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 60 of 129
Found at i:11655120 original size:15 final size:16
Alignment explanation
Indices: 11655100--11655134 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
11655090 CTTTTCTTTT
11655100 TTTTTTTCTTTGT-AA
1 TTTTTTTCTTTGTAAA
*
11655115 TTTTTTTTTTTGTAAA
1 TTTTTTTCTTTGTAAA
11655131 TTTT
1 TTTT
11655135 ACATTTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.77
Consensus pattern (16 bp):
TTTTTTTCTTTGTAAA
Found at i:11655120 original size:16 final size:16
Alignment explanation
Indices: 11655099--11655134 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
11655089 ACTTTTCTTT
11655099 TTTTTTTTCTTTGT-AA
1 TTTTTTTT-TTTGTAAA
11655115 TTTTTTTTTTTGTAAA
1 TTTTTTTTTTTGTAAA
11655131 TTTT
1 TTTT
11655135 ACATTTTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.78
Consensus pattern (16 bp):
TTTTTTTTTTTGTAAA
Found at i:11655452 original size:19 final size:18
Alignment explanation
Indices: 11655430--11655477 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 18
11655420 CATTTTGTTT
*
11655430 TTTTTATATTTAATAAATA
1 TTTTTATATTTAA-AAAAA
11655449 TTTTTAAATATTTAAAAAAA
1 TTTTT--ATATTTAAAAAAA
*
11655469 TTTTAATAT
1 TTTTTATAT
11655478 GGGCTCATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 4 0.16
19 5 0.20
20 8 0.32
21 8 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTTATATTTAAAAAAA
Found at i:11655614 original size:17 final size:19
Alignment explanation
Indices: 11655583--11655620 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
11655573 CCATATTTAA
11655583 TTTTTTTAGACTTTT-CTTT
1 TTTTTTTAGA-TTTTACTTT
11655602 TTTTTTTAG-TTTTACTTT
1 TTTTTTTAGATTTTACTTT
11655620 T
1 T
11655621 CATTTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.22
18 5 0.28
19 9 0.50
ACGTcount: A:0.11, C:0.08, G:0.05, T:0.76
Consensus pattern (19 bp):
TTTTTTTAGATTTTACTTT
Found at i:11656763 original size:21 final size:19
Alignment explanation
Indices: 11656729--11656769 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
11656719 CAAGTTATTA
11656729 TTTTTTTATTTTTCTCTTTC
1 TTTTTTTATTTTTC-CTTTC
*
11656749 TTTTCTTTGTTTTTCCTTTC
1 TTTT-TTTATTTTTCCTTTC
11656769 T
1 T
11656770 ACGATTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.78
Consensus pattern (19 bp):
TTTTTTTATTTTTCCTTTC
Found at i:11659102 original size:2 final size:2
Alignment explanation
Indices: 11659097--11659127 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11659087 TATATATATA
11659097 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
11659128 ATAGTAACTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:11662750 original size:21 final size:21
Alignment explanation
Indices: 11662726--11662765 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11662716 ATTTTACATG
* *
11662726 AACACTAATTGACCCTAATGT
1 AACACTAATTAACCATAATGT
*
11662747 AACATTAATTAACCATAAT
1 AACACTAATTAACCATAAT
11662766 TGACCCTATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (21 bp):
AACACTAATTAACCATAATGT
Found at i:11667119 original size:26 final size:23
Alignment explanation
Indices: 11667097--11667142 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
11667087 TAGAAACCAT
11667097 CACCAAATTAAAGGAATAAAAACA
1 CACCAAATTAAA-GAATAAAAACA
*
11667121 CACTAAATTAAAGATATAAAAA
1 CACCAAATTAAAGA-ATAAAAA
11667143 TCATAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.63, C:0.13, G:0.07, T:0.17
Consensus pattern (23 bp):
CACCAAATTAAAGAATAAAAACA
Found at i:11667583 original size:21 final size:21
Alignment explanation
Indices: 11667529--11667583 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
11667519 ACCTCTAGCT
* *
11667529 CCTCTCTTTCAAACCTTAATA
1 CCTCTCTTTCAACCCTCAATA
*
11667550 CCTCACTTTCAACCCTCAATA
1 CCTCTCTTTCAACCCTCAATA
*
11667571 CCTTTCTTTCAAC
1 CCTCTCTTTCAAC
11667584 TGTAACTCCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.25, C:0.38, G:0.00, T:0.36
Consensus pattern (21 bp):
CCTCTCTTTCAACCCTCAATA
Found at i:11668288 original size:14 final size:14
Alignment explanation
Indices: 11668269--11668298 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
11668259 AATATGAGTC
11668269 TAAATTATAAGAGA
1 TAAATTATAAGAGA
11668283 TAAATTATAAGAGA
1 TAAATTATAAGAGA
11668297 TA
1 TA
11668299 TATATACCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.13, T:0.30
Consensus pattern (14 bp):
TAAATTATAAGAGA
Found at i:11672015 original size:25 final size:25
Alignment explanation
Indices: 11671968--11672034 Score: 65
Period size: 25 Copynumber: 2.8 Consensus size: 25
11671958 ATTAATAACT
11671968 AAATTAATAAAAATGACTTTTAA-A
1 AAATTAATAAAAATGACTTTTAATA
*
11671992 AAATTAATTAAAAATTA-TTATTAATA
1 AAATTAA-TAAAAATGACTT-TTAATA
11672018 AAA--AAT-AAAATGA-TTTT
1 AAATTAATAAAAATGACTTTT
11672035 GGAGACCCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
21 2 0.05
22 8 0.21
23 1 0.03
24 11 0.29
25 12 0.32
26 4 0.11
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.37
Consensus pattern (25 bp):
AAATTAATAAAAATGACTTTTAATA
Found at i:11673945 original size:14 final size:14
Alignment explanation
Indices: 11673926--11673952 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11673916 ACATTTTAAC
11673926 TTTGAAAACATATT
1 TTTGAAAACATATT
11673940 TTTGAAAACATAT
1 TTTGAAAACATAT
11673953 GCTTGAAATG
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:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (14 bp):
TTTGAAAACATATT
Found at i:11673958 original size:14 final size:14
Alignment explanation
Indices: 11673927--11673960 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
11673917 CATTTTAACT
**
11673927 TTGAAAACATATTT
1 TTGAAAACATATGC
11673941 TTGAAAACATATGC
1 TTGAAAACATATGC
11673955 TTGAAA
1 TTGAAA
11673961 TGGATGAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (14 bp):
TTGAAAACATATGC
Found at i:11674162 original size:32 final size:32
Alignment explanation
Indices: 11674123--11674196 Score: 139
Period size: 32 Copynumber: 2.3 Consensus size: 32
11674113 TAGTTTAGGA
*
11674123 TTTAGGGTTTGGTTTTAGGTTTTACTATTTGG
1 TTTAGGGTTTGGCTTTAGGTTTTACTATTTGG
11674155 TTTAGGGTTTGGCTTTAGGTTTTACTATTTGG
1 TTTAGGGTTTGGCTTTAGGTTTTACTATTTGG
11674187 TTTAGGGTTT
1 TTTAGGGTTT
11674197 CATGGTTTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.12, C:0.04, G:0.28, T:0.55
Consensus pattern (32 bp):
TTTAGGGTTTGGCTTTAGGTTTTACTATTTGG
Found at i:11676648 original size:48 final size:47
Alignment explanation
Indices: 11676588--11677107 Score: 479
Period size: 48 Copynumber: 11.0 Consensus size: 47
11676578 TTTAAGAAAA
* *
11676588 GCTCCTATAAACATAGGTAGGTGACTTTAAAAATCCATTTTGAAAATG
1 GCTCCTATAAACATAGGCAGGTGACTTTAAAAAT-CATTTTGAAAAGG
* ** * * * **
11676636 GCTCCTACAAACATAGATAGGTGACTTTAAAAATTAATTTAAAAAAA
1 GCTCCTATAAACATAGGCAGGTGACTTTAAAAATCATTTTGAAAAGG
* * * *
11676683 GAT-CTAATAAACATATGCTGATGACTTTAAAAATCATTTTGGAAAAGG
1 GCTCCT-ATAAACATAGGCAGGTGACTTTAAAAATCATTTT-GAAAAGG
* * * * *
11676731 GTTCCTATAAACATAGACATGTGATTTTAAAAATCAATTTTGAAAAGA
1 GCTCCTATAAACATAGGCAGGTGACTTTAAAAATC-ATTTTGAAAAGG
* * * *
11676779 GCTCTTAT-AATATAGGCAAGTGACTTTAAAAATCAATTTGAAAAGG
1 GCTCCTATAAACATAGGCAGGTGACTTTAAAAATCATTTTGAAAAGG
* * * *
11676825 G-TTCTCTAAACATAGGTAGGTGACTTTAAAAATCATTTTGAAAAAAG
1 GCTCCTATAAACATAGGCAGGTGACTTTAAAAATCATTTTG-AAAAGG
* * * * *
11676872 ACTCCTATAAACATAGGCAAGTGACTTTAAAAATCAATTCGAAAATG
1 GCTCCTATAAACATAGGCAGGTGACTTTAAAAATCATTTTGAAAAGG
* * * * * *
11676919 GCTCTTATAAACATAGGCAAGTAAGTTTACAAATCAATTTTGGAAAGG
1 GCTCCTATAAACATAGGCAGGTGACTTTAAAAATC-ATTTTGAAAAGG
** * * * * * * *
11676967 GAACTTATAAATATAGACAAGTGACTTTTAAAATCAATTTGAAAATG
1 GCTCCTATAAACATAGGCAGGTGACTTTAAAAATCATTTTGAAAAGG
* *
11677014 GCTACTATAAATATAGGCAGGTGACTTTAAAAATCAATTTTGAAAAGG
1 GCTCCTATAAACATAGGCAGGTGACTTTAAAAATC-ATTTTGAAAAGG
* * *
11677062 GCTCCTATAAATATAGGTAGGTGACTTTAAGAATCAATTTTGAAAA
1 GCTCCTATAAACATAGGCAGGTGACTTTAAAAATC-ATTTTGAAAA
11677108 AGGGTTCATC
Statistics
Matches: 380, Mismatches: 83, Indels: 18
0.79 0.17 0.04
Matches are distributed among these distances:
45 3 0.01
46 41 0.11
47 135 0.36
48 194 0.51
49 7 0.02
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (47 bp):
GCTCCTATAAACATAGGCAGGTGACTTTAAAAATCATTTTGAAAAGG
Found at i:11676743 original size:95 final size:93
Alignment explanation
Indices: 11676592--11677107 Score: 444
Period size: 95 Copynumber: 5.4 Consensus size: 93
11676582 AGAAAAGCTC
* * * *
11676592 CTATAAACATAGGTAGGTGACTTTAAAAATCCATTTTGAAAATGGCTCCTACAAACATAGATAGG
1 CTATAAACATAGGCAAGTGACTTTAAAAAT-CATTTTGAAAAGGGCTCCTATAAACATAGATAGG
* *
11676657 TGACTTTAAAAATTAATTTAAAAAAAGAT
65 TGACTTTAAAAATCAATTTGAAAAAAGAT
* * * *
11676686 CTAATAAACATATGC-TGATGACTTTAAAAATCATTTTGGAAAAGGGTTCCTATAAACATAGACA
1 CT-ATAAACATAGGCAAG-TGACTTTAAAAATCATTTT-GAAAAGGGCTCCTATAAACATAGATA
* * * *
11676750 TGTGATTTTAAAAATCAATTTTGAAAAGAGCT
63 GGTGACTTTAAAAATCAA-TTTGAAAAAAGAT
* * * * *
11676782 CT-TATAATATAGGCAAGTGACTTTAAAAATCAATTTGAAAAGGG-TTCTCTAAACATAGGTAGG
1 CTATA-AACATAGGCAAGTGACTTTAAAAATCATTTTGAAAAGGGCTCCTATAAACATAGATAGG
*
11676845 TGACTTTAAAAATCATTTTGAAAAAAGACT
65 TGACTTTAAAAATCAATTTGAAAAAAGA-T
* * * * ** *
11676875 CCTATAAACATAGGCAAGTGACTTTAAAAATCAATTCGAAAATGGCTCTTATAAACATAGGCAAG
1 -CTATAAACATAGGCAAGTGACTTTAAAAATCATTTTGAAAAGGGCTCCTATAAACATAGATAGG
* * * * ** *
11676940 TAAGTTTACAAATCAATTTTGGAAAGGGAA
65 TGACTTTAAAAATCAA-TTTGAAAAAAGAT
* * * * * * * **
11676970 CTTATAAATATAGACAAGTGACTTTTAAAATCAATTTGAAAATGGCTACTATAAATATAGGCAGG
1 C-TATAAACATAGGCAAGTGACTTTAAAAATCATTTTGAAAAGGGCTCCTATAAACATAGATAGG
** *
11677035 TGACTTTAAAAATCAATTTTGAAAAGGGCT
65 TGACTTTAAAAATCAA-TTTGAAAAAAGAT
* * * *
11677065 CCTATAAATATAGGTAGGTGACTTTAAGAATCAATTTTGAAAA
1 -CTATAAACATAGGCAAGTGACTTTAAAAATC-ATTTTGAAAA
11677108 AGGGTTCATC
Statistics
Matches: 346, Mismatches: 62, Indels: 26
0.80 0.14 0.06
Matches are distributed among these distances:
92 10 0.03
93 29 0.08
94 58 0.17
95 217 0.63
96 32 0.09
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (93 bp):
CTATAAACATAGGCAAGTGACTTTAAAAATCATTTTGAAAAGGGCTCCTATAAACATAGATAGGT
GACTTTAAAAATCAATTTGAAAAAAGAT
Found at i:11677029 original size:236 final size:238
Alignment explanation
Indices: 11676588--11677108 Score: 655
Period size: 236 Copynumber: 2.2 Consensus size: 238
11676578 TTTAAGAAAA
* *
11676588 GCTCCTATAAACATAGGTAGGTGACTTTAAAAATCCATTTTG-AAAATGGCTCCTACAAACATAG
1 GCTCCTATAAACATAGGTAGGTGACTTTAAAAAT-CATTTTGAAAAAAGACTCCTACAAACATAG
* * * * * * *
11676652 ATAGGTGACTTTAAAAATTAATTTAAAAAAAGATCTAATAAACATATGCTGATGACTTTAAAAAT
65 ACAAGTGACTTTAAAAATCAATTCAAAAAAAGATCTAATAAACATAGGCAGATAACTTTAAAAAT
** *
11676717 CATTTTGGAAAAGGGTTCCTATAAACATAGACATGTGATTTTAAAAATCAATTTTGAAAAGAGCT
130 CATTTTGGAAAAGGGAACCTATAAACATAGACAAGTGATTTTAAAAATCAATTTTGAAAAGAGCT
11676782 CTTATAATATAGGCAAGTGACTTTAAAAATCAA-TTTGAAAAGG
195 CTTATAATATAGGCAAGTGACTTTAAAAATCAATTTTGAAAAGG
* * * *
11676825 G-TTCTCTAAACATAGGTAGGTGACTTTAAAAATCATTTTGAAAAAAGACTCCTATAAACATAGG
1 GCTCCTATAAACATAGGTAGGTGACTTTAAAAATCATTTTGAAAAAAGACTCCTACAAACATAGA
* ** * * * *
11676889 CAAGTGACTTTAAAAATCAATTCGAAAATGGCTCTTATAAACATAGGCA-AGTAAGTTTACAAAT
66 CAAGTGACTTTAAAAATCAATTCAAAAAAAGATCTAATAAACATAGGCAGA-TAACTTTAAAAAT
* *
11676953 CAATTTTGG-AAAGGGAACTTATAAATATAGACAAGTGACTTTT-AAAATCAA-TTTGAAAATG-
130 C-ATTTTGGAAAAGGGAACCTATAAACATAGACAAGTGA-TTTTAAAAATCAATTTTGAAAA-GA
*
11677014 GCTAC-TATAAATATAGGCAGGTGACTTTAAAAATCAATTTTGAAAAGG
192 GCT-CTTAT-AATATAGGCAAGTGACTTTAAAAATCAATTTTGAAAAGG
* *
11677062 GCTCCTATAAATATAGGTAGGTGACTTTAAGAATCAATTTTGAAAAA
1 GCTCCTATAAACATAGGTAGGTGACTTTAAAAATC-ATTTTGAAAAA
11677109 GGGTTCATCT
Statistics
Matches: 244, Mismatches: 30, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
235 22 0.09
236 159 0.65
237 23 0.09
238 29 0.12
239 11 0.05
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (238 bp):
GCTCCTATAAACATAGGTAGGTGACTTTAAAAATCATTTTGAAAAAAGACTCCTACAAACATAGA
CAAGTGACTTTAAAAATCAATTCAAAAAAAGATCTAATAAACATAGGCAGATAACTTTAAAAATC
ATTTTGGAAAAGGGAACCTATAAACATAGACAAGTGATTTTAAAAATCAATTTTGAAAAGAGCTC
TTATAATATAGGCAAGTGACTTTAAAAATCAATTTTGAAAAGG
Found at i:11677232 original size:13 final size:12
Alignment explanation
Indices: 11677214--11677248 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
11677204 ATTCTTTCTC
11677214 TTTTTTAGTTTTT
1 TTTTTTA-TTTTT
11677227 TTTTTTCATTTTT
1 TTTTTT-ATTTTT
11677240 TTTTTTATT
1 TTTTTTATT
11677249 AAAAAAGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 3 0.14
13 17 0.81
14 1 0.05
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.86
Consensus pattern (12 bp):
TTTTTTATTTTT
Found at i:11678399 original size:19 final size:21
Alignment explanation
Indices: 11678377--11678425 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
11678367 TTGGATTATC
11678377 ATTTTTTCTC-TATTTT-TTT
1 ATTTTTTCTCTTATTTTATTT
*
11678396 ATTTTTTCTCTTCTTTTATTT
1 ATTTTTTCTCTTATTTTATTT
11678417 ATTTTTTCT
1 ATTTTTTCT
11678426 TCCTTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 10 0.37
20 5 0.19
21 12 0.44
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (21 bp):
ATTTTTTCTCTTATTTTATTT
Found at i:11678402 original size:21 final size:20
Alignment explanation
Indices: 11678378--11678440 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 20
11678368 TGGATTATCA
11678378 TTTTTTCTCTATTTTTTTATT
1 TTTTTTCTCT-TTTTTTTATT
* *
11678399 TTTTCTCTTCTTTTATTTATT
1 TTTTTTC-TCTTTTTTTTATT
11678420 TTTTCTTC-CTTTTTTTT-TT
1 TTTT-TTCTCTTTTTTTTATT
11678439 TT
1 TT
11678441 AAACATAGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 4 0.11
20 8 0.22
21 19 0.53
22 5 0.14
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTTCTCTTTTTTTTATT
Found at i:11678426 original size:19 final size:18
Alignment explanation
Indices: 11678377--11678440 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 18
11678367 TTGGATTATC
*
11678377 ATTTTTTCTCTATTTTTTT
1 ATTTTTTCT-TCTTTTTTT
11678396 ATTTTTTCTCTTCTTTTATTT
1 A-TTTTT-TCTTCTTTT-TTT
11678417 ATTTTTTCTTCCTTTTTTT
1 ATTTTTTCTT-CTTTTTTT
11678436 -TTTTT
1 ATTTTT
11678441 AAACATAGTA
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
18 5 0.12
19 8 0.20
20 20 0.50
21 7 0.17
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (18 bp):
ATTTTTTCTTCTTTTTTT
Found at i:11688526 original size:13 final size:13
Alignment explanation
Indices: 11688510--11688534 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11688500 TGGTTTTTGT
11688510 TTTTGTTTCTTTA
1 TTTTGTTTCTTTA
11688523 TTTTGTTTCTTT
1 TTTTGTTTCTTT
11688535 TTTATGTCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.08, G:0.08, T:0.80
Consensus pattern (13 bp):
TTTTGTTTCTTTA
Found at i:11690179 original size:10 final size:10
Alignment explanation
Indices: 11690164--11690212 Score: 71
Period size: 10 Copynumber: 4.9 Consensus size: 10
11690154 TAAATTCCCT
11690164 TTTTTTTTTC
1 TTTTTTTTTC
*
11690174 TTTTTTTCTC
1 TTTTTTTTTC
11690184 TTTTTTTTTC
1 TTTTTTTTTC
* *
11690194 TTTTTTGTTG
1 TTTTTTTTTC
11690204 TTTTTTTTT
1 TTTTTTTTT
11690213 TTCACTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 34 1.00
ACGTcount: A:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:11690222 original size:1 final size:1
Alignment explanation
Indices: 11690163--11690214 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
11690153 CTAAATTCCC
* * * * * *
11690163 TTTTTTTTTTCTTTTTTTCTCTTTTTTTTTCTTTTTTGTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
11690215 CACTTTTTAT
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (1 bp):
T
Found at i:11694522 original size:12 final size:13
Alignment explanation
Indices: 11694505--11694538 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
11694495 ATATAAAACT
11694505 AAAACCCTAAG-G
1 AAAACCCTAAGTG
11694517 AAAACCCTAAGTG
1 AAAACCCTAAGTG
11694530 -AAACCCTAA
1 AAAACCCTAA
11694539 AATCGAAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 20 0.95
13 1 0.05
ACGTcount: A:0.50, C:0.26, G:0.12, T:0.12
Consensus pattern (13 bp):
AAAACCCTAAGTG
Found at i:11694548 original size:14 final size:14
Alignment explanation
Indices: 11694529--11694556 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11694519 AACCCTAAGT
11694529 GAAACCCTAAAATC
1 GAAACCCTAAAATC
11694543 GAAACCCTAAAATC
1 GAAACCCTAAAATC
11694557 CTAAGTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.29, G:0.07, T:0.14
Consensus pattern (14 bp):
GAAACCCTAAAATC
Found at i:11694705 original size:18 final size:19
Alignment explanation
Indices: 11694674--11694709 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
11694664 ACCCTAAATT
11694674 TTAAGTGAAATCCTAAACC
1 TTAAGTGAAATCCTAAACC
11694693 TTAAGTG-AATCCTAAAC
1 TTAAGTGAAATCCTAAAC
11694710 TGTAAATCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.28
Consensus pattern (19 bp):
TTAAGTGAAATCCTAAACC
Found at i:11696531 original size:52 final size:52
Alignment explanation
Indices: 11696469--11696573 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 52
11696459 AATAATATGC
* *
11696469 AATTTGTGTTTAAGGTAATAGTGTAAATAAAGTTAGGATAAAAAGAGATAAA
1 AATTTGTGTTTAAGGTAATAATGTAAATAAAGTTAGGATAAAAAAAGATAAA
* *
11696521 AATTTGTGTTTAAGGTAATAATGTAAATAAAGTTTGTATAAAAAAAGATAAA
1 AATTTGTGTTTAAGGTAATAATGTAAATAAAGTTAGGATAAAAAAAGATAAA
11696573 A
1 A
11696574 GAAAAAGGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (52 bp):
AATTTGTGTTTAAGGTAATAATGTAAATAAAGTTAGGATAAAAAAAGATAAA
Found at i:11701448 original size:21 final size:20
Alignment explanation
Indices: 11701422--11701472 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
11701412 CGGTAAGATT
** *
11701422 TTTTTTTTTGTATTCTGACTC
1 TTTTTTTTTG-AAGCTGACCC
11701443 TTTTTTTTATGAAGCTGACCC
1 TTTTTTTT-TGAAGCTGACCC
11701464 TTTTTTTTT
1 TTTTTTTTT
11701473 TGCAGGAAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 23 0.88
22 2 0.08
ACGTcount: A:0.12, C:0.14, G:0.10, T:0.65
Consensus pattern (20 bp):
TTTTTTTTTGAAGCTGACCC
Found at i:11701898 original size:14 final size:13
Alignment explanation
Indices: 11701852--11701917 Score: 75
Period size: 12 Copynumber: 5.2 Consensus size: 13
11701842 TTTTTTTATA
11701852 TATATTTTGTA-T
1 TATATTTTGTATT
*
11701864 TAT-TTTGGTATT
1 TATATTTTGTATT
*
11701876 T-TTTTTTGTATT
1 TATATTTTGTATT
11701888 TCATATTTTGTATT
1 T-ATATTTTGTATT
*
11701902 TATATCTTGTATT
1 TATATTTTGTATT
11701915 TAT
1 TAT
11701918 TTATTATTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
11 7 0.15
12 14 0.30
13 14 0.30
14 11 0.24
ACGTcount: A:0.20, C:0.03, G:0.09, T:0.68
Consensus pattern (13 bp):
TATATTTTGTATT
Found at i:11701911 original size:13 final size:13
Alignment explanation
Indices: 11701881--11701917 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
11701871 GTATTTTTTT
*
11701881 TTGTATTTCATATT
1 TTGTATTT-ATATC
11701895 TTGTATTTATATC
1 TTGTATTTATATC
11701908 TTGTATTTAT
1 TTGTATTTAT
11701918 TTATTATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 14 0.64
14 8 0.36
ACGTcount: A:0.22, C:0.05, G:0.08, T:0.65
Consensus pattern (13 bp):
TTGTATTTATATC
Found at i:11701911 original size:27 final size:27
Alignment explanation
Indices: 11701864--11701915 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
11701854 TATTTTGTAT
* *
11701864 TATTTTGGTATTTTTTTTTGTATTTCA
1 TATTTTGGTATTTTATCTTGTATTTCA
11701891 TATTTT-GTATTTATATCTTGTATTT
1 TATTTTGGTATTT-TATCTTGTATTT
11701916 ATTTATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.17, C:0.04, G:0.10, T:0.69
Consensus pattern (27 bp):
TATTTTGGTATTTTATCTTGTATTTCA
Found at i:11703303 original size:17 final size:18
Alignment explanation
Indices: 11703278--11703361 Score: 59
Period size: 18 Copynumber: 4.6 Consensus size: 18
11703268 AAGAAAAAGG
11703278 AAAAGG-AAAAATGAAAA
1 AAAAGGAAAAAATGAAAA
*
11703295 AAAATGAAAAAATGAAAGA
1 AAAAGGAAAAAATGAAA-A
*
11703314 AATAAAGAAATAAA-GAATAA
1 AA-AAGGAAA-AAATGAA-AA
*
11703334 CAAAGGAAAAGAA-GAAAA
1 AAAAGGAAAA-AATGAAAA
11703352 AGAAA-GAAAA
1 A-AAAGGAAAA
11703362 GAAAAGAAGT
Statistics
Matches: 55, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
17 5 0.09
18 18 0.33
19 17 0.31
20 11 0.20
21 4 0.07
ACGTcount: A:0.75, C:0.01, G:0.17, T:0.07
Consensus pattern (18 bp):
AAAAGGAAAAAATGAAAA
Found at i:11703362 original size:18 final size:18
Alignment explanation
Indices: 11703317--11703364 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
11703307 TGAAAGAAAT
*
11703317 AAAGAAATA-AAGAATAAC
1 AAAGAAA-AGAAGAAAAAC
*
11703335 AAAGGAAAAGAAGAAAAAG
1 AAA-GAAAAGAAGAAAAAC
11703354 AAAGAAAAGAA
1 AAAGAAAAGAA
11703365 AAGAAGTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.04
Consensus pattern (18 bp):
AAAGAAAAGAAGAAAAAC
Found at i:11703643 original size:142 final size:140
Alignment explanation
Indices: 11703358--11703629 Score: 348
Period size: 142 Copynumber: 1.9 Consensus size: 140
11703348 AAAAAGAAAG
* *
11703358 AAAAGAAAAGAAGTGAATGGGTGGAAAAACATAAGAAAATAAAAGGGAATATACCTTAGAGTGTA
1 AAAAGAAAAGAAGTGAATGGGTGGAAAAACATAAGAAAATAAAAGGGAATATACCTCAAAGTGTA
* ** * * * **
11703423 TCTTTCAAATGAAAGAACTACCCTTGGTTTTAATTACCCTTAAACACTTATTTTAGGCTTTTTTA
66 TCCTTCAAATGAAAGAACTACCCTTGGTTTTAATTACCCTTAAACACTTAGATCAAGC-TATGGA
* *
11703488 TCATTTTCTTTA
130 TCA-TTACATTA
* *
11703500 AAAAGAAAAGAAGTGAATGGGTGGAAAAGCATAAGAAAATGAAAGGGAATATACCTCAAAGTGTA
1 AAAAGAAAAGAAGTGAATGGGTGGAAAAACATAAGAAAATAAAAGGGAATATACCTCAAAGTGTA
* * * *
11703565 TCCTTCAAATGAAAGAACTATCCTTTGGTTTTCATTACCCTTAAGCACTTGGATCAAGC-ATGGA
66 TCCTTCAAATGAAAGAACTA-CCCTTGGTTTTAATTACCCTTAAACACTTAGATCAAGCTATGGA
11703629 T
130 T
11703630 GCTTACAAAT
Statistics
Matches: 113, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
141 3 0.03
142 80 0.71
143 30 0.27
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (140 bp):
AAAAGAAAAGAAGTGAATGGGTGGAAAAACATAAGAAAATAAAAGGGAATATACCTCAAAGTGTA
TCCTTCAAATGAAAGAACTACCCTTGGTTTTAATTACCCTTAAACACTTAGATCAAGCTATGGAT
CATTACATTA
Found at i:11704431 original size:32 final size:29
Alignment explanation
Indices: 11704377--11704446 Score: 79
Period size: 32 Copynumber: 2.3 Consensus size: 29
11704367 AGCATCAAGC
* *
11704377 TTTTAAGCCTATATTATTTAGCATTTATGAAA
1 TTTTAAGCCTATATTATCTAGCA-CT-TG-AA
11704409 TTTTAAGCCTA-ATTTATCTAGCACTTGAA
1 TTTTAAGCCTATA-TTATCTAGCACTTGAA
11704438 TTTTAAGCC
1 TTTTAAGCC
11704447 CAGTTTAGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 11 0.31
30 2 0.06
31 2 0.06
32 20 0.57
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.44
Consensus pattern (29 bp):
TTTTAAGCCTATATTATCTAGCACTTGAA
Found at i:11704470 original size:29 final size:32
Alignment explanation
Indices: 11704438--11704522 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 32
11704428 AGCACTTGAA
* *
11704438 TTTTAAGCCCAGT-TTAGCTGGCACC-T-AGG
1 TTTTAAGCCCAGTATTAACTGGCACCATAAAG
* *
11704467 TTTTAAGCCCA-TAGTATCTGGCACCAATAAAG
1 TTTTAAGCCCAGTATTAACTGGCACC-ATAAAG
11704499 TTTTAAGCCCAGTATTAACTGGCA
1 TTTTAAGCCCAGTATTAACTGGCA
11704523 TCGAGAAGCT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
28 1 0.02
29 21 0.46
31 1 0.02
32 13 0.28
33 10 0.22
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (32 bp):
TTTTAAGCCCAGTATTAACTGGCACCATAAAG
Found at i:11704807 original size:33 final size:33
Alignment explanation
Indices: 11704770--11705015 Score: 189
Period size: 33 Copynumber: 7.5 Consensus size: 33
11704760 CATGAAAAGA
*
11704770 TTTAAGCCCAGTTTAGCTAGCACCCAATGAAGT
1 TTTAAGCCCAGTTTAGCTAGCACCCAATGAAAT
* * *
11704803 TTTAAGCCTAGTTTAGTTAGCACTCAATGAAAT
1 TTTAAGCCCAGTTTAGCTAGCACCCAATGAAAT
* *
11704836 TTTAAGCCCAGTTTATCTAACACTCC-ATGAAAT
1 TTTAAGCCCAGTTTAGCTAGCAC-CCAATGAAAT
* * * * * *
11704869 TTTAAGCCCAATTTA-TTTGACACTC-ATCAAAAGA
1 TTTAAGCCCAGTTTAGCTAG-CACCCAAT-GAAA-T
* * *
11704903 TTTAAGCCCGGTCTAGCTAACA-CCAATGAGAAAT
1 TTTAAGCCCAGTTTAGCTAGCACCCAAT--GAAAT
* * ** *
11704937 TTTAAGCCTAGATTAATTAGCA-CCAATAAAAT
1 TTTAAGCCCAGTTTAGCTAGCACCCAATGAAAT
* * *
11704969 TTTAAGCCTAGCTTAGCTAGCACCCAATGAAGT
1 TTTAAGCCCAGTTTAGCTAGCACCCAATGAAAT
11705002 TTTAAG-CCAGTTTA
1 TTTAAGCCCAGTTTA
11705016 ATTGGCACCT
Statistics
Matches: 164, Mismatches: 41, Indels: 17
0.74 0.18 0.08
Matches are distributed among these distances:
32 33 0.20
33 90 0.55
34 37 0.23
35 4 0.02
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.31
Consensus pattern (33 bp):
TTTAAGCCCAGTTTAGCTAGCACCCAATGAAAT
Found at i:11704843 original size:66 final size:66
Alignment explanation
Indices: 11704735--11705015 Score: 254
Period size: 66 Copynumber: 4.3 Consensus size: 66
11704725 TCCATCCAAG
* * * *
11704735 ATTTT-AGCCTAATTTAGTTGGCATTCATGAAAAGATTTAAGCCCAGTTTAGCTAGCACCCAATG
1 ATTTTAAGCCTAGTTTAGTTAGCACTCAT-AAAAGATTTAAGCCCAGTTTAGCTAACACCCAATG
11704799 AA
65 AA
* * * *
11704801 GTTTTAAGCCTAGTTTAGTTAGCACTCAATGAAA-TTTTAAGCCCAGTTTATCTAACACTCC-AT
1 ATTTTAAGCCTAGTTTAGTTAGCACTC-ATAAAAGATTTAAGCCCAGTTTAGCTAACAC-CCAAT
11704864 GAA
64 GAA
* * * * *
11704867 ATTTTAAGCCCAATTTA-TTTGACACTCATCAAAAGATTTAAGCCCGGTCTAGCTAACA-CCAAT
1 ATTTTAAGCCTAGTTTAGTTAG-CACTCAT-AAAAGATTTAAGCCCAGTTTAGCTAACACCCAAT
11704930 GAGAA
64 --GAA
* * * * * *
11704935 ATTTTAAGCCTAGATTAATTAGCAC-CAATAAAA-TTTTAAGCCTAGCTTAGCTAGCACCCAATG
1 ATTTTAAGCCTAGTTTAGTTAGCACTC-ATAAAAGATTTAAGCCCAGTTTAGCTAACACCCAATG
11704998 AA
65 AA
*
11705000 GTTTTAAGCC-AGTTTA
1 ATTTTAAGCCTAGTTTA
11705016 ATTGGCACCT
Statistics
Matches: 174, Mismatches: 29, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
64 5 0.03
65 19 0.11
66 71 0.41
67 52 0.30
68 24 0.14
69 3 0.02
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.32
Consensus pattern (66 bp):
ATTTTAAGCCTAGTTTAGTTAGCACTCATAAAAGATTTAAGCCCAGTTTAGCTAACACCCAATGA
A
Found at i:11704969 original size:133 final size:133
Alignment explanation
Indices: 11704735--11705009 Score: 342
Period size: 133 Copynumber: 2.1 Consensus size: 133
11704725 TCCATCCAAG
* * * * * *
11704735 ATTTT-AGCCTAATTTAGTTGGCATTCATGAAAAGATTTAAGCCCAGTTTAGCTAGCACCCAATG
1 ATTTTAAGCCCAATTTAGTTGACACTCATCAAAAGATTTAAGCCCAGTCTAGCTAACACCCAATG
* * * * * *
11704799 AAGTTTTAAGCCTAGTTTAGTTAGCACTCAATGAAATTTTAAGCCCAGTTTATCTAACACTCC-A
66 AAATTTTAAGCCTAGATTAATTAGCACTCAATAAAATTTTAAGCCCAGCTTAGCTAACAC-CCAA
11704863 TGAA
130 TGAA
* *
11704867 ATTTTAAGCCCAATTTATTTGACACTCATCAAAAGATTTAAGCCCGGTCTAGCTAACA-CCAATG
1 ATTTTAAGCCCAATTTAGTTGACACTCATCAAAAGATTTAAGCCCAGTCTAGCTAACACCCAAT-
* *
11704931 AGAAATTTTAAGCCTAGATTAATTAGCAC-CAATAAAATTTTAAGCCTAGCTTAGCTAGCACCCA
65 -GAAATTTTAAGCCTAGATTAATTAGCACTCAATAAAATTTTAAGCCCAGCTTAGCTAACACCCA
11704995 ATGAA
129 ATGAA
*
11705000 GTTTTAAGCC
1 ATTTTAAGCC
11705010 AGTTTAATTG
Statistics
Matches: 122, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
132 12 0.10
133 85 0.70
134 25 0.20
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (133 bp):
ATTTTAAGCCCAATTTAGTTGACACTCATCAAAAGATTTAAGCCCAGTCTAGCTAACACCCAATG
AAATTTTAAGCCTAGATTAATTAGCACTCAATAAAATTTTAAGCCCAGCTTAGCTAACACCCAAT
GAA
Found at i:11704974 original size:32 final size:32
Alignment explanation
Indices: 11704923--11705058 Score: 130
Period size: 32 Copynumber: 4.1 Consensus size: 32
11704913 GTCTAGCTAA
11704923 CACCAATGAGAAATTTTAAGCCTAGATTAATTAG
1 CACCAAT-A-AAATTTTAAGCCTAGATTAATTAG
* **
11704957 CACCAATAAAATTTTAAGCCTAGCTTAGCTAG
1 CACCAATAAAATTTTAAGCCTAGATTAATTAG
* * * *
11704989 CACCCAATGAAGTTTTAAGCC-AGTTTAATTGG
1 CA-CCAATAAAATTTTAAGCCTAGATTAATTAG
* * *
11705021 CACCTAACAAAAATTTTAAGCCTAGATTAGTTGG
1 CACC-AA-TAAAATTTTAAGCCTAGATTAATTAG
11705055 CACC
1 CACC
11705059 CAGTTTTTAA
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
31 2 0.02
32 34 0.40
33 28 0.33
34 20 0.24
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.29
Consensus pattern (32 bp):
CACCAATAAAATTTTAAGCCTAGATTAATTAG
Found at i:11705034 original size:66 final size:66
Alignment explanation
Indices: 11704770--11705105 Score: 248
Period size: 66 Copynumber: 5.1 Consensus size: 66
11704760 CATGAAAAGA
* * *
11704770 TTTAAGCCCAGTTTAGCTAGCACCCAATGAAGTTTTAAGCCTAGTTTAGTTAGCA-CT--CAATG
1 TTTAAGCCCAGTTTAGCTAGCACCCAATGAAATTTTAAGCC-AGTTTAATTGGCACCTAACAA--
11704832 AAAT
63 AAAT
* * * * * *
11704836 TTTAAGCCCAGTTTATCTAACACTCC-ATGAAATTTTAAGCCCAATTTATTTGACA-CTCATCAA
1 TTTAAGCCCAGTTTAGCTAGCAC-CCAATGAAATTTTAAG-CCAGTTTAATTGGCACCT-AACAA
11704899 AAGA-
63 AA-AT
* * * * * *
11704903 TTTAAGCCCGGTCTAGCTAACA-CCAATGAGAAATTTTAAGCCTAGATTAATTAGCACC-AA-TA
1 TTTAAGCCCAGTTTAGCTAGCACCCAAT--GAAATTTTAAGCC-AGTTTAATTGGCACCTAACAA
11704965 AAAT
63 AAAT
* * *
11704969 TTTAAGCCTAGCTTAGCTAGCACCCAATGAAGTTTTAAGCCAGTTTAATTGGCACCTAACAAAAA
1 TTTAAGCCCAGTTTAGCTAGCACCCAATGAAATTTTAAGCCAGTTTAATTGGCACCTAACAAAAA
11705034 T
66 T
* * * * * * *
11705035 TTTAAGCCTAGATTAGTTGGCACCC-A-G--TTTTTAAGCCCAGTTTAATTGGCACCAAATAAAA
1 TTTAAGCCCAGTTTAGCTAGCACCCAATGAAATTTTAAG-CCAGTTTAATTGGCACCTAACAAAA
*
11705096 AA
65 AT
11705098 TTTAAGCC
1 TTTAAGCC
11705106 ATATTATCTT
Statistics
Matches: 221, Mismatches: 33, Indels: 35
0.76 0.11 0.12
Matches are distributed among these distances:
62 7 0.03
63 32 0.14
64 14 0.06
65 18 0.08
66 93 0.42
67 33 0.15
68 20 0.09
69 4 0.02
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (66 bp):
TTTAAGCCCAGTTTAGCTAGCACCCAATGAAATTTTAAGCCAGTTTAATTGGCACCTAACAAAAA
T
Found at i:11705324 original size:22 final size:22
Alignment explanation
Indices: 11705273--11705336 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 22
11705263 GTTGGCATGT
*
11705273 AAACCCATAATTAGCTAG-TATG
1 AAACCCA-AATTAGCTGGTTATG
11705295 AAAGCCCAAATTAGCTGGTATATG
1 AAA-CCCAAATTAGCTGGT-TATG
*
11705319 -AACCCAGATTAG-TGGTTA
1 AAACCCAAATTAGCTGGTTA
11705337 CCTTATTTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
20 2 0.05
21 4 0.11
22 21 0.57
23 6 0.16
24 4 0.11
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.27
Consensus pattern (22 bp):
AAACCCAAATTAGCTGGTTATG
Found at i:11705460 original size:14 final size:13
Alignment explanation
Indices: 11705445--11705501 Score: 64
Period size: 12 Copynumber: 4.3 Consensus size: 13
11705435 TGTCATAACA
11705445 AAAAAAATAAAAC
1 AAAAAAATAAAAC
*
11705458 -AAAATA-AAAAC
1 AAAAAAATAAAAC
11705469 AAAAAAATAAAACC
1 AAAAAAATAAAA-C
11705483 AAAAAAATGAAAACC
1 AAAAAAAT-AAAA-C
11705498 AAAA
1 AAAA
11705502 GCACAAAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
11 5 0.13
12 10 0.26
13 4 0.11
14 9 0.24
15 10 0.26
ACGTcount: A:0.81, C:0.11, G:0.02, T:0.07
Consensus pattern (13 bp):
AAAAAAATAAAAC
Found at i:11705489 original size:15 final size:14
Alignment explanation
Indices: 11705458--11705501 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
11705448 AAAATAAAAC
*
11705458 AAAATAAAAACAAA
1 AAAATAAAACCAAA
11705472 AAAATAAAACCAAA
1 AAAATAAAACCAAA
11705486 AAAATGAAAACCAAA
1 AAAAT-AAAACCAAA
11705501 A
1 A
11705502 GCACAAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
14 18 0.64
15 10 0.36
ACGTcount: A:0.80, C:0.11, G:0.02, T:0.07
Consensus pattern (14 bp):
AAAATAAAACCAAA
Found at i:11705892 original size:12 final size:11
Alignment explanation
Indices: 11705875--11705934 Score: 70
Period size: 12 Copynumber: 5.3 Consensus size: 11
11705865 CTATTAAACA
11705875 AAAAATATATAT
1 AAAAATA-ATAT
11705887 AAAAATAA-AT
1 AAAAATAATAT
11705897 -AAAATAATCAT
1 AAAAATAAT-AT
11705908 AAAAATAATAAT
1 AAAAATAAT-AT
11705920 ATAAAATAATAT
1 A-AAAATAATAT
11705932 AAA
1 AAA
11705935 TAAATAAAGT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
9 7 0.16
10 2 0.05
11 5 0.12
12 21 0.49
13 8 0.19
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAAATAATAT
Found at i:11705900 original size:10 final size:10
Alignment explanation
Indices: 11705875--11705942 Score: 50
Period size: 12 Copynumber: 6.3 Consensus size: 10
11705865 CTATTAAACA
11705875 AAAAATATATAT
1 AAAAATA-A-AT
11705887 AAAAATAAAT
1 AAAAATAAAT
11705897 -AAAATAATCAT
1 AAAAATAA--AT
11705908 AAAAATAATAAT
1 AAAAAT-A-AAT
11705920 ATAAAAT-AAT
1 A-AAAATAAAT
*
11705930 ATAAATAAAT
1 AAAAATAAAT
11705940 AAA
1 AAA
11705943 GTAAAAAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
9 11 0.23
10 11 0.23
11 3 0.06
12 15 0.32
13 6 0.13
14 1 0.02
ACGTcount: A:0.72, C:0.01, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:11705909 original size:15 final size:14
Alignment explanation
Indices: 11705891--11705942 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
11705881 ATATATAAAA
11705891 ATAAATAAAATAAT
1 ATAAATAAAATAAT
11705905 CATAAA-AATAATAAT
1 -ATAAATAA-AATAAT
*
11705920 ATAAAATAATATAA-
1 AT-AAATAAAATAAT
11705934 ATAAATAAA
1 ATAAATAAA
11705943 GTAAAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
13 6 0.19
14 6 0.19
15 18 0.56
16 2 0.06
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (14 bp):
ATAAATAAAATAAT
Found at i:11705917 original size:20 final size:20
Alignment explanation
Indices: 11705876--11705938 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 20
11705866 TATTAAACAA
11705876 AAAATATATATAAAAATAAAT
1 AAAATA-ATATAAAAATAAAT
11705897 AAAATAATCATAAAAAT-AAT
1 AAAATAAT-ATAAAAATAAAT
* * *
11705917 AATATAAAAT-AATATAAAT
1 AAAATAATATAAAAATAAAT
11705936 AAA
1 AAA
11705939 TAAAGTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 4 0.11
19 7 0.19
20 11 0.31
21 14 0.39
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAATAATATAAAAATAAAT
Found at i:11710969 original size:15 final size:16
Alignment explanation
Indices: 11710949--11710981 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
11710939 GACTAATGTG
*
11710949 AAAAACTAGA-TTTAA
1 AAAAACAAGATTTTAA
11710964 AAAAACAAGATTTTAA
1 AAAAACAAGATTTTAA
11710980 AA
1 AA
11710982 GATTGCAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.24
Consensus pattern (16 bp):
AAAAACAAGATTTTAA
Found at i:11718258 original size:62 final size:61
Alignment explanation
Indices: 11718011--11718304 Score: 253
Period size: 62 Copynumber: 4.8 Consensus size: 61
11718001 GCTTTAGTTA
** * * * *
11718011 AAAGAAATATCATAATTGCTTGCATTTAGAAATTGAATATACTCAATTATGACATTTAA-TA
1 AAAGAAATGCCATAATTGCTTGCATTTA-AAATTGAAAATATTCAATTACGACATTTAATTT
* * * *
11718072 AAAAAAATG-CATAATTGCTTGCATTTAAAATTTTGAAAA-ATTCAACTACTG-CATTTAAATG
1 AAAGAAATGCCATAATTGCTTGCATTTAAAA--TTGAAAATATTCAATTAC-GACATTTAATTT
* * * ** **
11718133 AAAGAAA--CGATGGAATTGCTTGGATTCAATAATTGAAAATATTCAATTACGATGTTTGGTTT
1 AAAGAAATGCCAT--AATTGCTTGCATTTAA-AATTGAAAATATTCAATTACGACATTTAATTT
*
11718195 AAAGAAATGCCGTAATTGCTTGCATTTAGAAATT-AAATATATTCAATTACGACATTTAATTT
1 AAAGAAATGCCATAATTGCTTGCATTTA-AAATTGAAA-ATATTCAATTACGACATTTAATTT
* * *
11718257 AAA-AAATGCCATAATTGCTTGCTTTTAAAATTTTAAAATACTCAATTA
1 AAAGAAATGCCATAATTGCTTGCATTTAAAA-TTGAAAATATTCAATTA
11718305 TGGCATTTCT
Statistics
Matches: 188, Mismatches: 29, Indels: 32
0.76 0.12 0.13
Matches are distributed among these distances:
59 3 0.02
60 37 0.20
61 66 0.35
62 77 0.41
63 3 0.02
64 2 0.01
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.36
Consensus pattern (61 bp):
AAAGAAATGCCATAATTGCTTGCATTTAAAATTGAAAATATTCAATTACGACATTTAATTT
Found at i:11718333 original size:61 final size:61
Alignment explanation
Indices: 11718023--11718342 Score: 151
Period size: 62 Copynumber: 5.2 Consensus size: 61
11718013 AGAAATATCA
* * * * * *
11718023 TAATTGCTTGCATTTAGAAATTGAATATACTCAATTATGACATTTAA--TAAAAAAAATGCA
1 TAATTGCTTGCTTTTAGAAATTAAATATACTCAATTACGACATTTAATTTAAAAAACA-CCG
* * * * *
11718083 TAATTGCTTGCATTTA-AAATTTTGAAA-A-ATTCAACTACTG-CATTTAAATGAAAGAAACGA-
1 TAATTGCTTGCTTTTAGAAA--TT-AAATATACTCAATTAC-GACATTTAATTTAAA-AAAC-AC
*
11718143 TG
60 CG
* ** * * ** ** **
11718145 GAATTGCTTGGATTCA-ATAATTGAAA-ATATTCAATTACGATGTTTGGTTTAAAGAAATGCCG
1 TAATTGCTTGCTTTTAGA-AATT-AAATATACTCAATTACGACATTTAATTTAAA-AAACACCG
* * ** *
11718207 TAATTGCTTGCATTTAGAAATTAAATATATTCAATTACGACATTTAATTTAAAAAATGCCA
1 TAATTGCTTGCTTTTAGAAATTAAATATACTCAATTACGACATTTAATTTAAAAAACACCG
* * *
11718268 TAATTGCTTGCTTTTA-AAATTTTAAA-ATACTCAATTATGGCATTT-CTTTAAATAAACACCG
1 TAATTGCTTGCTTTTAGAAA--TTAAATATACTCAATTACGACATTTAATTTAAA-AAACACCG
*
11718329 TAATTGCATGCTTT
1 TAATTGCTTGCTTT
11718343 AAATAACATA
Statistics
Matches: 205, Mismatches: 38, Indels: 33
0.74 0.14 0.12
Matches are distributed among these distances:
59 3 0.01
60 39 0.19
61 71 0.35
62 85 0.41
63 6 0.03
64 1 0.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (61 bp):
TAATTGCTTGCTTTTAGAAATTAAATATACTCAATTACGACATTTAATTTAAAAAACACCG
Found at i:11722061 original size:25 final size:26
Alignment explanation
Indices: 11722033--11722086 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 26
11722023 ATAGTCGTTA
*
11722033 AATTTTATA-AAATCAT-AATTGTTTC
1 AATTTAATACAAATC-TCAATTGTTTC
*
11722058 AA-TTAATACTAATCTCAATTGTTTC
1 AATTTAATACAAATCTCAATTGTTTC
11722083 AATT
1 AATT
11722087 AAACAATATC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
24 6 0.25
25 17 0.71
26 1 0.04
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.46
Consensus pattern (26 bp):
AATTTAATACAAATCTCAATTGTTTC
Found at i:11726383 original size:62 final size:63
Alignment explanation
Indices: 11726260--11726397 Score: 161
Period size: 62 Copynumber: 2.2 Consensus size: 63
11726250 TACTTTGAAT
* ** * * * **
11726260 GCCTTAATTGATCTATTTTAAAAATTATAAAATAGATTAATTAAGGTGTTTGTGTGTACAAAC
1 GCCTTAACTGATCGGTTTTAAAAATTATAAAATAAATCAATTAAGGTGTTCGTGTACACAAAC
* * *
11726323 GCTTTAACTGATCGGTTTT-AAAATTTTAAAATAAATCAATTAAGGTGTTCGTGTACACAAAT
1 GCCTTAACTGATCGGTTTTAAAAATTATAAAATAAATCAATTAAGGTGTTCGTGTACACAAAC
*
11726385 GCCTTAATTGATC
1 GCCTTAACTGATC
11726398 TAAATTAAGA
Statistics
Matches: 62, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
62 47 0.76
63 15 0.24
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.38
Consensus pattern (63 bp):
GCCTTAACTGATCGGTTTTAAAAATTATAAAATAAATCAATTAAGGTGTTCGTGTACACAAAC
Found at i:11726679 original size:63 final size:63
Alignment explanation
Indices: 11726481--11726808 Score: 218
Period size: 63 Copynumber: 5.2 Consensus size: 63
11726471 AAAATTATTT
* * **
11726481 TAGATCAATTAAAGCATTTCTGTACACAAACGCCTTAATTGATCGATTTTAT-AATTATAAAA
1 TAGATCAATTAAGGCATTTCTGTACACAAACGCCTTAATTGATCTAAATTATAAATTATAAAA
* * * * * ** * **
11726543 CTA-ATCAAATAA-GCTGTTTGTGTACA-AAACACCTTAATTGATATATTTTAGAAATTATAATT
1 -TAGATCAATTAAGGC-ATTTCTGTACACAAACGCCTTAATTGATCTAAATTATAAATTATAAAA
** * * *
11726605 TAGATTGATTAAGGCATTTTTGTACATAAATGCCTTAATTGATCTAAATTATAAATTATAAAA
1 TAGATCAATTAAGGCATTTCTGTACACAAACGCCTTAATTGATCTAAATTATAAATTATAAAA
* * * * * * * * ***
11726668 CAGATCAATTAAGACGTTTGTGTATAGAAACACCTTAATTGATCT--ATTGTAAAACTTATATTT
1 TAGATCAATTAAGGCATTTCTGTACACAAACGCCTTAATTGATCTAAATTAT-AAA-TTATAAAA
* * * * ** * *
11726731 TAGATCAATTAAGGCATTTCTATACACACATGCTTTGCTTGATCTTAAATTATAATTTTTAAAA
1 TAGATCAATTAAGGCATTTCTGTACACAAACGCCTTAATTGATC-TAAATTATAAATTATAAAA
*
11726795 TAGATTAATTAAGG
1 TAGATCAATTAAGG
11726809 TGATTATGTT
Statistics
Matches: 199, Mismatches: 56, Indels: 19
0.73 0.20 0.07
Matches are distributed among these distances:
61 29 0.15
62 43 0.22
63 103 0.52
64 18 0.09
65 2 0.01
66 4 0.02
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (63 bp):
TAGATCAATTAAGGCATTTCTGTACACAAACGCCTTAATTGATCTAAATTATAAATTATAAAA
Found at i:11726742 original size:126 final size:125
Alignment explanation
Indices: 11726476--11726837 Score: 385
Period size: 126 Copynumber: 2.9 Consensus size: 125
11726466 CAAAAAAAAT
* * * **
11726476 TATTTTAGATCAATTAAAGCATTTCTGTACACAAACGCCTTAATTGATCGATTTTAT-AATTATA
1 TATTTTAGATCAATTAAGGCATTTCTGTACACAAATGCCTTAATTGATCTAAATTATAAATTATA
* *
11726540 AAACTA-ATCAAATAAGCTGTTTGTGTACAAAACACCTTAATTGATATATTTTAGAAATTA
66 AAAC-AGATCAATTAAGCTGTTTGTGTACAAAACACCTTAATTGATATATTGTAGAAATTA
* ** * *
11726600 TAATTTAGATTGATTAAGGCATTTTTGTACATAAATGCCTTAATTGATCTAAATTATAAATTATA
1 TATTTTAGATCAATTAAGGCATTTCTGTACACAAATGCCTTAATTGATCTAAATTATAAATTATA
* *
11726665 AAACAGATCAATTAAGAC-GTTTGTGTATAGAAACACCTTAATTGATCTATTGTA-AAACTTA
66 AAACAGATCAATTAAG-CTGTTTGTGTACA-AAACACCTTAATTGATATATTGTAGAAA-TTA
* * * ** * *
11726726 TATTTTAGATCAATTAAGGCATTTCTATACACACATGCTTTGCTTGATCTTAAATTATAATTTTT
1 TATTTTAGATCAATTAAGGCATTTCTGTACACAAATGCCTTAATTGATC-TAAATTATAAATTAT
* * * *
11726791 AAAATAGATTAATTAAGGTGATTATGTTTAC-AAACGACC-TAATTGAT
65 AAAACAGATCAATTAAGCTG-TT-TGTGTACAAAAC-ACCTTAATTGAT
11726838 CATTTTAAAA
Statistics
Matches: 197, Mismatches: 31, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
124 48 0.24
125 33 0.17
126 65 0.33
127 41 0.21
128 5 0.03
129 5 0.03
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (125 bp):
TATTTTAGATCAATTAAGGCATTTCTGTACACAAATGCCTTAATTGATCTAAATTATAAATTATA
AAACAGATCAATTAAGCTGTTTGTGTACAAAACACCTTAATTGATATATTGTAGAAATTA
Found at i:11732535 original size:19 final size:21
Alignment explanation
Indices: 11732497--11732536 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
11732487 TCCCTTAGCA
*
11732497 CTTTGCCATCTGTTGTAAAAC
1 CTTTGCCATCTGTGGTAAAAC
11732518 CTTT-CCATCT-TGGTAAAAC
1 CTTTGCCATCTGTGGTAAAAC
11732537 ATATATGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 6 0.33
21 4 0.22
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (21 bp):
CTTTGCCATCTGTGGTAAAAC
Found at i:11735250 original size:3 final size:3
Alignment explanation
Indices: 11735242--11735310 Score: 131
Period size: 3 Copynumber: 23.3 Consensus size: 3
11735232 AATTCTTGAT
11735242 TTA TTA TTA TTA 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 TTA TTA TTA TTA
11735290 TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
11735311 CAAAGCTCGG
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 63 0.97
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11736210 original size:19 final size:19
Alignment explanation
Indices: 11736186--11736245 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
11736176 CCTTAATCCT
11736186 AAACCCTAAACCAAACCCC
1 AAACCCTAAACCAAACCCC
* * *
11736205 AAACCCCAAACTAAACCCT
1 AAACCCTAAACCAAACCCC
* *
11736224 AAA-TCTTAACCTAAACCCC
1 AAACCCTAAACC-AAACCCC
11736243 AAA
1 AAA
11736246 ATCAACCCTT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
18 4 0.12
19 28 0.88
ACGTcount: A:0.48, C:0.40, G:0.00, T:0.12
Consensus pattern (19 bp):
AAACCCTAAACCAAACCCC
Found at i:11736330 original size:18 final size:18
Alignment explanation
Indices: 11736307--11736366 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
11736297 TGTTATTGCT
11736307 TGCATTTTTATATTGTCA
1 TGCATTTTTATATTGTCA
**
11736325 TGCATTCATACT-TTGTCA
1 TGCATTTTTA-TATTGTCA
* * *
11736343 TTC-TTGTTATATTGTAA
1 TGCATTTTTATATTGTCA
11736360 TGCATTT
1 TGCATTT
11736367 ATAATGTTAT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
16 1 0.03
17 11 0.35
18 18 0.58
19 1 0.03
ACGTcount: A:0.22, C:0.13, G:0.12, T:0.53
Consensus pattern (18 bp):
TGCATTTTTATATTGTCA
Found at i:11737229 original size:19 final size:19
Alignment explanation
Indices: 11737207--11737250 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
11737197 TGAAAAATTG
11737207 AAAATT-AAAAAAACATAAA
1 AAAATTCAAAAAAAC-TAAA
*
11737226 AAAATTCACAAAAACTAAA
1 AAAATTCAAAAAAACTAAA
11737245 AAAATT
1 AAAATT
11737251 GTTTTAACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (19 bp):
AAAATTCAAAAAAACTAAA
Found at i:11740630 original size:13 final size:13
Alignment explanation
Indices: 11740612--11740645 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
11740602 GAATTAAAAT
11740612 AAAACTCTTCACC
1 AAAACTCTTCACC
*
11740625 AAAACTCTTCGCC
1 AAAACTCTTCACC
11740638 AAAACTCT
1 AAAACTCT
11740646 CTAGACCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.38, C:0.35, G:0.03, T:0.24
Consensus pattern (13 bp):
AAAACTCTTCACC
Found at i:11742109 original size:71 final size:73
Alignment explanation
Indices: 11742033--11742186 Score: 267
Period size: 71 Copynumber: 2.1 Consensus size: 73
11742023 TTAGGATCCT
11742033 TTTTTTTTTCTATGAAAGAGCTTTCAAGTATTGTTG-TTTTCATGCTTTCACCTTTCTTTCACTC
1 TTTTTTTTTCTATGAAAGAGCTTTCAAGTATTGTTGTTTTTCATGCTTTCACCTTTCTTTCACTC
11742097 TTTTTGC-
66 TTTTTGCA
* *
11742104 TTTTTTTTTCTATGAGAGAGCTTTCAAGTATTGTTGTTTTTCATGCTTTCACCTTTTTTTCACTC
1 TTTTTTTTTCTATGAAAGAGCTTTCAAGTATTGTTGTTTTTCATGCTTTCACCTTTCTTTCACTC
11742169 TTTTTGCA
66 TTTTTGCA
*
11742177 TTTTATTTTC
1 TTTTTTTTTC
11742187 CTTCCTTTGA
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
71 35 0.45
72 34 0.44
73 9 0.12
ACGTcount: A:0.15, C:0.17, G:0.11, T:0.57
Consensus pattern (73 bp):
TTTTTTTTTCTATGAAAGAGCTTTCAAGTATTGTTGTTTTTCATGCTTTCACCTTTCTTTCACTC
TTTTTGCA
Found at i:11747931 original size:20 final size:21
Alignment explanation
Indices: 11747893--11747932 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11747883 ATTCTAATGT
11747893 ATTAAGAATCATCCAAGATTG
1 ATTAAGAATCATCCAAGATTG
*
11747914 ATTAAGAATTAT-CAAGATT
1 ATTAAGAATCATCCAAGATT
11747933 TTTCAAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (21 bp):
ATTAAGAATCATCCAAGATTG
Found at i:11750511 original size:25 final size:25
Alignment explanation
Indices: 11750483--11750576 Score: 76
Period size: 22 Copynumber: 4.0 Consensus size: 25
11750473 AAATAAAAGT
11750483 AAAAGAATGAAAAATGAAAAAAAAA
1 AAAAGAATGAAAAATGAAAAAAAAA
* *
11750508 AAAAGAAAG-AAAATG--AAAAGAA
1 AAAAGAATGAAAAATGAAAAAAAAA
* *
11750530 AAAGGAA-GAACAA--AAAAAAAAA
1 AAAAGAATGAAAAATGAAAAAAAAA
* * *
11750552 GAAAGAAT-AGAAATGAAAAAGAAA
1 AAAAGAATGAAAAATGAAAAAAAAA
11750576 A
1 A
11750577 GGAAATAAAA
Statistics
Matches: 52, Mismatches: 11, Indels: 13
0.68 0.14 0.17
Matches are distributed among these distances:
21 1 0.02
22 29 0.56
24 14 0.27
25 8 0.15
ACGTcount: A:0.78, C:0.01, G:0.16, T:0.05
Consensus pattern (25 bp):
AAAAGAATGAAAAATGAAAAAAAAA
Found at i:11750521 original size:45 final size:45
Alignment explanation
Indices: 11750471--11750580 Score: 122
Period size: 44 Copynumber: 2.5 Consensus size: 45
11750461 TGACCAAAAG
*
11750471 GAAAAT-AAAAGTAAAA-GAATGAAAAATGAAAAAAAAAAAAAGAA-A
1 GAAAATGAAAAGAAAAAGGAA-GAAAAA--AAAAAAAAAAAAAGAATA
* *
11750516 GAAAATGAAAAGAAAAAGGAAGAACAAAAAAAAAAAGAAAGAATA
1 GAAAATGAAAAGAAAAAGGAAGAAAAAAAAAAAAAAAAAAGAATA
11750561 G-AAATGAAAA-AGAAAAGGAA
1 GAAAATGAAAAGA-AAAAGGAA
11750581 ATAAAATGAT
Statistics
Matches: 58, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
43 1 0.02
44 32 0.55
45 8 0.14
46 14 0.24
47 3 0.05
ACGTcount: A:0.75, C:0.01, G:0.17, T:0.06
Consensus pattern (45 bp):
GAAAATGAAAAGAAAAAGGAAGAAAAAAAAAAAAAAAAAAGAATA
Found at i:11750545 original size:19 final size:20
Alignment explanation
Indices: 11750502--11750575 Score: 78
Period size: 19 Copynumber: 3.7 Consensus size: 20
11750492 AAAAATGAAA
* *
11750502 AAAAAAAAAAGAAAGAAAATG
1 AAAAGAAAAAGAAAGAACA-G
*
11750523 AAAAGAAAAAGGAAGAACA-
1 AAAAGAAAAAGAAAGAACAG
* *
11750542 AAAAAAAAAAGAAAGAATAG
1 AAAAGAAAAAGAAAGAACAG
*
11750562 AAATGAAAAAGAAA
1 AAAAGAAAAAGAAA
11750576 AGGAAATAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
19 16 0.36
20 12 0.27
21 16 0.36
ACGTcount: A:0.78, C:0.01, G:0.16, T:0.04
Consensus pattern (20 bp):
AAAAGAAAAAGAAAGAACAG
Found at i:11750581 original size:6 final size:6
Alignment explanation
Indices: 11750491--11750581 Score: 51
Period size: 6 Copynumber: 14.7 Consensus size: 6
11750481 GTAAAAGAAT
* * *
11750491 GAAAAA TGAAAAA -AAAAA AAAGAAA GAAAAT G-AAAA GAAAAA GGAAGAA
1 GAAAAA -GAAAAA GAAAAA GAA-AAA GAAAAA GAAAAA GAAAAA -GAAAAA
* * * * *
11750540 CAAAAA AAAAAA GAAAGAA TAGAAAT GAAAAA GAAAAG GAAA
1 GAAAAA GAAAAA GAAA-AA GA-AAAA GAAAAA GAAAAA GAAA
11750582 TAAAATGATT
Statistics
Matches: 65, Mismatches: 13, Indels: 13
0.71 0.14 0.14
Matches are distributed among these distances:
5 9 0.14
6 33 0.51
7 21 0.32
8 2 0.03
ACGTcount: A:0.77, C:0.01, G:0.18, T:0.04
Consensus pattern (6 bp):
GAAAAA
Found at i:11752017 original size:19 final size:19
Alignment explanation
Indices: 11751993--11752037 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
11751983 TATGAACATT
11751993 GGCATTTACATTCATAAAA
1 GGCATTTACATTCATAAAA
11752012 GGCATTTACATTCATAAAA
1 GGCATTTACATTCATAAAA
11752031 GGCATTT
1 GGCATTT
11752038 GCTAGCAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (19 bp):
GGCATTTACATTCATAAAA
Found at i:11753216 original size:45 final size:45
Alignment explanation
Indices: 11753141--11753261 Score: 156
Period size: 45 Copynumber: 2.6 Consensus size: 45
11753131 CTAAGATGAG
*
11753141 ATTTATTTTCAAATGTTGTTAAGTCC-TTACCTAAAT-GACCTTTTAA
1 ATTTATTTTCAAA-GTTGTTAAG-CCTTTACCTAAATGGA-CTATTAA
*
11753187 ATTTATTTTCAAAGTTGTTAAGCCTTTACCTAAATGGAGTATTAA
1 ATTTATTTTCAAAGTTGTTAAGCCTTTACCTAAATGGACTATTAA
* *
11753232 ATTTATTTTCAAAAGTTTTTAAGCTTTTAC
1 ATTTATTTTC-AAAGTTGTTAAGCCTTTAC
11753262 GTTAAAAAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
44 2 0.03
45 34 0.50
46 32 0.47
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.46
Consensus pattern (45 bp):
ATTTATTTTCAAAGTTGTTAAGCCTTTACCTAAATGGACTATTAA
Found at i:11762178 original size:14 final size:14
Alignment explanation
Indices: 11762148--11762189 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
11762138 GTGTTTTTAT
11762148 TGTCATTTATT-TTA
1 TGTC-TTTATTATTA
*
11762162 TGTTTTTATTATTA
1 TGTCTTTATTATTA
11762176 TGTCTTTATATATT
1 TGTCTTTAT-TATT
11762190 GTTTGCAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 6 0.25
14 14 0.58
15 4 0.17
ACGTcount: A:0.21, C:0.05, G:0.07, T:0.67
Consensus pattern (14 bp):
TGTCTTTATTATTA
Found at i:11765577 original size:2 final size:2
Alignment explanation
Indices: 11765572--11765608 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
11765562 TAAAAAATTA
11765572 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11765609 CAAAATAACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11766949 original size:64 final size:61
Alignment explanation
Indices: 11766795--11766949 Score: 150
Period size: 64 Copynumber: 2.5 Consensus size: 61
11766785 TTTCTCGACT
* * * * *
11766795 AAAACACCTTGAATAATCCTGC-CTTAAAAATTTTAGTGAATACTAAAGGCATTTTTGGTAG
1 AAAACGCCTTGAATAATCC-ACTCATAAAAATTATAGGGAATACTAAAGGCATTTTTGGTAG
* * * * *
11766856 AAAACGCCTTGAATAATCTAGTTAAAAAAATTGATAGGGAATTACTGAAGGCATGTTTTGGTAG
1 AAAACGCCTTGAATAATCCACTCATAAAAATT-ATAGGGAA-TACTAAAGGCAT-TTTTGGTAG
* * *
11766920 ACAACGCCTTTAATAATCCCCTCATAAAAA
1 AAAACGCCTTGAATAATCCACTCATAAAAA
11766950 AATGTATGCA
Statistics
Matches: 73, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
61 24 0.33
62 6 0.08
63 11 0.15
64 32 0.44
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (61 bp):
AAAACGCCTTGAATAATCCACTCATAAAAATTATAGGGAATACTAAAGGCATTTTTGGTAG
Found at i:11766963 original size:64 final size:63
Alignment explanation
Indices: 11766835--11766976 Score: 153
Period size: 64 Copynumber: 2.2 Consensus size: 63
11766825 TTTTAGTGAA
* * * *
11766835 TACTAAAGGCATTTTTGGTAGAAAACGCCTTGAATAATCTAGTTAAAAAAATTGATAGGGAAT
1 TACTGAAGGCATTTTTGGTAGAAAACGCCTTGAATAATCCACTTAAAAAAATTGATAGGCAAT
* * * *
11766898 TACTGAAGGCATGTTTTGGTAGACAACGCCTTTAATAATCCCCTCATAAAAAAA-TG-TATGCAA
1 TACTGAAGGCAT-TTTTGGTAGAAAACGCCTTGAATAATCCACT--TAAAAAAATTGATAGGCAA
11766961 T
63 T
* *
11766962 TATTGAAGGCGTTTT
1 TACTGAAGGCATTTT
11766977 CTACAAGAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
63 14 0.21
64 42 0.64
65 2 0.03
66 8 0.12
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (63 bp):
TACTGAAGGCATTTTTGGTAGAAAACGCCTTGAATAATCCACTTAAAAAAATTGATAGGCAAT
Found at i:11771242 original size:80 final size:79
Alignment explanation
Indices: 11771149--11771302 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 79
11771139 CTAATCATTC
* * *
11771149 AGCATATGATTTAGCCCCACAATATCGTACAATACCATTTAGCAAAACAATATCAAACAACAAGG
1 AGCATATGATTTAGCCCCACAATATCATACAATACCATTCAACAAAACAATAT-AAACAACAAGG
11771214 TTCAACAAACTATTT
65 TTCAACAAACTATTT
* * * * *
11771229 AGCATATGATTTAGCCCCTCAATATCATACAATACCATTCAATAAAATAATATTAGCAACAAGGT
1 AGCATATGATTTAGCCCCACAATATCATACAATACCATTCAACAAAACAATATAAACAACAAGGT
*
11771294 TCAGCAAAC
66 TCAACAAAC
11771303 CATAATCTTT
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
79 18 0.28
80 47 0.72
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.25
Consensus pattern (79 bp):
AGCATATGATTTAGCCCCACAATATCATACAATACCATTCAACAAAACAATATAAACAACAAGGT
TCAACAAACTATTT
Found at i:11777665 original size:11 final size:11
Alignment explanation
Indices: 11777649--11777679 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
11777639 TGTCACATCG
11777649 TTATTGTATAA
1 TTATTGTATAA
11777660 TTATTGTATAA
1 TTATTGTATAA
11777671 TTATTGTAT
1 TTATTGTAT
11777680 TCTAAATCAT
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:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (11 bp):
TTATTGTATAA
Found at i:11782086 original size:21 final size:21
Alignment explanation
Indices: 11782039--11782086 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
11782029 TAATTATTTT
11782039 AATAATTTTAAATAAATAATA
1 AATAATTTTAAATAAATAATA
** *
11782060 TTTAATTTTTAATAATATAA-A
1 AATAATTTTAAATAA-ATAATA
11782081 AATAAT
1 AATAAT
11782087 GATCTTTTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AATAATTTTAAATAAATAATA
Found at i:11782959 original size:2 final size:2
Alignment explanation
Indices: 11782952--11782992 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
11782942 TATCTCGGTC
11782952 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA T
11782993 GTTTTTGTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11784242 original size:32 final size:31
Alignment explanation
Indices: 11784153--11784275 Score: 104
Period size: 32 Copynumber: 3.9 Consensus size: 31
11784143 TACTAAATCT
* *
11784153 ATTTTTAAAATGATA-AGAAAAATTTTATTTA
1 ATTTTTTAAATGATATA-AAAATTTTTATTTA
* ** *
11784184 ATATTTTTAAATGGTATGTAATTTTTTATTTA
1 AT-TTTTTAAATGATATAAAAATTTTTATTTA
*
11784216 ATTTTTTAAATCGATATAAAAATTTTTACTTA
1 ATTTTTTAAAT-GATATAAAAATTTTTATTTA
* * **
11784248 ACTTTTTAAGATAATATGGAAATTTTTA
1 ATTTTTTAA-ATGATATAAAAATTTTTA
11784276 AAAAGAATTT
Statistics
Matches: 73, Mismatches: 15, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
31 11 0.15
32 60 0.82
33 2 0.03
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.50
Consensus pattern (31 bp):
ATTTTTTAAATGATATAAAAATTTTTATTTA
Found at i:11784294 original size:21 final size:20
Alignment explanation
Indices: 11784267--11784315 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
11784257 GATAATATGG
*
11784267 AAATTTTTAAAAAGAATTTT
1 AAATTTTTTAAAAGAATTTT
***
11784287 AAATTTTTTAACTTAATTTT
1 AAATTTTTTAAAAGAATTTT
11784307 AAATTTTTT
1 AAATTTTTT
11784316 CAATTTTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
AAATTTTTTAAAAGAATTTT
Found at i:11784403 original size:22 final size:23
Alignment explanation
Indices: 11784378--11784421 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
11784368 AAAAATTAAA
* *
11784378 AAATTTAAATTAT-AATTTTTTG
1 AAATATAAAATATCAATTTTTTG
11784400 AAATATAAAATATCAATTTTTT
1 AAATATAAAATATCAATTTTTT
11784422 CATTATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
AAATATAAAATATCAATTTTTTG
Found at i:11786442 original size:15 final size:16
Alignment explanation
Indices: 11786417--11786446 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11786407 ATAACTCAGA
11786417 AAAATATTAAAAAATC
1 AAAATATTAAAAAATC
11786433 AAAA-ATTAAAAAAT
1 AAAATATTAAAAAAT
11786447 TATTCCCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAATATTAAAAAATC
Found at i:11787919 original size:33 final size:33
Alignment explanation
Indices: 11787842--11787921 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
11787832 TTCACCCAAG
* *
11787842 TTTTTAAAAATAAATTTTCGAAAAATCATGAATC
1 TTTTCAAAAAT-AATTTTCAAAAAATCATGAATC
* * *
11787876 TTTCCGAAAATAATTTTCAAAAAATTATGTAA-C
1 TTTTCAAAAATAATTTTCAAAAAATCATG-AATC
11787909 TTTTCAAAAATAA
1 TTTTCAAAAATAA
11787922 AATTTTGAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
33 28 0.74
34 10 0.26
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (33 bp):
TTTTCAAAAATAATTTTCAAAAAATCATGAATC
Found at i:11788057 original size:13 final size:14
Alignment explanation
Indices: 11788026--11788072 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
11788016 TCATTTTTTG
*
11788026 AAAATGAATTTTCAA
1 AAAATAAATTTTC-A
*
11788041 AAAATTATATTTT-A
1 AAAA-TAAATTTTCA
11788055 AAAATAAATTTTCA
1 AAAATAAATTTTCA
11788069 AAAA
1 AAAA
11788073 GGTTTATGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 7 0.26
14 10 0.37
15 4 0.15
16 6 0.22
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (14 bp):
AAAATAAATTTTCA
Found at i:11788595 original size:2 final size:2
Alignment explanation
Indices: 11788582--11788611 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
11788572 TGATATCTAC
*
11788582 AT AT AT AA 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
11788612 TTATGTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11793940 original size:2 final size:2
Alignment explanation
Indices: 11793933--11793968 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
11793923 TCTAACTATC
11793933 AT AT 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 AT AT
11793969 CTGGTGTGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11794923 original size:12 final size:12
Alignment explanation
Indices: 11794906--11794930 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11794896 TTAAAAGTGA
11794906 TTTAATAAAAAT
1 TTTAATAAAAAT
11794918 TTTAATAAAAAT
1 TTTAATAAAAAT
11794930 T
1 T
11794931 ATAAATTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TTTAATAAAAAT
Found at i:11795185 original size:13 final size:13
Alignment explanation
Indices: 11795167--11795194 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11795157 ACTCTATCAA
11795167 TTTTTATTTTTAT
1 TTTTTATTTTTAT
11795180 TTTTTATTTTTAT
1 TTTTTATTTTTAT
11795193 TT
1 TT
11795195 AATCATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:11796041 original size:18 final size:19
Alignment explanation
Indices: 11795994--11796043 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 19
11795984 CTTCAGTTCG
*
11795994 AATTAAA-TTCAAATATTA
1 AATTAAATTTTAAATATTA
* *
11796012 AA-TATATATTAAAT-TTA
1 AATTAAATTTTAAATATTA
11796029 AATTAAATTTTAAAT
1 AATTAAATTTTAAAT
11796044 CAAAAAATAA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
AATTAAATTTTAAATATTA
Found at i:11796190 original size:13 final size:13
Alignment explanation
Indices: 11796159--11796199 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
11796149 AATCAATTTA
11796159 AATATATTAAAAT
1 AATATATTAAAAT
**
11796172 TTTATATTAAAAT
1 AATATATTAAAAT
*
11796185 AATATATAAAAAT
1 AATATATTAAAAT
11796198 AA
1 AA
11796200 AAATAATTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AATATATTAAAAT
Found at i:11796308 original size:32 final size:31
Alignment explanation
Indices: 11796247--11796308 Score: 72
Period size: 32 Copynumber: 1.9 Consensus size: 31
11796237 ACCAAACGAT
**
11796247 AAAATTCAATTTAATTTGATTCAAATCATATA
1 AAAATTCAATTTAATTT-ATAAAAATCATATA
11796279 AAAATTCAATTTGAATTT-TAAAAATTCATA
1 AAAATTCAATTT-AATTTATAAAAA-TCATA
11796309 ATATTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
31 4 0.15
32 17 0.65
33 5 0.19
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.40
Consensus pattern (31 bp):
AAAATTCAATTTAATTTATAAAAATCATATA
Found at i:11798191 original size:20 final size:20
Alignment explanation
Indices: 11798166--11798206 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
11798156 CAAACAAATT
* *
11798166 TAAACAAATATAAATGAACC
1 TAAACAAACATAAACGAACC
11798186 TAAACAAACATAAACGAACC
1 TAAACAAACATAAACGAACC
11798206 T
1 T
11798207 TAAAATAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.59, C:0.20, G:0.05, T:0.17
Consensus pattern (20 bp):
TAAACAAACATAAACGAACC
Found at i:11801891 original size:48 final size:48
Alignment explanation
Indices: 11801832--11801930 Score: 182
Period size: 48 Copynumber: 2.1 Consensus size: 48
11801822 GACAAGACCA
11801832 ATGAGAAAACAATAATAA-GTAAGGGAACTATAGACAACAAGATTTCTG
1 ATGAGAAAACAATAA-AAGGTAAGGGAACTATAGACAACAAGATTTCTG
11801880 ATGAGAAAACAATAAAAGGTAAGGGAACTATAGACAACAAGATTTCTG
1 ATGAGAAAACAATAAAAGGTAAGGGAACTATAGACAACAAGATTTCTG
11801928 ATG
1 ATG
11801931 GCATCTCACA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 2 0.04
48 48 0.96
ACGTcount: A:0.49, C:0.10, G:0.20, T:0.20
Consensus pattern (48 bp):
ATGAGAAAACAATAAAAGGTAAGGGAACTATAGACAACAAGATTTCTG
Found at i:11804966 original size:2 final size:2
Alignment explanation
Indices: 11804959--11804999 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
11804949 AATTAGGAAA
11804959 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
11805000 TTGGGAAACG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11805736 original size:15 final size:15
Alignment explanation
Indices: 11805713--11805749 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
11805703 TAGTTTTTTT
*
11805713 ATATAATTTTTTATAA
1 ATAT-ATTTTTTAAAA
11805729 ATATATTTTTTAAAA
1 ATATATTTTTTAAAA
11805744 ATATAT
1 ATATAT
11805750 ATTAAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATATTTTTTAAAA
Found at i:11807014 original size:20 final size:20
Alignment explanation
Indices: 11806977--11807014 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11806967 TGTAAAATTT
*
11806977 ATATTTTATTCATATAATAA
1 ATATTTTATTAATATAATAA
11806997 ATATTATTATTAAT-TAAT
1 ATATT-TTATTAATATAAT
11807015 TAATCAATCG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATTTTATTAATATAATAA
Found at i:11808241 original size:18 final size:18
Alignment explanation
Indices: 11808196--11808280 Score: 64
Period size: 19 Copynumber: 4.4 Consensus size: 18
11808186 ATCTAAAATT
*
11808196 TTTTTAAAATTATAAAAA
1 TTTTAAAAATTATAAAAA
11808214 TTTATAAAAA-TATAAAAA
1 TTT-TAAAAATTATAAAAA
* * *
11808232 GTTTTGAAAAAATCTGAAAATT
1 -TTTT-AAAAATTAT-AAAA-A
*
11808254 TTTTGAAAAATTCTAAAAA
1 TTTT-AAAAATTATAAAAA
11808273 TTTTAAAA
1 TTTTAAAA
11808281 TTTTTTTGAA
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
18 16 0.29
19 17 0.30
20 6 0.11
21 17 0.30
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (18 bp):
TTTTAAAAATTATAAAAA
Found at i:11808241 original size:19 final size:17
Alignment explanation
Indices: 11808197--11808280 Score: 60
Period size: 18 Copynumber: 4.5 Consensus size: 17
11808187 TCTAAAATTT
*
11808197 TTTTAAAATTATAAAAA
1 TTTTAAAAATATAAAAA
11808214 TTTATAAAAATATAAAAA
1 TTT-TAAAAATATAAAAA
* *
11808232 GTTTTGAAAAAATCTGAAAATT
1 -TTTT--AAAAATAT-AAAA-A
*
11808254 TTTTGAAAAATTCTAAAAA
1 TTTT-AAAAA-TATAAAAA
11808273 TTTTAAAA
1 TTTTAAAA
11808281 TTTTTTTGAA
Statistics
Matches: 55, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
17 3 0.05
18 18 0.33
19 7 0.13
20 16 0.29
21 11 0.20
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (17 bp):
TTTTAAAAATATAAAAA
Found at i:11808257 original size:21 final size:21
Alignment explanation
Indices: 11808181--11808276 Score: 78
Period size: 21 Copynumber: 4.9 Consensus size: 21
11808171 AACTAAAATT
11808181 AAAAAATCT-AAAATTTTTT-
1 AAAAAATCTAAAAATTTTTTG
* * * *
11808200 TAAAATTATAAAAA-TTTAT-
1 AAAAAATCTAAAAATTTTTTG
* *
11808219 -AAAAATATAAAAA-GTTTTG
1 AAAAAATCTAAAAATTTTTTG
*
11808238 AAAAAATCTGAAAATTTTTTG
1 AAAAAATCTAAAAATTTTTTG
*
11808259 AAAAATTCTAAAAATTTT
1 AAAAAATCTAAAAATTTT
11808277 AAAATTTTTT
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
18 15 0.25
19 10 0.16
20 15 0.25
21 21 0.34
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.39
Consensus pattern (21 bp):
AAAAAATCTAAAAATTTTTTG
Found at i:11808395 original size:66 final size:64
Alignment explanation
Indices: 11808325--11808468 Score: 141
Period size: 67 Copynumber: 2.2 Consensus size: 64
11808315 AAAACAGTAT
*
11808325 AAAAATTTTAAAAATTATGAAAAA-CAAAAATAAAAACTTAAAATTTTAATAAAAAT-AAAATTT
1 AAAAATTTTAAAAATT-TAAAAAATCAAAAATAAAAACTTAAAA--TTAA-AAAAATAAAAATTT
11808388 TCA
62 TCA
* * * ** *
11808391 AAAAATATATT-AATATTTAAAAAATTAAAATTAAAATTTTAAGATTAAAAAAATAAAAATTTTC
1 AAAAAT-T-TTAAAAATTTAAAAAATCAAAAATAAAAACTTAAAATTAAAAAAATAAAAATTTTC
11808455 A
64 A
*
11808456 AAATATTTTAAAA
1 AAAAATTTTAAAA
11808469 GTTTTTCACA
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
63 2 0.03
64 9 0.14
65 19 0.30
66 12 0.19
67 20 0.31
68 2 0.03
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.33
Consensus pattern (64 bp):
AAAAATTTTAAAAATTTAAAAAATCAAAAATAAAAACTTAAAATTAAAAAAATAAAAATTTTCA
Found at i:11808396 original size:16 final size:17
Alignment explanation
Indices: 11808353--11808397 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
11808343 GAAAAACAAA
11808353 AATAAAAACTTAAAATTTT
1 AATAAAAA--TAAAATTTT
11808372 AATAAAAATAAAATTTT
1 AATAAAAATAAAATTTT
*
11808389 CA-AAAAATA
1 AATAAAAATA
11808398 TATTAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 7 0.28
17 10 0.40
19 8 0.32
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (17 bp):
AATAAAAATAAAATTTT
Found at i:11808476 original size:21 final size:21
Alignment explanation
Indices: 11808450--11808495 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
11808440 AAAATAAAAA
11808450 TTTTCAAAATATTTTAAAAGT
1 TTTTCAAAATATTTTAAAAGT
* * * *
11808471 TTTTCACAATTTTTTACAATT
1 TTTTCAAAATATTTTAAAAGT
11808492 TTTT
1 TTTT
11808496 TTTTCAAAAA
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:0.33, C:0.09, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTTCAAAATATTTTAAAAGT
Found at i:11808674 original size:9 final size:9
Alignment explanation
Indices: 11808660--11808749 Score: 63
Period size: 9 Copynumber: 9.3 Consensus size: 9
11808650 CCTGAATTTT
*
11808660 TTTTTAATA
1 TTTTTAAAA
11808669 TTTTTAAAA
1 TTTTTAAAA
*
11808678 TCTTTTACAA
1 T-TTTTAAAA
11808688 TTTTTAAAA
1 TTTTTAAAA
*
11808697 TTTTTTTAGAA
1 --TTTTTAAAA
*
11808708 TTTTGTAAATT
1 TTTT-TAAA-A
* *
11808719 TTTTTCAAG
1 TTTTTAAAA
11808728 TTTTTGAAAA
1 TTTTT-AAAA
*
11808738 TTTTGAAAA
1 TTTTTAAAA
11808747 TTT
1 TTT
11808750 GTTGAATTTT
Statistics
Matches: 64, Mismatches: 11, Indels: 12
0.74 0.13 0.14
Matches are distributed among these distances:
9 32 0.50
10 20 0.31
11 12 0.19
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:11808690 original size:19 final size:19
Alignment explanation
Indices: 11808659--11808741 Score: 80
Period size: 19 Copynumber: 4.2 Consensus size: 19
11808649 TCCTGAATTT
11808659 TTTTTTA-ATATTTTTAAAA
1 TTTTTTACA-ATTTTTAAAA
*
11808678 TCTTTTACAATTTTTAAAA
1 TTTTTTACAATTTTTAAAA
*
11808697 TTTTTTTAGAATTTTGT-AAA
1 -TTTTTTACAATTTT-TAAAA
*
11808717 TTTTTTTCAAGTTTTTGAAAA
1 TTTTTTACAA-TTTTT-AAAA
11808738 TTTT
1 TTTT
11808742 GAAAATTTGT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
19 25 0.47
20 20 0.38
21 8 0.15
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (19 bp):
TTTTTTACAATTTTTAAAA
Found at i:11808709 original size:20 final size:19
Alignment explanation
Indices: 11808658--11808741 Score: 82
Period size: 20 Copynumber: 4.2 Consensus size: 19
11808648 TTCCTGAATT
11808658 TTTTTTTAATATTTTTAAAA
1 TTTTTTTAA-ATTTTTAAAA
*
11808678 -TCTTTTACAATTTTTAAAA
1 TTTTTTTA-AATTTTTAAAA
11808697 TTTTTTTAGAATTTTGT-AAA
1 TTTTTTTA-AATTTT-TAAAA
*
11808717 TTTTTTTCAAGTTTTTGAAAA
1 TTTTTTT-AAATTTTT-AAAA
11808738 TTTT
1 TTTT
11808742 GAAAATTTGT
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
19 17 0.31
20 28 0.52
21 9 0.17
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.61
Consensus pattern (19 bp):
TTTTTTTAAATTTTTAAAA
Found at i:11808722 original size:30 final size:30
Alignment explanation
Indices: 11808686--11808749 Score: 67
Period size: 30 Copynumber: 2.2 Consensus size: 30
11808676 AATCTTTTAC
* * * *
11808686 AATTTTT-AAAATTTTTTTAGAATTTTGTA
1 AATTTTTTAAAAGTTTTTGAAAATTTTGAA
**
11808715 AATTTTTTTCAAGTTTTTGAAAATTTTGAA
1 AATTTTTTAAAAGTTTTTGAAAATTTTGAA
11808745 AATTT
1 AATTT
11808750 GTTGAATTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.56
Consensus pattern (30 bp):
AATTTTTTAAAAGTTTTTGAAAATTTTGAA
Found at i:11808796 original size:19 final size:19
Alignment explanation
Indices: 11808772--11808811 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
11808762 AAAAAAATTG
11808772 TAAATTGTTGTAGAATTTT
1 TAAATTGTTGTAGAATTTT
* *
11808791 TAAATTTTTTTAGAATTTT
1 TAAATTGTTGTAGAATTTT
11808810 TA
1 TA
11808812 TTTTTATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (19 bp):
TAAATTGTTGTAGAATTTT
Found at i:11810247 original size:12 final size:12
Alignment explanation
Indices: 11810230--11810309 Score: 53
Period size: 12 Copynumber: 6.8 Consensus size: 12
11810220 CAAATCGTCC
11810230 TCTCTTTCCTTT
1 TCTCTTTCCTTT
*
11810242 TCTCTTT-TTCTT
1 TCTCTTTCCT-TT
11810254 TCTC-TT-CTTT
1 TCTCTTTCCTTT
*
11810264 T-TCTTTCCTTC
1 TCTCTTTCCTTT
*
11810275 TCTCTTTCTTTCAT
1 TCTCTTTCCTT--T
*
11810289 TCCCTTTCC-TT
1 TCTCTTTCCTTT
*
11810300 TCTATTTCCT
1 TCTCTTTCCT
11810310 AAATCAACAT
Statistics
Matches: 52, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
9 2 0.04
10 5 0.10
11 16 0.31
12 21 0.40
13 1 0.02
14 7 0.13
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.65
Consensus pattern (12 bp):
TCTCTTTCCTTT
Found at i:11815686 original size:11 final size:11
Alignment explanation
Indices: 11815670--11815701 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
11815660 AATCCCATAA
11815670 GAGATTTGTTT
1 GAGATTTGTTT
11815681 GAGATTTGTTT
1 GAGATTTGTTT
*
11815692 GAAATTTGTT
1 GAGATTTGTT
11815702 AGATATTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:11815812 original size:52 final size:52
Alignment explanation
Indices: 11815725--11815881 Score: 190
Period size: 52 Copynumber: 3.0 Consensus size: 52
11815715 TGGACAAGAA
* * * * *
11815725 GACTTGCAAAAGAAGAATTCTAA-ATGAAATAGGATTCTTAATAGGTAAATTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAA-GGGATTCTTAATAGGCAAATTT
* * * *
11815777 GACTTATAAGAGAAGAATTCTAAGGGGAAAGGGATTCCTAATAGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAATTT
* * *
11815829 GACTTACAGGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATGGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAATTT
11815881 G
1 G
11815882 TATGCTTATA
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
52 86 0.96
53 4 0.04
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.27
Consensus pattern (52 bp):
GACTTACAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAATTT
Found at i:11816479 original size:25 final size:25
Alignment explanation
Indices: 11816422--11816480 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
11816412 AGAGCTGAAA
* *
11816422 GTTCGAAATGTGGGAAAAGTCAAAT
1 GTTCGAGATGTGGGAAAAATCAAAT
* *
11816447 GTTTGAGATGTGGGAAAAATC-GAT
1 GTTCGAGATGTGGGAAAAATCAAAT
11816471 GGTTCGAGAT
1 -GTTCGAGAT
11816481 ATGAAAAAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 2 0.07
25 26 0.93
ACGTcount: A:0.34, C:0.07, G:0.32, T:0.27
Consensus pattern (25 bp):
GTTCGAGATGTGGGAAAAATCAAAT
Found at i:11816767 original size:11 final size:11
Alignment explanation
Indices: 11816751--11816782 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
11816741 AATCCCATAA
11816751 GAGATTTGTTT
1 GAGATTTGTTT
11816762 GAGATTTGTTT
1 GAGATTTGTTT
*
11816773 GAAATTTGTT
1 GAGATTTGTT
11816783 AGATATTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:11816962 original size:52 final size:52
Alignment explanation
Indices: 11816808--11816963 Score: 174
Period size: 52 Copynumber: 3.0 Consensus size: 52
11816798 TACAATAAGA
* * * * **
11816808 CTTACAACAGAAGAATTCTAA-AAGAAAGAAGATTCTTT-ATAGGTAAGTTTCA
1 CTTACAAGAGAAGAATTTTAAGAGGAAAG-AGATT-TTTAATAGGCAAGTTTGT
* *
11816860 CTTACAAGAGAAGAATTTTAAGAGAAAATG-GATTCTTAATAGGCAAGTTTGT
1 CTTACAAGAGAAGAATTTTAAGAGGAAA-GAGATTTTTAATAGGCAAGTTTGT
* *
11816912 CTTACATGAGAAGAATTTTAAGAGGAAAGAGATTTTTAATGGGCAAGTTTGT
1 CTTACAAGAGAAGAATTTTAAGAGGAAAGAGATTTTTAATAGGCAAGTTTGT
11816964 ATGGTTATAA
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
51 3 0.03
52 80 0.91
53 4 0.05
54 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (52 bp):
CTTACAAGAGAAGAATTTTAAGAGGAAAGAGATTTTTAATAGGCAAGTTTGT
Found at i:11817611 original size:5 final size:4
Alignment explanation
Indices: 11817596--11817636 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
11817586 ACTAGACTAC
*
11817596 TCTT TCTT TCTCT TC-T T-TT TCTT TCTT TCTA TCTT TCTT TC
1 TCTT TCTT TCT-T TCTT TCTT TCTT TCTT TCTT TCTT TCTT TC
11817637 ATTCCTTCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 4 0.12
4 25 0.78
5 3 0.09
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (4 bp):
TCTT
Found at i:11818562 original size:16 final size:16
Alignment explanation
Indices: 11818530--11818573 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
11818520 TGATACTGCT
11818530 AAATATT-TTTTCTAA
1 AAATATTATTTTCTAA
11818545 AAATATTATTTT-TAA
1 AAATATTATTTTCTAA
*
11818560 AAAAACTTATTTTC
1 AAATA-TTATTTTC
11818574 AAATATCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATATTATTTTCTAA
Found at i:11818696 original size:58 final size:57
Alignment explanation
Indices: 11818613--11818843 Score: 295
Period size: 58 Copynumber: 4.0 Consensus size: 57
11818603 TTTTACATAG
* * * *
11818613 ATTTTATTTTCAAGATGAA-TAATACTTTTAACATTTT-CTCAAAAATATTTTCTAGAA
1 ATTTTATTTTCAAGA-AAATTAATACTTTCAAC-TTTTCCTCAAAAATATTTTTTAAAA
*
11818670 ATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAA
1 ATTTTATTTTCAA-GAAAATTAATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAA
* * * * * *
11818728 AATTTATTTTTTAAAAAAATTGATACTTTTAACTTTTTCTCAAAAATATTTTTTAAAA
1 ATTTTA-TTTTCAAGAAAATTAATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAA
11818786 ATTTTATTTTCAAAGAAAATTAATACTTTCAACTTTTCCTCAAAAAATATTTTTTAAA
1 ATTTTATTTTC-AAGAAAATTAATACTTTCAACTTTTCCTC-AAAAATATTTTTTAAA
11818844 TCTTTTTATC
Statistics
Matches: 152, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
57 23 0.15
58 107 0.70
59 22 0.14
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.46
Consensus pattern (57 bp):
ATTTTATTTTCAAGAAAATTAATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAA
Found at i:11818758 original size:116 final size:117
Alignment explanation
Indices: 11818634--11818843 Score: 368
Period size: 116 Copynumber: 1.8 Consensus size: 117
11818624 AAGATGAATA
* * *
11818634 ATACTTTTAACATTTTCTCAAAAATATTTTCTAGAAATTTTATTTTCAAGGAAAATTGATACTTT
1 ATACTTTTAACATTTTCTCAAAAATATTTTCTAAAAATTTTATTTTCAAAGAAAATTAATACTTT
11818699 CAACTTTTCCTC-AAAAATATTTTTTAAAAAATTTATTTTTTAAAAAAATTG
66 CAACTTTTCCTCAAAAAATATTTTTTAAAAAATTTATTTTTTAAAAAAATTG
* *
11818750 ATACTTTTAACTTTTTCTCAAAAATATTTTTTAAAAATTTTATTTTCAAAGAAAATTAATACTTT
1 ATACTTTTAACATTTTCTCAAAAATATTTTCTAAAAATTTTATTTTCAAAGAAAATTAATACTTT
11818815 CAACTTTTCCTCAAAAAATATTTTTTAAA
66 CAACTTTTCCTCAAAAAATATTTTTTAAA
11818844 TCTTTTTATC
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
116 72 0.82
117 16 0.18
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.46
Consensus pattern (117 bp):
ATACTTTTAACATTTTCTCAAAAATATTTTCTAAAAATTTTATTTTCAAAGAAAATTAATACTTT
CAACTTTTCCTCAAAAAATATTTTTTAAAAAATTTATTTTTTAAAAAAATTG
Found at i:11820235 original size:17 final size:18
Alignment explanation
Indices: 11820196--11820236 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
11820186 TTAAACTAAT
11820196 AATAAATCTAATAAAACA
1 AATAAATCTAATAAAACA
11820214 AATAAATC-AACTAAAA-A
1 AATAAATCTAA-TAAAACA
11820231 AATAAA
1 AATAAA
11820237 ATAAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.20
Consensus pattern (18 bp):
AATAAATCTAATAAAACA
Found at i:11820241 original size:13 final size:13
Alignment explanation
Indices: 11820205--11820269 Score: 69
Period size: 13 Copynumber: 5.0 Consensus size: 13
11820195 TAATAAATCT
* *
11820205 AATAAAACAAATA
1 AATAAAATAAAAA
* *
11820218 AATCAACTAAAAA
1 AATAAAATAAAAA
11820231 AATAAAATAAAAA
1 AATAAAATAAAAA
*
11820244 TA-AAAATAAAAA
1 AATAAAATAAAAA
11820256 AATAAAAATAAAAA
1 AAT-AAAATAAAAA
11820270 CCAATTGGGC
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
12 11 0.26
13 21 0.50
14 10 0.24
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.15
Consensus pattern (13 bp):
AATAAAATAAAAA
Found at i:11820243 original size:6 final size:6
Alignment explanation
Indices: 11820228--11820269 Score: 59
Period size: 6 Copynumber: 6.8 Consensus size: 6
11820218 AATCAACTAA
11820228 AAAAAT -AAAAT AAAAAT AAAAAT AAAAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT --AAAAAT AAAAAT AAAAA
11820270 CCAATTGGGC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 5 0.15
6 22 0.67
8 6 0.18
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Done.