanation
Indices: 10550584--10550633 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
10550574 TATTGAAAGG
* *
10550584 TTTTATGATTTTAATAAAATAA
1 TTTTTTGATTTTAAAAAAATAA
* *
10550606 TTTTTTTATTTTAAAAAAATTA
1 TTTTTTGATTTTAAAAAAATAA
10550628 TTTTTT
1 TTTTTT
10550634 TTCAAAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTTTTGATTTTAAAAAAATAA
Found at i:10550622 original size:90 final size:91
Alignment explanation
Indices: 10550523--10550707 Score: 252
Period size: 91 Copynumber: 2.1 Consensus size: 91
10550513 AGGTTTTGTG
** * *
10550523 ATTTTAAAAAAATGA-TTTTTTTGGAAAATAAATTGTAAAACCTTATTAACATATTGA-AAGGTT
1 ATTTTAAAAAAATGATTTTTTTTCAAAAATAAATTGTAAAACCTTACTAACATATT-ACAAGATT
10550586 TTATGATTTTAATA-AAATAATTTTTTT
65 TTATGATTTT-ATACAAATAATTTTTTT
* *
10550613 ATTTTAAAAAAATTATTTTTTTTCAAAAATAAATTGTAAAACCTTACTAACGTATTACAAGATTT
1 ATTTTAAAAAAATGATTTTTTTTCAAAAATAAATTGTAAAACCTTACTAACATATTACAAGATTT
* *
10550678 TGTGATTTTATACAAATGATTTTTTT
66 TATGATTTTATACAAATAATTTTTTT
10550704 -TTTT
1 ATTTT
10550708 GGAAAATAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
90 22 0.26
91 62 0.74
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (91 bp):
ATTTTAAAAAAATGATTTTTTTTCAAAAATAAATTGTAAAACCTTACTAACATATTACAAGATTT
TATGATTTTATACAAATAATTTTTTT
Found at i:10550626 original size:19 final size:19
Alignment explanation
Indices: 10550598--10550641 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
10550588 ATGATTTTAA
*
10550598 TAAAATAATT-TTTTTATTT
1 TAAAAAAATTATTTTT-TTT
10550617 TAAAAAAATTATTTTTTTT
1 TAAAAAAATTATTTTTTTT
*
10550636 CAAAAA
1 TAAAAA
10550642 TAAATTGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAAAAAAATTATTTTTTTT
Found at i:10550632 original size:22 final size:22
Alignment explanation
Indices: 10550591--10550634 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
10550581 AGGTTTTATG
*
10550591 ATTTTAATAAAATAATTTTTTT
1 ATTTTAAAAAAATAATTTTTTT
*
10550613 ATTTTAAAAAAATTATTTTTTT
1 ATTTTAAAAAAATAATTTTTTT
10550635 TCAAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTTTAAAAAAATAATTTTTTT
Found at i:10551271 original size:28 final size:30
Alignment explanation
Indices: 10551224--10551280 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 30
10551214 TGTTCCCAAC
*
10551224 ATATTAGAATAATTTAAGAATA-ATTTTTA
1 ATATTAGAATAATTTAAGAAAACATTTTTA
* *
10551253 ATATTA-AATTATTTGAGAAAACATTTTT
1 ATATTAGAATAATTTAAGAAAACATTTTT
10551281 TTAAGGCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.46
Consensus pattern (30 bp):
ATATTAGAATAATTTAAGAAAACATTTTTA
Found at i:10551658 original size:5 final size:5
Alignment explanation
Indices: 10551651--10551680 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
10551641 TTTTCTTTTG
10551651 TTTAGT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTA-T TTTAT TTTAT TTTAT TTTAT TTTA
10551681 AGTTTATTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:10551664 original size:15 final size:15
Alignment explanation
Indices: 10551641--10551688 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
10551631 ACTTGATTTT
*
10551641 TTTTCTTTT-GTTTA
1 TTTTATTTTAGTTTA
*
10551655 GTTTTATTTTATTTTA
1 -TTTTATTTTAGTTTA
10551671 TTTTATTTTAAGTTTA
1 TTTTATTTT-AGTTTA
10551687 TT
1 TT
10551689 AGCATTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 17 0.61
16 11 0.39
ACGTcount: A:0.17, C:0.02, G:0.06, T:0.75
Consensus pattern (15 bp):
TTTTATTTTAGTTTA
Found at i:10553508 original size:13 final size:12
Alignment explanation
Indices: 10553472--10553507 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
10553462 TCATCATGTC
10553472 AAAATGGAAAAAT
1 AAAA-GGAAAAAT
*
10553485 ACAAGGAAAAAT
1 AAAAGGAAAAAT
10553497 AAAAGGAAAAA
1 AAAAGGAAAAA
10553508 AAAGATGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 18 0.86
13 3 0.14
ACGTcount: A:0.72, C:0.03, G:0.17, T:0.08
Consensus pattern (12 bp):
AAAAGGAAAAAT
Found at i:10558164 original size:21 final size:20
Alignment explanation
Indices: 10558140--10558183 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
10558130 TCTCAAAGTA
10558140 AAAATGAAT-TTTTAGAAAAAG
1 AAAAT-AATATTTTA-AAAAAG
*
10558161 AAAATATTATTTTAAAAAAG
1 AAAATAATATTTTAAAAAAG
10558181 AAA
1 AAA
10558184 TTTGATGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (20 bp):
AAAATAATATTTTAAAAAAG
Found at i:10562396 original size:55 final size:56
Alignment explanation
Indices: 10562276--10562580 Score: 318
Period size: 55 Copynumber: 5.4 Consensus size: 56
10562266 TTCTATAAGA
*
10562276 AAAATTGATACTTTCAACTTTTCCTT-AAA-GTATTTGGAAATTTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTTAAAATGTTTTTGGAAATTTTATTTTCAAGG
* *
10562330 GAAATTGATACTTTCAAC-TTTCCTTAAAATGTTTTTGGAAGTTTTATTCTT-AAGG
1 AAAATTGATACTTTCAACTTTTCCTTAAAATGTTTTTGGAAATTTTATT-TTCAAGG
* * *
10562385 AAAATTAATACTTTCAACTTTTTCCCAAGAATATATATAT-TTTTTGAAAATTTTATTTTCAAGG
1 AAAATTGATACTTTCAAC-TTTT-CC-----T-TA-AAATGTTTTTGGAAATTTTATTTTCAAGG
* *
10562449 AAAATTGATACTTTTAAC-TTTCCATAAAATGTTTTTGGAAATTTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTTAAAATGTTTTTGGAAATTTTATTTTCAAGG
* * ** * **
10562504 GAAATTGATACTTTTAACTTTTCC-TAAAATGTTTTTAAAAATTTTATTTTTAAAA
1 AAAATTGATACTTTCAACTTTTCCTTAAAATGTTTTTGGAAATTTTATTTTCAAGG
* *
10562559 AAAATTAATACTTTCAATTTTT
1 AAAATTGATACTTTCAACTTTT
10562581 TCCCAAAATG
Statistics
Matches: 212, Mismatches: 23, Indels: 31
0.80 0.09 0.12
Matches are distributed among these distances:
53 7 0.03
54 23 0.11
55 122 0.58
56 7 0.03
57 3 0.01
58 2 0.01
61 2 0.01
62 3 0.01
63 3 0.01
64 37 0.17
65 3 0.01
ACGTcount: A:0.35, C:0.10, G:0.09, T:0.46
Consensus pattern (56 bp):
AAAATTGATACTTTCAACTTTTCCTTAAAATGTTTTTGGAAATTTTATTTTCAAGG
Found at i:10562447 original size:119 final size:119
Alignment explanation
Indices: 10562308--10562525 Score: 348
Period size: 119 Copynumber: 1.8 Consensus size: 119
10562298 CCTTAAAGTA
* * * *
10562308 TTTGGAAATTTTATTTTCAAGGGAAATTGATACTTTCAACTTTCCTTAAAATGTTTTTGGAAGTT
1 TTTGAAAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTCCATAAAATGTTTTTGGAAATT
10562373 TTATTCTT-AAGGAAAATTAATACTTTCAACTTTTTCCCAAGAATATATATATTT
66 TTATT-TTCAAGGAAAATTAATACTTTCAACTTTTTCCCAAGAATATATATATTT
*
10562427 TTTGAAAATTTTATTTTCAAGGAAAATTGATACTTTTAACTTTCCATAAAATGTTTTTGGAAATT
1 TTTGAAAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTCCATAAAATGTTTTTGGAAATT
* * *
10562492 TTATTTTCAAGGGAAATTGATACTTTTAACTTTT
66 TTATTTTCAAGGAAAATTAATACTTTCAACTTTT
10562526 CCTAAAATGT
Statistics
Matches: 90, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
118 2 0.02
119 88 0.98
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.46
Consensus pattern (119 bp):
TTTGAAAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTCCATAAAATGTTTTTGGAAATT
TTATTTTCAAGGAAAATTAATACTTTCAACTTTTTCCCAAGAATATATATATTT
Found at i:10562662 original size:5 final size:5
Alignment explanation
Indices: 10562652--10562735 Score: 62
Period size: 5 Copynumber: 15.4 Consensus size: 5
10562642 AATCATTAAA
*
10562652 AAAAT AAAAT AAAAT AAAAT AAAAAT AAAGAT AAAAC AAGGAAT ACCAAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAA-AT AAAAT AA--AAT A--AAAT
* *
10562703 AAAA- ATAAT AACAAT AAAAT AATAAT TAAAT AA
1 AAAAT AAAAT AA-AAT AAAAT AA-AAT AAAAT AA
10562736 TTAAATAATT
Statistics
Matches: 64, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
4 3 0.05
5 34 0.53
6 19 0.30
7 7 0.11
9 1 0.02
ACGTcount: A:0.73, C:0.05, G:0.04, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:10562734 original size:8 final size:8
Alignment explanation
Indices: 10562723--10562748 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
10562713 ACAATAAAAT
10562723 AATAATTA
1 AATAATTA
10562731 AATAATTA
1 AATAATTA
10562739 AATAATTA
1 AATAATTA
10562747 AA
1 AA
10562749 AATATATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
AATAATTA
Found at i:10562791 original size:22 final size:22
Alignment explanation
Indices: 10562766--10562821 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
10562756 AAAACCTTGG
*
10562766 AACGACTCGGCTCGAGCTGGGA
1 AACGGCTCGGCTCGAGCTGGGA
* *
10562788 AACGGCTCAGCTCGAGTTGGGA
1 AACGGCTCGGCTCGAGCTGGGA
*
10562810 AATGGCTCGGCT
1 AACGGCTCGGCT
10562822 TAAGACAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.21, C:0.25, G:0.36, T:0.18
Consensus pattern (22 bp):
AACGGCTCGGCTCGAGCTGGGA
Found at i:10563525 original size:11 final size:11
Alignment explanation
Indices: 10563506--10563561 Score: 62
Period size: 11 Copynumber: 5.3 Consensus size: 11
10563496 TAATCGCAGC
*
10563506 TAAAAAATAGA
1 TAAATAATAGA
*
10563517 TAAATAATAAA
1 TAAATAATAGA
*
10563528 TAAAT-ATATA
1 TAAATAATAGA
*
10563538 T-ACTAATAGA
1 TAAATAATAGA
10563548 TAAATAATAGA
1 TAAATAATAGA
10563559 TAA
1 TAA
10563562 TAGTTAATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
9 2 0.05
10 10 0.27
11 25 0.68
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (11 bp):
TAAATAATAGA
Found at i:10563550 original size:24 final size:24
Alignment explanation
Indices: 10563519--10563632 Score: 82
Period size: 23 Copynumber: 4.9 Consensus size: 24
10563509 AAAATAGATA
10563519 AATA-ATAAATAAATATATATACT
1 AATAGATAAATAAATATATATACT
* *
10563542 AATAGATAAAT-AATAGATAATAGTT
1 AATAGATAAATAAATATAT-ATA-CT
*
10563567 AATA-AT-AA-AAATTTATATACATT
1 AATAGATAAATAAATATATATAC--T
*
10563590 AATAGATAAAT-AATAATATATATT
1 AATAGATAAATAAAT-ATATATACT
*
10563614 AACAGAT-AA-AAATATATAT
1 AATAGATAAATAAATATATAT
10563633 TAATAAATAA
Statistics
Matches: 72, Mismatches: 8, Indels: 23
0.70 0.08 0.22
Matches are distributed among these distances:
22 9 0.12
23 27 0.38
24 20 0.28
25 10 0.14
26 6 0.08
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (24 bp):
AATAGATAAATAAATATATATACT
Found at i:10563572 original size:48 final size:46
Alignment explanation
Indices: 10563519--10563668 Score: 145
Period size: 48 Copynumber: 3.3 Consensus size: 46
10563509 AAAATAGATA
10563519 AATAATAAATAAATATATATACTAATAGATAAATAATAGATAATAGTT
1 AATAATAAATAAATATATATACTAATAGATAAATAATA-ATAATAG-T
*
10563567 AATAAT-AA-AAATTTATATACATTAATAGATAAATAATAAT-ATA-T
1 AATAATAAATAAATATATATAC--TAATAGATAAATAATAATAATAGT
* * * * *
10563611 ATTAACAGATAAA-A-ATATA-TATTA-ATAAATAATAATAATAGC
1 AATAATAAATAAATATATATACTAATAGATAAATAATAATAATAGT
10563653 AATAAATAAATAAATA
1 AAT-AATAAATAAATA
10563669 AGATACAAAT
Statistics
Matches: 84, Mismatches: 10, Indels: 20
0.74 0.09 0.18
Matches are distributed among these distances:
40 12 0.14
41 7 0.08
42 2 0.02
43 8 0.10
44 11 0.13
45 1 0.01
46 17 0.20
47 4 0.05
48 22 0.26
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.33
Consensus pattern (46 bp):
AATAATAAATAAATATATATACTAATAGATAAATAATAATAATAGT
Found at i:10563642 original size:20 final size:20
Alignment explanation
Indices: 10563595--10563662 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
10563585 ACATTAATAG
*
10563595 ATAAATAATAATATATATTA
1 ATAAATAAAAATATATATTA
* *
10563615 ACAGATAAAAATATATATTA
1 ATAAATAAAAATATATATTA
* **
10563635 ATAAATAATAATA-ATAGCA
1 ATAAATAAAAATATATATTA
10563654 ATAAATAAA
1 ATAAATAAA
10563663 TAAATAAGAT
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
19 12 0.31
20 27 0.69
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (20 bp):
ATAAATAAAAATATATATTA
Found at i:10564013 original size:43 final size:42
Alignment explanation
Indices: 10563888--10564215 Score: 246
Period size: 43 Copynumber: 7.7 Consensus size: 42
10563878 TCTTTTAAGT
* *
10563888 AGAGGCTCAACGACTTTGAAAAAAATAAACAAAGCTCCTCTAAAC
1 AGAGGCTCAACGACTTTGAAAAAAAT--A-AAGGCTCTTCTAAAC
* * * **
10563933 AGAGGCTCTACGACCTTG---AAAATAAATGGCTCCTCTAATT
1 AGAGGCTCAACGACTTTGAAAAAAATAAA-GGCTCTTCTAAAC
10563973 AGAGGCTCAACGACTTTGAAAAAAATAAATGGCTCTTCTAATA-
1 AGAGGCTCAACGACTTTGAAAAAAATAAA-GGCTCTTCTAA-AC
** * * *
10564016 AGAAACTCAACGACTTTG--GAAAATAAATGGCTTTTCTAATC
1 AGAGGCTCAACGACTTTGAAAAAAATAAA-GGCTCTTCTAAAC
*
10564057 AGAGGCTCAACGATTTTGGAAAAATAAATAAA-GCT-TCTCTAAAC
1 AGAGGCTCAACGACTTT-G-AAAA-AAATAAAGGCTCT-TCTAAAC
* * *
10564101 AGAGGCTCAACGACTTTGGATAATAAACAAA-GCTCATCTAAAC
1 AGAGGCTCAACGACTTT-GA-AAAAAATAAAGGCTCTTCTAAAC
* * * *
10564144 AGAGGCTTAACGACTTTTGAAAAATAA-ACAAAGCTCCTCTAAAT
1 AGAGGCTCAACGAC-TTTGAAAAA-AATA-AAGGCTCTTCTAAAC
*
10564188 AGAGGCTCAATGACTTTG-AAAAAATAAA
1 AGAGGCTCAACGACTTTGAAAAAAATAAA
10564216 CAAAGCTCCT
Statistics
Matches: 235, Mismatches: 29, Indels: 42
0.77 0.09 0.14
Matches are distributed among these distances:
39 2 0.01
40 27 0.11
41 37 0.16
42 15 0.06
43 76 0.32
44 54 0.23
45 17 0.07
46 7 0.03
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (42 bp):
AGAGGCTCAACGACTTTGAAAAAAATAAAGGCTCTTCTAAAC
Found at i:10564079 original size:85 final size:82
Alignment explanation
Indices: 10563888--10564252 Score: 306
Period size: 87 Copynumber: 4.3 Consensus size: 82
10563878 TCTTTTAAGT
* * *
10563888 AGAGGCTCAACGACTTTGAAAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCTACGACCTT-GA
1 AGAGGCTCAACGACTTTGAAAAAAAT----AAAGCTCTTCTAAACAGAGGCTCAACGACTTTGGA
*
10563952 AAATAAATGGCTCCTCTAATT
62 AAATAAATGGCTCCTCTAATC
**
10563973 AGAGGCTCAACGACTTTGAAAAAAATAAATGGCTCTTCTAATA-AGAAACTCAACGACTTTGGAA
1 AGAGGCTCAACGACTTTGAAAAAAATAAA--GCTCTTCTAA-ACAGAGGCTCAACGACTTTGGAA
**
10564037 AATAAATGGCTTTTCTAATC
63 AATAAATGGCTCCTCTAATC
*
10564057 AGAGGCTCAACGATTTTGGAAAAATAAATAAAGCT-TCTCTAAACAGAGGCTCAACGACTTTGGA
1 AGAGGCTCAACGACTTT-G-AAAA-AAATAAAGCTCT-TCTAAACAGAGGCTCAACGACTTTGGA
* ** * *
10564121 TAATAAACAAAGCTCATCTAAAC
62 AAAT-AA-ATGGCTCCTCTAATC
* * * * * *
10564144 AGAGGCTTAACGACTTTTGAAAAATAAACAAAGCTCCTCTAAATAGAGGCTCAATGACTTTGAAA
1 AGAGGCTCAACGAC-TTTG-AAAA-AAATAAAGCTCTTCTAAACAGAGGCTCAACGACTTTG-GA
**
10564209 AAATAAACAAAGCTCCTCTAATC
62 AAAT-AA-ATGGCTCCTCTAATC
* *
10564232 AAAGGCATC-ACAACTTTGAAA
1 AGAGGC-TCAACGACTTTGAAA
10564253 GTAAATGCTC
Statistics
Matches: 235, Mismatches: 30, Indels: 29
0.80 0.10 0.10
Matches are distributed among these distances:
81 3 0.01
83 22 0.09
84 39 0.17
85 56 0.24
86 9 0.04
87 72 0.31
88 33 0.14
89 1 0.00
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (82 bp):
AGAGGCTCAACGACTTTGAAAAAAATAAAGCTCTTCTAAACAGAGGCTCAACGACTTTGGAAAAT
AAATGGCTCCTCTAATC
Found at i:10564110 original size:44 final size:43
Alignment explanation
Indices: 10563888--10564229 Score: 322
Period size: 44 Copynumber: 8.0 Consensus size: 43
10563878 TCTTTTAAGT
*
10563888 AGAGGCTCAACGACTTTGAAAAAAATAAACAAAGCTCCTCTAAAC
1 AGAGGCTCAACGACTTTG--GAAAATAAACAAAGCTCCTCTAAAC
* * ** **
10563933 AGAGGCTCTACGACCTT-GAAAAT-AA-ATGGCTCCTCTAATT
1 AGAGGCTCAACGACTTTGGAAAATAAACAAAGCTCCTCTAAAC
* *
10563973 AGAGGCTCAACGACTTT-GAAAA-AAATAAATGGCTCTTCTAATA-
1 AGAGGCTCAACGACTTTGGAAAATAAACAAA--GCTCCTCTAA-AC
** ** ** *
10564016 AGAAACTCAACGACTTTGGAAAAT-AA-ATGGCTTTTCTAATC
1 AGAGGCTCAACGACTTTGGAAAATAAACAAAGCTCCTCTAAAC
* * *
10564057 AGAGGCTCAACGATTTTGGAAAAATAAATAAAGCTTCTCTAAAC
1 AGAGGCTCAACGACTTTGG-AAAATAAACAAAGCTCCTCTAAAC
* *
10564101 AGAGGCTCAACGACTTTGGATAATAAACAAAGCTCATCTAAAC
1 AGAGGCTCAACGACTTTGGAAAATAAACAAAGCTCCTCTAAAC
* * *
10564144 AGAGGCTTAACGACTTTTGAAAAATAAACAAAGCTCCTCTAAAT
1 AGAGGCTCAACGAC-TTTGGAAAATAAACAAAGCTCCTCTAAAC
* *
10564188 AGAGGCTCAATGACTTTGAAAAAATAAACAAAGCTCCTCTAA
1 AGAGGCTCAACGACTTTG-GAAAATAAACAAAGCTCCTCTAA
10564230 TCAAAGGCAT
Statistics
Matches: 246, Mismatches: 38, Indels: 27
0.79 0.12 0.09
Matches are distributed among these distances:
40 33 0.13
41 28 0.11
42 10 0.04
43 64 0.26
44 96 0.39
45 15 0.06
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (43 bp):
AGAGGCTCAACGACTTTGGAAAATAAACAAAGCTCCTCTAAAC
Found at i:10565278 original size:6 final size:6
Alignment explanation
Indices: 10565267--10565308 Score: 50
Period size: 6 Copynumber: 6.7 Consensus size: 6
10565257 TTTTTTTCTC
10565267 TTTTCA TTTTCA TTTTCA TTTTTTCA TTTTTCA TTTT-A TTTT
1 TTTTCA TTTTCA TTTTCA --TTTTCA -TTTTCA TTTTCA TTTT
10565309 TTCCTCTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.15
6 16 0.47
7 7 0.21
8 6 0.18
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (6 bp):
TTTTCA
Found at i:10565282 original size:21 final size:21
Alignment explanation
Indices: 10565273--10565312 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
10565263 TCTCTTTTCA
10565273 TTTTCATTTTCATTTTTT-CAT
1 TTTTCATTTT-ATTTTTTCCAT
10565294 TTTTCATTTTATTTTTTCC
1 TTTTCATTTTATTTTTTCC
10565313 TCTTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTCATTTTATTTTTTCCAT
Found at i:10565290 original size:14 final size:15
Alignment explanation
Indices: 10565273--10565303 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10565263 TCTCTTTTCA
10565273 TTTTCA-TTTTCATT
1 TTTTCATTTTTCATT
10565287 TTTTCATTTTTCATT
1 TTTTCATTTTTCATT
10565302 TT
1 TT
10565304 ATTTTTTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTCATTTTTCATT
Found at i:10565309 original size:27 final size:27
Alignment explanation
Indices: 10565258--10565308 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
10565248 CTCATTTATT
10565258 TTTTTTCTCTTTTCATTTTCATTTTCA
1 TTTTTTCTCTTTTCATTTTCATTTTCA
10565285 TTTTTTCAT-TTTTCATTTT-ATTTT
1 TTTTTTC-TCTTTTCATTTTCATTTT
10565309 TTCCTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 5 0.22
27 17 0.74
28 1 0.04
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.75
Consensus pattern (27 bp):
TTTTTTCTCTTTTCATTTTCATTTTCA
Found at i:10565310 original size:7 final size:7
Alignment explanation
Indices: 10565267--10565303 Score: 51
Period size: 6 Copynumber: 5.4 Consensus size: 7
10565257 TTTTTTTCTC
10565267 TTTTCA-
1 TTTTCAT
10565273 TTTTCA-
1 TTTTCAT
10565279 TTTTCATT
1 TTTTCA-T
10565287 TTTTCAT
1 TTTTCAT
10565294 TTTTCAT
1 TTTTCAT
10565301 TTT
1 TTT
10565304 ATTTTTTCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 12 0.41
7 11 0.38
8 6 0.21
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTCAT
Found at i:10565318 original size:21 final size:21
Alignment explanation
Indices: 10565267--10565311 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
10565257 TTTTTTTCTC
10565267 TTTTCA-TTTTCATTTTCATT
1 TTTTCATTTTTCATTTTCATT
10565287 TTTTCATTTTTCATTTT-ATT
1 TTTTCATTTTTCATTTTCATT
10565307 TTTTC
1 TTTTC
10565312 CTCTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTCATTTTTCATTTTCATT
Found at i:10575644 original size:12 final size:12
Alignment explanation
Indices: 10575627--10575658 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
10575617 TATTTAAAAT
10575627 AAAAAAAAAAGA
1 AAAAAAAAAAGA
*
10575639 AAAAAACAAAGA
1 AAAAAAAAAAGA
10575651 AAAAAAAA
1 AAAAAAAA
10575659 GAATAATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.91, C:0.03, G:0.06, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:10575793 original size:54 final size:53
Alignment explanation
Indices: 10575729--10575976 Score: 273
Period size: 55 Copynumber: 4.6 Consensus size: 53
10575719 TGCTTTTATA
*
10575729 TAAGGAAAATTGATACTTTCAACTTTTCCTTAAAGCATTTGGAAATTTTATTT
1 TAAGGAAAATTGATACTTTCAACTTTTCCTTAAAGTATTTGGAAATTTTATTT
* * * * * *
10575782 TCAAGGGAAATTGATAATTTCAACTTTCCCTAAAATGTTTTTGGAAGTTTTATTCT
1 T-AAGGAAAATTGATACTTTCAACTTTTCCTTAAA-GTATTTGGAAATTTTATT-T
* *
10575838 TAAGGAAAATTGATACTTTCAACTTTTCCTTAAAGAATTTGAAAATTTTATTT
1 TAAGGAAAATTGATACTTTCAACTTTTCCTTAAAGTATTTGGAAATTTTATTT
* * * * *
10575891 TCAAGGGAAATTCATACTTTTAAC-TTTCCCTAAAATATTTTTGGAAATTTTAATTT
1 T-AAGGAAAATTGATACTTTCAACTTTTCCTTAAAGTA--TTTGGAAATTTT-ATTT
* * *
10575947 TAAGCAAAATTGATACTTTTAATTTTTCCT
1 TAAGGAAAATTGATACTTTCAACTTTTCCT
10575977 CAAAATGCAT
Statistics
Matches: 160, Mismatches: 27, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
53 13 0.08
54 62 0.39
55 73 0.46
56 12 0.08
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (53 bp):
TAAGGAAAATTGATACTTTCAACTTTTCCTTAAAGTATTTGGAAATTTTATTT
Found at i:10575833 original size:55 final size:53
Alignment explanation
Indices: 10575729--10575965 Score: 269
Period size: 54 Copynumber: 4.4 Consensus size: 53
10575719 TGCTTTTATA
* * *
10575729 TAAGGAAAATTGATACTTTCAACTTTTCCTTAAAGCATTTGGAAATTTTATTT
1 TAAGGAAAATTGATACTTTCAACTTTCCCTAAAAGTATTTGGAAATTTTATTT
* * * *
10575782 TCAAGGGAAATTGATAATTTCAACTTTCCCTAAAATGTTTTTGGAAGTTTTATTCT
1 T-AAGGAAAATTGATACTTTCAACTTTCCCTAAAA-GTATTTGGAAATTTTATT-T
* * * *
10575838 TAAGGAAAATTGATACTTTCAACTTTTCCTTAAAGAATTTGAAAATTTTATTT
1 TAAGGAAAATTGATACTTTCAACTTTCCCTAAAAGTATTTGGAAATTTTATTT
* * *
10575891 TCAAGGGAAATTCATACTTTTAACTTTCCCTAAAA-TATTTTTGGAAATTTTAATTT
1 T-AAGGAAAATTGATACTTTCAACTTTCCCTAAAAGTA--TTTGGAAATTTT-ATTT
*
10575947 TAAGCAAAATTGATACTTT
1 TAAGGAAAATTGATACTTT
10575966 TAATTTTTCC
Statistics
Matches: 152, Mismatches: 25, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
53 4 0.03
54 71 0.47
55 70 0.46
56 7 0.05
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (53 bp):
TAAGGAAAATTGATACTTTCAACTTTCCCTAAAAGTATTTGGAAATTTTATTT
Found at i:10575920 original size:109 final size:109
Alignment explanation
Indices: 10575729--10575976 Score: 390
Period size: 109 Copynumber: 2.3 Consensus size: 109
10575719 TGCTTTTATA
* *
10575729 TAAGGAAAATTGATACTTTCAACTTTTCCTTAAAGCATTTGGAAATTTTATTTTCAAGGGAAATT
1 TAAGGAAAATTGATACTTTCAACTTTTCCTTAAAGAATTTGAAAATTTTATTTTCAAGGGAAATT
* * *
10575794 GATAATTTCAACTTTCCCTAAAATGTTTTTGGAAGTTTT-ATTCT
66 CATAATTTCAACTTTCCCTAAAATATTTTTGGAAATTTTAATT-T
10575838 TAAGGAAAATTGATACTTTCAACTTTTCCTTAAAGAATTTGAAAATTTTATTTTCAAGGGAAATT
1 TAAGGAAAATTGATACTTTCAACTTTTCCTTAAAGAATTTGAAAATTTTATTTTCAAGGGAAATT
* *
10575903 CATACTTTTAACTTTCCCTAAAATATTTTTGGAAATTTTAATTT
66 CATAATTTCAACTTTCCCTAAAATATTTTTGGAAATTTTAATTT
* * *
10575947 TAAGCAAAATTGATACTTTTAATTTTTCCT
1 TAAGGAAAATTGATACTTTCAACTTTTCCT
10575977 CAAAATGCAT
Statistics
Matches: 128, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
109 125 0.98
110 3 0.02
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (109 bp):
TAAGGAAAATTGATACTTTCAACTTTTCCTTAAAGAATTTGAAAATTTTATTTTCAAGGGAAATT
CATAATTTCAACTTTCCCTAAAATATTTTTGGAAATTTTAATTT
Found at i:10576112 original size:9 final size:10
Alignment explanation
Indices: 10576103--10576142 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 10
10576093 TAATTCTAAT
10576103 ATAATAAATA
1 ATAATAAATA
10576113 ATAAT-AATA
1 ATAATAAATA
10576122 ATAATTAAATA
1 ATAA-TAAATA
10576133 AT--TAAATA
1 ATAATAAATA
10576141 AT
1 AT
10576143 TATATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 8 0.29
9 8 0.29
10 6 0.21
11 6 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
ATAATAAATA
Found at i:10576140 original size:16 final size:15
Alignment explanation
Indices: 10576103--10576154 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
10576093 TAATTCTAAT
10576103 ATAATAAATAA-T-A
1 ATAATAAATAATTAA
10576116 ATAAT-AATAATTAA
1 ATAATAAATAATTAA
*
10576130 ATAATTAAATAATTAT
1 ATAA-TAAATAATTAA
10576146 ATATATAAA
1 ATA-ATAAA
10576155 AAAAATCTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
12 5 0.15
13 6 0.18
14 5 0.15
15 1 0.03
16 15 0.45
17 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
ATAATAAATAATTAA
Found at i:10576154 original size:24 final size:23
Alignment explanation
Indices: 10576090--10576154 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 23
10576080 AAGGAATACC
*
10576090 AAATAATTCTAATATAATAAATAAT
1 AAATAATTAT-ATAT-ATAAATAAT
*
10576115 -AATAATAATA-AT-TAAATAATT
1 AAATAATTATATATATAAATAA-T
10576136 AAATAATTATATATATAAA
1 AAATAATTATATATATAAA
10576155 AAAAATCTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
20 7 0.21
21 1 0.03
22 11 0.33
23 3 0.09
24 11 0.33
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
AAATAATTATATATATAAATAAT
Found at i:10576947 original size:46 final size:44
Alignment explanation
Indices: 10576896--10577027 Score: 140
Period size: 48 Copynumber: 2.9 Consensus size: 44
10576886 AAAAAAGATA
* *
10576896 AATAATAAATATATATATACTAATATATACATAATAGATA-ATAGTT
1 AATAATAAAAATATATATACTAATAAATA-ATAATA-ATATATA-TT
* *
10576942 AATAATAAAAATTTATATACATTAATAGATAAATAATAATATATATT
1 AATAATAAAAATATATATAC--TAATAAAT-AATAATAATATATATT
* *
10576989 AATAGATAAAAAAATATATATTAATAAATAATAATAATA
1 AATA-ATAAAAATATATATACTAATAAATAATAATAATA
10577028 GCAATAAATA
Statistics
Matches: 74, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
45 10 0.14
46 25 0.34
47 9 0.12
48 29 0.39
49 1 0.01
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (44 bp):
AATAATAAAAATATATATACTAATAAATAATAATAATATATATT
Found at i:10576978 original size:48 final size:46
Alignment explanation
Indices: 10576896--10577027 Score: 130
Period size: 46 Copynumber: 2.9 Consensus size: 46
10576886 AAAAAAGATA
* * *
10576896 AATAATAAATATATATATAC--TAATATATACATAATAGATA-ATAGTT
1 AATAATAAAAAT-TATATACATTAATAAATAAATAATA-ATATATA-TT
*
10576942 AATAATAAAAATTTATATACATTAATAGATAAATAATAATATATATT
1 AATAATAAAAA-TTATATACATTAATAAATAAATAATAATATATATT
* *
10576989 AATAGATAAAAA-AATATATATTAATAAAT-AATAATAATA
1 AATA-ATAAAAATTATATACATTAATAAATAAATAATAATA
10577028 GCAATAAATA
Statistics
Matches: 75, Mismatches: 6, Indels: 11
0.82 0.07 0.12
Matches are distributed among these distances:
45 10 0.13
46 31 0.41
47 10 0.13
48 24 0.32
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (46 bp):
AATAATAAAAATTATATACATTAATAAATAAATAATAATATATATT
Found at i:10577007 original size:22 final size:24
Alignment explanation
Indices: 10576896--10577027 Score: 120
Period size: 24 Copynumber: 5.8 Consensus size: 24
10576886 AAAAAAGATA
*
10576896 AATA-ATAAAT-AT-ATATATACT
1 AATAGATAAATAATAATATATATT
* *
10576917 AATATATACATAATAGATA-ATAGTT
1 AATAGATAAATAATA-ATATATA-TT
* *
10576942 AATA-ATAAA-AATTTATATACATT
1 AATAGATAAATAA-TAATATATATT
10576965 AATAGATAAATAATAATATATATT
1 AATAGATAAATAATAATATATATT
10576989 AATAGATAAA-AA-AATATATATT
1 AATAGATAAATAATAATATATATT
*
10577011 AATAAAT-AATAATAATA
1 AATAGATAAATAATAATA
10577028 GCAATAAATA
Statistics
Matches: 92, Mismatches: 8, Indels: 20
0.77 0.07 0.17
Matches are distributed among these distances:
21 6 0.07
22 23 0.25
23 19 0.21
24 34 0.37
25 10 0.11
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (24 bp):
AATAGATAAATAATAATATATATT
Found at i:10577050 original size:35 final size:33
Alignment explanation
Indices: 10576896--10577046 Score: 84
Period size: 32 Copynumber: 4.6 Consensus size: 33
10576886 AAAAAAGATA
* * *
10576896 AATA-ATAAATATATATATACT-AATATATACAT
1 AATAGATAAATAAATAAATAATAAATATATA-AT
* * * *
10576928 AATAGAT-AAT-AGTTAATAATAAAAAT-TTAT
1 AATAGATAAATAAATAAATAATAAATATATAAT
* * * *
10576958 -ATACATTAATAGATAAATAAT-AATATATATT
1 AATAGATAAATAAATAAATAATAAATATATAAT
*
10576989 AATAGATAAAAAAATATATATTAATAAATA-ATAAT
1 AATAGATAAATAAATA-A-A-TAATAAATATATAAT
10577024 AATAGCAATAAATAAATAAATAA
1 AATAG--ATAAATAAATAAATAA
10577047 ATAAGATACA
Statistics
Matches: 87, Mismatches: 20, Indels: 22
0.67 0.16 0.17
Matches are distributed among these distances:
29 5 0.06
30 9 0.10
31 15 0.17
32 22 0.25
33 3 0.03
34 4 0.05
35 14 0.16
36 5 0.06
37 10 0.11
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (33 bp):
AATAGATAAATAAATAAATAATAAATATATAAT
Found at i:10582001 original size:31 final size:31
Alignment explanation
Indices: 10581965--10582027 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
10581955 TTAAAAGTAG
* * *
10581965 TATATTTATTCT-AGATCTTTTATGTACTTTA
1 TATATTTATT-TAAAATATTTTATATACTTTA
10581996 TATATTTATTTAAAATATTTTATATACTTTA
1 TATATTTATTTAAAATATTTTATATACTTTA
10582027 T
1 T
10582028 TTTATAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 1 0.04
31 27 0.96
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (31 bp):
TATATTTATTTAAAATATTTTATATACTTTA
Found at i:10585437 original size:2 final size:2
Alignment explanation
Indices: 10585430--10585457 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10585420 ATTACTTGTA
10585430 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
10585458 TTGTGGAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.