Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 280 of 325
Found at i:86920866 original size:12 final size:12
Alignment explanation
Indices: 86920821--86920876 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
86920811 TGTGTTAAAA
*
86920821 TATATATTAAAT
1 TATATATTATAT
86920833 TAT-TATTATATT
1 TATATATTATA-T
86920845 ATAGTATATTATAT
1 -TA-TATATTATAT
86920859 TATATATTATAT
1 TATATATTATAT
86920871 TATATA
1 TATATA
86920877 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:86922205 original size:18 final size:19
Alignment explanation
Indices: 86922184--86922222 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
86922174 ATATATAGAT
86922184 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
86922202 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
86922221 AT
1 AT
86922223 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:86922572 original size:39 final size:39
Alignment explanation
Indices: 86922462--86922596 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
86922452 GACCTCGAGT
* * * *
86922462 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
86922503 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
86922541 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
86922580 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
86922597 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:86922739 original size:18 final size:19
Alignment explanation
Indices: 86922718--86922758 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
86922708 AATGAAATGA
86922718 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
86922736 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
86922755 GAAA
1 GAAA
86922759 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:86927254 original size:11 final size:11
Alignment explanation
Indices: 86927240--86927279 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
86927230 GTTTTCTCTA
*
86927240 TATTTTGCTAC
1 TATTTTGCTAT
*
86927251 TATTTTACTAT
1 TATTTTGCTAT
*
86927262 TATGTTGCTAT
1 TATTTTGCTAT
86927273 TATTTTG
1 TATTTTG
86927280 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.10, G:0.10, T:0.60
Consensus pattern (11 bp):
TATTTTGCTAT
Found at i:86928206 original size:81 final size:81
Alignment explanation
Indices: 86928062--86928223 Score: 243
Period size: 81 Copynumber: 2.0 Consensus size: 81
86928052 ACCTTCTTTT
* * * *
86928062 TAAATATATATAATTAACTTATTTGTTTTAGTTGGTCTGTTGTAACCTTTTATGTTTGCAAAATT
1 TAAATATATATAATTAACTTATTTATTTTAGTTGGACAGTTGTAACCTTTTATATTTGCAAAATT
* * *
86928127 TTCTCTCATGTATTTG
66 CTATCTCATGGATTTG
* *
86928143 TAAATATATATAATTAGCTTATTTATTTTAGTTGGACAGTTGTAACCTTTTATATTTGTAAAATT
1 TAAATATATATAATTAACTTATTTATTTTAGTTGGACAGTTGTAACCTTTTATATTTGCAAAATT
86928208 CTATCTCATGGATTTG
66 CTATCTCATGGATTTG
86928224 AGGTGTTTGT
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 72 1.00
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.50
Consensus pattern (81 bp):
TAAATATATATAATTAACTTATTTATTTTAGTTGGACAGTTGTAACCTTTTATATTTGCAAAATT
CTATCTCATGGATTTG
Found at i:86933380 original size:24 final size:25
Alignment explanation
Indices: 86933322--86933388 Score: 84
Period size: 24 Copynumber: 2.7 Consensus size: 25
86933312 AAAACGAAAC
86933322 AAAATAATATATATATAAAAACAATTT
1 AAAATAA-ATA-ATATAAAAACAATTT
* *
86933349 AAAGTAAATAATATGAAAA-AATTT
1 AAAATAAATAATATAAAAACAATTT
86933373 AAAATAAATAA-ATAAA
1 AAAATAAATAATATAAA
86933389 TTGCAAAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 4 0.11
24 15 0.42
25 8 0.22
26 3 0.08
27 6 0.17
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.28
Consensus pattern (25 bp):
AAAATAAATAATATAAAAACAATTT
Found at i:86935259 original size:41 final size:40
Alignment explanation
Indices: 86935203--86935326 Score: 131
Period size: 41 Copynumber: 3.0 Consensus size: 40
86935193 AAACGCCATA
* * * *
86935203 AAAAATTGAGAAATAGTGGCATTTTTGGTCTAAACGCCGCT
1 AAAAACTGAGCAATAGCGGCGTTTTTGGT-TAAACGCCGCT
* * *
86935244 AAAAACTGAGCAATAGCAGTGTTTCTGGTTCAAACGCCGCT
1 AAAAACTGAGCAATAGCGGCGTTTTTGGTT-AAACGCCGCT
* * **
86935285 AAAAACTGAACAATAGCGGCGCTTTTGGAGAAACGCCGCT
1 AAAAACTGAGCAATAGCGGCGTTTTTGGTTAAACGCCGCT
86935325 AA
1 AA
86935327 CGCCACTATA
Statistics
Matches: 68, Mismatches: 14, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
40 13 0.19
41 55 0.81
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (40 bp):
AAAAACTGAGCAATAGCGGCGTTTTTGGTTAAACGCCGCT
Found at i:86935390 original size:41 final size:41
Alignment explanation
Indices: 86935325--86935483 Score: 192
Period size: 41 Copynumber: 3.9 Consensus size: 41
86935315 AAACGCCGCT
* * *
86935325 AACGCCACTATAAATTGAGGTTTTAGCGGCGCTTTTGGAGA
1 AACGCCACTATAGATCGAGCTTTTAGCGGCGCTTTTGGAGA
* *
86935366 AACGCCACTATAGATCGAGCTTTTAACTGCGCTTTTGGAGA
1 AACGCCACTATAGATCGAGCTTTTAGCGGCGCTTTTGGAGA
* * *
86935407 AACGCCGCTATAGATCGAGCTGTTAGCGGCGCTTTTAGAGA
1 AACGCCACTATAGATCGAGCTTTTAGCGGCGCTTTTGGAGA
* ** * * *
86935448 AATGCTGCTATAGATTGAGCTTTTAGCAGTGCTTTT
1 AACGCCACTATAGATCGAGCTTTTAGCGGCGCTTTT
86935484 TAAAAAACGC
Statistics
Matches: 102, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 102 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (41 bp):
AACGCCACTATAGATCGAGCTTTTAGCGGCGCTTTTGGAGA
Found at i:86936084 original size:14 final size:14
Alignment explanation
Indices: 86936046--86936085 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
86936036 TGTTTATTAT
*
86936046 TTTAGGGTTTAAGA
1 TTTAAGGTTTAAGA
* *
86936060 TTTATGATTTAAGA
1 TTTAAGGTTTAAGA
86936074 TTTAAGGTTTAA
1 TTTAAGGTTTAA
86936086 TGTAGGGGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (14 bp):
TTTAAGGTTTAAGA
Found at i:86936603 original size:18 final size:17
Alignment explanation
Indices: 86936565--86936605 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
86936555 AGATAGTATT
86936565 AATT-TTAATATATTAA
1 AATTATTAATATATTAA
*
86936581 AATTATTAATATAGTTTA
1 AATTATTAATATA-TTAA
86936599 AATTATT
1 AATTATT
86936606 TAAGAGATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.18
17 8 0.36
18 10 0.45
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
AATTATTAATATATTAA
Found at i:86936608 original size:19 final size:18
Alignment explanation
Indices: 86936568--86936608 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
86936558 TAGTATTAAT
86936568 TTTAATATATTAAAATTA
1 TTTAATATATTAAAATTA
*
86936586 -TTAATATAGTTTAAATTA
1 TTTAATATA-TTAAAATTA
86936604 TTTAA
1 TTTAA
86936609 GAGATAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 8 0.40
18 8 0.40
19 4 0.20
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TTTAATATATTAAAATTA
Found at i:86941943 original size:31 final size:32
Alignment explanation
Indices: 86941905--86941984 Score: 98
Period size: 31 Copynumber: 2.6 Consensus size: 32
86941895 TTGCTGTATT
86941905 TTATTTATATTTATATTT-AATCTA-ATTTTTA
1 TTATTTAT-TTTATATTTGAATCTATATTTTTA
*
86941936 TTATTTATTTTAGT-TTTGATTCTATATTTTTA
1 TTATTTATTTTA-TATTTGAATCTATATTTTTA
86941968 TT-TTTATTTTA-ATTTGA
1 TTATTTATTTTATATTTGA
86941985 TAATGAATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
30 12 0.27
31 23 0.52
32 9 0.20
ACGTcount: A:0.26, C:0.03, G:0.04, T:0.68
Consensus pattern (32 bp):
TTATTTATTTTATATTTGAATCTATATTTTTA
Found at i:86941952 original size:19 final size:19
Alignment explanation
Indices: 86941929--86941975 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
86941919 ATTTAATCTA
*
86941929 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
86941947 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
86941967 ATTTTTATT
1 ATTTTTATT
86941976 TTAATTTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:86942097 original size:10 final size:10
Alignment explanation
Indices: 86942082--86942106 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
86942072 TTTCACGACC
86942082 TTTTATAATA
1 TTTTATAATA
86942092 TTTTATAATA
1 TTTTATAATA
86942102 TTTTA
1 TTTTA
86942107 GTTTTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTATAATA
Found at i:86942128 original size:46 final size:50
Alignment explanation
Indices: 86942037--86942130 Score: 124
Period size: 48 Copynumber: 1.9 Consensus size: 50
86942027 TATTCTTCTC
*
86942037 AATATTTTGATAATGAATTTTAATTTTTTTATATTTTTCACGACCTTTTAT
1 AATATTTTGATAAT-AATTTTAATTTTTTTATATATTTCACGACCTTTTAT
* *
86942088 AATATTTT-ATAAT-ATTTTAGTTTTTTTA-A-ATTTCATGACCTTT
1 AATATTTTGATAATAATTTTAATTTTTTTATATATTTCACGACCTTT
86942131 AGTAGCGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
46 12 0.30
47 1 0.03
48 14 0.35
50 5 0.12
51 8 0.20
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.57
Consensus pattern (50 bp):
AATATTTTGATAATAATTTTAATTTTTTTATATATTTCACGACCTTTTAT
Found at i:86947321 original size:30 final size:30
Alignment explanation
Indices: 86947280--86947337 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
86947270 GTTTTTGACC
*
86947280 CACATGGCCTGGCCACACGGATGTGTGGAG
1 CACACGGCCTGGCCACACGGATGTGTGGAG
*
86947310 CACACGGCCTGGCCACACGGGTGTGTGG
1 CACACGGCCTGGCCACACGGATGTGTGG
86947338 GATCTCACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.17, C:0.29, G:0.38, T:0.16
Consensus pattern (30 bp):
CACACGGCCTGGCCACACGGATGTGTGGAG
Found at i:86947713 original size:24 final size:25
Alignment explanation
Indices: 86947686--86947739 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
86947676 TTATACTTAT
**
86947686 ATTTTTAAATTTTTTTA-AATTTTA
1 ATTTTTAAATACTTTTATAATTTTA
* *
86947710 ATTTTTATATACTTTTATTATTTTA
1 ATTTTTAAATACTTTTATAATTTTA
86947735 ATTTT
1 ATTTT
86947740 AATTTTAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (25 bp):
ATTTTTAAATACTTTTATAATTTTA
Found at i:86947846 original size:18 final size:18
Alignment explanation
Indices: 86947823--86947876 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
86947813 TTACCTTTTA
86947823 AGTTTATTGA-TATTATTG
1 AGTTTATT-ATTATTATTG
*
86947841 AGTTTATTATTATTATTT
1 AGTTTATTATTATTATTG
*
86947859 ATTATTATTATTATTATT
1 AGT-TTATTATTATTATT
86947877 ATTATTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
17 1 0.03
18 17 0.53
19 14 0.44
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (18 bp):
AGTTTATTATTATTATTG
Found at i:86947850 original size:3 final size:3
Alignment explanation
Indices: 86947844--86947886 Score: 70
Period size: 3 Copynumber: 14.3 Consensus size: 3
86947834 ATTATTGAGT
86947844 TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
86947887 CTTTCTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:86948923 original size:13 final size:12
Alignment explanation
Indices: 86948902--86948934 Score: 57
Period size: 13 Copynumber: 2.7 Consensus size: 12
86948892 GTTCTCCAAA
86948902 AAAAAAAAAGTG
1 AAAAAAAAAGTG
86948914 AAATAAAAAAGTG
1 AAA-AAAAAAGTG
86948927 AAAAAAAA
1 AAAAAAAA
86948935 TACATTTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (12 bp):
AAAAAAAAAGTG
Found at i:86949777 original size:30 final size:30
Alignment explanation
Indices: 86949736--86949796 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
86949726 GAGTTTTCAG
86949736 GATCCACACGGGCAGGCCAAACACCCATGT
1 GATCCACACGGGCAGGCCAAACACCCATGT
* * * *
86949766 GATCTACACGGGTAGGCCACACGCCCATGT
1 GATCCACACGGGCAGGCCAAACACCCATGT
86949796 G
1 G
86949797 TCAGCCCGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.26, C:0.34, G:0.26, T:0.13
Consensus pattern (30 bp):
GATCCACACGGGCAGGCCAAACACCCATGT
Found at i:86959146 original size:19 final size:20
Alignment explanation
Indices: 86959118--86959156 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
86959108 GAAAAAATAG
*
86959118 TTATAATTTTTA-ATTATTT
1 TTATAATTTTAATATTATTT
*
86959137 TTATATTTTTAATATTATTT
1 TTATAATTTTAATATTATTT
86959157 AAAACTTCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TTATAATTTTAATATTATTT
Found at i:86966780 original size:27 final size:26
Alignment explanation
Indices: 86966725--86966780 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
86966715 TTATTTTTCA
* *
86966725 TTTTCCTTTTCTTCTTCCCTTTTTAT
1 TTTTCCTTTTCTCCTTCCCTCTTTAT
* *
86966751 TTTTCTCTTTTCTCCTTTCCTCTTTGT
1 TTTTC-CTTTTCTCCTTCCCTCTTTAT
86966778 TTT
1 TTT
86966781 CCTCCCATCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.70
Consensus pattern (26 bp):
TTTTCCTTTTCTCCTTCCCTCTTTAT
Found at i:86966845 original size:137 final size:139
Alignment explanation
Indices: 86966604--86966897 Score: 479
Period size: 137 Copynumber: 2.1 Consensus size: 139
86966594 GTTCTTTGAA
* *
86966604 CTTTTT-TTTTCTATTTTCTTCTCCTTCCCTCTCTATTTTCCTCCCATCTTTATTTTTTTAAACA
1 CTTTTTATTTTCTCTCTT-TTCTCCTTCCCTCTCTATTTTCCTCCCATCTTTATTTTTTTAAACA
86966668 TAGTTTTTCTATGTTTTTCATTTGTTAAAACCAGTCCCTATACTTTTTTATTTTTCATTTTCCTT
65 TAGTTTTTCTATGTTTTTCATTTGTTAAAACCAGTCCCTATACTTTTTTATTTTTCATTTTCCTT
86966733 TTCTTCTTCC
130 TTCTTCTTCC
* * * **
86966743 CTTTTTATTTT-TCTCTTTTCTCCTTTCCTCTTTGTTTTCCTCCCATCTTTA-TTTTTTAAATGT
1 CTTTTTATTTTCTCTCTTTTCTCCTTCCCTCTCTATTTTCCTCCCATCTTTATTTTTTTAAACAT
86966806 AGTTTTTCTATG-TTTTCTATTTGTTAAAACCAGTCCCTATACTTTTTTATTTTTCATTTTCCTT
66 AGTTTTTCTATGTTTTTC-ATTTGTTAAAACCAGTCCCTATACTTTTTTATTTTTCATTTTCCTT
86966870 TTCTTCTTCC
130 TTCTTCTTCC
86966880 CTTTTTATTTTCTCTCTT
1 CTTTTTATTTTCTCTCTT
86966898 CTCATATTAT
Statistics
Matches: 145, Mismatches: 7, Indels: 7
0.91 0.04 0.04
Matches are distributed among these distances:
136 5 0.03
137 89 0.61
138 37 0.26
139 10 0.07
140 4 0.03
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.61
Consensus pattern (139 bp):
CTTTTTATTTTCTCTCTTTTCTCCTTCCCTCTCTATTTTCCTCCCATCTTTATTTTTTTAAACAT
AGTTTTTCTATGTTTTTCATTTGTTAAAACCAGTCCCTATACTTTTTTATTTTTCATTTTCCTTT
TCTTCTTCC
Found at i:86974754 original size:17 final size:17
Alignment explanation
Indices: 86974732--86974764 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
86974722 TAAGCTCTAA
*
86974732 GTATTTATTTATTTTTG
1 GTATTTATATATTTTTG
86974749 GTATTTATATATTTTT
1 GTATTTATATATTTTT
86974765 TAGTTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (17 bp):
GTATTTATATATTTTTG
Found at i:86977338 original size:16 final size:17
Alignment explanation
Indices: 86977306--86977338 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
86977296 GGGCAACTTT
*
86977306 TTATTTTCTCCCTTATA
1 TTATTTTCTCCCCTATA
86977323 TTATTTT-TCCCCTATA
1 TTATTTTCTCCCCTATA
86977339 AATAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.18, C:0.24, G:0.00, T:0.58
Consensus pattern (17 bp):
TTATTTTCTCCCCTATA
Found at i:86978367 original size:2 final size:2
Alignment explanation
Indices: 86978315--86978352 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
86978305 CTCATGTCTT
86978315 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
86978353 ATAAAAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:86981481 original size:22 final size:21
Alignment explanation
Indices: 86981455--86981510 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
86981445 GTTATTTTCC
86981455 ATATTATATATTAAATTAACAT
1 ATATTAT-TATTAAATTAACAT
** *
86981477 ATATTATTATTACTTTAACTT
1 ATATTATTATTAAATTAACAT
86981498 ATTATTATTATTA
1 A-TATTATTATTA
86981511 TTTTGTTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 12 0.40
22 18 0.60
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (21 bp):
ATATTATTATTAAATTAACAT
Found at i:86981486 original size:3 final size:3
Alignment explanation
Indices: 86981478--86982129 Score: 202
Period size: 3 Copynumber: 216.3 Consensus size: 3
86981468 AATTAACATA
* * *
86981478 TAT TAT TAT TACT T-T AACT TAT TAT TAT TAT TAT T-T TGT TAA TAT
1 TAT TAT TAT TA-T TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
86981523 TAC TAT TAT AAT TA- TAT T-T TAT TTT TGT GTATT TATT TAT TCAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TA-T TA-T TAT T-AT TAT
* * *
86981569 TAT TAT TAAT TCAT TAAT T-T T-T TAT TAT TAA CA- TAT TCT TAT TAT
1 TAT TAT T-AT T-AT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
86981614 TTT TAT TAAT GTAT TAG TAT TAT TAT ATAT TAGT GTA- TAT TTT TAT
1 TAT TAT T-AT -TAT TAT TAT TAT TAT -TAT TA-T -TAT TAT TAT TAT
* * *
86981660 TAT ATAT GTA- TAT GTA- TAT ATATT TAT ATAG TAT TAT TTT TAAT TAC
1 TAT -TAT -TAT TAT -TAT TAT -TA-T TAT -TAT TAT TAT TAT T-AT TAT
* **
86981707 T-T TAT T-T TAA TAT T-T TAT TA- TAT TAT ATAT GCT T-T T-T GTAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT -TAT
* * * *
86981748 T-T CAA TAC TAT TAC TAT TAT TAT TAT TAT TAT ATAT TAGT GTA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA-T -TAT TAT
* *
86981794 TTT TAT TAT ATAT GTA- TAT GTA- TAT ATAT T-T ATAT ATAG TAT TAT
1 TAT TAT TAT -TAT -TAT TAT -TAT TAT -TAT TAT -TAT -TAT TAT TAT
* * * **
86981839 TTT TAAT TAC T-T TAT T-T TAA TAT T-T TAT TA- TAT TAT ATAT GCT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
* * * *
86981882 T-T T-T GTAT T-T CAA TAC TAT TAC TAT TAT TAT TAT TAT TAT ATAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
86981926 TAGT GTA- TAT T-T T-T TAT TAT ATAT GTA- TAT GTA- TAT ATAT T-T
1 TA-T -TAT TAT TAT TAT TAT TAT -TAT -TAT TAT -TAT TAT -TAT TAT
* * * * *
86981968 ATAT ATAG TAT TAT TTT TAAT TAC T-T TAT T-T TAA TAT TTT TAT TA-
1 -TAT -TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
** * *
86982013 TAT TA- TAT T-T GCT T-T T-T GTAT T-T CAA TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
86982054 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
86982102 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
86982130 GTAATAGGCC
Statistics
Matches: 491, Mismatches: 82, Indels: 152
0.68 0.11 0.21
Matches are distributed among these distances:
2 72 0.15
3 315 0.64
4 95 0.19
5 9 0.02
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:86981519 original size:25 final size:23
Alignment explanation
Indices: 86981478--86981536 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
86981468 AATTAACATA
*
86981478 TATTATTATTACTTTAACTTATTAT
1 TATTATTATTACTTTAA--TATTAC
*
86981503 TATTATTATT-TTGTTAATATTAC
1 TATTATTATTACT-TTAATATTAC
*
86981526 TATTATAATTA
1 TATTATTATTA
86981537 TATTTTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 14 0.48
24 1 0.03
25 14 0.48
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (23 bp):
TATTATTATTACTTTAATATTAC
Found at i:86981675 original size:25 final size:23
Alignment explanation
Indices: 86981617--86981837 Score: 70
Period size: 23 Copynumber: 9.2 Consensus size: 23
86981607 TTATTATTTT
* *
86981617 TATTAATGTATTAGTATTATTATA
1 TATTAATGTA-TATTTTTATTATA
*
86981641 TATTAGTGTATATTTTTATTATA
1 TATTAATGTATATTTTTATTATA
* *
86981664 TATGTATATGTATATATAT-TTATA
1 TAT-TA-ATGTATATTTTTATTATA
* * *
86981688 TAGT-AT-TAT-TTTTAATTACTT
1 TATTAATGTATATTTTTATTA-TA
86981709 TATT--T-TA-ATATTTTATTATA
1 TATTAATGTATAT-TTTTATTATA
*
86981729 T-TATATATGCT-T-TTTGTATTTCAATA
1 TAT-TA-ATG-TATATTTTTA-TT--ATA
*
86981755 CTATTACTAT-TATTATTATTATTATA
1 -TATTA--ATGTA-TATTTTTATTATA
*
86981781 TATTAGTGTATATTTTTATTATA
1 TATTAATGTATATTTTTATTATA
86981804 TATGTATATGTATATATATTTATATATA
1 TAT-TA-ATGTATAT-T-TTTAT-TATA
86981832 GTATTA
1 -TATTA
86981838 TTTTTAATTA
Statistics
Matches: 148, Mismatches: 20, Indels: 54
0.67 0.09 0.24
Matches are distributed among these distances:
19 3 0.02
20 13 0.09
21 13 0.09
23 36 0.24
24 25 0.17
25 22 0.15
26 8 0.05
27 8 0.05
28 13 0.09
29 7 0.05
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.58
Consensus pattern (23 bp):
TATTAATGTATATTTTTATTATA
Found at i:86982070 original size:143 final size:142
Alignment explanation
Indices: 86981625--86982086 Score: 817
Period size: 142 Copynumber: 3.3 Consensus size: 142
86981615 TTTATTAATG
*
86981625 TATTAGTATTATTATATATTAGTGTATATTTTTATTATATATGTATATGTATATATA-TT-TATA
1 TATTATTATTATTATATATTAGTGTATATTTTTATTATATATGTATATGTATATATATTTATATA
86981688 TAGTATTATTTTTAATTACTTTATTTTAATATTTTATTATATTATATATGCTTTTTGTATTTCAA
66 TAGTATTATTTTTAATTACTTTATTTTAATATTTTATTATATTATATATGCTTTTTGTATTTCAA
86981753 TACTATTACTAT
131 TACTATTACTAT
86981765 TATTATTATTATTATATATTAGTGTATATTTTTATTATATATGTATATGTATATATATTTATATA
1 TATTATTATTATTATATATTAGTGTATATTTTTATTATATATGTATATGTATATATATTTATATA
86981830 TAGTATTATTTTTAATTACTTTATTTTAATATTTTATTATATTATATATGCTTTTTGTATTTCAA
66 TAGTATTATTTTTAATTACTTTATTTTAATATTTTATTATATTATATATGCTTTTTGTATTTCAA
86981895 TACTATTACTAT
131 TACTATTACTAT
86981907 TATTATTATTATTATATATTAGTGTATATTTTTTATTATATATGTATATGTATATATATTTATAT
1 TATTATTATTATTATATATTAGTGTATA-TTTTTATTATATATGTATATGTATATATATTTATAT
*
86981972 ATAGTATTATTTTTAATTACTTTATTTTAATATTTTTATTATATTATATTTGCTTTTTGTATTTC
65 ATAGTATTATTTTTAATTACTTTATTTTAATA-TTTTATTATATTATATATGCTTTTTGTATTTC
* *
86982037 AATATTATTATTAT
129 AATACTATTACTAT
*
86982051 TATTATTATTATTAT-TATTA-T-TATTATTATTATTAT
1 TATTATTATTATTATATATTAGTGTA-TATTTTTATTAT
86982087 TATTATTATT
Statistics
Matches: 312, Mismatches: 5, Indels: 9
0.96 0.02 0.03
Matches are distributed among these distances:
140 56 0.18
141 13 0.04
142 112 0.36
143 73 0.23
144 58 0.19
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (142 bp):
TATTATTATTATTATATATTAGTGTATATTTTTATTATATATGTATATGTATATATATTTATATA
TAGTATTATTTTTAATTACTTTATTTTAATATTTTATTATATTATATATGCTTTTTGTATTTCAA
TACTATTACTAT
Found at i:86983503 original size:29 final size:25
Alignment explanation
Indices: 86983478--86983528 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
86983468 TCCTTTATAT
86983478 ATATATTATATAATTTATTTATTTTAA
1 ATATATTATAT-A-TTATTTATTTTAA
* *
86983505 ATATTTTGTATATTATTTATTTTA
1 ATATATTATATATTATTTATTTTA
86983529 CTTTAAACCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 12 0.55
26 1 0.05
27 9 0.41
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
ATATATTATATATTATTTATTTTAA
Found at i:86983547 original size:30 final size:28
Alignment explanation
Indices: 86983483--86983547 Score: 67
Period size: 30 Copynumber: 2.2 Consensus size: 28
86983473 TATATATATA
* *
86983483 TTATATAATTTATTTATTTTAAATATTT
1 TTATATAATTTATTTACTTTAAACATTT
* *
86983511 TGTATATTATTTATTTTACTTTAAACCTTAT
1 T-TATATAATTTA-TTTACTTTAAACATT-T
86983542 TTATAT
1 TTATAT
86983548 GTAAAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 1 0.03
29 10 0.33
30 17 0.57
31 2 0.07
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (28 bp):
TTATATAATTTATTTACTTTAAACATTT
Found at i:86983572 original size:12 final size:12
Alignment explanation
Indices: 86983557--86983631 Score: 61
Period size: 12 Copynumber: 6.2 Consensus size: 12
86983547 TGTAAAAAAA
86983557 TATTTATTTTAT
1 TATTTATTTTAT
86983569 TATTT-TTTTAT
1 TATTTATTTTAT
86983580 GTA-TTA-TTTAT
1 -TATTTATTTTAT
86983591 TATATTA-TTTA-
1 TAT-TTATTTTAT
86983602 TATTTTATTGTATAT
1 TA-TTTATT-T-TAT
*
86983617 TATTTATTATAT
1 TATTTATTTTAT
86983629 TAT
1 TAT
86983632 GTATAATTTT
Statistics
Matches: 53, Mismatches: 1, Indels: 18
0.74 0.01 0.25
Matches are distributed among these distances:
10 2 0.04
11 18 0.34
12 22 0.42
13 1 0.02
14 8 0.15
15 2 0.04
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (12 bp):
TATTTATTTTAT
Found at i:86983598 original size:19 final size:19
Alignment explanation
Indices: 86983576--86983640 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
86983566 TATTATTTTT
86983576 TTATGTATTATTTATTATA
1 TTATGTATTATTTATTATA
*
86983595 TTATTTA-TA-TT-TTAT-
1 TTATGTATTATTTATTATA
86983610 TGTA--TATTATTTATTATA
1 T-TATGTATTATTTATTATA
*
86983628 TTATGTATAATTT
1 TTATGTATTATTT
86983641 TAAAATTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
14 2 0.05
15 3 0.08
16 8 0.22
17 8 0.22
18 3 0.08
19 13 0.35
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.65
Consensus pattern (19 bp):
TTATGTATTATTTATTATA
Found at i:86983599 original size:30 final size:32
Alignment explanation
Indices: 86983560--86983642 Score: 98
Period size: 33 Copynumber: 2.6 Consensus size: 32
86983550 AAAAAAATAT
* *
86983560 TTATTTTATTAT-TTTT-TTATGTATTATTTA
1 TTATATTATTATATTTTATTATATATTATTTA
*
86983590 TTATATTATTTATATTTTATTGTATATTATTTA
1 TTATATTA-TTATATTTTATTATATATTATTTA
86983623 TTATATTATGTATAATTTTA
1 TTATATTAT-TAT-ATTTTA
86983643 AAATTTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
30 7 0.16
31 4 0.09
32 5 0.11
33 23 0.51
34 6 0.13
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (32 bp):
TTATATTATTATATTTTATTATATATTATTTA
Found at i:86983695 original size:15 final size:15
Alignment explanation
Indices: 86983656--86983696 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
86983646 TTTTAAAATT
86983656 ATTATTAAATATTAC
1 ATTATTAAATATTAC
* *
86983671 ATTTTTATATA-T-C
1 ATTATTAAATATTAC
86983684 ATTATTAAATATT
1 ATTATTAAATATT
86983697 TAGTATGTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
13 10 0.48
14 2 0.10
15 9 0.43
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTATTAAATATTAC
Found at i:86984041 original size:18 final size:18
Alignment explanation
Indices: 86984018--86984060 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
86984008 TATCTCATAA
86984018 ATTATTTGTTATTTTTAT
1 ATTATTTGTTATTTTTAT
*
86984036 ATTATTTATTATTTTTAT
1 ATTATTTGTTATTTTTAT
86984054 A-TATTTG
1 ATTATTTG
86984061 CATGAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (18 bp):
ATTATTTGTTATTTTTAT
Found at i:86984157 original size:71 final size:73
Alignment explanation
Indices: 86984082--86984217 Score: 179
Period size: 71 Copynumber: 1.9 Consensus size: 73
86984072 ATTATTTATG
* *
86984082 TTGTTATTTTAAGTTATA-TTTGCATGAAATATTATTGTATATATA-TTATGTAATTTAT-ATTA
1 TTGTT-TTCTAAGTTATATTTTGCATGAAATATTAATGTATATATATTTATGTAATTTATGATTA
86984144 TTATATTCA
65 TTATATTCA
* * * * *
86984153 TTGTTTTCTATGTTGTATTTTGCATGAAATGTTAATGTATGTATATTTATGTTATTTATGATTAT
1 TTGTTTTCTAAGTTATATTTTGCATGAAATATTAATGTATATATATTTATGTAATTTATGATTAT
86984218 ATTTGCATGA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
70 9 0.16
71 29 0.53
72 12 0.22
73 5 0.09
ACGTcount: A:0.29, C:0.03, G:0.12, T:0.56
Consensus pattern (73 bp):
TTGTTTTCTAAGTTATATTTTGCATGAAATATTAATGTATATATATTTATGTAATTTATGATTAT
TATATTCA
Found at i:86984198 original size:49 final size:48
Alignment explanation
Indices: 86984145--86984244 Score: 132
Period size: 48 Copynumber: 2.1 Consensus size: 48
86984135 TTTATATTAT
* *
86984145 TATATTCATTGTT-TTCTATG-TTGTATTTTGCATGAAATGTTAATGTATG
1 TATATTCA-TGTTATT-TATGATTATA-TTTGCATGAAATGTTAAAGTATG
*
86984194 TATATTTATGTTATTTATGATTATATTTGCATGAAATGTTAAAGTATG
1 TATATTCATGTTATTTATGATTATATTTGCATGAAATGTTAAAGTATG
86984242 TAT
1 TAT
86984245 CATGTAGTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
48 33 0.72
49 13 0.28
ACGTcount: A:0.29, C:0.04, G:0.15, T:0.52
Consensus pattern (48 bp):
TATATTCATGTTATTTATGATTATATTTGCATGAAATGTTAAAGTATG
Found at i:86984263 original size:42 final size:46
Alignment explanation
Indices: 86984171--86984261 Score: 116
Period size: 48 Copynumber: 2.0 Consensus size: 46
86984161 TATGTTGTAT
* *
86984171 TTTGCATGAAATGTTAATGTATGTATATTTATGTTATTTATGATTATA
1 TTTGCATGAAATGTTAAAGTATGTATATGTATG-T-TTTATGATTATA
86984219 TTTGCATGAAATGTTAAAGTATGTATCATGTA-G-TTTAT-ATTAT
1 TTTGCATGAAATGTTAAAGTATGTAT-ATGTATGTTTTATGATTAT
86984262 TTAGTATTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
44 5 0.12
45 5 0.12
48 26 0.65
49 4 0.10
ACGTcount: A:0.32, C:0.03, G:0.15, T:0.49
Consensus pattern (46 bp):
TTTGCATGAAATGTTAAAGTATGTATATGTATGTTTTATGATTATA
Found at i:86988464 original size:9 final size:9
Alignment explanation
Indices: 86988447--86988483 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
86988437 TGAGTTTTCG
86988447 AATTCGAAT
1 AATTCGAAT
*
86988456 AACTCGAAT
1 AATTCGAAT
86988465 AATTCGAAT
1 AATTCGAAT
86988474 AATTCGAAT
1 AATTCGAAT
86988483 A
1 A
86988484 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:86996986 original size:45 final size:44
Alignment explanation
Indices: 86996844--86997110 Score: 295
Period size: 45 Copynumber: 6.0 Consensus size: 44
86996834 TCCTCTAGAA
* * * * *
86996844 AGCAAATTTGGTGTCTCTGTATTGATGGAGAGCAGATCAAAGTT
1 AGCAGATTTGGCGTCTCTGTATTGACGGGGAGCAGATCAAAGAT
* * *
86996888 AGCAGATTTGGTGTCTCTGTATTGACGGAGAGCAGATCGAAGGA-
1 AGCAGATTTGGCGTCTCTGTATTGACGGGGAGCAGATC-AAAGAT
86996932 AGCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGAT
1 AGCAGATTTGGCGTCTCTGTATT-GACGGGGAGCAGATCAAAGAT
* * *
86996977 AGTAAATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGAT
1 AGCAGATTTGGCGTCTCTGTATT-GACGGGGAGCAGATCAAAGAT
* * ** * * *
86997022 AACAGATTTGGCATCTCCATATTGA-TGGGAGCAAATCGAAGAT
1 AGCAGATTTGGCGTCTCTGTATTGACGGGGAGCAGATCAAAGAT
* * *
86997065 AGCAGATTTGGCGTCTCTATATTAGACGGGGTGCAAATCAAAGAT
1 AGCAGATTTGGCGTCTCTGTATT-GACGGGGAGCAGATCAAAGAT
86997110 A
1 A
86997111 TCAGCATGGT
Statistics
Matches: 194, Mismatches: 24, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
43 36 0.19
44 66 0.34
45 92 0.47
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (44 bp):
AGCAGATTTGGCGTCTCTGTATTGACGGGGAGCAGATCAAAGAT
Found at i:86997088 original size:88 final size:88
Alignment explanation
Indices: 86996863--86997110 Score: 302
Period size: 88 Copynumber: 2.8 Consensus size: 88
86996853 GGTGTCTCTG
* * *
86996863 TATTGATGGAGAGCAGATCAAAGTTAGCAGATTTGGTGTCTCTGTATT-GACGGAGAGCAGATCG
1 TATTGATGG-GAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCG
* * **
86996927 AAGGA-AGCAGATTTGGCGTCTCTG
65 AA-GATAACAGATTTGGCATCTCCA
* * *
86996951 TATTAGACGGGGAGCAGATCAAAGATAGTAAATTTGGCGTCTCTGTATTAGACGGGGAGCAGATC
1 TATT-GA-TGGGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATC
86997016 GAAGATAACAGATTTGGCATCTCCA
64 GAAGATAACAGATTTGGCATCTCCA
* * * * * *
86997041 TATTGATGGGAGCAAATCGAAGATAGCAGATTTGGCGTCTCTATATTAGACGGGGTGCAAATCAA
1 TATTGATGGGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGA
86997106 AGATA
66 AGATA
86997111 TCAGCATGGT
Statistics
Matches: 137, Mismatches: 19, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
88 59 0.43
89 40 0.29
90 38 0.28
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (88 bp):
TATTGATGGGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGA
AGATAACAGATTTGGCATCTCCA
Found at i:86997088 original size:133 final size:133
Alignment explanation
Indices: 86996847--86997110 Score: 361
Period size: 133 Copynumber: 2.0 Consensus size: 133
86996837 TCTAGAAAGC
* * * * ** **
86996847 AAATTTGGTGTCTCTGTATTGATGGAGAGCAGATCAAAGTTAGCAGATTTGGTGTCTCTGTATTG
1 AAATTTGGCGTCTCTGTATTGACGGAGAGCAGATCAAAGATAACAGATTTGGCATCTCCATATTG
* * *
86996912 ACGGAGAGCAGATCGAAGGAAGCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGAT
66 ACGGAGAGCAAATCGAAGGAAGCAGATTTGGCGTCTCTATATTAGACGGGGAGCAAATCAAAGAT
86996977 AGT
131 AGT
* *
86996980 AAATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATTTGGCATCTCCATATT
1 AAATTTGGCGTCTCTGTATT-GACGGAGAGCAGATCAAAGATAACAGATTTGGCATCTCCATATT
* *
86997045 GATGG-GAGCAAATCGAA-GATAGCAGATTTGGCGTCTCTATATTAGACGGGGTGCAAATCAAAG
65 GACGGAGAGCAAATCGAAGGA-AGCAGATTTGGCGTCTCTATATTAGACGGGGAGCAAATCAAAG
86997108 ATA
129 ATA
86997111 TCAGCATGGT
Statistics
Matches: 114, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
132 2 0.02
133 73 0.64
134 39 0.34
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (133 bp):
AAATTTGGCGTCTCTGTATTGACGGAGAGCAGATCAAAGATAACAGATTTGGCATCTCCATATTG
ACGGAGAGCAAATCGAAGGAAGCAGATTTGGCGTCTCTATATTAGACGGGGAGCAAATCAAAGAT
AGT
Found at i:86998609 original size:25 final size:25
Alignment explanation
Indices: 86998575--86998629 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
86998565 TTTTAATCCT
*
86998575 TTTTATATATTATATA-ATTTATTTA
1 TTTTAAATATTATATATA-TTATTTA
* *
86998600 TTTTAAATATTTTGTATATTATTTA
1 TTTTAAATATTATATATATTATTTA
86998625 TTTTA
1 TTTTA
86998630 CTTTAAACCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (25 bp):
TTTTAAATATTATATATATTATTTA
Found at i:86998648 original size:30 final size:28
Alignment explanation
Indices: 86998584--86998648 Score: 67
Period size: 30 Copynumber: 2.2 Consensus size: 28
86998574 TTTTTATATA
* *
86998584 TTATATAATTTATTTATTTTAAATATTT
1 TTATATAATTTATTTACTTTAAACATTT
* *
86998612 TGTATATTATTTATTTTACTTTAAACCTTAT
1 T-TATATAATTTA-TTTACTTTAAACATT-T
86998643 TTATAT
1 TTATAT
86998649 GTAAAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 1 0.03
29 10 0.33
30 17 0.57
31 2 0.07
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (28 bp):
TTATATAATTTATTTACTTTAAACATTT
Found at i:86998698 original size:19 final size:19
Alignment explanation
Indices: 86998676--86998740 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
86998666 TTATTATTTT
86998676 TTATGTATTATTTATTATA
1 TTATGTATTATTTATTATA
*
86998695 TTATTTA-TA-TT-TTAT-
1 TTATGTATTATTTATTATA
86998710 TGTA--TATTATTTATTATA
1 T-TATGTATTATTTATTATA
*
86998728 TTATGTATAATTT
1 TTATGTATTATTT
86998741 TAAAATTTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
14 2 0.05
15 3 0.08
16 8 0.22
17 8 0.22
18 3 0.08
19 13 0.35
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.65
Consensus pattern (19 bp):
TTATGTATTATTTATTATA
Found at i:86998702 original size:33 final size:34
Alignment explanation
Indices: 86998665--86998742 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 34
86998655 AAATATTTAT
*
86998665 TTTATTATTTT-TTATGTATTATTTATTATATTA
1 TTTATTATTTTATTATATATTATTTATTATATTA
*
86998698 TTTA-TATTTTATTGTATATTATTTATTATATTA
1 TTTATTATTTTATTATATATTATTTATTATATTA
* *
86998731 TGTATAATTTTA
1 TTTATTATTTTA
86998743 AAATTTCAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
32 6 0.15
33 27 0.69
34 6 0.15
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (34 bp):
TTTATTATTTTATTATATATTATTTATTATATTA
Found at i:86998710 original size:26 final size:28
Alignment explanation
Indices: 86998658--86998740 Score: 88
Period size: 26 Copynumber: 3.2 Consensus size: 28
86998648 TGTAAAAAAA
*
86998658 TATTTATTTTATTATTT-T-TTATGTAT
1 TATTTATTATATTATTTATATTATGTAT
86998684 TATTTATTATATTATTTATATT-T-TAT
1 TATTTATTATATTATTTATATTATGTAT
* *
86998710 TGTATATTAT-TTA-TTATATTATGTAT
1 TATTTATTATATTATTTATATTATGTAT
*
86998736 AATTT
1 TATTT
86998741 TAAAATTTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
24 7 0.15
25 4 0.09
26 32 0.68
27 2 0.04
28 2 0.04
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (28 bp):
TATTTATTATATTATTTATATTATGTAT
Found at i:86998724 original size:7 final size:7
Alignment explanation
Indices: 86998665--86998731 Score: 59
Period size: 7 Copynumber: 9.7 Consensus size: 7
86998655 AAATATTTAT
86998665 TTTATTA
1 TTTATTA
*
86998672 TTTTTTA
1 TTTATTA
*
86998679 TGTATTA
1 TTTATTA
86998686 TTTATTA
1 TTTATTA
86998693 --TATTA
1 TTTATTA
86998698 TTTA-TA
1 TTTATTA
*
86998704 TTTTATTG
1 -TTTATTA
*
86998712 TATATTA
1 TTTATTA
86998719 TTTATTA
1 TTTATTA
86998726 TATTAT
1 T-TTAT
86998732 GTATAATTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
5 5 0.11
6 2 0.04
7 35 0.74
8 5 0.11
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (7 bp):
TTTATTA
Found at i:86998724 original size:14 final size:13
Alignment explanation
Indices: 86998658--86998731 Score: 58
Period size: 12 Copynumber: 6.2 Consensus size: 13
86998648 TGTAAAAAAA
86998658 TATTTATTT-TAT
1 TATTTATTTATAT
*
86998670 TATTT-TTTAT-G
1 TATTTATTTATAT
86998681 TA-TTA-TT-TAT
1 TATTTATTTATAT
86998691 TATATTATTTATA-
1 TAT-TTATTTATAT
86998704 T-TTTATTGTATAT
1 TATTTATT-TATAT
86998717 TATTTA-TTATAT
1 TATTTATTTATAT
86998729 TAT
1 TAT
86998732 GTATAATTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 20
0.69 0.03 0.28
Matches are distributed among these distances:
9 1 0.02
10 6 0.12
11 10 0.20
12 22 0.44
13 5 0.10
14 6 0.12
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (13 bp):
TATTTATTTATAT
Found at i:86998795 original size:15 final size:15
Alignment explanation
Indices: 86998756--86998796 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
86998746 TTTCAAAATT
86998756 ATTATTAAATATTAC
1 ATTATTAAATATTAC
* *
86998771 ATTTTTATATA-T-C
1 ATTATTAAATATTAC
86998784 ATTATTAAATATT
1 ATTATTAAATATT
86998797 TAGTATGTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
13 10 0.48
14 2 0.10
15 9 0.43
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTATTAAATATTAC
Found at i:87008291 original size:75 final size:74
Alignment explanation
Indices: 87008127--87008356 Score: 275
Period size: 75 Copynumber: 3.2 Consensus size: 74
87008117 GGTATCCTGA
** *
87008127 TATTTTTA-TTTCTGTTTTTCAAAAAAATCAACTCATATTGTAAGAGGTGAGTTGAGTCTCGGGT
1 TATTTTTAGTTTCT-TTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
*
87008191 CACACGCCGAGG
63 CACACGCTGAGG
* *
87008203 TATTTTCAATTTCTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
1 TATTTTTAGTTTC-TTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
87008268 CACGCTGAGG
65 CACGCTGAGG
*
87008278 TATTTTTAGTTTC-----T-----ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCAC
1 TATTTTTAGTTTCTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
87008333 ACGCTGAGG
66 ACGCTGAGG
87008342 TATTTTTTAGTTTCT
1 TA-TTTTTAGTTTCT
87008357 ATCAACTCAT
Statistics
Matches: 142, Mismatches: 8, Indels: 18
0.85 0.05 0.11
Matches are distributed among these distances:
64 51 0.36
65 11 0.08
69 1 0.01
75 61 0.43
76 7 0.05
77 10 0.07
78 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (74 bp):
TATTTTTAGTTTCTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
ACGCTGAGG
Found at i:87008384 original size:65 final size:65
Alignment explanation
Indices: 87008228--87008412 Score: 302
Period size: 65 Copynumber: 2.9 Consensus size: 65
87008218 TTTTTCAAAA
*
87008228 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA-TTTTTAGTTTCT
1 ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTTTAGTTTCT
87008292 ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTTTAGTTTCT
1 ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTTTAGTTTCT
* * * *
87008357 ATCAACTCATGA-TACGATAGGTGAGTTGGGCCTCGAGACACACGCTGAGGTATTTT
1 ATCAACTCAT-ATTACGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTT
87008413 CAAATTATGT
Statistics
Matches: 114, Mismatches: 5, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
64 51 0.45
65 62 0.54
66 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (65 bp):
ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTTTAGTTTCT
Found at i:87008828 original size:88 final size:88
Alignment explanation
Indices: 87008701--87008861 Score: 259
Period size: 88 Copynumber: 1.8 Consensus size: 88
87008691 GGAGCAGGTT
* *
87008701 GAAGCTACAAATCTTTGCTCCCTGAAACGGCACTGGAGAGGCTCAAAGCCACCATTCGTATCTTC
1 GAAGCTACAAATCTTTGCTCCCTGAAACGGCACTGGAGAGGCTCAAAGCCACCATTCATATCTCC
87008766 TTGAAGTTCCAGCGGATTAGATC
66 TTGAAGTTCCAGCGGATTAGATC
* * * **
87008789 GAAGCTACAAATCTTTTCTCCCTGAAATGGCACTGGAGAGGCTCGAAGCCTTCATTCATATCTCC
1 GAAGCTACAAATCTTTGCTCCCTGAAACGGCACTGGAGAGGCTCAAAGCCACCATTCATATCTCC
87008854 TTGAAGTT
66 TTGAAGTT
87008862 TCAACGGAGT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 66 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (88 bp):
GAAGCTACAAATCTTTGCTCCCTGAAACGGCACTGGAGAGGCTCAAAGCCACCATTCATATCTCC
TTGAAGTTCCAGCGGATTAGATC
Found at i:87010195 original size:22 final size:21
Alignment explanation
Indices: 87010169--87010224 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
87010159 GTTATTTTCC
87010169 ATATTATATATTAAATTAACAT
1 ATATTAT-TATTAAATTAACAT
** *
87010191 ATATTATTATTACTTTAACTT
1 ATATTATTATTAAATTAACAT
87010212 ATTATTATTATTA
1 A-TATTATTATTA
87010225 TTATTATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 12 0.40
22 18 0.60
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (21 bp):
ATATTATTATTAAATTAACAT
Found at i:87010200 original size:3 final size:3
Alignment explanation
Indices: 87010192--87011085 Score: 512
Period size: 3 Copynumber: 299.0 Consensus size: 3
87010182 AATTAACATA
*
87010192 TAT TAT TAT TACT T-T AACT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
87010238 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
87010286 TAT TAT TAT TAT T-T TGT TGA- TAT TAC TAT TAT AAT TA- TAT T-T
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
87010328 TAT TTT TGT GTATT TATT TAT TCAT T-T TAT TAT TAAT TCAT TAA T-T
1 TAT TAT TAT -TA-T TA-T TAT T-AT TAT TAT TAT T-AT T-AT TAT TAT
* * * * *
87010374 TAT TAT TAT TAA CA- TAT TCT TAT TAT TTT TAT TAAT GTAT TAG TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT -TAT TAT TAT
87010420 TAT TAT ATAT TAGT GTA- TAT T-T TAT TA- TAT TA- TAT GTA- TAT GTA-
1 TAT TAT -TAT TA-T -TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT -TAT
* * * *
87010464 TAT ATAT T-T ATAT ATAG TAT TAT TTT TAAT TAC T-T TAT T-T TAA TAT
1 TAT -TAT TAT -TAT -TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
** *
87010510 T-T TAT TA- TAT TA- TAT T-T CCT TTT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
87010554 TAT TAT TAT TAT TAT TAT TAT TAT ATAT TAGT GTA- TAT T-T T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA-T -TAT TAT TAT TAT TAT
* *
87010599 TAT ATAT GTA- TAT GTA- TAT ATAT T-T ATAT ATAG TAT TAT TTT TAAT
1 TAT -TAT -TAT TAT -TAT TAT -TAT TAT -TAT -TAT TAT TAT TAT T-AT
* * * **
87010645 TAC T-T TAT T-T TAA TAT TTT TAT TA- TAT TA- TAT T-T GCT T-T T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
87010686 GTAT T-T CAA TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
87010731 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAT TAGT GTA- TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA-T -TAT TAT TAT
* * *
87010778 TAT TAT ATAT GTA- TAT GTA- TAT ATAT T-T ATAT AGAA TAT TAT TTT
1 TAT TAT -TAT -TAT TAT -TAT TAT -TAT TAT -TAT -TAT TAT TAT TAT
* * **
87010823 TAAT TAT T-T TAT T-T TAA TAT TTT TAT TA- TAT TA- TAT T-T GCT
1 T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
87010864 T-T T-T GTAT T-T CAA TAC TAT TAC TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
87010907 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
87010955 TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAT TAGT GTA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA-T -TAT TAT
* *
87011002 T-T TTT TAT TAT CTAT GTA- TAT GTA- TAT ATAT T-T ATAT ATAG TAT
1 TAT TAT TAT TAT -TAT -TAT TAT -TAT TAT -TAT TAT -TAT -TAT TAT
* * *
87011046 TAT TTT TAAT TAC T-T TAT T-T TAA TAT TAT TAT TA- TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
87011086 ATTTGCTTTT
Statistics
Matches: 709, Mismatches: 87, Indels: 190
0.72 0.09 0.19
Matches are distributed among these distances:
2 92 0.13
3 505 0.71
4 102 0.14
5 10 0.01
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:87010841 original size:182 final size:183
Alignment explanation
Indices: 87010532--87010947 Score: 782
Period size: 182 Copynumber: 2.3 Consensus size: 183
87010522 TATTTCCTTT
87010532 TTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATATATTAGTGTATATTTTTT
1 TTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATATATTAGTGTATATTTTTT
* *
87010597 ATTATATATGTATATGTATATATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATT
66 ATTATATATGTATATGTATATATATTTATATAGAATATTATTTTTAATTACTTTATTTTAATATT
*
87010662 TTTATTATATTATATTTGCTTTTTGTATTTCAATATTATTACTATTATTATTA
131 TTTATTATATTATATTTGCTTTTTGTATTTCAATACTATTACTATTATTATTA
87010715 TTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATATATTAGTGTATA-TTTTT
1 TTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATATATTAGTGTATATTTTTT
*
87010779 ATTATATATGTATATGTATATATATTTATATAGAATATTATTTTTAATTATTTTATTTTAATATT
66 ATTATATATGTATATGTATATATATTTATATAGAATATTATTTTTAATTACTTTATTTTAATATT
87010844 TTTATTATATTATATTTGCTTTTTGTATTTCAATACTATTACTATTATTATTA
131 TTTATTATATTATATTTGCTTTTTGTATTTCAATACTATTACTATTATTATTA
87010897 TTATTATTATTATTATTATTATTATTATTATTATTATTATTATTAT-TATTA
1 TTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATATATTA
87010948 TTATTATTAC
Statistics
Matches: 229, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
181 5 0.02
182 165 0.72
183 59 0.26
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.62
Consensus pattern (183 bp):
TTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATATATTAGTGTATATTTTTT
ATTATATATGTATATGTATATATATTTATATAGAATATTATTTTTAATTACTTTATTTTAATATT
TTTATTATATTATATTTGCTTTTTGTATTTCAATACTATTACTATTATTATTA
Found at i:87017554 original size:21 final size:21
Alignment explanation
Indices: 87017528--87017568 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
87017518 ATCTGCTCAA
* *
87017528 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
87017549 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
87017569 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:87020626 original size:3 final size:3
Alignment explanation
Indices: 87020618--87020717 Score: 184
Period size: 3 Copynumber: 33.3 Consensus size: 3
87020608 ATGATGCTCA
87020618 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
87020666 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
87020714 TAT T
1 TAT T
87020718 GGGTAAATCT
Statistics
Matches: 95, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.02
3 90 0.95
4 3 0.03
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:87024160 original size:14 final size:15
Alignment explanation
Indices: 87024121--87024158 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
87024111 AAGACAATTT
87024121 TAAAATAAATAATACA
1 TAAAA-AAATAATACA
*
87024137 TAAAAAAATAATATA
1 TAAAAAAATAATACA
87024152 TAAAAAA
1 TAAAAAA
87024159 TAGTTTTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAAAAAATAATACA
Found at i:87031878 original size:3 final size:3
Alignment explanation
Indices: 87031857--87032100 Score: 177
Period size: 3 Copynumber: 80.7 Consensus size: 3
87031847 AAGAGAAATG
* * * ** * *
87031857 TAA TAA TTA TAA TAG TAA TAA TAA AAA TAA TGG TAG TAA TAA TAA TAC
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
87031905 TAA TAA TAA TAG TAA TAA TAA TAAA TAT TAA TAA TAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
* * * ** * * * *
87031951 TAAA GAA TAA CAA TAG TAA GGA CAA TAA TAA AAA GAA TAA TTA TAA
1 T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
87031997 TAA TAC TAC TAC TAA AAA TAA TAA TGA TAG TAA TAA TAA TAA -AA GTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* * * *
87032045 TAA TAA TAA TAA TAA TAA TAA TTAA TGA TAA TAA AAA TAA AAA AAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
87032091 TAA TAA -AA TA
1 TAA TAA TAA TA
87032101 GCAAAAATAA
Statistics
Matches: 187, Mismatches: 48, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
2 4 0.02
3 173 0.93
4 10 0.05
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:87032031 original size:15 final size:15
Alignment explanation
Indices: 87032013--87032111 Score: 85
Period size: 15 Copynumber: 6.6 Consensus size: 15
87032003 TACTACTAAA
*
87032013 AATAATAATGATAGT
1 AATAATAATAATAGT
*
87032028 AATAATAATAAAAGT
1 AATAATAATAATAGT
*
87032043 AATAATAATAATAAT
1 AATAATAATAATAGT
87032058 AATAATAATTAAT-GAT
1 AATAATAA-TAATAG-T
* * **
87032074 AATAAAAATAAAAAA
1 AATAATAATAATAGT
*
87032089 AATAATAA-AATAGC
1 AATAATAATAATAGT
*
87032103 AAAAATAAT
1 AATAATAAT
87032112 TAAAAAGGAC
Statistics
Matches: 66, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
14 10 0.15
15 44 0.67
16 12 0.18
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.27
Consensus pattern (15 bp):
AATAATAATAATAGT
Found at i:87033514 original size:60 final size:60
Alignment explanation
Indices: 87033434--87033575 Score: 182
Period size: 60 Copynumber: 2.4 Consensus size: 60
87033424 TTTAGTGTTA
* *
87033434 ATTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTAC-AGTATC-AGAGTAT
1 ATTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAG--TCGAGA-TAT
* *
87033495 ATTGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGTCGAGATAT
1 ATTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATAT
*
87033555 ATTGGGCCTTGCCCATATCAA
1 ATTGGGCCTAGCCCATATCAA
87033576 CACAGTTGGG
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
60 55 0.76
61 15 0.21
62 2 0.03
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (60 bp):
ATTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATAT
Found at i:87033536 original size:28 final size:27
Alignment explanation
Indices: 87033436--87033536 Score: 78
Period size: 28 Copynumber: 3.4 Consensus size: 27
87033426 TAGTGTTAAT
* *
87033436 TGGGCCTTAGCCCATATCAATATTAATC
1 TGGGCC-TAGCCCATATCAGTATCAATC
* *
87033464 TGGGCCATAGCCCCT-TACAGTATCAGAGTATAT
1 TGGGCC-TAGCCCATAT-CAGTATC--A--AT-C
87033497 TGGGCCTAGCCCATATCAGTATCAATC
1 TGGGCCTAGCCCATATCAGTATCAATC
87033524 TGGGCCGTAGCCC
1 TGGGCC-TAGCCC
87033537 TATTACAAGT
Statistics
Matches: 58, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
27 7 0.12
28 26 0.45
30 2 0.03
32 16 0.28
33 7 0.12
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (27 bp):
TGGGCCTAGCCCATATCAGTATCAATC
Found at i:87040955 original size:19 final size:21
Alignment explanation
Indices: 87040899--87040962 Score: 89
Period size: 21 Copynumber: 3.1 Consensus size: 21
87040889 AAAGTGGAAG
87040899 ATGCTAGAATATCAAAGAGAA
1 ATGCTAGAATATCAAAGAGAA
*
87040920 ATGCTAGAATATTAAAGAGAA
1 ATGCTAGAATATCAAAGAGAA
87040941 A-G-TAG-ATATGCAAAGAGAA
1 ATGCTAGAATAT-CAAAGAGAA
87040960 ATG
1 ATG
87040963 GAAAAACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
18 4 0.10
19 12 0.31
20 2 0.05
21 21 0.54
ACGTcount: A:0.52, C:0.06, G:0.22, T:0.20
Consensus pattern (21 bp):
ATGCTAGAATATCAAAGAGAA
Found at i:87042624 original size:46 final size:46
Alignment explanation
Indices: 87042564--87042836 Score: 404
Period size: 46 Copynumber: 5.9 Consensus size: 46
87042554 TTTGACATGA
* * * * * *
87042564 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
87042610 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
87042656 TGCCATGGTATCTTTCAACCATGATCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
87042702 TGCCATGGTATCTTTCAACCATGATCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
87042748 TGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
87042794 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
87042837 AAGAGCACAC
Statistics
Matches: 209, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 205 0.98
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:87048293 original size:30 final size:30
Alignment explanation
Indices: 87048259--87048337 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
87048249 GCAGAGACCA
* * *
87048259 ATTTTGACTAGCATGGTAATTTTTACCAGT
1 ATTTTGACTAGCATGATAATTTTGACCAAT
* *
87048289 ATTTTGGCTAGCATTATAATTTTGACCAAT
1 ATTTTGACTAGCATGATAATTTTGACCAAT
* * *
87048319 AGTTTGACCAGCATTATAA
1 ATTTTGACTAGCATGATAA
87048338 ACATGGCCAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (30 bp):
ATTTTGACTAGCATGATAATTTTGACCAAT
Found at i:87049179 original size:18 final size:20
Alignment explanation
Indices: 87049137--87049173 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
87049127 ATATTTTATG
*
87049137 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATAAGATATAT
87049156 ATTATTTTAATAAGATAT
1 ATTATTTTAATAAGATAT
87049174 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATAAGATATAT
Found at i:87051386 original size:46 final size:46
Alignment explanation
Indices: 87051334--87051652 Score: 388
Period size: 46 Copynumber: 7.0 Consensus size: 46
87051324 AGTGTGCTCT
87051334 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
87051380 CTGATATGAAATATGTAAGAGCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
**
87051426 CTGATATGAAACATGTAAGACCATGGTTGAAAGATACCATGGC-AC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
87051471 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *** *
87051517 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** *
87051563 GTGACATGAAATGAATAAGACCATCGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** * * * *
87051609 ATGACGGGAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
87051653 TCATGTCAAA
Statistics
Matches: 243, Mismatches: 29, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
45 43 0.18
46 200 0.82
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:87051582 original size:137 final size:138
Alignment explanation
Indices: 87051334--87051675 Score: 433
Period size: 137 Copynumber: 2.5 Consensus size: 138
87051324 AGTGTGCTCT
* * * **
87051334 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATATGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAATAAG
* * *
87051399 AGCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACATGTAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAACATGTAAGACCATCGTTGAAAGATACC
87051464 ATGGC-AC
131 ATGGCAAC
* *
87051471 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAATAAG
*
87051536 ACCATGGTTGAAAGATACCATGGCAGCGTGACATG-AA-ATGAATAAGACCATCGTTGAAAGATA
66 ACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAACATG--TAAGACCATCGTTGAAAGATA
87051599 CCATGGCAAC
129 CCATGGCAAC
* *** * * * * * *
87051609 ATGACGGGAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTCA--AAGATAAATAA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAA-ATAAATAA
87051672 GACC
65 GACC
87051676 GTGGATGGGA
Statistics
Matches: 178, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
135 3 0.02
136 4 0.02
137 129 0.72
138 42 0.24
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (138 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAATAAG
ACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAACATGTAAGACCATCGTTGAAAGATACC
ATGGCAAC
Found at i:87052930 original size:19 final size:21
Alignment explanation
Indices: 87052874--87052937 Score: 89
Period size: 21 Copynumber: 3.1 Consensus size: 21
87052864 CTCTAATACC
87052874 ATGCTAGAATATCAAAGAGAA
1 ATGCTAGAATATCAAAGAGAA
*
87052895 ATGCTAGAATATTAAAGAGAA
1 ATGCTAGAATATCAAAGAGAA
87052916 A-G-TAG-ATATGCAAAGAGAA
1 ATGCTAGAATAT-CAAAGAGAA
87052935 ATG
1 ATG
87052938 GAAAAACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
18 4 0.10
19 12 0.31
20 2 0.05
21 21 0.54
ACGTcount: A:0.52, C:0.06, G:0.22, T:0.20
Consensus pattern (21 bp):
ATGCTAGAATATCAAAGAGAA
Found at i:87056254 original size:25 final size:26
Alignment explanation
Indices: 87056225--87056275 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
87056215 TCCATATGGT
*
87056225 TTTTTTATGAGAATGT-TAAAATATA
1 TTTTTTATAAGAATGTATAAAATATA
* *
87056250 TTTTTTATAAGTATGTATCAAATATA
1 TTTTTTATAAGAATGTATAAAATATA
87056276 ATAATCTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (26 bp):
TTTTTTATAAGAATGTATAAAATATA
Found at i:87057136 original size:2 final size:2
Alignment explanation
Indices: 87057129--87057159 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
87057119 ATTTTAACAA
87057129 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 A
87057160 AATTTCAGTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:87057826 original size:6 final size:6
Alignment explanation
Indices: 87057815--87057844 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
87057805 TTTTATTACT
87057815 ACTCCA ACTCCA ACTCCA ACTCCA ACTCCA
1 ACTCCA ACTCCA ACTCCA ACTCCA ACTCCA
87057845 GTTTTAAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.50, G:0.00, T:0.17
Consensus pattern (6 bp):
ACTCCA
Found at i:87061411 original size:29 final size:29
Alignment explanation
Indices: 87061379--87061447 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
87061369 TGTTTTCATA
87061379 TTATTTTATGTAAATATTCTCTTTTAAAT
1 TTATTTTATGTAAATATTCTCTTTTAAAT
* ** *
87061408 TTATTATATGTGTATATTCTCTTTTAAGT
1 TTATTTTATGTAAATATTCTCTTTTAAAT
87061437 TTA-TTTATGTA
1 TTATTTTATGTA
87061448 TAATTTGGCT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 6 0.18
29 28 0.82
ACGTcount: A:0.28, C:0.06, G:0.07, T:0.59
Consensus pattern (29 bp):
TTATTTTATGTAAATATTCTCTTTTAAAT
Found at i:87061906 original size:89 final size:89
Alignment explanation
Indices: 87061798--87061978 Score: 335
Period size: 89 Copynumber: 2.0 Consensus size: 89
87061788 GGCTTTCATG
*
87061798 TCGTTTTCACATATTATTGTTCATACATGTAATTATATTTTTGTTTCTTGTTGTTACATCATGGT
1 TCGTTTTCACATATTATTGTTCATACATGTAATTATATTTTTGTTTCTTGTTGTTACATCATAGT
*
87061863 TATATTTCCCATATTCACTCAATA
66 TATATTTCCCATAGTCACTCAATA
*
87061887 TCGTTTTCACATATTATTGTTCATACATGTAATTATATTTTTGTTTCTTGTTGTTGCATCATAGT
1 TCGTTTTCACATATTATTGTTCATACATGTAATTATATTTTTGTTTCTTGTTGTTACATCATAGT
87061952 TATATTTCCCATAGTCACTCAATA
66 TATATTTCCCATAGTCACTCAATA
87061976 TCG
1 TCG
87061979 ATTGTCCTTT
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.24, C:0.16, G:0.10, T:0.50
Consensus pattern (89 bp):
TCGTTTTCACATATTATTGTTCATACATGTAATTATATTTTTGTTTCTTGTTGTTACATCATAGT
TATATTTCCCATAGTCACTCAATA
Found at i:87062310 original size:127 final size:128
Alignment explanation
Indices: 87062164--87062407 Score: 418
Period size: 128 Copynumber: 1.9 Consensus size: 128
87062154 AATTTTCGTT
87062164 GCGTGTTTTGGAAATCATGAGGTGATCTCAG-TTTTTGGAGGCTTAAAATATCATGTCCTAACGT
1 GCGTGTTTTGGAAATCATGAGGTGATCTCAGTTTTTTGGAGGCTTAAAATATCATGTCCTAACGT
* *
87062228 GCTGGATGTGATATTTTATTCCTTTGGAACGAGTGAATCTCAAAATCCAATTGGAGTTGCTTC
66 GCTAGATGTGATATTTTATTCCTTTAGAACGAGTGAATCTCAAAATCCAATTGGAGTTGCTTC
* *
87062291 GCGTGTTTTGGAAATCATGAGGTGATCTTAGTTTTTTGGAGGCTTAAAATATCGTGTCCTAACGT
1 GCGTGTTTTGGAAATCATGAGGTGATCTCAGTTTTTTGGAGGCTTAAAATATCATGTCCTAACGT
* * *
87062356 GTTAGATGTGGTATTTTATTCCTTTAGAACGAGTGAATCTTAAAATCCAATT
66 GCTAGATGTGATATTTTATTCCTTTAGAACGAGTGAATCTCAAAATCCAATT
87062408 CGAATTGTTC
Statistics
Matches: 109, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
127 30 0.28
128 79 0.72
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.38
Consensus pattern (128 bp):
GCGTGTTTTGGAAATCATGAGGTGATCTCAGTTTTTTGGAGGCTTAAAATATCATGTCCTAACGT
GCTAGATGTGATATTTTATTCCTTTAGAACGAGTGAATCTCAAAATCCAATTGGAGTTGCTTC
Found at i:87063692 original size:19 final size:19
Alignment explanation
Indices: 87063668--87063713 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
87063658 TTGGGTGCAT
87063668 GAAAAAACA-AATTTGAATA
1 GAAAAAACAGAA-TTGAATA
*
87063687 GAAAAAATAGAATTGAATA
1 GAAAAAACAGAATTGAATA
87063706 GAATAAAA
1 GAA-AAAA
87063714 ATACAATTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.65, C:0.02, G:0.13, T:0.20
Consensus pattern (19 bp):
GAAAAAACAGAATTGAATA
Found at i:87063713 original size:21 final size:19
Alignment explanation
Indices: 87063680--87063722 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
87063670 AAAAACAAAT
*
87063680 TTGAATAGAAAAAATAGAA
1 TTGAATAGAAAAAATACAA
87063699 TTGAATAGAATAAAAATACAA
1 TTGAATAG-A-AAAAATACAA
87063720 TTG
1 TTG
87063723 CTTTCTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 1 0.05
21 12 0.57
ACGTcount: A:0.58, C:0.02, G:0.14, T:0.26
Consensus pattern (19 bp):
TTGAATAGAAAAAATACAA
Found at i:87064579 original size:13 final size:13
Alignment explanation
Indices: 87064540--87064581 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
87064530 TAATTATGCT
87064540 TTTATTTTATTTTA
1 TTTATTTT-TTTTA
87064554 TTT-TTGTTTTTTA
1 TTTATT-TTTTTTA
*
87064567 TTTATTTTCTTTA
1 TTTATTTTTTTTA
87064580 TT
1 TT
87064582 AACTAAAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 18 0.72
14 7 0.28
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.81
Consensus pattern (13 bp):
TTTATTTTTTTTA
Found at i:87064887 original size:31 final size:31
Alignment explanation
Indices: 87064852--87064914 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
87064842 TTTAAAGCTT
*
87064852 AATAGCTCAATGACTTAAATAAAAACATTTG
1 AATAGCTCAATAACTTAAATAAAAACATTTG
* * * * *
87064883 AATAGTTTAGTAACTTAAATCAAAACTTTTG
1 AATAGCTCAATAACTTAAATAAAAACATTTG
87064914 A
1 A
87064915 TTAGTTCAGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (31 bp):
AATAGCTCAATAACTTAAATAAAAACATTTG
Found at i:87071111 original size:125 final size:125
Alignment explanation
Indices: 87070764--87071279 Score: 568
Period size: 125 Copynumber: 4.2 Consensus size: 125
87070754 TAAGGCCAAA
* *
87070764 CAGGAACTACCGTAGAAAAAGAGCA-TCCACGTGGGAGCTTTTTT-AGTAATTTTACTGACAGTG
1 CAGGAACTACTGTAGAAAAAAAG-AGTCCACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTG
* * * * *
87070827 CATCCTGCTTGAAGCA--TTTGGCACTATTTTTTAGAACCATTTTCTCAACATTATTTTTT
65 CATCCTGCTTGAAGCATTTTTGACACTATTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * * *
87070886 CAAGAACTACTGTAG--AAAAAGAG-CGAACGTGGGAGCTTTTTTCAATAATTTTGCTGACAGTG
1 CAGGAACTACTGTAGAAAAAAAGAGTC-CACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTG
* *
87070948 CATCTTGCTTGAAGCATTTTTGACACTATTTTTTAGAACCGTCTTCTCAAAATTATTTTTT
65 CATCCTGCTTGAAGCATTTTTGACACTATTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * ** *
87071009 CAGGAACTACTGTAGAAAAAAAAAGTCCATGTGGGAGCTTTTTT-ATGTAATTTTTTTGATAGTG
1 CAGGAACTACTGTAGAAAAAAAGAGTCCACGTGGGAGCTTTTTTCA-GTAATTTTACTGACAGTG
* * * * * *
87071073 CATTCTACTTAAAG-AGTTTTTTAAACTATTTTTCAGAACTGTCTTCTCAAAATTATTTTTT
65 CATCCTGCTTGAAGCA-TTTTTGACACTATTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * * ** * * *
87071134 CAGGAACGACTGGAGAAAAAGAGCTTCTATGTGGGAGCTTTTTTCAGTAATTTTACTGACAATGC
1 CAGGAACTACTGTAGAAAAAAAGAGTCCACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTGC
* * * * *
87071199 ATCCTGCTTGAAGCGTTTTTGACATTATTTTTCAGAACCGTCTTCTTAAAACTAATTTTT
66 ATCCTGCTTGAAGCATTTTTGACACTATTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
*
87071259 CTA-AAACTACTGTA-AAAAAAA
1 C-AGGAACTACTGTAGAAAAAAA
87071280 TAATTTAAAA
Statistics
Matches: 328, Mismatches: 53, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
119 2 0.01
120 21 0.06
121 32 0.10
122 13 0.04
123 53 0.16
124 8 0.02
125 196 0.60
126 3 0.01
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (125 bp):
CAGGAACTACTGTAGAAAAAAAGAGTCCACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTGC
ATCCTGCTTGAAGCATTTTTGACACTATTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
Found at i:87071395 original size:34 final size:32
Alignment explanation
Indices: 87071357--87071464 Score: 108
Period size: 34 Copynumber: 3.1 Consensus size: 32
87071347 AAAAAAATTG
87071357 AACCCTAATTTAATTAATTTTCTTGAAAACTCTA
1 AACCCTAATTTAATTAATTTT-TT-AAAACTCTA
* *
87071391 AACCCTAATTTAAATAATTTATTTAAAACCCTTA
1 AACCCTAATTTAATTAATTT-TTTAAAACTC-TA
* *
87071425 AAACATAATTTAATTAAATTTTTTTAAAAAACTCTA
1 AACCCTAATTTAATT-AA-TTTTTT--AAAACTCTA
87071461 AACC
1 AACC
87071465 TTGATTTATT
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
33 6 0.10
34 35 0.57
35 6 0.10
36 8 0.13
37 6 0.10
ACGTcount: A:0.44, C:0.16, G:0.01, T:0.39
Consensus pattern (32 bp):
AACCCTAATTTAATTAATTTTTTAAAACTCTA
Found at i:87075902 original size:12 final size:11
Alignment explanation
Indices: 87075864--87075918 Score: 51
Period size: 12 Copynumber: 4.9 Consensus size: 11
87075854 AATCACTTTA
*
87075864 ATATTGAATTT
1 ATATTAAATTT
87075875 AT-TCTAATATTT
1 ATAT-TAA-ATTT
87075887 ATATTAAATTT
1 ATATTAAATTT
*
87075898 AATATTAAATCT
1 -ATATTAAATTT
87075910 -TATTAAATT
1 ATATTAAATT
87075919 AATAGAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
10 9 0.24
11 8 0.22
12 19 0.51
13 1 0.03
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (11 bp):
ATATTAAATTT
Found at i:87077620 original size:41 final size:41
Alignment explanation
Indices: 87077574--87077652 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
87077564 GAAAACACTG
* * *
87077574 TAAAAACTCAGTAATAGCGGCGTTTTTGGTCCAAACGCAAC
1 TAAAAACTCAGCAATAGCAGCGTTTTTGGTACAAACGCAAC
*
87077615 TAAAAACTGAGCAATAGCAGCGTTTTTGGTACAAACGC
1 TAAAAACTCAGCAATAGCAGCGTTTTTGGTACAAACGC
87077653 CGCTAACTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (41 bp):
TAAAAACTCAGCAATAGCAGCGTTTTTGGTACAAACGCAAC
Found at i:87077727 original size:41 final size:41
Alignment explanation
Indices: 87077586--87077747 Score: 125
Period size: 41 Copynumber: 4.0 Consensus size: 41
87077576 AAAACTCAGT
** * *
87077586 AATAGCGGCGTTTTTGGTCCAAACGCAACTAAAAA-CTGAGC
1 AATAGCGGCGTTTTTGGTCCAAACGCCGC-AAAAAGTTTAGC
* * * *
87077627 AATAGCAGCGTTTTTGGTACAAACGCCGC--TAACTTT-GC
1 AATAGCGGCGTTTTTGGTCCAAACGCCGCAAAAAGTTTAGC
** ** *
87077665 AATAGCGATGTTTTTAATCCAAACGCCGCAAAAAGTTTATC
1 AATAGCGGCGTTTTTGGTCCAAACGCCGCAAAAAGTTTAGC
* ** * *
87077706 AATAACGGCGTTTTTGGTCCAAATACTGCAAAAAGTTGAGC
1 AATAGCGGCGTTTTTGGTCCAAACGCCGCAAAAAGTTTAGC
87077747 A
1 A
87077748 GCCATTTTCG
Statistics
Matches: 91, Mismatches: 26, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
38 27 0.30
39 1 0.01
40 5 0.05
41 58 0.64
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (41 bp):
AATAGCGGCGTTTTTGGTCCAAACGCCGCAAAAAGTTTAGC
Found at i:87077835 original size:17 final size:18
Alignment explanation
Indices: 87077815--87077850 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
87077805 TTTTTTTCTT
87077815 ATTTTAGTTTGA-ATTTG
1 ATTTTAGTTTGATATTTG
*
87077832 ATTTTATTTTGATATTTG
1 ATTTTAGTTTGATATTTG
87077850 A
1 A
87077851 AACTAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.25, C:0.00, G:0.14, T:0.61
Consensus pattern (18 bp):
ATTTTAGTTTGATATTTG
Found at i:87078354 original size:22 final size:21
Alignment explanation
Indices: 87078325--87078366 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
87078315 TTATTATTTG
87078325 GGGTTTAGTATTTAGGGTTTA
1 GGGTTTAGTATTTAGGGTTTA
* *
87078346 GGGTCTTAGTGTTTATGGTTT
1 GGGT-TTAGTATTTAGGGTTT
87078367 TAAGGGTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.14, C:0.02, G:0.33, T:0.50
Consensus pattern (21 bp):
GGGTTTAGTATTTAGGGTTTA
Found at i:87078503 original size:7 final size:7
Alignment explanation
Indices: 87078488--87078518 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
87078478 AATATATATA
*
87078488 TTTAAGG
1 TTTAGGG
87078495 TTTAGGG
1 TTTAGGG
87078502 TTTAGGG
1 TTTAGGG
87078509 TTTAGGG
1 TTTAGGG
87078516 TTT
1 TTT
87078519 CATTTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.16, C:0.00, G:0.35, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:87079053 original size:165 final size:165
Alignment explanation
Indices: 87078843--87079206 Score: 446
Period size: 165 Copynumber: 2.2 Consensus size: 165
87078833 TTAGTGAGCT
** * ** * *
87078843 TAAATGTCAAGTATTAGTGGCGCTA-GTGTAAAAGCATTGCTAAATGTCGAGCATTAGCGGCAGT
1 TAAATGTCAAACATTAGTGGCGCTATG-GTAAAAACACCGCTAAATGTCGAGCATTAGCGACACT
* * * *
87078907 ATTGGGAAAATATCGCAAATATATATGGGCATTAAGCTTGACGACGTCGTTTTATCAAAAAGGCG
65 ATTGGGAAAATACCGCAAATAAATATGGGCAGTAAGCTAGACGACGTCGTTTTATCAAAAAGGCG
*
87078972 CAAAAAAT-ATTAGCA-GCGCTACTGGGAAAACACTGC
130 C-AAAAATCATTAG-AGGCGCTACTGGGAAAACACCGC
* * *
87079008 TAAATGTCAAACATTAGTGGAGCTATGGTAAAAACACCGCTAAATGTTGAGCATTAGCGACACTC
1 TAAATGTCAAACATTAGTGGCGCTATGGTAAAAACACCGCTAAATGTCGAGCATTAGCGACACTA
* * * *
87079073 TTGGGAAAATGCCGCAAGTAAATATGGGCAGTAAGCTAGATGATGTCGTTTTATCAAAAAGGCGC
66 TTGGGAAAATACCGCAAATAAATATGGGCAGTAAGCTAGACGACGTCGTTTTATCAAAAAGGCGC
* * * *
87079138 AAAAATCATTAGAGGTGCTATTGGGTAAACGCCGC
131 AAAAATCATTAGAGGCGCTACTGGGAAAACACCGC
** *
87079173 TAAATGTCATTCATTAGTGGCGCTATTGTAAAAA
1 TAAATGTCAAACATTAGTGGCGCTATGGTAAAAA
87079207 TGCCGCAAAA
Statistics
Matches: 169, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
164 7 0.04
165 161 0.95
166 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (165 bp):
TAAATGTCAAACATTAGTGGCGCTATGGTAAAAACACCGCTAAATGTCGAGCATTAGCGACACTA
TTGGGAAAATACCGCAAATAAATATGGGCAGTAAGCTAGACGACGTCGTTTTATCAAAAAGGCGC
AAAAATCATTAGAGGCGCTACTGGGAAAACACCGC
Found at i:87081015 original size:3 final size:3
Alignment explanation
Indices: 87081007--87081048 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
87080997 TATAATATCA
87081007 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
87081049 CATACAAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:87087160 original size:29 final size:28
Alignment explanation
Indices: 87087118--87087190 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 28
87087108 CATTTTTTTT
* *
87087118 AATTTGATATCTAAACTTCTTTAGGGCCC
1 AATTTGGTACCTAAACTTCTTTA-GGCCC
* * **
87087147 AATTTGGTACCTAAGATTTTTTTAGGTTC
1 AATTTGGTACCTAA-ACTTCTTTAGGCCC
87087176 AATTTGGTACCTAAA
1 AATTTGGTACCTAAA
87087191 TTTATTAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
28 1 0.03
29 29 0.78
30 7 0.19
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (28 bp):
AATTTGGTACCTAAACTTCTTTAGGCCC
Found at i:87087416 original size:24 final size:23
Alignment explanation
Indices: 87087378--87087423 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
87087368 TTTCAACTAA
87087378 TAAAATAATTAAATAAATAAAAC
1 TAAAATAATTAAATAAATAAAAC
* *
87087401 TAAAAGTAATTGAATATATAAAA
1 TAAAA-TAATTAAATAAATAAAA
87087424 TACAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (23 bp):
TAAAATAATTAAATAAATAAAAC
Found at i:87087704 original size:90 final size:90
Alignment explanation
Indices: 87087562--87087727 Score: 208
Period size: 90 Copynumber: 1.8 Consensus size: 90
87087552 AAAAAGTAGG
* **
87087562 TACCAAATTAGGAAAAAGAGCCAAATTTAAGTACCAAATTGAACCCCAAAAAAGATTAAGTACCA
1 TACCAAATTAGGAAAAAGAACCAAATTTAAGTACCAAATTGAACCAAAAAAAAGATTAAGTACCA
*
87087627 ACTTAAGAAAAAGTGTTAAGTTTAGT
66 AATT-AGAAAAAGTGTTAAGTTTAGT
* * ** * ** *
87087653 TACCAAATTAGGAAAAA-AATCAAGTTTGGGTACCAAATTGGACCAAAAAAAATTTTAGGTACCA
1 TACCAAATTAGGAAAAAGAACCAAATTTAAGTACCAAATTGAACCAAAAAAAAGATTAAGTACCA
87087717 AATTAGAAAAA
66 AATTAGAAAAA
87087728 ATTGTCAAGT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
89 7 0.11
90 39 0.62
91 17 0.27
ACGTcount: A:0.49, C:0.13, G:0.14, T:0.23
Consensus pattern (90 bp):
TACCAAATTAGGAAAAAGAACCAAATTTAAGTACCAAATTGAACCAAAAAAAAGATTAAGTACCA
AATTAGAAAAAGTGTTAAGTTTAGT
Found at i:87087714 original size:29 final size:29
Alignment explanation
Indices: 87087644--87087728 Score: 95
Period size: 29 Copynumber: 2.9 Consensus size: 29
87087634 AAAAAGTGTT
*
87087644 AAGTTTAGTTACCAAATTAGGAAAAAAATC
1 AAGTTTAGGTACCAAATTAGGAAAAAAA-C
*
87087674 AAGTTTGGGTACCAAATT-GGACCAAAAAA-
1 AAGTTTAGGTACCAAATTAGGA--AAAAAAC
*
87087703 AATTTTAGGTACCAAATTA-GAAAAAA
1 AAGTTTAGGTACCAAATTAGGAAAAAA
87087729 TTGTCAAGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
27 5 0.10
29 21 0.44
30 16 0.33
31 6 0.12
ACGTcount: A:0.49, C:0.11, G:0.15, T:0.25
Consensus pattern (29 bp):
AAGTTTAGGTACCAAATTAGGAAAAAAAC
Found at i:87087747 original size:90 final size:91
Alignment explanation
Indices: 87087562--87087750 Score: 202
Period size: 90 Copynumber: 2.1 Consensus size: 91
87087552 AAAAAGTAGG
* **
87087562 TACCAAATTAGGAAAAAGAGCCAAATTTAAGTACCAAATTGAACCCCAAAAAAGATTAAGTACCA
1 TACCAAATTAGGAAAAAGAACCAAATTTAAGTACCAAATTGAACCAAAAAAAAGATTAAGTACCA
* * * **
87087627 ACTTAAGAAAAAGTGTTAAGTTTAGT
66 AATTAAGAAAAAGTGTCAAGTTCAAA
* * ** * ** *
87087653 TACCAAATTAGGAAAAA-AATCAAGTTTGGGTACCAAATTGGACCAAAAAAAATTTTAGGTACCA
1 TACCAAATTAGGAAAAAGAACCAAATTTAAGTACCAAATTGAACCAAAAAAAAGATTAAGTACCA
*
87087717 AATT-AGAAAAAATTGTCAAGTTCAAA
66 AATTAAG-AAAAAGTGTCAAGTTCAAA
87087743 TACCAAAT
1 TACCAAAT
87087751 ATTATATTAA
Statistics
Matches: 80, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
89 2 0.03
90 61 0.76
91 17 0.21
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (91 bp):
TACCAAATTAGGAAAAAGAACCAAATTTAAGTACCAAATTGAACCAAAAAAAAGATTAAGTACCA
AATTAAGAAAAAGTGTCAAGTTCAAA
Found at i:87088132 original size:13 final size:13
Alignment explanation
Indices: 87088116--87088145 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
87088106 GAAATTTTTA
*
87088116 ACTTTTCAGAAGC
1 ACTTTTCAAAAGC
87088129 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
87088142 ACTT
1 ACTT
87088146 CTGAAGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:87088781 original size:11 final size:11
Alignment explanation
Indices: 87088765--87088804 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
87088755 GTTTGCTCCG
87088765 TATTTTGCTAC
1 TATTTTGCTAC
* *
87088776 TATTTTACTAT
1 TATTTTGCTAC
*
87088787 TATGTTGCTAC
1 TATTTTGCTAC
87088798 TATTTTG
1 TATTTTG
87088805 ATGTTATTGT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.20, C:0.12, G:0.10, T:0.57
Consensus pattern (11 bp):
TATTTTGCTAC
Found at i:87088879 original size:30 final size:30
Alignment explanation
Indices: 87088844--87088902 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
87088834 TATTTTATTG
87088844 TTAATTTTATTATTATTTTAAAGACATTTA
1 TTAATTTTATTATTATTTTAAAGACATTTA
* *
87088874 TTAATTTTGTTATTATTTTAGAGACATTT
1 TTAATTTTATTATTATTTTAAAGACATTT
87088903 GCTTGTTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.03, G:0.07, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGACATTTA
Found at i:87089306 original size:13 final size:13
Alignment explanation
Indices: 87089287--87089347 Score: 77
Period size: 13 Copynumber: 4.7 Consensus size: 13
87089277 TAAACCAAAT
87089287 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
87089300 TTCTCAAAAGCAC
1 TTTTCAAAAGCAC
* * *
87089313 TTTTCCATATCAC
1 TTTTCAAAAGCAC
*
87089326 TTTTCAAAAACAC
1 TTTTCAAAAGCAC
87089339 TTTTCAAAA
1 TTTTCAAAA
87089348 ACATTACCAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.34
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:87099327 original size:30 final size:30
Alignment explanation
Indices: 87099292--87099351 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
87099282 TTCTGGGTCG
87099292 AATGCCAATTTGGTTGGGCTTGACAATGCT
1 AATGCCAATTTGGTTGGGCTTGACAATGCT
87099322 AATGCCAATTTGGTTGGGCTTGACAATGCT
1 AATGCCAATTTGGTTGGGCTTGACAATGCT
87099352 GGTAATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (30 bp):
AATGCCAATTTGGTTGGGCTTGACAATGCT
Found at i:87103758 original size:2 final size:2
Alignment explanation
Indices: 87103751--87103805 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
87103741 ACTAAAGTTT
87103751 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
87103793 AC AC AC AC AC AC A
1 AC AC AC AC AC AC A
87103806 TATATATCAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:87107684 original size:31 final size:31
Alignment explanation
Indices: 87107646--87107708 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
87107636 ATGGGTAAAA
* *
87107646 TATATAAATGGCCATCCGTCTATGTTTGCAT
1 TATATAAATGGCCATCCATCTATGTCTGCAT
87107677 TATATAAATGGCCATCCATCTATGTCTGCAT
1 TATATAAATGGCCATCCATCTATGTCTGCAT
87107708 T
1 T
87107709 CTTGTTTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (31 bp):
TATATAAATGGCCATCCATCTATGTCTGCAT
Found at i:87123239 original size:26 final size:26
Alignment explanation
Indices: 87123208--87123316 Score: 191
Period size: 26 Copynumber: 4.2 Consensus size: 26
87123198 TGAAATTCCC
*
87123208 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
87123234 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
87123260 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
87123286 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87123312 ATCAT
1 ATCAT
87123317 TTGTATCAAT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:87128890 original size:21 final size:21
Alignment explanation
Indices: 87128866--87128905 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
87128856 CCAATCCCAT
87128866 GCAT-CAGATAATAACAACATG
1 GCATGCAG-TAATAACAACATG
87128887 GCATGCAGTAATAACAACA
1 GCATGCAGTAATAACAACA
87128906 GTCAAACATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.47, C:0.20, G:0.15, T:0.17
Consensus pattern (21 bp):
GCATGCAGTAATAACAACATG
Found at i:87130485 original size:26 final size:26
Alignment explanation
Indices: 87130449--87130556 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
87130439 TGAAATTCAC
*
87130449 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
87130475 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
87130501 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
87130527 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87130553 ATCA
1 ATCA
87130557 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:87130908 original size:14 final size:16
Alignment explanation
Indices: 87130889--87130929 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
87130879 TGGGCGTTAC
87130889 AATTTTATATT-A-AT
1 AATTTTATATTAACAT
* *
87130903 ATTTTTTTATTAACAT
1 AATTTTATATTAACAT
87130919 AATTTTATATT
1 AATTTTATATT
87130930 CAAGATTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.43
15 1 0.05
16 11 0.52
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (16 bp):
AATTTTATATTAACAT
Found at i:87130998 original size:13 final size:13
Alignment explanation
Indices: 87130964--87130998 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
87130954 ATAAAATAAT
*
87130964 TATAATTATTTTA
1 TATATTTATTTTA
87130977 TATTATTTATTTTA
1 TA-TATTTATTTTA
87130991 TATATTTA
1 TATATTTA
87130999 AAAAATATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TATATTTATTTTA
Found at i:87131360 original size:17 final size:19
Alignment explanation
Indices: 87131338--87131381 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
87131328 AATCATTATC
*
87131338 ATATTTA-AAAT-AAAATT
1 ATATTTATAAATAAAAAGT
*
87131355 ATATTTATATATAAAAAGT
1 ATATTTATAAATAAAAAGT
87131374 ATATTTAT
1 ATATTTAT
87131382 TTAATTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 7 0.30
18 3 0.13
19 13 0.57
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATATTTATAAATAAAAAGT
Found at i:87140864 original size:12 final size:11
Alignment explanation
Indices: 87140837--87140877 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
87140827 AATTTTTTAA
87140837 ATTTTAAAAAT
1 ATTTTAAAAAT
87140848 ATTTTAAAAAT
1 ATTTTAAAAAT
** *
87140859 ATTTTTTATAT
1 ATTTTAAAAAT
87140870 ATTTTAAA
1 ATTTTAAA
87140878 GAATTTTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATTTTAAAAAT
Found at i:87153477 original size:27 final size:27
Alignment explanation
Indices: 87153445--87153503 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
87153435 TAAAAAATCA
* *
87153445 GAAAAATTCTCAAAAAAATA-TAAATAT
1 GAAAAAATCT-AAAAAAATATTAAAAAT
* *
87153472 GAAAAAATGTTAAAAAATATTAAAAAT
1 GAAAAAATCTAAAAAAATATTAAAAAT
87153499 GAAAA
1 GAAAA
87153504 TTGGTATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 8 0.30
27 19 0.70
ACGTcount: A:0.66, C:0.03, G:0.07, T:0.24
Consensus pattern (27 bp):
GAAAAAATCTAAAAAAATATTAAAAAT
Found at i:87153679 original size:38 final size:38
Alignment explanation
Indices: 87153615--87153699 Score: 102
Period size: 38 Copynumber: 2.2 Consensus size: 38
87153605 ATTTAAAATT
* *
87153615 TTATAAAAACGCATTAAAAGTCTATAATAATCAT-AAAA
1 TTATAAAAACGCATTAAAACTATATAA-AATCATGAAAA
* *
87153653 TTATAAAAA-GCATTAAAACTGATATAAACTTATGAAAA
1 TTATAAAAACGCATTAAAACT-ATATAAAATCATGAAAA
87153691 TTATAAAAA
1 TTATAAAAA
87153700 ACAAATCATA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
37 14 0.34
38 27 0.66
ACGTcount: A:0.56, C:0.08, G:0.06, T:0.29
Consensus pattern (38 bp):
TTATAAAAACGCATTAAAACTATATAAAATCATGAAAA
Found at i:87154189 original size:11 final size:10
Alignment explanation
Indices: 87154126--87154221 Score: 54
Period size: 10 Copynumber: 9.6 Consensus size: 10
87154116 CTAGTTCAAG
*
87154126 TTTTTATGATT
1 TTTTTATTA-T
*
87154137 TTTTTAATAT
1 TTTTTATTAT
* *
87154147 TTTTTATAAG
1 TTTTTATTAT
* *
87154157 TTTATATTAA
1 TTTTTATTAT
87154167 TTTTTA-TA-
1 TTTTTATTAT
87154175 TTTTTATTATT
1 TTTTTATTA-T
*
87154186 TTTTTATCA-
1 TTTTTATTAT
* *
87154195 ATTTTATAAT
1 TTTTTATTAT
*
87154205 TTTATAATTAT
1 TTT-TTATTAT
87154216 TTTTTA
1 TTTTTA
87154222 ATAATTCTAA
Statistics
Matches: 64, Mismatches: 16, Indels: 11
0.70 0.18 0.12
Matches are distributed among these distances:
8 6 0.09
9 11 0.17
10 24 0.38
11 23 0.36
ACGTcount: A:0.28, C:0.01, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTTTATTAT
Found at i:87154209 original size:48 final size:47
Alignment explanation
Indices: 87154126--87154388 Score: 162
Period size: 48 Copynumber: 5.4 Consensus size: 47
87154116 CTAGTTCAAG
* * *
87154126 TTTTTATGATTTTTTTAATATTTTTTATAAGTTTATATTAATTTTTATA
1 TTTTTATTATTTTTTT-ATA-ATTTTATAATTTTATATTAATTTTTATA
*
87154175 TTTTTATTATTTTTTTATCAATTTTATAATTTTATAATTATTTTTTAATA
1 TTTTTATTATTTTTTTAT-AATTTTATAATTTTAT-ATTAATTTTT-ATA
* * * * *
87154225 ATTCTAATATATTTTTT-TAATTTTAAATATTTTA-AATAATTTTTATTA
1 TTTTTATTAT-TTTTTTATAATTTTATA-ATTTTATATTAATTTTTA-TA
* * ** *
87154273 ATTTTATAATTGGTTTATAA-TTTATTATATTTT-TA-TAATGTTTATAA
1 TTTTTATTATTTTTTTATAATTTTA-TA-ATTTTATATTAATTTTTAT-A
* *
87154320 GTTTTTA-TA-TTTTTAATAAGTTTATATAAATTTTAATATATAATTTTTATT
1 -TTTTTATTATTTTTTTATAA-TTT-TAT-AATTTT-ATAT-TAATTTTTATA
* *
87154371 TTTTTATAACTTTTTTAT
1 TTTTTATTATTTTTTTAT
87154389 TTTTAAATAA
Statistics
Matches: 167, Mismatches: 26, Indels: 39
0.72 0.11 0.17
Matches are distributed among these distances:
46 8 0.05
47 19 0.11
48 56 0.34
49 36 0.22
50 25 0.15
51 7 0.04
52 16 0.10
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (47 bp):
TTTTTATTATTTTTTTATAATTTTATAATTTTATATTAATTTTTATA
Found at i:87154217 original size:19 final size:19
Alignment explanation
Indices: 87154195--87154311 Score: 64
Period size: 19 Copynumber: 5.9 Consensus size: 19
87154185 TTTTTTATCA
87154195 ATTTTATAATTTTATAATT
1 ATTTTATAATTTTATAATT
* * *
87154214 ATTTTTTAATAATTCTAATAT
1 ATTTTATAAT-TTTATAAT-T
*
87154235 ATTTTTTTAATTTTA-AA-T
1 A-TTTTATAATTTTATAATT
87154253 ATTTTAAATAATTTT-T-ATT
1 ATTTT--ATAATTTTATAATT
87154272 AATTTTATAATTGGTTTATAATT
1 -ATTTTATAA-T--TTTATAATT
* *
87154295 -TATTATATTTTTATAAT
1 ATTTTATAATTTTATAAT
87154312 GTTTATAAGT
Statistics
Matches: 77, Mismatches: 8, Indels: 27
0.69 0.07 0.24
Matches are distributed among these distances:
17 4 0.05
18 15 0.19
19 18 0.23
20 14 0.18
21 13 0.17
22 10 0.13
23 3 0.04
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.62
Consensus pattern (19 bp):
ATTTTATAATTTTATAATT
Found at i:87154249 original size:28 final size:29
Alignment explanation
Indices: 87154217--87154283 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
87154207 TATAATTATT
87154217 TTTTAATAATTCT-AATATATTTTT-TTAA
1 TTTTAATAATTCTAAATA-ATTTTTATTAA
*
87154245 TTTTAA-ATATTTTAAATAATTTTTATTAA
1 TTTTAATA-ATTCTAAATAATTTTTATTAA
87154274 TTTT-ATAATT
1 TTTTAATAATT
87154284 GGTTTATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
27 1 0.03
28 20 0.59
29 13 0.38
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (29 bp):
TTTTAATAATTCTAAATAATTTTTATTAA
Done.