Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, 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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 64 of 91
Found at i:10630897 original size:59 final size:59
Alignment explanation
Indices: 10630799--10631014 Score: 294
Period size: 59 Copynumber: 3.7 Consensus size: 59
10630789 TTGTACAAGA
* * *
10630799 AAAATTGATACTTTTAACTTTTCCTCAAAAAAATGTTTTTTAGGAAA-TTATTTTCAAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTTAGAAAACTTATTTTCAAAG
* * *
10630858 AAAATTGATACTTTCAACATTTCCT-AGAAAATATTTTTTTAGAAAATTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCA-AAAATATTTTTTTAGAAAACTTATTTTCAAAG
* * *
10630917 AAAATTGATATTTTCAACTTTTCGTCAAAAATA-TTTTTTAGAAAACTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTTCAAAG
* *
10630975 AAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
10631015 TGGAATTTTA
Statistics
Matches: 140, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
58 65 0.46
59 74 0.53
60 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.44
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTTCAAAG
Found at i:10630919 original size:17 final size:18
Alignment explanation
Indices: 10630899--10630933 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
10630889 TATTTTTTTA
10630899 GAAAATT-TATTTTCAAG
1 GAAAATTATATTTTCAAG
10630916 GAAAATTGATATTTTCAA
1 GAAAATT-ATATTTTCAA
10630934 CTTTTCGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
19 9 0.56
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (18 bp):
GAAAATTATATTTTCAAG
Found at i:10630954 original size:58 final size:57
Alignment explanation
Indices: 10630794--10631013 Score: 289
Period size: 58 Copynumber: 3.8 Consensus size: 57
10630784 TGCTTTTGTA
* * * *
10630794 CAAGAAAAATTGATACTTTTAACTTTTCCTCAAAAAAATGTTTTTTAGGAAATTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTC--AAAAATATTTTTTAGAAAATTATTTT
* *
10630853 CAAAGAAAATTGATACTTTCAACATTTCCT-AGAAAATATTTTTTTAGAAAATTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCA-AAAATA-TTTTTTAGAAAA-TTATTTT
* *
10630912 CAAGGAAAATTGATATTTTCAACTTTTCGTCAAAAATATTTTTTAGAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAA-TTATTTT
* *
10630970 CAAGGAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
10631014 TTGGAATTTT
Statistics
Matches: 142, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
56 1 0.01
57 5 0.04
58 70 0.49
59 65 0.46
60 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (57 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAATTATTTT
Found at i:10631027 original size:117 final size:117
Alignment explanation
Indices: 10630794--10631014 Score: 322
Period size: 117 Copynumber: 1.9 Consensus size: 117
10630784 TGCTTTTGTA
* *
10630794 CAAGAAAAATTGATACTTTTAACTTTTCCTCAAAAAAATGTTTTTTAGGAAATTATTTTCAAAGA
1 CAAGAAAAATTGATACTTTTAACTTTTCCTC-AAAAAATATTTTTTAGAAAATTATTTTCAAAGA
10630859 AAATTGATACTTTCAACATTTCCTAGAAAATATTTTTTTAGAAAATTTATTTT
65 AAATTGATACTTTCAACATTTCCTAGAAAATATTTTTTTAGAAAATTTATTTT
* * *
10630912 CAAGGAAAATTGATA-TTTTCAACTTTTCGTC-AAAAATATTTTTTAGAAAACTTATTTTCAAGG
1 CAAGAAAAATTGATACTTTT-AACTTTTCCTCAAAAAATATTTTTTAGAAAA-TTATTTTCAAAG
* *
10630975 AAAATTGATACTTTCAACTTTTTCTTA-AAAATATTTTTTT
64 AAAATTGATACTTTCAAC-ATTTCCTAGAAAATATTTTTTT
10631015 TGGAATTTTA
Statistics
Matches: 93, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
116 17 0.18
117 46 0.49
118 30 0.32
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.43
Consensus pattern (117 bp):
CAAGAAAAATTGATACTTTTAACTTTTCCTCAAAAAATATTTTTTAGAAAATTATTTTCAAAGAA
AATTGATACTTTCAACATTTCCTAGAAAATATTTTTTTAGAAAATTTATTTT
Found at i:10631137 original size:12 final size:10
Alignment explanation
Indices: 10631098--10631142 Score: 56
Period size: 9 Copynumber: 4.3 Consensus size: 10
10631088 AATTCTAATC
10631098 TAATCAATAAA
1 TAAT-AATAAA
10631109 TAATAAT-AA
1 TAATAATAAA
10631118 TAATAATAAA
1 TAATAATAAA
10631128 TAAATAAATAAA
1 T-AAT-AATAAA
10631140 TAA
1 TAA
10631143 GAAAAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.29
10 6 0.19
11 9 0.29
12 7 0.23
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (10 bp):
TAATAATAAA
Found at i:10631434 original size:16 final size:15
Alignment explanation
Indices: 10631413--10631442 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
10631403 CTTCTTCCTT
10631413 TTTCTCTTCTCTTCTG
1 TTTCTCTT-TCTTCTG
10631429 TTTCTCTTTCTTCT
1 TTTCTCTTTCTTCT
10631443 CTCTACCTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.00, C:0.30, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTCTCTTTCTTCTG
Found at i:10631508 original size:20 final size:20
Alignment explanation
Indices: 10631483--10631523 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10631473 ATTGAATTTC
* *
10631483 CATCGAATTTTAGAAAATAA
1 CATCGAAATCTAGAAAATAA
*
10631503 CATCGAAATCTGGAAAATAA
1 CATCGAAATCTAGAAAATAA
10631523 C
1 C
10631524 GTTGAAAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (20 bp):
CATCGAAATCTAGAAAATAA
Found at i:10632131 original size:8 final size:9
Alignment explanation
Indices: 10632080--10632165 Score: 64
Period size: 9 Copynumber: 8.7 Consensus size: 9
10632070 CTCATTTTCA
10632080 TTTTTCTTT
1 TTTTTCTTT
10632089 TTTTTCATTT
1 TTTTTC-TTT
**
10632099 TTCACTCTTT
1 TT-TTTCTTT
*
10632109 CTCCTTTCTTT
1 -T-TTTTCTTT
10632120 TTTTTCTTT
1 TTTTTCTTT
10632129 TTTTTCTTTT
1 TTTTTC-TTT
10632139 TTTTTCCTATTT
1 TTTTT-C--TTT
*
10632151 TTTTTCTAT
1 TTTTTCTTT
10632160 TTTTTC
1 TTTTTC
10632166 CTTCCTTTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 14
0.74 0.10 0.17
Matches are distributed among these distances:
9 27 0.44
10 17 0.27
11 10 0.16
12 8 0.13
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:10632131 original size:11 final size:11
Alignment explanation
Indices: 10632117--10632164 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
10632107 TTCTCCTTTC
10632117 TTTTTTTTC--
1 TTTTTTTTCTT
10632126 TTTTTTTTCTT
1 TTTTTTTTCTT
* *
10632137 TTTTTTTCCTA
1 TTTTTTTTCTT
10632148 TTTTTTTTCTAT
1 TTTTTTTTCT-T
10632160 TTTTT
1 TTTTT
10632165 CCTTCCTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 9 0.28
11 18 0.56
12 5 0.16
ACGTcount: A:0.04, C:0.10, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:10632541 original size:19 final size:19
Alignment explanation
Indices: 10632517--10632578 Score: 56
Period size: 21 Copynumber: 3.1 Consensus size: 19
10632507 AAGTGTGGCA
10632517 TTTTTCTTTGCTCTCTTTT
1 TTTTTCTTTGCTCTCTTTT
10632536 TTTTTCTTCTTGCT-TCCTTTT
1 TTTTTC-T-TTGCTCT-CTTTT
*
10632557 TTTATCTTTAGGCTCT-TTTT
1 TTTTTCTTT--GCTCTCTTTT
10632577 TT
1 TT
10632579 CTCAAAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
19 8 0.22
20 9 0.25
21 18 0.50
22 1 0.03
ACGTcount: A:0.03, C:0.19, G:0.06, T:0.71
Consensus pattern (19 bp):
TTTTTCTTTGCTCTCTTTT
Found at i:10639691 original size:17 final size:17
Alignment explanation
Indices: 10639671--10639707 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
10639661 GAAAGAGACG
*
10639671 AAAAATAAAATAAAAATA
1 AAAAAGAAAA-AAAAATA
10639689 AAAAAGAAAAAAAAATA
1 AAAAAGAAAAAAAAATA
10639706 AA
1 AA
10639708 TGGGTGTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (17 bp):
AAAAAGAAAAAAAAATA
Found at i:10642385 original size:12 final size:13
Alignment explanation
Indices: 10642365--10642399 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
10642355 AACCAAACCT
10642365 TCAAAACCTCTAC
1 TCAAAACCTCTAC
*
10642378 TC-AAACCTTTAC
1 TCAAAACCTCTAC
10642390 TCAAAACCTC
1 TCAAAACCTC
10642400 CTAAAAATCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (13 bp):
TCAAAACCTCTAC
Found at i:10644262 original size:17 final size:17
Alignment explanation
Indices: 10644240--10644273 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
10644230 TTTTTTCTTT
10644240 TTTTCCATTT-CCTTTAA
1 TTTTCC-TTTACCTTTAA
10644257 TTTTCCTTTACCTTTAA
1 TTTTCCTTTACCTTTAA
10644274 CGTAAAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.18, C:0.24, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTCCTTTACCTTTAA
Found at i:10644841 original size:46 final size:47
Alignment explanation
Indices: 10644791--10644879 Score: 117
Period size: 46 Copynumber: 1.9 Consensus size: 47
10644781 TAAAAATTTT
*
10644791 AAAAAATTATGAAAACTCAAAAAA-TTCAAAATTTTAACAAAAGTCC
1 AAAAAATTATGAAAACTCAAAAAAGATCAAAATTTTAACAAAAGTCC
* * * * *
10644837 AAAAAATTTTTAAAATTCAAAAAAGATGAAAATTTTAATAAAA
1 AAAAAATTATGAAAACTCAAAAAAGATCAAAATTTTAACAAAA
10644880 ATAAATTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
46 21 0.58
47 15 0.42
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.27
Consensus pattern (47 bp):
AAAAAATTATGAAAACTCAAAAAAGATCAAAATTTTAACAAAAGTCC
Found at i:10647359 original size:29 final size:30
Alignment explanation
Indices: 10647305--10647396 Score: 116
Period size: 29 Copynumber: 3.1 Consensus size: 30
10647295 TCATGCACTC
* *
10647305 AAAGGTT-AATTTGAGTGAAAAAAAATGTTT
1 AAAGGTTCAATTAGA-TGAAAATAAATGTTT
*
10647335 AAAGGTTCAATTGGAT-AAAATAAATGTTT
1 AAAGGTTCAATTAGATGAAAATAAATGTTT
* *
10647364 AAAAGTTCAATTAGATGAAAATAAATATTT
1 AAAGGTTCAATTAGATGAAAATAAATGTTT
10647394 AAA
1 AAA
10647397 CGCTTGATTG
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
29 26 0.47
30 23 0.42
31 6 0.11
ACGTcount: A:0.50, C:0.02, G:0.15, T:0.33
Consensus pattern (30 bp):
AAAGGTTCAATTAGATGAAAATAAATGTTT
Found at i:10647689 original size:29 final size:29
Alignment explanation
Indices: 10647620--10647690 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
10647610 ATATTAAATT
10647620 TTAAGGACTTATTTAGGTGTAAAATAAAAG
1 TTAAGGACTTA-TTAGGTGTAAAATAAAAG
* * *
10647650 TTATGGGCTTATTAGG-GTATAATAAAAG
1 TTAAGGACTTATTAGGTGTAAAATAAAAG
*
10647678 TATAAGAACTTAT
1 T-TAAGGACTTAT
10647691 CTAAAAAGGT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
28 12 0.35
29 13 0.38
30 9 0.26
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (29 bp):
TTAAGGACTTATTAGGTGTAAAATAAAAG
Found at i:10652794 original size:13 final size:13
Alignment explanation
Indices: 10652762--10652795 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
10652752 TTAATATTTT
*
10652762 TATTAAAAATATC
1 TATTAAAAATATA
10652775 TATTTAAAAATATA
1 TA-TTAAAAATATA
10652789 TATTAAA
1 TATTAAA
10652796 GTTTATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (13 bp):
TATTAAAAATATA
Found at i:10659116 original size:17 final size:17
Alignment explanation
Indices: 10659094--10659129 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10659084 TGAGTTTATC
*
10659094 TAATTGTACTAAAAGTA
1 TAATTGTACTAAAAATA
*
10659111 TAATTGTATTAAAAATA
1 TAATTGTACTAAAAATA
10659128 TA
1 TA
10659130 TAAAAGTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (17 bp):
TAATTGTACTAAAAATA
Found at i:10664752 original size:8 final size:8
Alignment explanation
Indices: 10664739--10664767 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
10664729 ATATCAGAAC
10664739 ATATAAAT
1 ATATAAAT
10664747 ATATAAAT
1 ATATAAAT
10664755 ATATAAAT
1 ATATAAAT
10664763 ATATA
1 ATATA
10664768 TTGAAGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAAAT
Found at i:10673670 original size:63 final size:62
Alignment explanation
Indices: 10673590--10673987 Score: 230
Period size: 63 Copynumber: 6.3 Consensus size: 62
10673580 GATAAGGAGC
* *
10673590 AAAAACGCCTTCAATAATCCCCTTAAATATTTTAGAGGGGATTATTAAAGGCATTTTCAGGTA
1 AAAAATGCCTTCAATAATCCCCTTAAATTTTTTAGAGGGGATTATTAAAGGCATTTT-AGGTA
* ** * * * * * * *
10673653 AAAAACGCCTTCAATAATCTTCTTGAATTTTGATA-AGGAGATTATTGAAGCCATTTTAGATC
1 AAAAATGCCTTCAATAATCCCCTTAAATTTT-TTAGAGGGGATTATTAAAGGCATTTTAGGTA
* * * * * * *
10673715 AAAAATGCCTTTAATAAT-CCCTTCCAATTTTTTAGAGGAGATTATTGATGACATTTTTGGCT-
1 AAAAATGCCTTCAATAATCCCCTT-AAATTTTTTAGAGGGGATTATTAAAGGCATTTTAGG-TA
* * * ** **
10673777 AAAAATGCTTTCAATAATTTCCC-TACAATTTTTTTGAGGGGATTATCGAAGGCATTTTTTGTAA
1 AAAAATGCCTTCAATAA-TCCCCTTA-AATTTTTTAGAGGGGATTATTAAAGGCATTTTAGGT--
10673841 AA
62 -A
* * * * * ** * **
10673843 AAAAATACCTTCAATAATCCTCTT-CATTTTTTGTGAGGGGATTATTAAAAGTGTTTCATGCAAA
1 AAAAATGCCTTCAATAATCCCCTTAAATTTTTT-AGAGGGGATTATTAAAGGCATTTTA-G-GTA
* * * ** * * * *
10673907 AAAAACGCATTCAATAATCTCCTCCAATTTTTTATAAGGGATTATTAAAGGCGTTTCAGGTA
1 AAAAATGCCTTCAATAATCCCCTTAAATTTTTTAGAGGGGATTATTAAAGGCATTTTAGGTA
* *
10673969 AAAAATACCTTGAATAATC
1 AAAAATGCCTTCAATAATC
10673988 TGCTCATAAA
Statistics
Matches: 257, Mismatches: 62, Indels: 33
0.73 0.18 0.09
Matches are distributed among these distances:
61 5 0.02
62 78 0.30
63 79 0.31
64 51 0.20
65 28 0.11
66 16 0.06
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (62 bp):
AAAAATGCCTTCAATAATCCCCTTAAATTTTTTAGAGGGGATTATTAAAGGCATTTTAGGTA
Found at i:10673744 original size:62 final size:63
Alignment explanation
Indices: 10673590--10673988 Score: 185
Period size: 62 Copynumber: 6.3 Consensus size: 63
10673580 GATAAGGAGC
* * * * * *
10673590 AAAAACGCCTTCAATAATCCCCTTAAATATTT-TAGAGGGGATTATTAAAGGCATTTTCAGGTA
1 AAAAACGCCTTCAATAATCTCCTTCAAT-TTTATAGAGGAGATTATTGAAGACATTTTCAGATA
* * * *
10673653 AAAAACGCCTTCAATAATCTTCTTGAATTTTGATA-AGGAGATTATTGAAGCCATTTT-AGATC
1 AAAAACGCCTTCAATAATCTCCTTCAATTTT-ATAGAGGAGATTATTGAAGACATTTTCAGATA
* * * * ** *
10673715 AAAAATGCCTTTAATAATC-CCTTCCAATTTTTTAGAGGAGATTATTGATGACATTTTTGGCT-
1 AAAAACGCCTTCAATAATCTCCTT-CAATTTTATAGAGGAGATTATTGAAGACATTTTCAGATA
* * * * * * * * * ** *
10673777 AAAAATGCTTTCAATAATTTCCCTACAATTTTTTTGAGGGGATTATCGAAGGCATTTTTTGTAAA
1 AAAAACGCCTTCAATAATCT-CCTTCAATTTTATAGAGGAGATTATTGAAGACATTTTCAG--AT
10673842 A
63 A
** * * *
10673843 AAAAATACCTTCAATAATC-CTCTTC-ATTTTTTGTGAGGGGATTATT-AA-A-AGTGTTTCATG
1 AAAAACGCCTTCAATAATCTC-CTTCAATTTTAT-AGAGGAGATTATTGAAGACA-T-TTTCA-G
*
10673903 CAAA
61 -ATA
* * * * * *
10673907 AAAAACGCATTCAATAATCTCCTCCAATTTTTTATA-AGG-GATTATTAAAGGC-GTTTCAGGTA
1 AAAAACGCCTTCAATAATCTCCTTCAA--TTTTATAGAGGAGATTATTGAAGACATTTTCAGATA
** *
10673969 AAAAATACCTTGAATAATCT
1 AAAAACGCCTTCAATAATCT
10673989 GCTCATAAAA
Statistics
Matches: 262, Mismatches: 52, Indels: 45
0.73 0.14 0.13
Matches are distributed among these distances:
61 5 0.02
62 83 0.32
63 78 0.30
64 52 0.20
65 23 0.09
66 16 0.06
67 5 0.02
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (63 bp):
AAAAACGCCTTCAATAATCTCCTTCAATTTTATAGAGGAGATTATTGAAGACATTTTCAGATA
Found at i:10675735 original size:24 final size:25
Alignment explanation
Indices: 10675698--10675749 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
10675688 TATTATTAAA
* * *
10675698 TAATTAAATTAATT-AATTAAAATT
1 TAATTAAATAAATTCAATAAAAAAT
*
10675722 TAATTAGATAAATTCAATAAAAAAT
1 TAATTAAATAAATTCAATAAAAAAT
10675747 TAA
1 TAA
10675750 ATCAAACATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (25 bp):
TAATTAAATAAATTCAATAAAAAAT
Found at i:10676104 original size:2 final size:2
Alignment explanation
Indices: 10676097--10676126 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10676087 TAAGTTATGC
10676097 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10676127 CACACACACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10679850 original size:18 final size:19
Alignment explanation
Indices: 10679811--10679851 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
10679801 ATTTTTTCCA
* *
10679811 ATTTCATTTTCATTTTTTT
1 ATTTCATTTTCATTTATCT
10679830 ATTTC-TTTTCATTTATCT
1 ATTTCATTTTCATTTATCT
10679848 ATTT
1 ATTT
10679852 TTTGTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.71
Consensus pattern (19 bp):
ATTTCATTTTCATTTATCT
Found at i:10680325 original size:19 final size:20
Alignment explanation
Indices: 10680286--10680325 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
10680276 TCAATCATTG
**
10680286 TAATAAATAAATAATTTAAA
1 TAATAAATAAATAATCAAAA
10680306 TAAT-AATAAATAATCAAAA
1 TAATAAATAAATAATCAAAA
10680325 T
1 T
10680326 TAGGATATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (20 bp):
TAATAAATAAATAATCAAAA
Found at i:10683063 original size:29 final size:29
Alignment explanation
Indices: 10682995--10683065 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
10682985 AATTCTAGTC
** *
10682995 AAATTTGGTCAAATTTAGTTAATAGTGTT
1 AAATTTGGTCAAATAAAGTTAAAAGTGTT
* * *
10683024 AAAATTAGTCAAATAAAGTTAAAATTG-T
1 AAATTTGGTCAAATAAAGTTAAAAGTGTT
10683052 ACAATTTGGTCAAA
1 A-AATTTGGTCAAA
10683066 ATGAATAGAA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
28 2 0.06
29 31 0.94
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.37
Consensus pattern (29 bp):
AAATTTGGTCAAATAAAGTTAAAAGTGTT
Found at i:10686416 original size:21 final size:20
Alignment explanation
Indices: 10686383--10686421 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
10686373 AAAATAAATT
10686383 AAAAAACTAAAATAAAATGA
1 AAAAAACTAAAATAAAATGA
*
10686403 AAAAAATTATAAATAAAAT
1 AAAAAACTA-AAATAAAAT
10686422 ATATTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (20 bp):
AAAAAACTAAAATAAAATGA
Found at i:10688436 original size:2 final size:2
Alignment explanation
Indices: 10688429--10688461 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10688419 AAATAAAAGA
10688429 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10688462 CTGAAACTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10691751 original size:10 final size:9
Alignment explanation
Indices: 10691738--10691858 Score: 57
Period size: 11 Copynumber: 11.9 Consensus size: 9
10691728 AAAATAATCA
10691738 AAATCAAAAT
1 AAAT-AAAAT
10691748 AAATAAAAT
1 AAATAAAAT
*
10691757 AGATAAAA-
1 AAATAAAAT
*
10691765 ATATAAAAAT
1 AAAT-AAAAT
10691775 AAAT-AAAT
1 AAATAAAAT
*
10691783 AACTAATCAAT
1 AAATAA--AAT
10691794 AAGGATAAAAT
1 AA--ATAAAAT
10691805 AAAGATAAATAT
1 -AA-ATAAA-AT
10691817 AATATGAAAAT
1 AA-AT-AAAAT
10691828 AAAAATAAAGAT
1 --AAATAAA-AT
10691840 AAATATAAAAT
1 -AA-ATAAAAT
10691851 AAATAAAA
1 AAATAAAA
10691859 AGAATATATA
Statistics
Matches: 91, Mismatches: 6, Indels: 29
0.72 0.05 0.23
Matches are distributed among these distances:
8 10 0.11
9 23 0.25
10 9 0.10
11 28 0.31
12 16 0.18
13 5 0.05
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.22
Consensus pattern (9 bp):
AAATAAAAT
Found at i:10691755 original size:15 final size:14
Alignment explanation
Indices: 10691728--10691875 Score: 60
Period size: 15 Copynumber: 10.3 Consensus size: 14
10691718 TTTCACTCTA
10691728 AAAAT-AATCAAAAT
1 AAAATAAAT-AAAAT
10691742 CAAAATAAATAAAAT
1 -AAAATAAATAAAAT
* *
10691757 -AGATAAA-AATAT
1 AAAATAAATAAAAT
10691769 AAAAATAAAT-AAAT
1 -AAAATAAATAAAAT
* *
10691783 AACTAATCAATAAGGAT
1 AA--AATAAATAA-AAT
*
10691800 AAAATAAAGATAAAT
1 AAAATAAATA-AAAT
*
10691815 ATAAT--ATGAAAAT
1 AAAATAAAT-AAAAT
10691828 AAAAATAAAGATAAATAT
1 -AAAAT-AA-ATAAA-AT
10691846 AAAATAAATAAAA-
1 AAAATAAATAAAAT
* *
10691859 AGAATATATAAAA-
1 AAAATAAATAAAAT
10691872 AAAA
1 AAAA
10691876 GTAGATAAGT
Statistics
Matches: 102, Mismatches: 15, Indels: 34
0.68 0.10 0.23
Matches are distributed among these distances:
12 4 0.04
13 27 0.26
14 15 0.15
15 33 0.32
16 7 0.07
17 12 0.12
18 4 0.04
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.22
Consensus pattern (14 bp):
AAAATAAATAAAAT
Found at i:10691794 original size:27 final size:28
Alignment explanation
Indices: 10691731--10691794 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 28
10691721 CACTCTAAAA
* *
10691731 ATAATCAAAATCAAAATAAATAAAATAG
1 ATAATCAATATAAAAATAAATAAAATAG
*
10691759 ATAA-AAATATAAAAATAAAT-AAATA-
1 ATAATCAATATAAAAATAAATAAAATAG
10691784 ACTAATCAATA
1 A-TAATCAATA
10691795 AGGATAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
25 1 0.03
26 8 0.27
27 17 0.57
28 4 0.13
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (28 bp):
ATAATCAATATAAAAATAAATAAAATAG
Found at i:10691812 original size:6 final size:5
Alignment explanation
Indices: 10691798--10691858 Score: 52
Period size: 6 Copynumber: 11.2 Consensus size: 5
10691788 ATCAATAAGG
*
10691798 ATAAA ATAAA GATAAA TATAAT ATGAAA ATAAAA ATAAA GATAAA TATAAA
1 ATAAA ATAAA -ATAAA -ATAAA AT-AAA AT-AAA ATAAA -ATAAA -ATAAA
10691849 AT-AA ATAAA A
1 ATAAA ATAAA A
10691859 AGAATATATA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
4 4 0.09
5 15 0.32
6 28 0.60
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (5 bp):
ATAAA
Found at i:10691838 original size:29 final size:27
Alignment explanation
Indices: 10691800--10691859 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 27
10691790 CAATAAGGAT
*
10691800 AAAATAAAGATAAATATAATATGAAAATA
1 AAAATAAAGATAAATATAAAAT--AAATA
10691829 AAAATAAAGATAAATATAAAATAAATA
1 AAAATAAAGATAAATATAAAATAAATA
10691856 AAAA
1 AAAA
10691860 GAATATATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 9 0.30
29 21 0.70
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (27 bp):
AAAATAAAGATAAATATAAAATAAATA
Found at i:10691870 original size:22 final size:23
Alignment explanation
Indices: 10691798--10691875 Score: 83
Period size: 23 Copynumber: 3.5 Consensus size: 23
10691788 ATCAATAAGG
* *
10691798 ATAAAATAAAGATAAATAT-AAT
1 ATAAAATAAAAATAAAGATAAAT
10691820 ATGAAAATAAAAATAAAGATAAAT
1 AT-AAAATAAAAATAAAGATAAAT
*
10691844 ATAAAATAAATAA-AAAGA-ATAT
1 ATAAAATAAA-AATAAAGATAAAT
10691866 ATAAAA-AAAA
1 ATAAAATAAAA
10691876 GTAGATAAGT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
20 1 0.02
21 3 0.06
22 11 0.22
23 28 0.56
24 7 0.14
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (23 bp):
ATAAAATAAAAATAAAGATAAAT
Found at i:10692001 original size:4 final size:4
Alignment explanation
Indices: 10691992--10692025 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
10691982 ATGGAGTGTC
10691992 TACA TACA TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TA
10692026 TCCAGAAGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:10692969 original size:29 final size:28
Alignment explanation
Indices: 10692914--10692970 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
10692904 TATAATTAAG
*
10692914 AATTATTTTATATAATTAATTGAATAATA
1 AATTATTATATATAATTAATT-AATAATA
10692943 AATTATTATATTATAATTAAGTT-ATAAT
1 AATTATTATA-TATAATTAA-TTAATAAT
10692971 CATTAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 14 0.56
30 9 0.36
31 2 0.08
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (28 bp):
AATTATTATATATAATTAATTAATAATA
Found at i:10694463 original size:2 final size:2
Alignment explanation
Indices: 10694400--10694455 Score: 62
Period size: 2 Copynumber: 28.0 Consensus size: 2
10694390 ATATCAGAAC
* *
10694400 AT AT AA AT AT AT AA AT AT AT AT AT AT AT -T GA- AGT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT A-T AT AT AT AT
10694442 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
10694456 TGTATATAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
1 2 0.04
2 43 0.93
3 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.45
Consensus pattern (2 bp):
AT
Found at i:10695726 original size:15 final size:15
Alignment explanation
Indices: 10695722--10695755 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10695712 TATGAAATAT
*
10695722 ATATATATATATGGA
1 ATATATATATATGAA
*
10695737 ATATATATGTATGAA
1 ATATATATATATGAA
10695752 ATAT
1 ATAT
10695756 TTTGTGAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (15 bp):
ATATATATATATGAA
Found at i:10695740 original size:17 final size:19
Alignment explanation
Indices: 10695706--10695744 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
10695696 ACCGTACTGG
10695706 TATATATATGAAATATATA
1 TATATATATGAAATATATA
*
10695725 TATATATATGGAATATATA
1 TATATATATGAAATATATA
10695744 T
1 T
10695745 GTATGAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (19 bp):
TATATATATGAAATATATA
Found at i:10697556 original size:2 final size:2
Alignment explanation
Indices: 10697551--10697575 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10697541 TTTGTTTTGT
10697551 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
10697576 TTATGTTTGG
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:10710963 original size:13 final size:12
Alignment explanation
Indices: 10710930--10710954 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10710920 TTGAATTATA
10710930 AATAATATTTTT
1 AATAATATTTTT
10710942 AATAATATTTTT
1 AATAATATTTTT
10710954 A
1 A
10710955 TATATTATTG
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AATAATATTTTT
Found at i:10712254 original size:18 final size:18
Alignment explanation
Indices: 10712217--10712259 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
10712207 GTTTATCCCT
* *
10712217 AAAAAGATAAAAATAAAA
1 AAAAAGAGAAAAACAAAA
10712235 AAAAAGAGAAAAACATAAA
1 AAAAAGAGAAAAACA-AAA
10712254 ATAAAA
1 A-AAAA
10712260 ATATTTACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 13 0.62
19 4 0.19
20 4 0.19
ACGTcount: A:0.81, C:0.02, G:0.07, T:0.09
Consensus pattern (18 bp):
AAAAAGAGAAAAACAAAA
Found at i:10715313 original size:18 final size:18
Alignment explanation
Indices: 10715290--10715324 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10715280 CGTCTTAGAA
10715290 ATAATTATGGAATGATTT
1 ATAATTATGGAATGATTT
* *
10715308 ATAATTTTTGAATGATT
1 ATAATTATGGAATGATT
10715325 AATTGATTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (18 bp):
ATAATTATGGAATGATTT
Found at i:10715913 original size:2 final size:2
Alignment explanation
Indices: 10715900--10715952 Score: 51
Period size: 2 Copynumber: 28.5 Consensus size: 2
10715890 TTTTGGTTTT
* * *
10715900 TA TA TA TT TA TA TA -A GA T- TA TA TA -A AA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10715938 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
10715953 GAAACGTGTG
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
1 4 0.09
2 39 0.91
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:10716365 original size:24 final size:24
Alignment explanation
Indices: 10716335--10716383 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
10716325 TGTTTGATTT
* *
10716335 AATTTTTATTGAATTTATCTAATTA
1 AATTTTAATT-AATTAATCTAATTA
*
10716360 AATTTTAATTAATTAATTTAATTA
1 AATTTTAATTAATTAATCTAATTA
10716384 TTTAATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (24 bp):
AATTTTAATTAATTAATCTAATTA
Found at i:10716697 original size:23 final size:20
Alignment explanation
Indices: 10716652--10716700 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 20
10716642 AAGACAACGA
*
10716652 CATATTGAAGTCTAGTCTAT
1 CATATTGAAGTCTAATCTAT
10716672 CATATTGAAGTCTATACATCTAT
1 CATATTGAAGTC--TA-ATCTAT
10716695 CATATT
1 CATATT
10716701 TTAATGCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 12 0.48
22 2 0.08
23 11 0.44
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (20 bp):
CATATTGAAGTCTAATCTAT
Found at i:10717125 original size:19 final size:20
Alignment explanation
Indices: 10717084--10717125 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
10717074 TTGTTCATAT
* *
10717084 AATTTTTATGTCGTATTTAA
1 AATTTTTAAGTCGTAATTAA
*
10717104 AATTTTTAAGTC-TAATTGA
1 AATTTTTAAGTCGTAATTAA
10717123 AAT
1 AAT
10717126 AGATGAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.50
Consensus pattern (20 bp):
AATTTTTAAGTCGTAATTAA
Found at i:10718263 original size:64 final size:64
Alignment explanation
Indices: 10718132--10718328 Score: 163
Period size: 64 Copynumber: 3.1 Consensus size: 64
10718122 ATTCAATGTA
* * * * ** *
10718132 TTTTTTACCTGAAACGCCTTTAATAATCCCTCATAAAAAATTGGAGGAGATTATTGACTGCGGT
1 TTTTTTACATGAAACACCTTTAATAATCCCTCACAAAAAATTGAAGGAGATTATTGAAGGCAGT
* *
10718196 TTTTTTGCATGAAACACTTTTAATAATCCCCTCACAAAAAA-TGAA-GAGGATTATTGAAGGCAT
1 TTTTTTACATGAAACACCTTTAATAAT-CCCTCACAAAAAATTGAAGGA-GATTATTGAAGGCA-
*
10718259 TT
63 GT
* * * *
10718261 TTTTTTACA-GAAA-ATGCCTTCAATAATCCCCTC-TAAAAAATTGGAGGGAAATTATTGAAGGC
1 TTTTTTACATGAAACA--CCTTTAATAAT-CCCTCACAAAAAATT-GAAGGAGATTATTGAAGGC
10718323 A-T
62 AGT
10718325 TTTT
1 TTTT
10718329 AGCTAAAAAC
Statistics
Matches: 109, Mismatches: 16, Indels: 16
0.77 0.11 0.11
Matches are distributed among these distances:
63 3 0.03
64 52 0.48
65 37 0.34
66 15 0.14
67 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (64 bp):
TTTTTTACATGAAACACCTTTAATAATCCCTCACAAAAAATTGAAGGAGATTATTGAAGGCAGT
Found at i:10718361 original size:63 final size:63
Alignment explanation
Indices: 10718217--10718399 Score: 160
Period size: 63 Copynumber: 2.9 Consensus size: 63
10718207 AAACACTTTT
* * * * *
10718217 AATAATCCCCTC-ACAAAAAAT-GAAGAGGATTATTGAAGGCATTTTT-TTTTACAGAAAATGCC
1 AATAATCCCCTCTA-AAAAATTGGAAG-GGATTATTAAAGGCATTTTTAGTCT--A-AAAACGCC
*
10718279 TTC
61 ATC
*
10718282 AATAATCCCCTCTAAAAAATTGG-AGGGAAATTATTGAAGGCATTTTTAG-CTAAAAACGCCATC
1 AATAATCCCCTCTAAAAAATTGGAAGGG--ATTATTAAAGGCATTTTTAGTCTAAAAACGCCATC
* * * * *
10718345 AATAATCTCTTTTAAAAAATTGGAAGGGATTATTAAAGGCGTTTTTTGTCTAAAA
1 AATAATCCCCTCTAAAAAATTGGAAGGGATTATTAAAGGCATTTTTAGTCTAAAA
10718400 TGGCTTCAAT
Statistics
Matches: 100, Mismatches: 11, Indels: 16
0.79 0.09 0.13
Matches are distributed among these distances:
62 17 0.17
63 35 0.35
64 7 0.07
65 20 0.20
66 21 0.21
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (63 bp):
AATAATCCCCTCTAAAAAATTGGAAGGGATTATTAAAGGCATTTTTAGTCTAAAAACGCCATC
Found at i:10718426 original size:62 final size:62
Alignment explanation
Indices: 10718238--10718514 Score: 192
Period size: 62 Copynumber: 4.4 Consensus size: 62
10718228 CACAAAAAAT
* ** *
10718238 GAAGAGGATTATTGAAGGCATTTTTTTTTACAGAAAATGCCTTCAATAATCCCCTCTA-AAAAAT
1 GAAG-GGATTATTGAAGGCGTTTTTTGCT--A-AAAATGCCTTCAATAATCTCCT-TATAAAAAT
10718302 TG
61 TG
* * * * *
10718304 G-AGGGAAATTATTGAAGGCATTTTTAGCTAAAAACGCCATCAATAATCT-CTTTTAAAAAATTG
1 GAAGGG--ATTATTGAAGGCGTTTTTTGCTAAAAATGCCTTCAATAATCTCCTTAT-AAAAATTG
* * *
10718367 GAAGGGATTATTAAAGGCGTTTTTTGTCT-AAAATGGCTTCAATAATCTCCTTATCAAAATT-
1 GAAGGGATTATTGAAGGCGTTTTTTG-CTAAAAATGCCTTCAATAATCTCCTTATAAAAATTG
* * * * * *
10718428 CAAGAAGATTATTGAAGGCGTTTTTTACCT-GAAATGCCTTTC-ATAATCCCCTCTA-AAATATT
1 GAAG-GGATTATTGAAGGCGTTTTTT-GCTAAAAATGCC-TTCAATAATCTCCT-TATAAAAATT
*
10718490 T
62 G
* *
10718491 GAGGGGATTGTTGAAGGCGTTTTT
1 GAAGGGATTATTGAAGGCGTTTTT
10718515 GCTCCTTATC
Statistics
Matches: 171, Mismatches: 28, Indels: 28
0.75 0.12 0.12
Matches are distributed among these distances:
61 4 0.02
62 100 0.58
63 38 0.22
64 7 0.04
65 2 0.01
66 20 0.12
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (62 bp):
GAAGGGATTATTGAAGGCGTTTTTTGCTAAAAATGCCTTCAATAATCTCCTTATAAAAATTG
Found at i:10725580 original size:33 final size:32
Alignment explanation
Indices: 10725535--10725596 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
10725525 TATTATTATT
10725535 TAATATTAATTAAATAAA-AATTATATTTATATA
1 TAATATTAATTAAA-AAATAATTAT-TTTATATA
10725568 TAAT-TTATATTAAAAAATAATTATTTTAT
1 TAATATTA-ATTAAAAAATAATTATTTTAT
10725597 TTTTTTATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (32 bp):
TAATATTAATTAAAAAATAATTATTTTATATA
Found at i:10727343 original size:8 final size:8
Alignment explanation
Indices: 10727330--10727358 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
10727320 TATACTTCAA
10727330 TATATATT
1 TATATATT
10727338 TATATATT
1 TATATATT
10727346 TATATATT
1 TATATATT
10727354 TATAT
1 TATAT
10727359 GTTCTGATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATATT
Found at i:10730205 original size:18 final size:18
Alignment explanation
Indices: 10730184--10730219 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10730174 TTAAATGAAT
*
10730184 TTTTTTATTATTAGACTC
1 TTTTTTATAATTAGACTC
10730202 TTTTTTATAATTAGACTC
1 TTTTTTATAATTAGACTC
10730220 ATATTAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.11, G:0.06, T:0.58
Consensus pattern (18 bp):
TTTTTTATAATTAGACTC
Found at i:10733498 original size:24 final size:22
Alignment explanation
Indices: 10733448--10733499 Score: 59
Period size: 24 Copynumber: 2.3 Consensus size: 22
10733438 TAAAAGTTGT
* *
10733448 AAAATACTAAAAAATATAAATA
1 AAAATAATAAAAAATATAAAAA
*
10733470 TAAATAATGAAAAAATGATAAAAA
1 AAAATAAT-AAAAAAT-ATAAAAA
10733494 AAAATA
1 AAAATA
10733500 TTGTTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 6 0.25
23 7 0.29
24 11 0.46
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (22 bp):
AAAATAATAAAAAATATAAAAA
Found at i:10734663 original size:25 final size:28
Alignment explanation
Indices: 10734620--10734674 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
10734610 TTATAAAATA
*
10734620 TTTTATTTGAAAAATAAA-TCAAAATTC
1 TTTTATTTGAAAAAGAAACTCAAAATTC
10734647 TTTTA-TT-AAAAAGAAATCTCAAAATTC
1 TTTTATTTGAAAAAGAAA-CTCAAAATTC
10734674 T
1 T
10734675 CCGAATACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 8 0.32
26 2 0.08
27 15 0.60
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (28 bp):
TTTTATTTGAAAAAGAAACTCAAAATTC
Found at i:10735359 original size:2 final size:2
Alignment explanation
Indices: 10735354--10735383 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10735344 TGTGATCTTC
10735354 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
10735384 TTTAATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:10739518 original size:18 final size:18
Alignment explanation
Indices: 10739495--10739529 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10739485 ATGAATTTTT
*
10739495 TTTTTATTATTAGACTCC
1 TTTTTATAATTAGACTCC
10739513 TTTTTATAATTAGACTC
1 TTTTTATAATTAGACTC
10739530 AAAAGTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.14, G:0.06, T:0.54
Consensus pattern (18 bp):
TTTTTATAATTAGACTCC
Found at i:10743980 original size:25 final size:28
Alignment explanation
Indices: 10743942--10743996 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
10743932 TTATAAAACA
*
10743942 TTTTACTTGAAAAATAAA-TCAAAATTC
1 TTTTACTTGAAAAAGAAACTCAAAATTC
10743969 TTTTA-TT-AAAAAGAAATCTCAAAATTC
1 TTTTACTTGAAAAAGAAA-CTCAAAATTC
10743996 T
1 T
10743997 CGAATACTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 8 0.32
26 2 0.08
27 15 0.60
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (28 bp):
TTTTACTTGAAAAAGAAACTCAAAATTC
Found at i:10744132 original size:12 final size:13
Alignment explanation
Indices: 10744115--10744143 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
10744105 TCAAAAGATA
10744115 TAAATTTA-TTAT
1 TAAATTTATTTAT
10744127 TAAATTTATTTAT
1 TAAATTTATTTAT
10744140 TAAA
1 TAAA
10744144 AAGTACATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TAAATTTATTTAT
Found at i:10748483 original size:29 final size:30
Alignment explanation
Indices: 10748425--10748497 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 30
10748415 AATTTCATCT
**
10748425 AATTAAAAGTTTAATTGAATTGTAATAAAA
1 AATTAAAAGTTTAATTGAATTACAATAAAA
* *
10748455 AATTAAGAGTTTGATT-AATTACAATAAAA
1 AATTAAAAGTTTAATTGAATTACAATAAAA
* *
10748484 TATTAAAAATTTAA
1 AATTAAAAGTTTAA
10748498 ATGATTATTA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
29 21 0.60
30 14 0.40
ACGTcount: A:0.53, C:0.01, G:0.08, T:0.37
Consensus pattern (30 bp):
AATTAAAAGTTTAATTGAATTACAATAAAA
Found at i:10752465 original size:34 final size:34
Alignment explanation
Indices: 10752411--10752494 Score: 96
Period size: 34 Copynumber: 2.5 Consensus size: 34
10752401 AGTAGTGTTT
* * * *
10752411 TCTATAAAACACCGCCACATCAACGGCATTTGTA
1 TCTAAAAAACGCCGCTACATCAACGGCATTTGCA
* ** *
10752445 TCTAGAAAACGCCGCTACATCATTGGCGTTTGCA
1 TCTAAAAAACGCCGCTACATCAACGGCATTTGCA
10752479 TCTAAAAAACGCCGCT
1 TCTAAAAAACGCCGCT
10752495 GATGCATCTG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (34 bp):
TCTAAAAAACGCCGCTACATCAACGGCATTTGCA
Found at i:10752503 original size:22 final size:22
Alignment explanation
Indices: 10752475--10752516 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10752465 CATTGGCGTT
10752475 TGCATCTAAAAAACGCCGCTGA
1 TGCATCTAAAAAACGCCGCTGA
* *
10752497 TGCATCTGAAAAATGCCGCT
1 TGCATCTAAAAAACGCCGCT
10752517 ACATCATTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (22 bp):
TGCATCTAAAAAACGCCGCTGA
Found at i:10752573 original size:22 final size:22
Alignment explanation
Indices: 10752531--10752573 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
10752521 CATTGGTGTT
**
10752531 TGCATCTAAAAAACGTTGCTAA
1 TGCATCTAAAAAACGCCGCTAA
*
10752553 TGCATCTGAAAAACGCCGCTA
1 TGCATCTAAAAAACGCCGCTA
10752574 CATCAGCGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.23
Consensus pattern (22 bp):
TGCATCTAAAAAACGCCGCTAA
Found at i:10752602 original size:56 final size:56
Alignment explanation
Indices: 10752450--10752588 Score: 215
Period size: 56 Copynumber: 2.5 Consensus size: 56
10752440 TTGTATCTAG
* * *
10752450 AAAACGCCGCTACATCATTGGCGTTTGCATCTAAAAAACGCCGCTGATGCATCTGA
1 AAAACGCCGCTACATCATTGGTGTTTGCATCTAAAAAACGTCGCTAATGCATCTGA
* *
10752506 AAAATGCCGCTACATCATTGGTGTTTGCATCTAAAAAACGTTGCTAATGCATCTGA
1 AAAACGCCGCTACATCATTGGTGTTTGCATCTAAAAAACGTCGCTAATGCATCTGA
**
10752562 AAAACGCCGCTACATCAGCGGTGTTTG
1 AAAACGCCGCTACATCATTGGTGTTTG
10752589 TCTTAAGAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 75 1.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (56 bp):
AAAACGCCGCTACATCATTGGTGTTTGCATCTAAAAAACGTCGCTAATGCATCTGA
Found at i:10752634 original size:34 final size:33
Alignment explanation
Indices: 10752559--10752646 Score: 95
Period size: 34 Copynumber: 2.6 Consensus size: 33
10752549 CTAATGCATC
* *
10752559 TGAAAAACGCCGCTACATCAGCGGTGTTTGTCT
1 TGAAAAACGCCACTACATCAGCGGTGTTTGTAT
* * *
10752592 TAAGAAAACGTCACTACGTCAGCGGTGTTTGTAT
1 TGA-AAAACGCCACTACATCAGCGGTGTTTGTAT
* *
10752626 ATGAAAAACACCGCTACATCA
1 -TGAAAAACGCCACTACATCA
10752647 ATGGCATTTG
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
33 2 0.05
34 39 0.91
35 2 0.05
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (33 bp):
TGAAAAACGCCACTACATCAGCGGTGTTTGTAT
Found at i:10753326 original size:21 final size:21
Alignment explanation
Indices: 10753271--10753326 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
10753261 CAACTGTTGA
* *
10753271 AATTTTGCATGCTCTTGCTCT
1 AATTTTGCATGTTCTTCCTCT
*
10753292 -ATTCTAGCATGTTCTTCCTCT
1 AATT-TTGCATGTTCTTCCTCT
*
10753313 AATTTTGCACGTTC
1 AATTTTGCATGTTC
10753327 ATGTTCTCTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
20 3 0.11
21 22 0.79
22 3 0.11
ACGTcount: A:0.16, C:0.25, G:0.12, T:0.46
Consensus pattern (21 bp):
AATTTTGCATGTTCTTCCTCT
Found at i:10754700 original size:63 final size:60
Alignment explanation
Indices: 10754633--10754750 Score: 155
Period size: 63 Copynumber: 1.9 Consensus size: 60
10754623 TTTTACGAGT
* * * *
10754633 GGATTATTGAAGACATTGTCTGCCAAAAATGCCTTTAGTAATTTCTCATCAAATTTTTTAATA
1 GGATTATTCAAGACATTGTCTACCAAAAACGCCTTTAGT-A-TTCAC-TCAAATTTTTTAATA
* *
10754696 GGATTATTCAAGTCATTTTCTACCAAAAACGCCTTTAGTATTCACTCAAATTTTT
1 GGATTATTCAAGACATTGTCTACCAAAAACGCCTTTAGTATTCACTCAAATTTTT
10754751 AAGACATGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
60 10 0.20
61 4 0.08
62 1 0.02
63 34 0.69
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (60 bp):
GGATTATTCAAGACATTGTCTACCAAAAACGCCTTTAGTATTCACTCAAATTTTTTAATA
Found at i:10759880 original size:16 final size:16
Alignment explanation
Indices: 10759839--10759885 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
10759829 CGATCGAGCC
*
10759839 TAATTATTTTAT-TTT
1 TAATTATTTTATGATT
*
10759854 TAAGT-TTTTATGATT
1 TAATTATTTTATGATT
10759869 TAATTATTTTATGATT
1 TAATTATTTTATGATT
10759885 T
1 T
10759886 TCACTTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 6 0.22
15 10 0.37
16 11 0.41
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (16 bp):
TAATTATTTTATGATT
Found at i:10759990 original size:31 final size:31
Alignment explanation
Indices: 10759930--10760009 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 31
10759920 GATTATTCTC
10759930 TTTTATTTTTATTTTT-TTCT-TCATCTAAATT
1 TTTTATTTTTATTTTTATT-TATCATCTAAA-T
*
10759961 TTTTATTTTTATTTTTATTTATC-TTTAAAT
1 TTTTATTTTTATTTTTATTTATCATCTAAAT
*
10759991 ATTTA-TTTTA-TTTTATTTA
1 TTTTATTTTTATTTTTATTTA
10760010 AAAAAAAAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
28 9 0.20
29 5 0.11
30 5 0.11
31 22 0.49
32 4 0.09
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (31 bp):
TTTTATTTTTATTTTTATTTATCATCTAAAT
Found at i:10760509 original size:35 final size:35
Alignment explanation
Indices: 10760459--10760527 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
10760449 AGCCTCACGC
10760459 AGTCCTACAACATTGAGCCAAGCAATAGTAAAAAG
1 AGTCCTACAACATTGAGCCAAGCAATAGTAAAAAG
*
10760494 AGTCCTACAATATTGAGCCAAGCAATAGTAAAAA
1 AGTCCTACAACATTGAGCCAAGCAATAGTAAAAA
10760528 ACTTCAGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.46, C:0.19, G:0.16, T:0.19
Consensus pattern (35 bp):
AGTCCTACAACATTGAGCCAAGCAATAGTAAAAAG
Found at i:10761224 original size:22 final size:23
Alignment explanation
Indices: 10761199--10761242 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
10761189 AGGTTTCCAC
*
10761199 TTTTACTT-ATTTAGTTTTCTTG
1 TTTTACTTAAGTTAGTTTTCTTG
10761221 TTTTACTTAAGTTAGTTTTCTT
1 TTTTACTTAAGTTAGTTTTCTT
10761243 TGGTCTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.16, C:0.09, G:0.09, T:0.66
Consensus pattern (23 bp):
TTTTACTTAAGTTAGTTTTCTTG
Found at i:10764011 original size:52 final size:52
Alignment explanation
Indices: 10763873--10764029 Score: 163
Period size: 52 Copynumber: 3.0 Consensus size: 52
10763863 TATAACCATA
* *** * * * *
10763873 CAAACTTACCTATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTACCTATTAAAAATATTTTTCATCTTAGAATTCTTCTCTTGCAAGT
* * * *
10763925 CAAACTTGCCTATTAAAAATCTTTTTCTTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTACCTATTAAAAATATTTTTCATCTTAGAATTCTTCTCTTGCAAGT
* * *
10763977 CAAATTTACCTATTAAGAATATTGTTT-ATCTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTACCTATTAAAAATATT-TTTCATCTTAGAATTCTTCTCTTGCAAGT
10764029 C
1 C
10764030 TTCTTATCCA
Statistics
Matches: 88, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
52 85 0.97
53 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.08, T:0.43
Consensus pattern (52 bp):
CAAACTTACCTATTAAAAATATTTTTCATCTTAGAATTCTTCTCTTGCAAGT
Found at i:10764066 original size:11 final size:11
Alignment explanation
Indices: 10764050--10764085 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
10764040 TTCAATAATA
10764050 TCTAACAAATC
1 TCTAACAAATC
10764061 TCTAACAAATC
1 TCTAACAAATC
* *
10764072 TCAAATAAATC
1 TCTAACAAATC
10764083 TCT
1 TCT
10764086 TATGGGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (11 bp):
TCTAACAAATC
Found at i:10766111 original size:20 final size:20
Alignment explanation
Indices: 10766086--10766127 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
10766076 TTGTTAAATA
10766086 TATATATATATATATTTATT
1 TATATATATATATATTTATT
* *
10766106 TATATATTTATATATTTCTT
1 TATATATATATATATTTATT
10766126 TA
1 TA
10766128 CTATGTCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TATATATATATATATTTATT
Found at i:10766121 original size:8 final size:8
Alignment explanation
Indices: 10766083--10766122 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
10766073 AGTTTGTTAA
*
10766083 ATATATAT
1 ATATATTT
*
10766091 ATATATAT
1 ATATATTT
*
10766099 ATTTATTT
1 ATATATTT
10766107 ATATATTT
1 ATATATTT
10766115 ATATATTT
1 ATATATTT
10766123 CTTTACTATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
ATATATTT
Found at i:10769114 original size:12 final size:12
Alignment explanation
Indices: 10769097--10769124 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
10769087 CAGAAGTTTG
10769097 TTTGATCTCATC
1 TTTGATCTCATC
10769109 TTTGATCTCATC
1 TTTGATCTCATC
10769121 TTTG
1 TTTG
10769125 TTTAGGTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.21, G:0.11, T:0.54
Consensus pattern (12 bp):
TTTGATCTCATC
Found at i:10770470 original size:12 final size:13
Alignment explanation
Indices: 10770453--10770483 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
10770443 CTGTCTTTTT
10770453 CTGCTACAG-TGA
1 CTGCTACAGTTGA
10770465 CTGCTACAGTTGA
1 CTGCTACAGTTGA
10770478 CTGCTA
1 CTGCTA
10770484 TAGGGTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.29
Consensus pattern (13 bp):
CTGCTACAGTTGA
Found at i:10776215 original size:19 final size:20
Alignment explanation
Indices: 10776188--10776227 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
10776178 TAATATCCTA
*
10776188 ATTTTAATTATTTA-TTATT
1 ATTTAAATTATTTATTTATT
10776207 ATTTAAATTATTTATTTATT
1 ATTTAAATTATTTATTTATT
10776227 A
1 A
10776228 CAATGGTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTTAAATTATTTATTTATT
Found at i:10778860 original size:151 final size:151
Alignment explanation
Indices: 10778678--10778953 Score: 385
Period size: 151 Copynumber: 1.8 Consensus size: 151
10778668 AAATGAATGA
* * *
10778678 CATAAATACCCTTACAAATTTTAAGAAATAACAAATTTACCTTTAAA-TTTCTAGCATTT-TTTA
1 CATAAATACCCTTACAAAGTTTAAAAAATAACAAATTTACCTTTAAATTTTATAGCATTTATTTA
* * *
10778741 TTTATGTATTAAAGATTATTTTCCATTAAATATATGGCATTTATTAGTTAATTATTTAAATTAAT
66 -TTATGTAATAAAGATTATTTGCCATTAAATATAT-ACATTTATTAGTTAATTATTTAAATTAAT
10778806 CCAAAAGTGTTAAAAGTGAACAG
129 CCAAAAGTGTTAAAAGTGAACAG
* * **
10778829 CATAAATATCCTTATAAAGTTTAAAAAATAACAAATTTATGTTTAAATTTTATAGCATTTATTTA
1 CATAAATACCCTTACAAAGTTTAAAAAATAACAAATTTACCTTTAAATTTTATAGCATTTATTTA
* ** * *
10778894 TTATTTAATAAAGATTATTTGCCATTAAATATATATTTTTATTTGTTAGTTATTTAAATT
66 TTATGTAATAAAGATTATTTGCCATTAAATATATACATTTATTAGTTAATTATTTAAATT
10778954 TAAATCAATT
Statistics
Matches: 108, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
151 62 0.57
152 42 0.39
153 4 0.04
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (151 bp):
CATAAATACCCTTACAAAGTTTAAAAAATAACAAATTTACCTTTAAATTTTATAGCATTTATTTA
TTATGTAATAAAGATTATTTGCCATTAAATATATACATTTATTAGTTAATTATTTAAATTAATCC
AAAAGTGTTAAAAGTGAACAG
Found at i:10779631 original size:462 final size:462
Alignment explanation
Indices: 10778717--10780076 Score: 2352
Period size: 463 Copynumber: 3.0 Consensus size: 462
10778707 AACAAATTTA
* *
10778717 CCTTTAAATTTCTAGCATTTTTTATTTATGTATTAAAGATTATTTTCCATTAAATATATGGCATT
1 CCTTTAAATTTCTAGCATTTTTTATTTATGTATTAAAGATTATTTTTCATTAAATATATAGCATT
* * * *
10778782 TATTAGTTAATTATTTAAATTAATCCAAAAGTGTTAAAAGTGAACAGCATAAATATCCTTATAAA
66 TATTAGATAATTATTTGAATTAATCCAAAAGTGTTAAAAGTGAATAGCATAAATATCCTTATGAA
* **
10778847 GTTTAAAAAATAACAAATTTATGTTTAAATTTTATAGCATTTATTTA-TTATTTAATAAAGATTA
131 TTTTAAAAAATAACAAATTTACCTTTAAATTTT-TAGCATTTATTTATTTATTTAATAAAGATTA
*
10778911 TTTGCCATTAAATATATA--TTTTTATTTGTTAGTTATTTAAATTTAAATCAATTAAAAATTTAC
195 TTTGCCATTAAATATATAGCTTTTTATTCGTTAGTTATTTAAATTTAAATCAATTAAAAATTTAC
**
10778974 T-AATAGAATTTATATCAAATTAAACTACATTAAAAATTTATTTGTGGGATATGGTGGATGTGTT
260 TAAATAGAATTTATATCAAATTAAACTGTATTAAAAATTTATTTGTGGGATATGGTGGATGTGTT
* *
10779038 GTCAAAAATTAACCCAAATTTAATCTTATCCTTTTTTTTTTTGTAGGATTCTTTTTTGCTCAATT
325 GTCAAAAATTAACCCAAATTTACTCTTATCCTTTTTTTTTTTGTAGGATTCTTTTTTGTTCAATT
* * *
10779103 TCATAAGTAATAATTCAATTAAATTCATATAAAACACATTTCTCATCCTACAGCTATGGCATACT
390 TCATAAGTAATAATTCAATTAAATTCATATAAAACACATTTCTCATCCTACAACTACGACATACT
**
10779168 ATCGGTCC
455 ATCAATCC
* *
10779176 TCTTTAAATTTCTAGCATTTTTTATTTATGTATTAAATATTATTTTTCATTAAATATATAGCATT
1 CCTTTAAATTTCTAGCATTTTTTATTTATGTATTAAAGATTATTTTTCATTAAATATATAGCATT
10779241 TATTAGATAATTATTTGAATTAATCCAAAAGTGTTAAAAGTGAATAGCATAAATATCCTTATGAA
66 TATTAGATAATTATTTGAATTAATCCAAAAGTGTTAAAAGTGAATAGCATAAATATCCTTATGAA
10779306 TTTTAAAAAATAACAAATTTACCTTTAAATTTTTAGCATTTATTTATTTATTTAATAAAGATTAT
131 TTTTAAAAAATAACAAATTTACCTTTAAATTTTTAGCATTTATTTATTTATTTAATAAAGATTAT
*
10779371 TTGTCATTAAATATATAGCTTTTTATTCGTTAGTTATTTAAATTTAAATCAATTAAAAATTTACT
196 TTGCCATTAAATATATAGCTTTTTATTCGTTAGTTATTTAAATTTAAATCAATTAAAAATTTACT
10779436 AAATAGAATTTATATCAAATTAAACTGTATTAAAAATTTATTTGTGGGATATGGTGGATGTGTTG
261 AAATAGAATTTATATCAAATTAAACTGTATTAAAAATTTATTTGTGGGATATGGTGGATGTGTTG
*
10779501 TCAAAAATTAACCCAAATTTACTCTTATCCTTTTTTTTTTTGTAGGATTTTTTTTTGTTCAATTT
326 TCAAAAATTAACCCAAATTTACTCTTATCCTTTTTTTTTTTGTAGGATTCTTTTTTGTTCAATTT
* *
10779566 CATAAGTAATAATTCAATTAAATTTATATAAAACACATTTCTTATCCTACAACTACGACATACTA
391 CATAAGTAATAATTCAATTAAATTCATATAAAACACATTTCTCATCCTACAACTACGACATACTA
10779631 TCAATCC
456 TCAATCC
10779638 CCTTTAAATTTCTAGCATTTTTTTATTTATGTATTAAAGATTATTTTTCATTAAATATATAGCAT
1 CCTTTAAATTTCTAGCA-TTTTTTATTTATGTATTAAAGATTATTTTTCATTAAATATATAGCAT
10779703 TTATTAGATAATTATTTGAATTAATCCAAAAGTGTTAAAAGTGAATAGCATAAATATCCTTATGA
65 TTATTAGATAATTATTTGAATTAATCCAAAAGTGTTAAAAGTGAATAGCATAAATATCCTTATGA
*
10779768 ATTTTAAAAAATAACAAATTTACCTTTAAATTTCTAGCATTTATTTATTTATTTAATAAAGATTA
130 ATTTTAAAAAATAACAAATTTACCTTTAAATTTTTAGCATTTATTTATTTATTTAATAAAGATTA
* *
10779833 TTTGCCATTAAATATGTAGCTTTTTATTCGTTAATTATTTAAATTTAAATCAATTAAAAATTTAC
195 TTTGCCATTAAATATATAGCTTTTTATTCGTTAGTTATTTAAATTTAAATCAATTAAAAATTTAC
* * * *
10779898 TAAATAGAATTTATATCCAATTAAACTGTATTAAAAATTTATTTGTGGGATATGGTCGATATATT
260 TAAATAGAATTTATATCAAATTAAACTGTATTAAAAATTTATTTGTGGGATATGGTGGATGTGTT
* *
10779963 GTCAAAAATTAACTCAAATTTACTCTT-TTCTTTTTTTTTTTGTAGGATTCTTTTTTGTTCAATT
325 GTCAAAAATTAACCCAAATTTACTCTTATCCTTTTTTTTTTTGTAGGATTCTTTTTTGTTCAATT
*
10780027 TCATAAGTAATAATTTAATTAAATTCATATAAAACACATTTCTCATCCTA
390 TCATAAGTAATAATTCAATTAAATTCATATAAAACACATTTCTCATCCTA
10780077 TGGGTTATTG
Statistics
Matches: 855, Mismatches: 41, Indels: 7
0.95 0.05 0.01
Matches are distributed among these distances:
458 13 0.02
459 186 0.22
461 45 0.05
462 287 0.34
463 324 0.38
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.45
Consensus pattern (462 bp):
CCTTTAAATTTCTAGCATTTTTTATTTATGTATTAAAGATTATTTTTCATTAAATATATAGCATT
TATTAGATAATTATTTGAATTAATCCAAAAGTGTTAAAAGTGAATAGCATAAATATCCTTATGAA
TTTTAAAAAATAACAAATTTACCTTTAAATTTTTAGCATTTATTTATTTATTTAATAAAGATTAT
TTGCCATTAAATATATAGCTTTTTATTCGTTAGTTATTTAAATTTAAATCAATTAAAAATTTACT
AAATAGAATTTATATCAAATTAAACTGTATTAAAAATTTATTTGTGGGATATGGTGGATGTGTTG
TCAAAAATTAACCCAAATTTACTCTTATCCTTTTTTTTTTTGTAGGATTCTTTTTTGTTCAATTT
CATAAGTAATAATTCAATTAAATTCATATAAAACACATTTCTCATCCTACAACTACGACATACTA
TCAATCC
Found at i:10780372 original size:24 final size:21
Alignment explanation
Indices: 10780343--10780388 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 21
10780333 GATAAATTAA
*
10780343 AATTAAAGTTCATACAAAATTATT
1 AATTAAA-TT-ATA-AAAAATATT
10780367 AATTAAATTATAAAAAATATT
1 AATTAAATTATAAAAAATATT
10780388 A
1 A
10780389 TTGAGAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
22 3 0.14
23 2 0.10
24 7 0.33
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (21 bp):
AATTAAATTATAAAAAATATT
Found at i:10781317 original size:21 final size:22
Alignment explanation
Indices: 10781292--10781345 Score: 92
Period size: 21 Copynumber: 2.5 Consensus size: 22
10781282 GTTTATTATA
10781292 GATAAATACATGTATCATCTAT
1 GATAAATACATGTATCATCTAT
10781314 -ATAAATACATGTATCATCTAT
1 GATAAATACATGTATCATCTAT
*
10781335 GATATATACAT
1 GATAAATACAT
10781346 ATAAAAGTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 21 0.70
22 9 0.30
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (22 bp):
GATAAATACATGTATCATCTAT
Found at i:10782233 original size:22 final size:22
Alignment explanation
Indices: 10782208--10782418 Score: 109
Period size: 22 Copynumber: 9.7 Consensus size: 22
10782198 ATATTTAATG
*
10782208 GTAAATTAATTATAACTTAGTA
1 GTAAATTAATGATAACTTAGTA
*
10782230 GTAAATGT-GTGATAA-TATAGTA
1 GTAAAT-TAATGATAACT-TAGTA
* * * *
10782252 GCAAATTATTGATAATTTTGTTA
1 GTAAATTAATGATAACTTAG-TA
*
10782275 -TAAATTAGTGATAA-TTAG-A
1 GTAAATTAATGATAACTTAGTA
** * * *
10782294 CAAAATCAGTAATAACTTTA-TA
1 GTAAATTAATGATAAC-TTAGTA
*
10782316 CTAAATTAATGATAACTGTA-TA
1 GTAAATTAATGATAACT-TAGTA
*
10782338 GTAAATT-ATGGATAACTTAATA
1 GTAAATTAAT-GATAACTTAGTA
* *
10782360 GTAAAATAAT-AGTAACTTAATA
1 GTAAATTAATGA-TAACTTAGTA
* * *
10782382 GTAAATAAATAATAATTTAGTA
1 GTAAATTAATGATAACTTAGTA
10782404 GTAAA-TAATTGATAA
1 GTAAATTAA-TGATAA
10782419 AACAATTTAT
Statistics
Matches: 150, Mismatches: 23, Indels: 32
0.73 0.11 0.16
Matches are distributed among these distances:
19 1 0.01
20 11 0.07
21 13 0.09
22 118 0.79
23 7 0.05
ACGTcount: A:0.47, C:0.04, G:0.12, T:0.37
Consensus pattern (22 bp):
GTAAATTAATGATAACTTAGTA
Found at i:10782455 original size:22 final size:22
Alignment explanation
Indices: 10782430--10782490 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
10782420 ACAATTTATG
*
10782430 ATAACATAATAATAAATACAT-A
1 ATAACATAATAGTAAATA-ATAA
* *
10782452 ATAACATAGTAGGAAATAATAA
1 ATAACATAATAGTAAATAATAA
*
10782474 ATAACTTAATAGTAAAT
1 ATAACATAATAGTAAAT
10782491 GATTTATATA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 2 0.06
22 30 0.94
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (22 bp):
ATAACATAATAGTAAATAATAA
Found at i:10782554 original size:22 final size:21
Alignment explanation
Indices: 10782523--10782620 Score: 88
Period size: 22 Copynumber: 4.4 Consensus size: 21
10782513 TGTAACACAT
10782523 ATAAGTAAATTATGGATAACTTA
1 ATAA-TAAATTAT-GATAACTTA
* *
10782546 ATAAAAAATAAATGATAACTTA
1 ATAATAAAT-TATGATAACTTA
* * *
10782568 GTAGTTAATTATTGATAACTTA
1 ATAATAAATTA-TGATAACTTA
*
10782590 GTAATAAATTAATGATAACTTA
1 ATAATAAATT-ATGATAACTTA
*
10782612 ATAGTAAAT
1 ATAATAAAT
10782621 AAGATTCAGT
Statistics
Matches: 61, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
21 1 0.02
22 53 0.87
23 7 0.11
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.36
Consensus pattern (21 bp):
ATAATAAATTATGATAACTTA
Found at i:10782579 original size:44 final size:44
Alignment explanation
Indices: 10782530--10782616 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
10782520 CATATAAGTA
*
10782530 AATTATGGATAACTTAATAAAAAATAAATGATAACTTAGTAGTT
1 AATTATGGATAACTTAATAAAAAATAAATGATAACTTAATAGTT
* * * *
10782574 AATTATTGATAACTTAGTAATAAATTAATGATAACTTAATAGT
1 AATTATGGATAACTTAATAAAAAATAAATGATAACTTAATAGT
10782617 AAATAAGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.37
Consensus pattern (44 bp):
AATTATGGATAACTTAATAAAAAATAAATGATAACTTAATAGTT
Found at i:10782728 original size:93 final size:94
Alignment explanation
Indices: 10782616--10782804 Score: 299
Period size: 93 Copynumber: 2.0 Consensus size: 94
10782606 AACTTAATAG
* * ** *
10782616 TAAATAAGATTCAGTTTAATACTCCTTTTATCCTAATAAAATTGTTACATTTTGATTTTTGTTGG
1 TAAATAAGATTCAATTTAATACTCCCTCCATCCTAATAAAATTGTTACATTTTGATTTTTATTGG
10782681 TC-AATTTTTTTCAATTTTAATAACCTAT
66 TCTAATTTTTTTCAATTTTAATAACCTAT
*
10782709 TAAATAAGATTCAATTTAATACTCCCTCCATCCTAATAAAATTGTTACATTTTTATTTTTATTGG
1 TAAATAAGATTCAATTTAATACTCCCTCCATCCTAATAAAATTGTTACATTTTGATTTTTATTGG
**
10782774 TCTTTTTTTTTTCAATTTTAATAACCTAT
66 TCTAATTTTTTTCAATTTTAATAACCTAT
10782803 TA
1 TA
10782805 TTTTTATTTG
Statistics
Matches: 87, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
93 61 0.70
94 26 0.30
ACGTcount: A:0.31, C:0.13, G:0.06, T:0.50
Consensus pattern (94 bp):
TAAATAAGATTCAATTTAATACTCCCTCCATCCTAATAAAATTGTTACATTTTGATTTTTATTGG
TCTAATTTTTTTCAATTTTAATAACCTAT
Found at i:10783061 original size:22 final size:22
Alignment explanation
Indices: 10783036--10783375 Score: 78
Period size: 22 Copynumber: 15.4 Consensus size: 22
10783026 AACTTAGTGA
10783036 TAAATCAATGATAATTTAATAG
1 TAAATCAATGATAATTTAATAG
* *
10783058 TAAAT-AATTTATAA-CTAAGTAG
1 TAAATCAA-TGATAATTTAA-TAG
* * * * *
10783080 TAATTAAT-AATTAAAAATTAAAAA
1 T-A--AATCAATGATAATTTAATAG
*
10783104 TAAATCAAT-ATAATTTAATAA
1 TAAATCAATGATAATTTAATAG
*
10783125 TAATTATC-A-G-TAAATTAATAG
1 TAA--ATCAATGATAATTTAATAG
* * * *
10783146 TTAATCAGTAATAAGTTAGTATAG
1 TAAATCAATGATAATTTA--ATAG
* *
10783170 TAAATTAGA-GATATTACTTAATAG
1 TAAATCA-ATGATA--ATTTAATAG
* * *
10783194 TATATCAATTATAATTTAGTAG
1 TAAATCAATGATAATTTAATAG
* * * *
10783216 TAAATTAGTAATAATATAATAG
1 TAAATCAATGATAATTTAATAG
* * * *
10783238 TCAAAGC-ATAATAACTTAATAA
1 T-AAATCAATGATAATTTAATAG
* ** *
10783260 TAAATCAATTATAACATAATTG
1 TAAATCAATGATAATTTAATAG
* * *
10783282 TAAATGC-ATAATAATGTAATTG
1 TAAAT-CAATGATAATTTAATAG
*
10783304 TAAATTAATGATAACTTT-ATA-
1 TAAATCAATGATAA-TTTAATAG
* *
10783325 -AAA-AAATGATAACTTAATAG
1 TAAATCAATGATAATTTAATAG
* * * * *
10783345 TTAATCATTGAGAATTTAGTAA
1 TAAATCAATGATAATTTAATAG
10783367 TAAATCAAT
1 TAAATCAAT
10783376 AAAAGCTTAG
Statistics
Matches: 230, Mismatches: 60, Indels: 56
0.66 0.17 0.16
Matches are distributed among these distances:
18 2 0.01
19 14 0.06
20 3 0.01
21 37 0.16
22 119 0.52
23 12 0.05
24 31 0.13
25 8 0.03
26 4 0.02
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.36
Consensus pattern (22 bp):
TAAATCAATGATAATTTAATAG
Found at i:10783308 original size:44 final size:44
Alignment explanation
Indices: 10783226--10783318 Score: 100
Period size: 44 Copynumber: 2.1 Consensus size: 44
10783216 TAAATTAGTA
* *
10783226 ATAATATAATAGTCAAAGCATAATAACTTAATAATAAATCAATT
1 ATAACATAATAGTCAAAGCATAATAACTTAATAATAAATCAATG
* ** *
10783270 ATAACATAATTGT-AAATGCATAATAA-TGTAATTGTAAATTAATG
1 ATAACATAATAGTCAAA-GCATAATAACT-TAATAATAAATCAATG
10783314 ATAAC
1 ATAAC
10783319 TTTATAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
43 4 0.10
44 37 0.90
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.33
Consensus pattern (44 bp):
ATAACATAATAGTCAAAGCATAATAACTTAATAATAAATCAATG
Found at i:10783698 original size:22 final size:22
Alignment explanation
Indices: 10783637--10783699 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
10783627 GGTAAAATTT
* * *
10783637 TGATAACTTAGTTGTAAATCAG
1 TGATAATTTAGTTGTAAATAAA
* *
10783659 TGGTAAGTTT-GTTATAAATAAA
1 TGATAA-TTTAGTTGTAAATAAA
10783681 TGATAATTTAGTTGTAAAT
1 TGATAATTTAGTTGTAAAT
10783700 TAGCTAATTA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
21 3 0.09
22 27 0.84
23 2 0.06
ACGTcount: A:0.38, C:0.03, G:0.17, T:0.41
Consensus pattern (22 bp):
TGATAATTTAGTTGTAAATAAA
Found at i:10783827 original size:66 final size:65
Alignment explanation
Indices: 10783705--10783883 Score: 172
Period size: 66 Copynumber: 2.7 Consensus size: 65
10783695 TAAATTAGCT
* *
10783705 AATTATTAATAACTTTATAGTAAATCATCAATAACTT--TACAGTAAATAAGTAATAACATT-AT
1 AATTATTAATAACTTAATAGTAAATCATCAATAACTTAGTA-A-TAAAT-CGTAATAAC-TTAAT
10783767 AATA
62 AATA
* * *
10783771 AATTATTAATAACTTAATAGTAAATTATCAATAACTTAGTAATAAATCGTTTATAACTTAATAGT
1 AATTATTAATAACTTAATAGTAAATCATCAATAACTTAGTAATAAATCG-TAATAACTTAATAAT
10783836 A
65 A
* * * *
10783837 AATCATCT-ATAACTTAGTGAG-AAATCAT-AATAATTTAGTAGTAAATC
1 AATTAT-TAATAACTTAAT-AGTAAATCATCAATAACTTAGTAATAAATC
10783884 AGTGATAAAA
Statistics
Matches: 97, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
65 20 0.21
66 71 0.73
67 4 0.04
68 2 0.02
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.37
Consensus pattern (65 bp):
AATTATTAATAACTTAATAGTAAATCATCAATAACTTAGTAATAAATCGTAATAACTTAATAATA
Found at i:10783849 original size:44 final size:44
Alignment explanation
Indices: 10783712--10783884 Score: 165
Period size: 44 Copynumber: 4.0 Consensus size: 44
10783702 GCTAATTATT
* * * * *
10783712 AATAACTTTA-TAGTAAATCATCAATAACTTTACAGTAAATAAGT-
1 AATAAC-TTAGTAATAAATCATTAATAACTTAATAGTAAATCA-TC
* *
10783756 AATAACATTA-TAATAAATTATTAATAACTTAATAGTAAATTATC
1 AATAAC-TTAGTAATAAATCATTAATAACTTAATAGTAAATCATC
* *
10783800 AATAACTTAGTAATAAATCGTTTATAACTTAATAGTAAATCATC
1 AATAACTTAGTAATAAATCATTAATAACTTAATAGTAAATCATC
* * * * *
10783844 TATAACTTAGTGAGAAATCA-TAATAATTTAGTAGTAAATCA
1 AATAACTTAGTAATAAATCATTAATAACTTAATAGTAAATCA
10783885 GTGATAAAAT
Statistics
Matches: 109, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
43 22 0.20
44 87 0.80
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.36
Consensus pattern (44 bp):
AATAACTTAGTAATAAATCATTAATAACTTAATAGTAAATCATC
Found at i:10783874 original size:21 final size:22
Alignment explanation
Indices: 10783712--10783884 Score: 133
Period size: 22 Copynumber: 7.9 Consensus size: 22
10783702 GCTAATTATT
10783712 AATAACTTTA-TAGTAAATCATC
1 AATAAC-TTAGTAGTAAATCATC
* *
10783734 AATAACTTTA-CAGTAAATAAGT-
1 AATAAC-TTAGTAGTAAATCA-TC
* * *
10783756 AATAACATTA-TAATAAATTATT
1 AATAAC-TTAGTAGTAAATCATC
* *
10783778 AATAACTTAATAGTAAATTATC
1 AATAACTTAGTAGTAAATCATC
* * *
10783800 AATAACTTAGTAATAAATCGTT
1 AATAACTTAGTAGTAAATCATC
* *
10783822 TATAACTTAATAGTAAATCATC
1 AATAACTTAGTAGTAAATCATC
*
10783844 TATAACTTAGTGAG-AAATCAT-
1 AATAACTTAGT-AGTAAATCATC
*
10783865 AATAATTTAGTAGTAAATCA
1 AATAACTTAGTAGTAAATCA
10783885 GTGATAAAAT
Statistics
Matches: 125, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
20 2 0.02
21 19 0.15
22 101 0.81
23 3 0.02
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.36
Consensus pattern (22 bp):
AATAACTTAGTAGTAAATCATC
Found at i:10784405 original size:22 final size:22
Alignment explanation
Indices: 10784380--10784519 Score: 126
Period size: 22 Copynumber: 6.4 Consensus size: 22
10784370 AAAATTAGTT
10784380 ATAACTATA-TAATAAATTATCA
1 ATAACT-TAGTAATAAATTATCA
* *
10784402 ATAACTTAGTACTAAATCATCA
1 ATAACTTAGTAATAAATTATCA
*
10784424 ATAACTTAGTAGTAAATTATTC-
1 ATAACTTAGTAATAAATTA-TCA
* * *
10784446 ATAACTTAATAGTAAATTATTA
1 ATAACTTAGTAATAAATTATCA
* * *
10784468 GTAACTTAATAATAAATTA-CTG
1 ATAACTTAGTAATAAATTATC-A
*
10784490 ATAACATAGTAATAAATTAGT-A
1 ATAACTTAGTAATAAATTA-TCA
10784512 ATAACTTA
1 ATAACTTA
10784520 ATTATCAATC
Statistics
Matches: 97, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
21 3 0.03
22 92 0.95
23 2 0.02
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.36
Consensus pattern (22 bp):
ATAACTTAGTAATAAATTATCA
Found at i:10784462 original size:66 final size:65
Alignment explanation
Indices: 10784347--10784521 Score: 167
Period size: 66 Copynumber: 2.6 Consensus size: 65
10784337 AATTTTGTAG
*
10784347 TAAATCATCGATAATTTCA-TAGTAAAATTAGTTATAAC-TATATAATAAATTATCAATAACTTA
1 TAAATCATCGATAACTT-AGTAGT-AAATTA-TTATAACTTA-ATAATAAATTATCAATAACTTA
* *
10784410 GTAC
62 ATAA
* * * *
10784414 TAAATCATCAATAACTTAGTAGTAAATTATTCATAACTTAATAGTAAATTATTAGTAACTTAATA
1 TAAATCATCGATAACTTAGTAGTAAATTATT-ATAACTTAATAATAAATTATCAATAACTTAATA
10784479 A
65 A
* * * *
10784480 TAAATTA-CTGATAACATAGTAATAAATTAGTAATAACTTAAT
1 TAAATCATC-GATAACTTAGTAGTAAATTA-TTATAACTTAAT
10784522 TATCAATCGA
Statistics
Matches: 91, Mismatches: 12, Indels: 11
0.80 0.11 0.10
Matches are distributed among these distances:
65 3 0.03
66 66 0.73
67 22 0.24
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.37
Consensus pattern (65 bp):
TAAATCATCGATAACTTAGTAGTAAATTATTATAACTTAATAATAAATTATCAATAACTTAATAA
Found at i:10784494 original size:44 final size:43
Alignment explanation
Indices: 10784347--10784521 Score: 129
Period size: 44 Copynumber: 4.0 Consensus size: 43
10784337 AATTTTGTAG
* * *
10784347 TAAATCATCGATAATTTCATAGTAAAATTAGTT-ATAAC-TATATAA
1 TAAATTAT-GATAACTTAATAGT-AAATTA-TTAATAACTTA-ATAA
* * * * * * *
10784392 TAAATTATCAATAACTTAGTACTAAATCATCAATAACTTAGTAG
1 TAAATTAT-GATAACTTAATAGTAAATTATTAATAACTTAATAA
* *
10784436 TAAATTATTCATAACTTAATAGTAAATTATTAGTAACTTAATAA
1 TAAATTA-TGATAACTTAATAGTAAATTATTAATAACTTAATAA
* * * *
10784480 TAAATTACTGATAACATAGTAATAAATTAGTAATAACTTAAT
1 TAAATTA-TGATAACTTAATAGTAAATTATTAATAACTTAAT
10784522 TATCAATCGA
Statistics
Matches: 102, Mismatches: 25, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
43 1 0.01
44 81 0.79
45 20 0.20
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.37
Consensus pattern (43 bp):
TAAATTATGATAACTTAATAGTAAATTATTAATAACTTAATAA
Found at i:10784737 original size:22 final size:22
Alignment explanation
Indices: 10784709--10784779 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
10784699 GTGATAACAA
*
10784709 TAAATCAATGATAACTTATTAG
1 TAAATCAATGATAACTTAATAG
** * *
10784731 TAAATCAATTTTAGCTTAGTAG
1 TAAATCAATGATAACTTAATAG
*
10784753 TAAAGTCTA-GATAACTTAATAG
1 TAAA-TCAATGATAACTTAATAG
10784775 TAAAT
1 TAAAT
10784780 TATTCATATT
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
21 1 0.03
22 35 0.90
23 3 0.08
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (22 bp):
TAAATCAATGATAACTTAATAG
Found at i:10784810 original size:22 final size:22
Alignment explanation
Indices: 10784768--10784810 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
10784758 TCTAGATAAC
* *
10784768 TTAATAGTAAATTATTCATATT
1 TTAATAATAAATTAGTCATATT
*
10784790 TTAATAATAAATTAGTGATAT
1 TTAATAATAAATTAGTCATAT
10784811 AACTTAGCAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (22 bp):
TTAATAATAAATTAGTCATATT
Found at i:10787439 original size:20 final size:20
Alignment explanation
Indices: 10787396--10787440 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
10787386 CAAATTGTGT
* *
10787396 AATTTTAACTTTATTTGACT
1 AATTTTAACTCTATTTGACA
10787416 AATTTTAACTCTA-TTGACCA
1 AATTTTAACTCTATTTGA-CA
10787436 AATTT
1 AATTT
10787441 GATCGAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.33, C:0.13, G:0.04, T:0.49
Consensus pattern (20 bp):
AATTTTAACTCTATTTGACA
Found at i:10790805 original size:21 final size:20
Alignment explanation
Indices: 10790770--10790814 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
10790760 AAAAATAGAT
*
10790770 AAATGAAAAGAAATTTAAAA
1 AAATGAAAAGAAATTGAAAA
*
10790790 AAATGAAAATGAAATTGGAAA
1 AAATGAAAA-GAAATTGAAAA
10790811 AAAT
1 AAAT
10790815 CTCATGGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.20
Consensus pattern (20 bp):
AAATGAAAAGAAATTGAAAA
Found at i:10794076 original size:2 final size:2
Alignment explanation
Indices: 10794063--10794114 Score: 52
Period size: 2 Copynumber: 26.5 Consensus size: 2
10794053 TTTTAAAATA
* * * * *
10794063 AT AT AC AT AT AT AT -T AA AC AT AT GT AT AT AT AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10794104 AT AT AT AT AT A
1 AT AT AT AT AT A
10794115 GTTTAAATGG
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (2 bp):
AT
Found at i:10794446 original size:2 final size:2
Alignment explanation
Indices: 10794433--10794485 Score: 51
Period size: 2 Copynumber: 28.5 Consensus size: 2
10794423 TTTTGGCTTT
* * *
10794433 TA TA TA TT TA TA TA -A GA T- TA TA TA -A AA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10794471 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
10794486 GAAACGTGTG
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
1 4 0.09
2 39 0.91
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:10794894 original size:24 final size:24
Alignment explanation
Indices: 10794864--10794912 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
10794854 TGTTTGATTT
* *
10794864 AATTTTTATTGAATTTATCTAATTA
1 AATTTTAATT-AATTAATCTAATTA
*
10794889 AATTTTAATTAATTAATTTAATTA
1 AATTTTAATTAATTAATCTAATTA
10794913 TTTAATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (24 bp):
AATTTTAATTAATTAATCTAATTA
Found at i:10795196 original size:18 final size:19
Alignment explanation
Indices: 10795173--10795208 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
10795163 TATTGAAGAC
10795173 TATTGAAGTCTAT-CATCA
1 TATTGAAGTCTATACATCA
10795191 TATTGAAGTCTATACATC
1 TATTGAAGTCTATACATC
10795209 TATCATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (19 bp):
TATTGAAGTCTATACATCA
Found at i:10795640 original size:19 final size:20
Alignment explanation
Indices: 10795599--10795640 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
10795589 TTGTTCATAT
* *
10795599 AATTTTTATGTCGTATTTAA
1 AATTTTTAAGTCGTAATTAA
*
10795619 AATTTTTAAGTC-TAATTGA
1 AATTTTTAAGTCGTAATTAA
10795638 AAT
1 AAT
10795641 AGATGAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.50
Consensus pattern (20 bp):
AATTTTTAAGTCGTAATTAA
Found at i:10796698 original size:62 final size:63
Alignment explanation
Indices: 10796630--10797025 Score: 265
Period size: 62 Copynumber: 6.3 Consensus size: 63
10796620 TTTTATGAGC
* *
10796630 AGATTATTCAAGGCATTTTTTGCCTGAAACT-CCTTCAATAATCCCTTATAAAAAATTGGAGA
1 AGATTATTGAAGGCATTTTTTGCCTGAAAATGCCTTCAATAATCCCTTATAAAAAATTGGAGA
* * * * * * *
10796692 AGATTATTGAATGCGTTTTTTTGCATGAAACA--CTTTTAATAATCCCCTCATAAAAAA-TGAAG
1 AGATTATTGAAGGC-ATTTTTTGCCTGAAA-ATGCCTTCAATAAT-CCCTTATAAAAAATTGGAG
10796754 A
63 A
* ** * *
10796755 GGATTATTGAAGGCATTTTTTTTTACAGAAAATGCCTTCAATAATCCCTTCTAAAAAATTGGAGG
1 AGATTATTGAAGGCA--TTTTTTGCCTGAAAATGCCTTCAATAATCCCTTATAAAAAATTGGA--
10796820 GA
62 GA
* * * * * *
10796822 A-ATTATTGAAGGTATTTTTAGCC--AAAACGCCATCAATAATCTCTTCTAAAAAATTGGA-A
1 AGATTATTGAAGGCATTTTTTGCCTGAAAATGCCTTCAATAATCCCTTATAAAAAATTGGAGA
* * * * * * * ** *
10796881 GGGATTATTAAAGGCGTTTTTGGTCT-AAAATGCCTTTAATAATCTCCTTAT-CAAAATTCAAAA
1 -AGATTATTGAAGGCATTTTTTGCCTGAAAATGCCTTCAATAATC-CCTTATAAAAAATTGGAGA
** * * * * * * *
10796944 AGATTATTGAAGGTGTTTTTTACCT-AAAATGCCTTTAATAATCCCCTCTAAAATATTTGAGG
1 AGATTATTGAAGGCATTTTTTGCCTGAAAATGCCTTCAATAATCCCTTATAAAAAATTGGAGA
* *
10797006 GGATTATTGAAGGCGTTTTT
1 AGATTATTGAAGGCATTTTT
10797026 GCTCCTTATC
Statistics
Matches: 259, Mismatches: 59, Indels: 32
0.74 0.17 0.09
Matches are distributed among these distances:
59 1 0.00
61 21 0.08
62 127 0.49
63 45 0.17
64 39 0.15
65 12 0.05
66 12 0.05
67 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (63 bp):
AGATTATTGAAGGCATTTTTTGCCTGAAAATGCCTTCAATAATCCCTTATAAAAAATTGGAGA
Found at i:10796734 original size:63 final size:63
Alignment explanation
Indices: 10796630--10796840 Score: 182
Period size: 63 Copynumber: 3.3 Consensus size: 63
10796620 TTTTATGAGC
* * * * *
10796630 AGATTATTCAAGGCA-TTTTTTGCCTGAAACTCCTTCAATAAT-CCCTTATAAAAAATTGGAGA
1 AGATTATTGAAGGCATTTTTTTGCATGAAACACCTTCAATAATCCCCTCATAAAAAA-TGAAGA
* * * *
10796692 AGATTATTGAATGCGTTTTTTTGCATGAAACACTTTTAATAATCCCCTCATAAAAAATGAAGA
1 AGATTATTGAAGGCATTTTTTTGCATGAAACACCTTCAATAATCCCCTCATAAAAAATGAAGA
* * *
10796755 GGATTATTGAAGGCATTTTTTTTTACA-GAAA-ATGCCTTCAATAATCCCTTC-TAAAAAATTGG
1 AGATTATTGAAGGCA--TTTTTTTGCATGAAACA--CCTTCAATAATCCCCTCATAAAAAA-T-G
*
10796817 AGGGA
60 A-AGA
*
10796822 A-ATTATTGAAGGTATTTTT
1 AGATTATTGAAGGCATTTTT
10796841 AGCCAAAACG
Statistics
Matches: 121, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
62 12 0.10
63 41 0.34
64 28 0.23
65 24 0.20
66 14 0.12
67 2 0.02
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.36
Consensus pattern (63 bp):
AGATTATTGAAGGCATTTTTTTGCATGAAACACCTTCAATAATCCCCTCATAAAAAATGAAGA
Found at i:10804113 original size:33 final size:32
Alignment explanation
Indices: 10804058--10804119 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
10804048 AATTATTATT
10804058 TAATATTAATTAAATAAAAATTATATTTATATA
1 TAATATTAATTAAATAAAAATTAT-TTTATATA
10804091 TAAT-TTATATTAAA-AAATAATTATTTTAT
1 TAATATTA-ATTAAATAAA-AATTATTTTAT
10804120 TTTTTTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (32 bp):
TAATATTAATTAAATAAAAATTATTTTATATA
Found at i:10807681 original size:3 final size:3
Alignment explanation
Indices: 10807660--10807770 Score: 54
Period size: 3 Copynumber: 35.3 Consensus size: 3
10807650 TCTTCTTTTG
10807660 TAT T-T TAT GTAT T-T TAT TAT TAT TAT TAT TAT GTAT ATATT TATT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TA-T TA-T
* * *
10807705 TAT T-T TTT TAT TA- GAT TA- GAT T-T ATAT GTAT ATAGT TAT ATATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TAT -TA-T TAT -TA-T
10807749 TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
10807771 TTTTTTGTAA
Statistics
Matches: 87, Mismatches: 8, Indels: 26
0.72 0.07 0.21
Matches are distributed among these distances:
2 9 0.10
3 49 0.56
4 26 0.30
5 3 0.03
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:10807812 original size:3 final size:3
Alignment explanation
Indices: 10807799--10807831 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
10807789 TGGGTTTATC
10807799 TTA TT- TTA TTA TTA TTA TTA -TA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10807832 TTTAATTATC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 24 0.86
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:10807822 original size:14 final size:14
Alignment explanation
Indices: 10807799--10807831 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
10807789 TGGGTTTATC
*
10807799 TTATTTTATTATTA
1 TTATTATATTATTA
10807813 TTATTATATTATTA
1 TTATTATATTATTA
10807827 TTATT
1 TTATT
10807832 TTTAATTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATTATATTATTA
Found at i:10807824 original size:17 final size:17
Alignment explanation
Indices: 10807799--10807840 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
10807789 TGGGTTTATC
*
10807799 TTATTTTATTATTATTA
1 TTATATTATTATTATTA
*
10807816 TTATATTATTATTATTT
1 TTATATTATTATTATTA
10807833 TTA-ATTAT
1 TTATATTAT
10807841 CTGTTCTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTATATTATTATTATTA
Found at i:10808302 original size:32 final size:31
Alignment explanation
Indices: 10808237--10808310 Score: 114
Period size: 31 Copynumber: 2.4 Consensus size: 31
10808227 AATTTCTAGA
*
10808237 TTCCGGCGAAAATTCCGGCAACTTTTGAATT
1 TTCCGGCGACAATTCCGGCAACTTTTGAATT
10808268 TTCCGGCGACAATTCCGGCGAAC-TTTGAAGTT
1 TTCCGGCGACAATTCCGGC-AACTTTTGAA-TT
10808300 TTCCGGCGACA
1 TTCCGGCGACA
10808311 GAACCCAGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
31 24 0.60
32 16 0.40
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (31 bp):
TTCCGGCGACAATTCCGGCAACTTTTGAATT
Found at i:10808407 original size:19 final size:20
Alignment explanation
Indices: 10808370--10808415 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
10808360 TTCGGCCAAT
10808370 TTCCGGCGAAAATTCCCAGA
1 TTCCGGCGAAAATTCCCAGA
*
10808390 TTCCGGCG-AAATTTCCAGA
1 TTCCGGCGAAAATTCCCAGA
*
10808409 ATCCGGC
1 TTCCGGC
10808416 ACCGCGTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (20 bp):
TTCCGGCGAAAATTCCCAGA
Found at i:10808712 original size:9 final size:9
Alignment explanation
Indices: 10808700--10808732 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
10808690 TTTTTTTTTT
10808700 TTTTTTGAA
1 TTTTTTGAA
10808709 TTTTTTGAA
1 TTTTTTGAA
10808718 TTTTTTGAA
1 TTTTTTGAA
10808727 TTTTTT
1 TTTTTT
10808733 TTATTTGACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (9 bp):
TTTTTTGAA
Found at i:10808712 original size:18 final size:18
Alignment explanation
Indices: 10808691--10808738 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
10808681 GGTTTTTTTT
*
10808691 TTTTTTTTTTTTTTTGAA
1 TTTTTTTTATTTTTTGAA
**
10808709 TTTTTTGAATTTTTTGAA
1 TTTTTTTTATTTTTTGAA
10808727 TTTTTTTTATTT
1 TTTTTTTTATTT
10808739 GACTTTAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (18 bp):
TTTTTTTTATTTTTTGAA
Found at i:10808932 original size:159 final size:161
Alignment explanation
Indices: 10808756--10809212 Score: 736
Period size: 155 Copynumber: 2.9 Consensus size: 161
10808746 ATTTTGATCT
* * *
10808756 TGATTTT-TTTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAG
1 TGATTTTGATTTT-TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAG
10808820 TTTTTC-TGCATACTCCTGAGGTGA-GGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAA
64 TTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAA
*
10808883 -TGAGAATAATTTCCGATAATTAATTACTTGGC
129 TTGAGAATAATTTCCGATAATTAATTAATTGGC
10808915 TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
1 TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
10808980 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCT-AAAGTATTAGAGTCAATT
66 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
* *
10809044 GAGAATAATTTTCGATAATTAATTAATTGGT
131 GAGAATAATTTCCGATAATTAATTAATTGGC
* * *
10809075 TGATCTTGA-----TTTTTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAATAGTT
1 TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
*
10809135 TTTCTTGCATACTCCTGAGGTGAGGGGATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
66 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
10809200 GAGAATAATTTCC
131 GAGAATAATTTCC
10809213 AACAACTAAC
Statistics
Matches: 282, Mismatches: 11, Indels: 13
0.92 0.04 0.04
Matches are distributed among these distances:
155 94 0.33
156 30 0.11
158 15 0.05
159 80 0.28
160 63 0.22
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (161 bp):
TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
GAGAATAATTTCCGATAATTAATTAATTGGC
Found at i:10812377 original size:16 final size:16
Alignment explanation
Indices: 10812356--10812401 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
10812346 TTTACAATTG
10812356 TATTTATCATTATTTT
1 TATTTATCATTATTTT
10812372 TATTTAT-ATTTATTTT
1 TATTTATCA-TTATTTT
*
10812388 TGTTTATC-TTATTT
1 TATTTATCATTATTT
10812402 ATCTTTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 7 0.26
16 20 0.74
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (16 bp):
TATTTATCATTATTTT
Found at i:10812378 original size:10 final size:10
Alignment explanation
Indices: 10812365--10812440 Score: 55
Period size: 10 Copynumber: 7.3 Consensus size: 10
10812355 GTATTTATCA
10812365 TTATTTTTAT
1 TTATTTTTAT
*
10812375 TTATATTTAT
1 TTATTTTTAT
10812385 TT-TTGTTTAT
1 TTATT-TTTAT
* *
10812395 CTTATTTATCT
1 -TTATTTTTAT
10812406 TTATTTTTTAT
1 TTA-TTTTTAT
* *
10812417 TTAATTTAAT
1 TTATTTTTAT
*
10812427 TTATCTTTACT
1 TTATTTTTA-T
10812438 TTA
1 TTA
10812441 ATTTGCTTAG
Statistics
Matches: 50, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
9 1 0.02
10 30 0.60
11 17 0.34
12 2 0.04
ACGTcount: A:0.22, C:0.05, G:0.01, T:0.71
Consensus pattern (10 bp):
TTATTTTTAT
Found at i:10812435 original size:16 final size:16
Alignment explanation
Indices: 10812398--10812444 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
10812388 TGTTTATCTT
10812398 ATTTATCTTT-ATTT-
1 ATTTATCTTTAATTTA
10812412 -TTTA--TTTAATTTA
1 ATTTATCTTTAATTTA
*
10812425 ATTTATCTTTACTTTA
1 ATTTATCTTTAATTTA
10812441 ATTT
1 ATTT
10812445 GCTTAGAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
11 3 0.11
12 4 0.15
13 4 0.15
14 4 0.15
16 12 0.44
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTATCTTTAATTTA
Done.