Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold321
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: 1060354
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
File 4 of 6
Found at i:645224 original size:17 final size:17
Alignment explanation
Indices: 645184--645234 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
645174 ATAAATTAAT
*
645184 TAATTTAATTTTATATA
1 TAATTTAATTTTTTATA
**
645201 TTTTTTAATTTTTTATA
1 TAATTTAATTTTTTATA
645218 TAATTTATATTTATTTA
1 TAATTTA-ATTT-TTTA
645235 ATCAATAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 19 0.70
18 4 0.15
19 4 0.15
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TAATTTAATTTTTTATA
Found at i:645693 original size:13 final size:14
Alignment explanation
Indices: 645670--645698 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
645660 CTGCTTTATT
645670 TTATACAAGTCAAA
1 TTATACAAGTCAAA
645684 TTAT-CAAGTCAAA
1 TTATACAAGTCAAA
645697 TT
1 TT
645699 TTAAAGGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (14 bp):
TTATACAAGTCAAA
Found at i:645824 original size:18 final size:17
Alignment explanation
Indices: 645792--645826 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
645782 ATTTTGTAAT
*
645792 TATTTATATTTAATATA
1 TATTTAAATTTAATATA
645809 TATTTAAATATTAATATA
1 TATTTAAAT-TTAATATA
645827 AATATATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TATTTAAATTTAATATA
Found at i:646920 original size:13 final size:13
Alignment explanation
Indices: 646902--646930 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
646892 TTTTTTTAAA
646902 AATATTTATATTT
1 AATATTTATATTT
646915 AATATTTATATTT
1 AATATTTATATTT
646928 AAT
1 AAT
646931 TAATATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
AATATTTATATTT
Found at i:646935 original size:17 final size:19
Alignment explanation
Indices: 646903--646939 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
646893 TTTTTTAAAA
646903 ATATTTATATTTAATATTT
1 ATATTTATATTTAATATTT
646922 ATATTTA-A-TTAATATTT
1 ATATTTATATTTAATATTT
646939 A
1 A
646940 AATATAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 1 0.06
19 7 0.39
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATATTTATATTTAATATTT
Found at i:646986 original size:13 final size:14
Alignment explanation
Indices: 646959--646989 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
646949 ATAAAATTAT
646959 AATTTTTTAATAAA
1 AATTTTTTAATAAA
646973 AATTTTTTAA-AAA
1 AATTTTTTAATAAA
646986 AATT
1 AATT
646990 AAATATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AATTTTTTAATAAA
Found at i:650356 original size:2 final size:2
Alignment explanation
Indices: 650351--650377 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
650341 TGATACATAC
650351 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 A
650378 GAGTTGTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:654104 original size:8 final size:8
Alignment explanation
Indices: 654094--654135 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
654084 ACTAATAATT
*
654094 TATTTATT
1 TATTTATA
654102 TATATTATA
1 TAT-TTATA
654111 TATTTATA
1 TATTTATA
654119 TATTT-TA
1 TATTTATA
654126 TATTT-TA
1 TATTTATA
654133 TAT
1 TAT
654136 CAATATTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
7 12 0.38
8 13 0.41
9 7 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TATTTATA
Found at i:654116 original size:17 final size:17
Alignment explanation
Indices: 654094--654135 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
654084 ACTAATAATT
*
654094 TATTTATTTATATTATA
1 TATTTATATATATTATA
*
654111 TATTTATATATTTTATA
1 TATTTATATATATTATA
654128 T-TTTATAT
1 TATTTATAT
654136 CAATATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TATTTATATATATTATA
Found at i:654128 original size:22 final size:21
Alignment explanation
Indices: 654091--654135 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
654081 TAAACTAATA
*
654091 ATTTATTTATTTATATTATAT
1 ATTTATATATTTATATTATAT
*
654112 ATTTATATATTTTATATTTTAT
1 ATTTATATA-TTTATATTATAT
654134 AT
1 AT
654136 CAATATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTATATATTTATATTATAT
Found at i:654141 original size:22 final size:22
Alignment explanation
Indices: 654100--654141 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
654090 AATTTATTTA
**
654100 TTTATATTATATATTTATATAT
1 TTTATATTATATATCAATATAT
*
654122 TTTATATTTTATATCAATAT
1 TTTATATTATATATCAATAT
654142 TATTAAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTATATTATATATCAATATAT
Found at i:654208 original size:24 final size:23
Alignment explanation
Indices: 654155--654209 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
654145 TAAAATAATA
* *
654155 ATTTATGTTTTTATTTTATATTTT
1 ATTTAT-TTTTTATATTATATTAT
*
654179 AATTATTTTTTAATATTATATTAT
1 ATTTATTTTTT-ATATTATATTAT
654203 ATTTATT
1 ATTTATT
654210 AATGATGTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (23 bp):
ATTTATTTTTTATATTATATTAT
Found at i:654211 original size:64 final size:64
Alignment explanation
Indices: 654080--654199 Score: 156
Period size: 64 Copynumber: 1.9 Consensus size: 64
654070 ACTTTTTACG
* *
654080 TTAAACTAATAATTTATTTATTTATATTATATATTTATATATTTTATATTTTATATCAATATTA
1 TTAAAATAATAATTTATTTATTTATATTATATATTTATATATTTTATATATTATATCAATATTA
* *
654144 TTAAAATAATAATTTATGTT-TTTATTTTATAT-TTTA-ATTATTTTTTAATATTATAT
1 TTAAAATAATAATTTAT-TTATTTATATTATATATTTATA-TATTTTAT-ATATTATAT
654200 TATATTTATT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
62 1 0.02
63 11 0.22
64 35 0.71
65 2 0.04
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.60
Consensus pattern (64 bp):
TTAAAATAATAATTTATTTATTTATATTATATATTTATATATTTTATATATTATATCAATATTA
Found at i:655468 original size:22 final size:20
Alignment explanation
Indices: 655423--655461 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
655413 ACGCTCGAGT
655423 AATATATTTATAAAGATTAA
1 AATATATTTATAAAGATTAA
655443 AATATATTTTATAAA-ATTA
1 AATATA-TTTATAAAGATTA
655462 TAAAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (20 bp):
AATATATTTATAAAGATTAA
Found at i:658089 original size:2 final size:2
Alignment explanation
Indices: 658084--658129 Score: 51
Period size: 2 Copynumber: 24.0 Consensus size: 2
658074 CTAATGTGTG
* * *
658084 TA TA TA TA TA TA TA TA TA TA TG TA AA AA TA TA TA TA -A TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
658124 TA TA TA
1 TA TA TA
658130 CCATTTTTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (2 bp):
TA
Found at i:672083 original size:2 final size:2
Alignment explanation
Indices: 672076--672110 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
672066 AATCAAGCAA
*
672076 AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
672111 TTTATCAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:673843 original size:12 final size:12
Alignment explanation
Indices: 673826--673879 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
673816 ATAAAAATAT
673826 TAAATTTAAAAA
1 TAAATTTAAAAA
673838 TAAATTTAAATAA
1 TAAATTTAAA-AA
673851 -AAA-TT-AAAA
1 TAAATTTAAAAA
*
673860 TATATTTACAAAAA
1 TAAATTT--AAAAA
673874 TAAATT
1 TAAATT
673880 AAGCTTAGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
9 2 0.06
10 4 0.12
11 4 0.12
12 13 0.38
13 2 0.06
14 9 0.26
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (12 bp):
TAAATTTAAAAA
Found at i:673847 original size:31 final size:30
Alignment explanation
Indices: 673795--673854 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 30
673785 AAAATTTTAT
673795 TTAATATTTAAAATAATTTAAATAAAAATA
1 TTAATATTTAAAATAATTTAAATAAAAATA
673825 TTAA-ATTTAAAAATAAATTTAAATAAAAAT
1 TTAATATTT-AAAAT-AATTTAAATAAAAAT
673855 TAAAATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 4 0.14
30 9 0.32
31 15 0.54
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (30 bp):
TTAATATTTAAAATAATTTAAATAAAAATA
Found at i:673859 original size:22 final size:24
Alignment explanation
Indices: 673834--673881 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 24
673824 ATTAAATTTA
*
673834 AAAATAAATTTA-AATAA-AAATT
1 AAAATAAATTTACAAAAATAAATT
*
673856 AAAATATATTTACAAAAATAAATT
1 AAAATAAATTTACAAAAATAAATT
673880 AA
1 AA
673882 GCTTAGGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 11 0.50
23 4 0.18
24 7 0.32
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (24 bp):
AAAATAAATTTACAAAAATAAATT
Found at i:676671 original size:18 final size:18
Alignment explanation
Indices: 676644--676694 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
676634 TCGTAAAATT
*
676644 TAAA-AATTTTTATTTGA
1 TAAATAATTTTTATTTAA
676661 TAAATAATTTTT-TTTAA
1 TAAATAATTTTTATTTAA
* *
676678 TTATTAATGTTTTATTT
1 TAAATAAT-TTTTATTT
676695 TTTATTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 14 0.50
18 11 0.39
19 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (18 bp):
TAAATAATTTTTATTTAA
Found at i:676988 original size:13 final size:13
Alignment explanation
Indices: 676970--677016 Score: 67
Period size: 13 Copynumber: 3.4 Consensus size: 13
676960 ATTATTTTTT
676970 AAATAAATTATTA
1 AAATAAATTATTA
676983 AAATAATATTAATTTA
1 AAATAA-ATT-A-TTA
676999 AAATAAATTATTA
1 AAATAAATTATTA
677012 AAATA
1 AAATA
677017 TTATTATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
13 14 0.45
14 4 0.13
15 4 0.13
16 9 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATAAATTATTA
Found at i:677032 original size:34 final size:30
Alignment explanation
Indices: 676960--677022 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
676950 AAAGATCAAA
* *
676960 ATTATTTTTTAAATAAATTATTAAAATAAT
1 ATTAATTTATAAATAAATTATTAAAATAAT
*
676990 ATTAATTTA-AAATAAATTATTAAAATATT
1 ATTAATTTATAAATAAATTATTAAAATAAT
677019 ATTA
1 ATTA
677023 TTTTGATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 23 0.77
30 7 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (30 bp):
ATTAATTTATAAATAAATTATTAAAATAAT
Found at i:677303 original size:13 final size:14
Alignment explanation
Indices: 677276--677307 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
677266 TGTATAATAT
677276 TTTAAAATATTTAA
1 TTTAAAATATTTAA
677290 TTTAAAAT-TTTAA
1 TTTAAAATATTTAA
677303 TTTAA
1 TTTAA
677308 GTTGATCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTAAAATATTTAA
Found at i:677625 original size:38 final size:39
Alignment explanation
Indices: 677541--677626 Score: 106
Period size: 38 Copynumber: 2.3 Consensus size: 39
677531 ATTACAATAT
* * *
677541 AAAGTTT-AAAATAATTAGACTATTATAATTCTTAATTT
1 AAAGTTTAAAAATAATTAGACTATTACAATTCTAAATTA
*
677579 AAATTTTAAAAATAATTAGA-TGATTACAATT-TAAATTA
1 AAAGTTTAAAAATAATTAGACT-ATTACAATTCTAAATTA
677617 AAAGTTTAAA
1 AAAGTTTAAA
677627 TTAAATACTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
38 21 0.51
39 20 0.49
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (39 bp):
AAAGTTTAAAAATAATTAGACTATTACAATTCTAAATTA
Found at i:677826 original size:17 final size:17
Alignment explanation
Indices: 677803--677842 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
677793 ATAATAACTC
*
677803 TAATAATATTATTA-AA
1 TAATAATAATATTACAA
677819 TGAATAATAATATTACAA
1 T-AATAATAATATTACAA
677837 TAATAA
1 TAATAA
677843 CTGTAAGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 17 0.81
18 3 0.14
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATAATAATATTACAA
Found at i:682279 original size:39 final size:35
Alignment explanation
Indices: 682236--682315 Score: 106
Period size: 35 Copynumber: 2.2 Consensus size: 35
682226 AATATCGTTA
682236 TAAAATATAAAAAAATTAAATATAATTAATAATTATTTT
1 TAAAATATAAAAAAATT--AT-T-ATTAATAATTATTTT
* *
682275 TAAAAAATAAAAAAATTATTTTTAATAATTATTTT
1 TAAAATATAAAAAAATTATTATTAATAATTATTTT
682310 TAAAAT
1 TAAAAT
682316 TATTTTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 19 0.50
36 1 0.03
37 2 0.05
39 16 0.42
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (35 bp):
TAAAATATAAAAAAATTATTATTAATAATTATTTT
Found at i:682316 original size:12 final size:12
Alignment explanation
Indices: 682286--682326 Score: 73
Period size: 12 Copynumber: 3.3 Consensus size: 12
682276 AAAAAATAAA
682286 AAAATTATTTTT
1 AAAATTATTTTT
682298 AATAATTATTTTT
1 AA-AATTATTTTT
682311 AAAATTATTTTT
1 AAAATTATTTTT
682323 AAAA
1 AAAA
682327 ATTTTATCGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 16 0.57
13 12 0.43
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
AAAATTATTTTT
Found at i:682327 original size:13 final size:13
Alignment explanation
Indices: 682285--682329 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
682275 TAAAAAATAA
682285 AAAAATTATTTTT
1 AAAAATTATTTTT
*
682298 AATAATTATTTTT
1 AAAAATTATTTTT
682311 -AAAATTATTTTT
1 AAAAATTATTTTT
682323 AAAAATT
1 AAAAATT
682330 TTATCGACGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
AAAAATTATTTTT
Found at i:683104 original size:25 final size:25
Alignment explanation
Indices: 683070--683121 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
683060 GTACATATAC
*
683070 ATACAAATATATGTAATGTGATTGG
1 ATACAAATATATATAATGTGATTGG
683095 ATACAAATATATATAATGTGATTGG
1 ATACAAATATATATAATGTGATTGG
683120 AT
1 AT
683122 TTCAATTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.42, C:0.04, G:0.17, T:0.37
Consensus pattern (25 bp):
ATACAAATATATATAATGTGATTGG
Found at i:684083 original size:2 final size:2
Alignment explanation
Indices: 684078--684107 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
684068 TGTGTGTGTG
684078 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
684108 GTCCATTATA
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:688314 original size:10 final size:10
Alignment explanation
Indices: 688292--688320 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
688282 GTTAAATTTG
688292 TTTTTTAAA-
1 TTTTTTAAAT
688301 TTTTTTAAAT
1 TTTTTTAAAT
688311 TTTTTTAAAT
1 TTTTTTAAAT
688321 AAATTATCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTTTAAAT
Found at i:689419 original size:32 final size:33
Alignment explanation
Indices: 689383--689444 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
689373 CGATCATTTT
689383 TATAATAT-AATATAAAAA-ATAATTAAAATAAA
1 TATAATATAAATATAAAAATAT-ATTAAAATAAA
*
689415 TATAATATAAATATATAAATATATTAAAAT
1 TATAATATAAATATAAAAATATATTAAAAT
689445 TTATGTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 8 0.30
33 17 0.63
34 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (33 bp):
TATAATATAAATATAAAAATATATTAAAATAAA
Found at i:689441 original size:33 final size:32
Alignment explanation
Indices: 689383--689444 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
689373 CGATCATTTT
689383 TATAATATAATATAAAAAATAATTAAAATAAA
1 TATAATATAATATAAAAAATAATTAAAATAAA
*
689415 TATAATATAA-ATATATAAATATATTAAAAT
1 TATAATATAATATA-AAAAATA-ATTAAAAT
689445 TTATGTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 3 0.11
32 16 0.59
33 8 0.30
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (32 bp):
TATAATATAATATAAAAAATAATTAAAATAAA
Found at i:689460 original size:37 final size:37
Alignment explanation
Indices: 689410--689511 Score: 91
Period size: 37 Copynumber: 2.6 Consensus size: 37
689400 AATAATTAAA
* *
689410 ATAAATATAATATAAATATATAAATATA-TTAAAATTT
1 ATAAAAAT-ATATAAATATATAAATATATTTAAAATAT
* * *
689447 ATGTAAAATATAT-AATATTTTAAATATATTTATAATAT
1 AT-AAAAATATATAAATA-TATAAATATATTTAAAATAT
689485 ATAAAAATATATATACATAATATAAAT
1 ATAAAAATATATA-A-AT-ATATAAAT
689512 GTACCACTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
36 4 0.08
37 24 0.47
38 13 0.25
39 1 0.02
40 8 0.16
41 1 0.02
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (37 bp):
ATAAAAATATATAAATATATAAATATATTTAAAATAT
Found at i:689471 original size:27 final size:28
Alignment explanation
Indices: 689423--689488 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 28
689413 AATATAATAT
*
689423 AAATATATAAATATATTAAAATTTATGTA
1 AAATATAT-AATATATTAAAATATATGTA
* *
689452 AAATATATAATAT-TTTAAATATATTTA
1 AAATATATAATATATTAAAATATATGTA
*
689479 TAATATATAA
1 AAATATATAA
689489 AAATATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 20 0.61
28 5 0.15
29 8 0.24
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (28 bp):
AAATATATAATATATTAAAATATATGTA
Found at i:689507 original size:21 final size:20
Alignment explanation
Indices: 689454--689510 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
689444 TTTATGTAAA
* * *
689454 ATATATAATATTTTAAATAT
1 ATATATAATAATATAAAAAT
*
689474 ATTTATAAT-ATATAAAAAT
1 ATATATAATAATATAAAAAT
689493 ATATATACATAATATAAA
1 ATATATA-ATAATATAAA
689511 TGTACCACTA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 13 0.43
20 10 0.33
21 7 0.23
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
ATATATAATAATATAAAAAT
Found at i:693525 original size:18 final size:19
Alignment explanation
Indices: 693494--693532 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
693484 GTAAAATTTA
693494 TTAATTAATAAAAAATAAT
1 TTAATTAATAAAAAATAAT
*
693513 TTAATTTAT-AAAAATAAT
1 TTAATTAATAAAAAATAAT
693531 TT
1 TT
693533 TTTTATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TTAATTAATAAAAAATAAT
Found at i:693553 original size:24 final size:24
Alignment explanation
Indices: 693517--693563 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
693507 AATAATTTAA
693517 TTTATAAAAATAATTTTTTTATAT
1 TTTATAAAAATAATTTTTTTATAT
693541 TTTA-AAAATATAATTTTTTTATA
1 TTTATAAAA-ATAATTTTTTTATA
693564 AAAAAAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTATAAAAATAATTTTTTTATAT
Found at i:694106 original size:22 final size:23
Alignment explanation
Indices: 694063--694113 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 23
694053 ATTATATCAA
694063 ATTTAATTTAATCATATAAAATTT
1 ATTT-ATTTAATCATATAAAATTT
*
694087 -TTTATTTAATC-TTTATAAATTT
1 ATTTATTTAATCATATA-AAATTT
694109 ATTTA
1 ATTTA
694114 AATTTATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 3 0.12
22 14 0.58
23 7 0.29
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (23 bp):
ATTTATTTAATCATATAAAATTT
Found at i:694121 original size:18 final size:19
Alignment explanation
Indices: 694087--694123 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
694077 TATAAAATTT
*
694087 TTTATTTAATCTTTATAAA
1 TTTATTTAATATTTATAAA
694106 TTTATTTAA-ATTTATAAA
1 TTTATTTAATATTTATAAA
694124 CAAATAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTATTTAATATTTATAAA
Found at i:697111 original size:18 final size:18
Alignment explanation
Indices: 697088--697122 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
697078 TTTTTTTATG
697088 AAATTAAAATTATATAAA
1 AAATTAAAATTATATAAA
*
697106 AAATTACAATTATATAA
1 AAATTAAAATTATATAA
697123 TCAAACATTG
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:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATTAAAATTATATAAA
Found at i:697879 original size:18 final size:18
Alignment explanation
Indices: 697834--697893 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
697824 AAATTAATAT
697834 TTAAT-ATTTAATATATATA
1 TTAATAATTT-ATAT-TATA
*
697853 TTTAA-AA-TTATAATTTTA
1 -TTAATAATTTAT-ATTATA
697871 TTAATAATTTATATTATA
1 TTAATAATTTATATTATA
697889 TTAAT
1 TTAAT
697894 TTAAAGAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
17 4 0.12
18 17 0.50
19 8 0.24
20 5 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTAATAATTTATATTATA
Found at i:697964 original size:2 final size:2
Alignment explanation
Indices: 697957--697987 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
697947 TTGACAAAGA
697957 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
697988 ATTCTAACAT
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:700453 original size:6 final size:6
Alignment explanation
Indices: 700442--700494 Score: 65
Period size: 6 Copynumber: 9.0 Consensus size: 6
700432 AATATAAATT
* *
700442 ATATAA ATAT-A ATATAA ATTATTA A-ATAA ATAAAA ATATAA ATATAA
1 ATATAA ATATAA ATATAA A-TATAA ATATAA ATATAA ATATAA ATATAA
700489 ATATAA
1 ATATAA
700495 TACATATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 9 0.22
6 26 0.65
7 5 0.12
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAA
Found at i:700478 original size:18 final size:18
Alignment explanation
Indices: 700432--700494 Score: 74
Period size: 20 Copynumber: 3.4 Consensus size: 18
700422 TTTATTTTTT
700432 AATATAAATTATATAAATA
1 AATATAAATTAT-TAAATA
700451 TAATATAAATTATTAAATA
1 -AATATAAATTATTAAATA
* *
700470 AATA-AAAATATAAATATA
1 AATATAAATTATTAA-ATA
700488 AATATAA
1 AATATAA
700495 TACATATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
17 8 0.21
18 11 0.28
19 8 0.21
20 12 0.31
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AATATAAATTATTAAATA
Found at i:701422 original size:3 final size:3
Alignment explanation
Indices: 701416--701440 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
701406 ATTTATTTTT
701416 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
701441 CATCATCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:701797 original size:6 final size:6
Alignment explanation
Indices: 701783--701813 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
701773 TTGTAAACTC
*
701783 GGTCTG GGTCAG GGTCAG GGTCAG GGTCAG G
1 GGTCAG GGTCAG GGTCAG GGTCAG GGTCAG G
701814 AGGTATTCGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.52, T:0.19
Consensus pattern (6 bp):
GGTCAG
Found at i:715003 original size:1 final size:1
Alignment explanation
Indices: 714993--715083 Score: 74
Period size: 1 Copynumber: 91.0 Consensus size: 1
714983 TGGCAATTGG
* * * ** * * * **
714993 AAAAAGAAAAAAAACAAAACAAAAAAAAGGAAAAAGAAAAAAAAAAACAAAACAAAAAAAAAGGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
715058 AAAAGAAAAAAAAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
715084 GTGAAGATTT
Statistics
Matches: 70, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 70 1.00
ACGTcount: A:0.87, C:0.05, G:0.08, T:0.00
Consensus pattern (1 bp):
A
Found at i:715033 original size:17 final size:17
Alignment explanation
Indices: 715013--715071 Score: 84
Period size: 17 Copynumber: 3.5 Consensus size: 17
715003 AAAACAAAAC
715013 AAAAAAAAGGAAAAAGA
1 AAAAAAAAGGAAAAAGA
* *
715030 AAAAAAAA-AACAAAACA
1 AAAAAAAAGGA-AAAAGA
715047 AAAAAAAAGGAAAAAGA
1 AAAAAAAAGGAAAAAGA
715064 AAAAAAAA
1 AAAAAAAA
715072 AACAAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
16 1 0.03
17 34 0.94
18 1 0.03
ACGTcount: A:0.86, C:0.03, G:0.10, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGGAAAAAGA
Found at i:715051 original size:34 final size:34
Alignment explanation
Indices: 714999--715083 Score: 156
Period size: 34 Copynumber: 2.6 Consensus size: 34
714989 TTGGAAAAAG
714999 AAAAAAAACAAAAC-AAAAAAAAGGAAAAAGAAA
1 AAAAAAAACAAAACAAAAAAAAAGGAAAAAGAAA
715032 AAAAAAAACAAAACAAAAAAAAAGGAAAAAGAAA
1 AAAAAAAACAAAACAAAAAAAAAGGAAAAAGAAA
715066 AAAAAAAACAAAA-AAAAA
1 AAAAAAAACAAAACAAAAA
715084 GTGAAGATTT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
33 19 0.37
34 32 0.63
ACGTcount: A:0.87, C:0.06, G:0.07, T:0.00
Consensus pattern (34 bp):
AAAAAAAACAAAACAAAAAAAAAGGAAAAAGAAA
Found at i:717858 original size:2 final size:2
Alignment explanation
Indices: 717851--717878 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
717841 ATCGATAAAA
717851 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
717879 TTGTAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:718975 original size:16 final size:17
Alignment explanation
Indices: 718941--718991 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
718931 GAATAAATTT
*
718941 AATTAATATTAA-TAAAA
1 AATTAAT-TTAATTTAAA
*
718958 AATTTTATTT-ATTTAAA
1 AA-TTAATTTAATTTAAA
718975 AATTAATTTAATTTAAA
1 AATTAATTTAATTTAAA
718992 TTAATTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 7 0.25
17 17 0.61
18 4 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTAATTTAATTTAAA
Found at i:718975 original size:17 final size:18
Alignment explanation
Indices: 718955--719001 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
718945 AATATTAATA
718955 AAAAATTTTATTT-ATTT
1 AAAAATTTTATTTAATTT
*
718972 AAAAA-TTAATTTAATTT
1 AAAAATTTTATTTAATTT
718989 AAATTAATTTTAT
1 AAA--AATTTTAT
719002 CCAATTCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 6 0.25
17 12 0.50
19 2 0.08
20 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AAAAATTTTATTTAATTT
Found at i:721539 original size:21 final size:21
Alignment explanation
Indices: 721514--721601 Score: 62
Period size: 21 Copynumber: 4.2 Consensus size: 21
721504 ATTTAATTTT
721514 AAAATATAATTATAAAAAATA
1 AAAATATAATTATAAAAAATA
*
721535 AAAATATCAA--AGAAAATAATTA
1 AAAATAT-AATTATAAAA-AA-TA
*
721557 AAAAT-TAATTTTAAAAAAATA
1 AAAATATAATTAT-AAAAAATA
*
721578 AATAA-A-AATTA-AAAAAATC
1 AA-AATATAATTATAAAAAATA
721597 AAAAT
1 AAAAT
721602 CATATACTGA
Statistics
Matches: 53, Mismatches: 5, Indels: 20
0.68 0.06 0.26
Matches are distributed among these distances:
18 2 0.04
19 9 0.17
20 7 0.13
21 18 0.34
22 13 0.25
23 4 0.08
ACGTcount: A:0.70, C:0.02, G:0.01, T:0.26
Consensus pattern (21 bp):
AAAATATAATTATAAAAAATA
Found at i:723166 original size:19 final size:19
Alignment explanation
Indices: 723128--723167 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
723118 ATCCTTTTTC
* * *
723128 AAAATTTTTTAAATACATA
1 AAAATCTTTTAAAAAAATA
723147 AAAATCTTTTAAAAAAATA
1 AAAATCTTTTAAAAAAATA
723166 AA
1 AA
723168 TATACCCGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAATCTTTTAAAAAAATA
Found at i:724111 original size:35 final size:35
Alignment explanation
Indices: 724065--724136 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
724055 TGGCCAATAG
724065 AAATGTGAATTTGAGTTCCAGAAGAGTACCTGAAT
1 AAATGTGAATTTGAGTTCCAGAAGAGTACCTGAAT
724100 AAATGTGAATTTGAGTTCCAGAAGAGTACCTGAAT
1 AAATGTGAATTTGAGTTCCAGAAGAGTACCTGAAT
724135 AA
1 AA
724137 TGTCACCAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (35 bp):
AAATGTGAATTTGAGTTCCAGAAGAGTACCTGAAT
Found at i:725392 original size:56 final size:53
Alignment explanation
Indices: 725292--725426 Score: 125
Period size: 56 Copynumber: 2.5 Consensus size: 53
725282 ATATAAATAT
*
725292 AATATAAAAATATATTTAAAATTTA-ATATATAATATATAAAAATAAATAATT-AA
1 AATATATAAATATA-TTAAAATTTATATATATAATATATAAAAAT--ATAATTAAA
* * **
725346 AATATATAAATATATTAAAATTTATATAAATATATTATTTTTAAATATAATTAAAA
1 AATATATAAATATATTAAAATTTATAT--ATATAATATATAAAAATATAATT-AAA
725402 AATAATATAAATA-A-TATAAATTTAT
1 AAT-ATATAAATATATTA-AAATTTAT
725427 TAATTAAGCT
Statistics
Matches: 69, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
53 10 0.14
54 21 0.30
55 2 0.03
56 27 0.39
57 9 0.13
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (53 bp):
AATATATAAATATATTAAAATTTATATATATAATATATAAAAATATAATTAAA
Found at i:725396 original size:54 final size:52
Alignment explanation
Indices: 725282--725426 Score: 125
Period size: 54 Copynumber: 2.7 Consensus size: 52
725272 TTTAATCATG
* * *
725282 ATATAAATATAATATAAAAATATATTTAAAATTTA-ATATATAATATATAAAA
1 ATATAATTAAAATATATAAATATA-TTAAAATTTATATATATAATATATAAAA
* * **
725334 ATAAATAATTAAAATATATAAATATATTAAAATTTATATAAATATATTATTTTTAA
1 AT--ATAATTAAAATATATAAATATATTAAAATTTATAT--ATATAATATATAAAA
725390 ATATAATTAAAAAATAATATAAATA-A-TATAAATTTAT
1 ATATAATT--AAAAT-ATATAAATATATTA-AAATTTAT
725427 TAATTAAGCT
Statistics
Matches: 77, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
52 2 0.03
53 10 0.13
54 27 0.35
55 2 0.03
56 27 0.35
57 9 0.12
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (52 bp):
ATATAATTAAAATATATAAATATATTAAAATTTATATATATAATATATAAAA
Found at i:728865 original size:36 final size:36
Alignment explanation
Indices: 728819--728958 Score: 104
Period size: 36 Copynumber: 3.7 Consensus size: 36
728809 TTTAATCATG
728819 ATATA-AATATAATATAAAAATATATTTAAAATTTA
1 ATATATAATATAATATAAAAATATATTTAAAATTTA
* * *
728854 ATATATAATATAAAATAAAAATAAATAATAAAATATATAA
1 ATATATAATATAATATAAAAATATAT-TTAAAAT-T-T-A
* * * * *
728894 ATATATTAAAATTTATATAAATATATTATTTTTAAATATA
1 ATATA-TAATA-TAATATAAAAATA-TA-TTTAAAATTTA
*
728934 AT-TAAAATATAATATAAATAATATA
1 ATATATAATATAATATAAA-AATATA
728959 AATTCAATAA
Statistics
Matches: 80, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
35 5 0.06
36 18 0.22
37 16 0.20
38 7 0.09
39 3 0.04
40 9 0.11
41 5 0.06
42 10 0.12
43 6 0.08
44 1 0.01
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (36 bp):
ATATATAATATAATATAAAAATATATTTAAAATTTA
Found at i:728910 original size:20 final size:20
Alignment explanation
Indices: 728831--728953 Score: 79
Period size: 20 Copynumber: 6.5 Consensus size: 20
728821 ATAAATATAA
*
728831 TATAAAAATATATTTAAAATT
1 TATATAAATATA-TTAAAATT
* *
728852 TA-ATATATA-ATATAAAATA
1 TATATAAATATAT-TAAAATT
* *
728871 AAAATAAATA-A-TAAAA--
1 TATATAAATATATTAAAATT
728887 TATATAAATATATTAAAATT
1 TATATAAATATATTAAAATT
728907 TATATAAATATATT---ATT
1 TATATAAATATATTAAAATT
728924 T-T-TAAATATAATTAAAATAT
1 TATATAAATAT-ATTAAAAT-T
*
728944 AATATAAATA
1 TATATAAATA
728954 ATATAAATTC
Statistics
Matches: 81, Mismatches: 8, Indels: 25
0.71 0.07 0.22
Matches are distributed among these distances:
15 7 0.09
16 12 0.15
17 5 0.06
18 11 0.14
19 10 0.12
20 27 0.33
21 3 0.04
22 6 0.07
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TATATAAATATATTAAAATT
Found at i:728961 original size:20 final size:19
Alignment explanation
Indices: 728819--728961 Score: 70
Period size: 20 Copynumber: 7.4 Consensus size: 19
728809 TTTAATCATG
728819 ATATAAATATAATATAAAAAT
1 ATATAAATATAATAT--AAAT
*
728840 ATATTTAAAATTTAATATATAAT
1 ATA--T-AAATATAATATA-AAT
*
728863 ATA-AAATA-AAAATAAAT
1 ATATAAATATAATATAAAT
728880 A-ATAAA-AT-ATATAAAT
1 ATATAAATATAATATAAAT
*
728896 ATATTAAA-ATTTATATAAAT
1 ATA-TAAATA-TAATATAAAT
** *
728916 ATATTATTTTTAA-ATATAAT
1 ATA-TAAATATAATATA-AAT
728936 -TA-AAATATAATATAAAT
1 ATATAAATATAATATAAAT
728953 AATATAAAT
1 -ATATAAAT
728962 TCAATAATTA
Statistics
Matches: 95, Mismatches: 11, Indels: 33
0.68 0.08 0.24
Matches are distributed among these distances:
16 10 0.11
17 16 0.17
18 13 0.14
19 12 0.13
20 23 0.24
21 3 0.03
22 1 0.01
23 7 0.07
24 10 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
ATATAAATATAATATAAAT
Found at i:729473 original size:18 final size:18
Alignment explanation
Indices: 729450--729485 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
729440 ATTAATATCA
729450 TATTTATATAATTATTTT
1 TATTTATATAATTATTTT
*
729468 TATTTATGTAATTATTTT
1 TATTTATATAATTATTTT
729486 AATATCGATA
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:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (18 bp):
TATTTATATAATTATTTT
Found at i:733291 original size:34 final size:35
Alignment explanation
Indices: 733250--733334 Score: 109
Period size: 35 Copynumber: 2.4 Consensus size: 35
733240 TTTGATTATG
*
733250 ATATAAATATAATATTAAAATATATTTAAAAAAT-
1 ATATAAATATAATATTAAAATATAATTAAAAAATA
* * *
733284 ATATAAATATATTATTTTAAATATAATTGAAAAATA
1 ATATAAATATAATA-TTAAAATATAATTAAAAAATA
*
733320 ATATAAATTTAATAT
1 ATATAAATATAATAT
733335 AAATACTTGG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
34 13 0.30
35 18 0.42
36 12 0.28
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (35 bp):
ATATAAATATAATATTAAAATATAATTAAAAAATA
Found at i:733317 original size:36 final size:34
Alignment explanation
Indices: 733250--733334 Score: 100
Period size: 36 Copynumber: 2.4 Consensus size: 34
733240 TTTGATTATG
*
733250 ATATAAATATAATATTAAAATATATTTAAAAA-A
1 ATATAAATATAATATTAAAATATATTGAAAAATA
* *
733283 TATATAAATATATTATTTTAAATATAATTGAAAAATA
1 -ATATAAATATAATA-TTAAAATAT-ATTGAAAAATA
*
733320 ATATAAATTTAATAT
1 ATATAAATATAATAT
733335 AAATACTTGG
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
34 13 0.30
35 9 0.21
36 20 0.47
37 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (34 bp):
ATATAAATATAATATTAAAATATATTGAAAAATA
Found at i:733675 original size:18 final size:19
Alignment explanation
Indices: 733639--733677 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
733629 TGATTTAATA
*
733639 ATTTTTATATTTGTATTAT
1 ATTTATATATTTGTATTAT
733658 ATTTATATATTT-TATTAT
1 ATTTATATATTTGTATTAT
733676 AT
1 AT
733678 AATAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (19 bp):
ATTTATATATTTGTATTAT
Found at i:733685 original size:29 final size:31
Alignment explanation
Indices: 733653--733743 Score: 96
Period size: 34 Copynumber: 2.9 Consensus size: 31
733643 TTATATTTGT
733653 ATTATATTTATATATTTTAT-TATAT-AATA
1 ATTATATTTATATATTTTATATATATAAATA
* *
733682 ATTATATTTAAATTATTTTTTATATATAAATA
1 ATTATATTTATA-TATTTTATATATATAAATA
* *
733714 ATTAATATTTTATAAATTTTAATAAATATA
1 ATT-ATA-TTTATATATTTT-ATATATATA
733744 TTGGTTTCGT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 11 0.22
30 7 0.14
31 5 0.10
32 7 0.14
33 8 0.16
34 12 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (31 bp):
ATTATATTTATATATTTTATATATATAAATA
Found at i:733689 original size:21 final size:20
Alignment explanation
Indices: 733643--733690 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 20
733633 TTAATAATTT
*
733643 TTATATTTGTATTATATTTA
1 TTATATTTGTATTATATTAA
733663 -TATATTT-TATTATATAATAA
1 TTATATTTGTATTATAT--TAA
733683 TTATATTT
1 TTATATTT
733691 AAATTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 8 0.33
19 7 0.29
20 2 0.08
21 7 0.29
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
TTATATTTGTATTATATTAA
Found at i:733714 original size:32 final size:29
Alignment explanation
Indices: 733653--733723 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 29
733643 TTATATTTGT
*
733653 ATTATATTTATATATTTTATTATATAATA
1 ATTATATTTAAATATTTTATTATATAATA
*
733682 ATTATATTTAAATTATTTTTTATATATAAATA
1 ATTATATTTAAA-TATTTTAT-TATAT-AATA
733714 ATTAATATTT
1 ATT-ATATTT
733724 TATAAATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
29 11 0.31
30 7 0.19
31 5 0.14
32 7 0.19
33 6 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (29 bp):
ATTATATTTAAATATTTTATTATATAATA
Found at i:735214 original size:3 final size:3
Alignment explanation
Indices: 735208--735234 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
735198 TTGGAGCTGC
735208 TGG TGG TGG TGG TGG TGG TGG TGG TGG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG
735235 GGATTGTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (3 bp):
TGG
Found at i:735290 original size:21 final size:21
Alignment explanation
Indices: 735245--735318 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 21
735235 GGATTGTACA
* *
735245 GGTGGAGGTGGTGAGTAAACT-
1 GGTGGAGGTGGAGAGTAGA-TG
735266 GGTGGAGGTGGAGAGTAGATG
1 GGTGGAGGTGGAGAGTAGATG
* *
735287 GGTGGTGGAGGAGAGTAGATG
1 GGTGGAGGTGGAGAGTAGATG
*
735308 GGTGGTGGTGG
1 GGTGGAGGTGG
735319 GGCTGGTGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 1 0.02
21 46 0.98
ACGTcount: A:0.20, C:0.01, G:0.57, T:0.22
Consensus pattern (21 bp):
GGTGGAGGTGGAGAGTAGATG
Found at i:735384 original size:27 final size:27
Alignment explanation
Indices: 735335--735389 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
735325 TGAACGGATA
* * *
735335 GGTGGTGGTGAGTAGACTTGTGGGGGT
1 GGTGGTGGAGAATAGACTGGTGGGGGT
* *
735362 GGTGGTGGAGAATAGGCTGGTGGTGGT
1 GGTGGTGGAGAATAGACTGGTGGGGGT
735389 G
1 G
735390 ATGAATATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.13, C:0.04, G:0.56, T:0.27
Consensus pattern (27 bp):
GGTGGTGGAGAATAGACTGGTGGGGGT
Found at i:735791 original size:45 final size:42
Alignment explanation
Indices: 735741--735861 Score: 127
Period size: 45 Copynumber: 2.8 Consensus size: 42
735731 GAATGGACAA
* *
735741 GTGGTGGTGGTGGTGAGTAAACTA-GTGGAGGTGGTGGTGAGTG
1 GTGGTGGTGGTGGTGAGTAAAC-AGGTGGAGGTGGAGGTG-GAG
* *
735784 GATTGGTGGGGGTGGTGAGTGAACAGGTGGAGGTGGAGGTGGAG
1 G--TGGTGGTGGTGGTGAGTAAACAGGTGGAGGTGGAGGTGGAG
* ** *
735828 GTGGTGGTGGAGGTGAGTGGACAGGTGGGGGTGG
1 GTGGTGGTGGTGGTGAGTAAACAGGTGGAGGTGG
735862 GGAGTAGACT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
42 29 0.43
43 1 0.01
44 4 0.06
45 33 0.49
ACGTcount: A:0.16, C:0.02, G:0.59, T:0.23
Consensus pattern (42 bp):
GTGGTGGTGGTGGTGAGTAAACAGGTGGAGGTGGAGGTGGAG
Found at i:735799 original size:21 final size:21
Alignment explanation
Indices: 735773--735882 Score: 96
Period size: 21 Copynumber: 5.2 Consensus size: 21
735763 TAGTGGAGGT
* *
735773 GGTGGTGAGTGGATTGGTGGG
1 GGTGGTGAGTGGACTGGTGGA
* *
735794 GGTGGTGAGTGAACAGGTGGA
1 GGTGGTGAGTGGACTGGTGGA
* * *
735815 GGTGGAG-GTGGAGGTGGTGGT
1 GGTGGTGAGTGGA-CTGGTGGA
* * *
735836 GGAGGTGAGTGGACAGGTGGG
1 GGTGGTGAGTGGACTGGTGGA
* *
735857 GGTGGGGAGTAGACTGGTGGA
1 GGTGGTGAGTGGACTGGTGGA
735878 GGTGG
1 GGTGG
735883 AGACGACTGA
Statistics
Matches: 68, Mismatches: 19, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
20 4 0.06
21 59 0.87
22 5 0.07
ACGTcount: A:0.15, C:0.03, G:0.61, T:0.21
Consensus pattern (21 bp):
GGTGGTGAGTGGACTGGTGGA
Found at i:735817 original size:6 final size:6
Alignment explanation
Indices: 735808--735842 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
735798 GTGAGTGAAC
*
735808 AGGTGG AGGTGG AGGTGG AGGTGG TGGTGG AGGTG
1 AGGTGG AGGTGG AGGTGG AGGTGG AGGTGG AGGTG
735843 AGTGGACAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.14, C:0.00, G:0.66, T:0.20
Consensus pattern (6 bp):
AGGTGG
Found at i:735837 original size:63 final size:63
Alignment explanation
Indices: 735765--735884 Score: 170
Period size: 63 Copynumber: 1.9 Consensus size: 63
735755 GAGTAAACTA
* ** *
735765 GTGGAGGTGGTGGTGAGTGGATTGGTGGGGGTGGTGAGT-GAACAGGTGGAGGTGGAGGTGGAG
1 GTGGAGGTGGAGGTGAGTGGACAGGTGGGGGTGGGGAGTAG-ACAGGTGGAGGTGGAGGTGGAG
* *
735828 GTGGTGGTGGAGGTGAGTGGACAGGTGGGGGTGGGGAGTAGACTGGTGGAGGTGGAG
1 GTGGAGGTGGAGGTGAGTGGACAGGTGGGGGTGGGGAGTAGACAGGTGGAGGTGGAG
735885 ACGACTGAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
63 49 0.98
64 1 0.02
ACGTcount: A:0.16, C:0.03, G:0.61, T:0.21
Consensus pattern (63 bp):
GTGGAGGTGGAGGTGAGTGGACAGGTGGGGGTGGGGAGTAGACAGGTGGAGGTGGAGGTGGAG
Found at i:735853 original size:24 final size:24
Alignment explanation
Indices: 735725--735861 Score: 87
Period size: 24 Copynumber: 6.1 Consensus size: 24
735715 TGATGGCGGG
* *
735725 GGTGGTGAATGGACAAGTGGTGGT
1 GGTGGTGAGTGGACAGGTGGTGGT
** *
735749 GGTGGTGAGTAAACTA-GTGGAGGT
1 GGTGGTGAGTGGAC-AGGTGGTGGT
* *
735773 GGTGGTGAGTGG--A-TTGGTGGG
1 GGTGGTGAGTGGACAGGTGGTGGT
* *
735794 GGTGGTGAGTGAACA---GGTGGA
1 GGTGGTGAGTGGACAGGTGGTGGT
*
735815 GGTGGAG-GTGG--AGGTGGTGGT
1 GGTGGTGAGTGGACAGGTGGTGGT
* *
735836 GGAGGTGAGTGGACAGGTGGGGGT
1 GGTGGTGAGTGGACAGGTGGTGGT
735860 GG
1 GG
735862 GGAGTAGACT
Statistics
Matches: 87, Mismatches: 17, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
18 1 0.01
20 3 0.03
21 38 0.44
22 4 0.05
23 1 0.01
24 39 0.45
25 1 0.01
ACGTcount: A:0.18, C:0.03, G:0.57, T:0.23
Consensus pattern (24 bp):
GGTGGTGAGTGGACAGGTGGTGGT
Found at i:736203 original size:42 final size:42
Alignment explanation
Indices: 736157--736257 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 42
736147 TACGACAGGA
* *
736157 GGTTTTGGCTGTGGCTTTGGCGTTGG-GGAAATTGTGACTGGT
1 GGTTTTGGTTGTGGCTTTGGCGTTGGAGG-AATTGGGACTGGT
* * * *
736199 GGTTTTGGTTGTGGCTCTGGTGTTGGAGGAGTTGGGATTGGT
1 GGTTTTGGTTGTGGCTTTGGCGTTGGAGGAATTGGGACTGGT
*
736241 GCTTTTGGTTGTGGCTT
1 GGTTTTGGTTGTGGCTT
736258 GGAAGGTGAA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
42 48 0.96
43 2 0.04
ACGTcount: A:0.07, C:0.08, G:0.44, T:0.42
Consensus pattern (42 bp):
GGTTTTGGTTGTGGCTTTGGCGTTGGAGGAATTGGGACTGGT
Found at i:748812 original size:2 final size:2
Alignment explanation
Indices: 748795--748839 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
748785 GAGGAAAGTA
* *
748795 AT AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
748837 AT A
1 AT A
748840 GTAATTTACC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:754197 original size:23 final size:25
Alignment explanation
Indices: 754150--754199 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
754140 TAATTTATTT
754150 AATTAAATATAAAATATAATAATAA
1 AATTAAATATAAAATATAATAATAA
* *
754175 AATTAAATA-AATATA-AATCATAA
1 AATTAAATATAAAATATAATAATAA
754198 AA
1 AA
754200 AAAATTACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 9 0.39
24 5 0.22
25 9 0.39
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (25 bp):
AATTAAATATAAAATATAATAATAA
Found at i:754197 original size:29 final size:27
Alignment explanation
Indices: 754148--754206 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
754138 CATAATTTAT
*
754148 TTAATTAAATATAAAATATAATAATAAAA
1 TTAAATAAATATAAAATATAA-AA-AAAA
754177 TTAAATAAATAT-AAATCATAAAAAAAA
1 TTAAATAAATATAAAAT-ATAAAAAAAA
754204 TTA
1 TTA
754207 CTGAATCATC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 7 0.25
28 6 0.21
29 15 0.54
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (27 bp):
TTAAATAAATATAAAATATAAAAAAAA
Found at i:754204 original size:22 final size:22
Alignment explanation
Indices: 754161--754204 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
754151 ATTAAATATA
*
754161 AAATATAATAATAAAATTAAAT
1 AAATATAATAATAAAATAAAAT
*
754183 AAATATAAATCATAAAA-AAAAT
1 AAATAT-AATAATAAAATAAAAT
754205 TACTGAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATATAATAATAAAATAAAAT
Found at i:754788 original size:21 final size:22
Alignment explanation
Indices: 754756--754806 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
754746 TATTTTATAT
*
754756 TAATATTTATAAATTAT-TCAAA
1 TAATAATTATAAATTATAT-AAA
754778 TAA-AATTATAAATTATATAAA
1 TAATAATTATAAATTATATAAA
754799 TAATAATT
1 TAATAATT
754807 TACATCAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TAATAATTATAAATTATATAAA
Found at i:761173 original size:2 final size:2
Alignment explanation
Indices: 761166--761195 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
761156 ACTTATGCAT
761166 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
761196 ATGCACCGCA
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:766849 original size:2 final size:2
Alignment explanation
Indices: 766844--766871 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
766834 GAAGAGAGCA
766844 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
766872 GATAGATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:767839 original size:14 final size:15
Alignment explanation
Indices: 767806--767846 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
767796 GTGATGTGAT
767806 TATTTAAATAGATATA
1 TATTTAAATA-ATATA
767822 TATTTAAATAAT-TA
1 TATTTAAATAATATA
*
767836 TATTTATATAA
1 TATTTAAATAA
767847 AAAAGATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 12 0.50
15 2 0.08
16 10 0.42
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
TATTTAAATAATATA
Found at i:770427 original size:24 final size:25
Alignment explanation
Indices: 770400--770458 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
770390 AATTAAATAA
*
770400 ATTATTAAAACATTAA-ATAAA-ATT
1 ATTATTAAAACA-AAATATAAATATT
*
770424 ATTATAAAAACAAAATATAAATATT
1 ATTATTAAAACAAAATATAAATATT
*
770449 TTTATTAAAA
1 ATTATTAAAA
770459 AATCCATCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 2 0.07
24 16 0.55
25 11 0.38
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.37
Consensus pattern (25 bp):
ATTATTAAAACAAAATATAAATATT
Found at i:772487 original size:13 final size:13
Alignment explanation
Indices: 772469--772494 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
772459 ATTTATTTTC
772469 AGACCTTCCATTT
1 AGACCTTCCATTT
772482 AGACCTTCCATTT
1 AGACCTTCCATTT
772495 TGAAGTAGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.08, T:0.38
Consensus pattern (13 bp):
AGACCTTCCATTT
Found at i:772839 original size:34 final size:34
Alignment explanation
Indices: 772801--772949 Score: 203
Period size: 34 Copynumber: 4.4 Consensus size: 34
772791 TCTTTTACCC
* **
772801 ATTTAGTCAACAATGGTAAACCATTAAATCACCT
1 ATTTAGTCAACAATGGCAAACCACCAAATCACCT
* *
772835 ATTTAATCAGCAATGGCAAACCACCAAATCACC-
1 ATTTAGTCAACAATGGCAAACCACCAAATCACCT
*
772868 ATTTAGTCAACAATGGCAAACCATCAAATCA-CT
1 ATTTAGTCAACAATGGCAAACCACCAAATCACCT
* *
772901 CATTTAGTCAACAATGGTAAACCACCAAATCACCC
1 -ATTTAGTCAACAATGGCAAACCACCAAATCACCT
772936 ATTTAGTCAACAAT
1 ATTTAGTCAACAAT
772950 TCTCCCACTT
Statistics
Matches: 101, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
32 1 0.01
33 28 0.28
34 71 0.70
35 1 0.01
ACGTcount: A:0.42, C:0.26, G:0.09, T:0.24
Consensus pattern (34 bp):
ATTTAGTCAACAATGGCAAACCACCAAATCACCT
Found at i:772916 original size:67 final size:68
Alignment explanation
Indices: 772797--772949 Score: 238
Period size: 67 Copynumber: 2.3 Consensus size: 68
772787 TTTATCTTTT
* * *
772797 ACCCATTTAGTCAACAATGGTAAACCATTAAATCACCTATTTAATCAGCAATGGCAAACCACCAA
1 ACCCATTTAGTCAACAATGGCAAACCATCAAATCACCTATTTAATCAACAATGGCAAACCACCAA
772862 ATC
66 ATC
* *
772865 A-CCATTTAGTCAACAATGGCAAACCATCAAATCA-CTCATTTAGTCAACAATGGTAAACCACCA
1 ACCCATTTAGTCAACAATGGCAAACCATCAAATCACCT-ATTTAATCAACAATGGCAAACCACCA
772928 AATC
65 AATC
772932 ACCCATTTAGTCAACAAT
1 ACCCATTTAGTCAACAAT
772950 TCTCCCACTT
Statistics
Matches: 78, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
66 2 0.03
67 59 0.76
68 17 0.22
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.24
Consensus pattern (68 bp):
ACCCATTTAGTCAACAATGGCAAACCATCAAATCACCTATTTAATCAACAATGGCAAACCACCAA
ATC
Found at i:774740 original size:32 final size:32
Alignment explanation
Indices: 774699--774763 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
774689 TTGTTCTTCG
*
774699 TGTTCTAGTGCAGCTTCAGAAGAATTTGACTT
1 TGTTCTAGTGCAGCTTCAGAAGAATCTGACTT
774731 TGTTCTAGTGCAGCTTCAGAAGAATCTGACTT
1 TGTTCTAGTGCAGCTTCAGAAGAATCTGACTT
774763 T
1 T
774764 TCTTGTTCTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (32 bp):
TGTTCTAGTGCAGCTTCAGAAGAATCTGACTT
Found at i:776233 original size:19 final size:18
Alignment explanation
Indices: 776211--776248 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
776201 GCTTTTGAAG
776211 ACTCAACTTTATTTTTTCC
1 ACTC-ACTTTATTTTTTCC
*
776230 ACTCATTTTATTTTTTCC
1 ACTCACTTTATTTTTTCC
776248 A
1 A
776249 ATACACTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.55
Consensus pattern (18 bp):
ACTCACTTTATTTTTTCC
Found at i:777457 original size:34 final size:34
Alignment explanation
Indices: 777419--777565 Score: 161
Period size: 34 Copynumber: 4.3 Consensus size: 34
777409 TCTTTTAACC
* * *
777419 ATTTAGTCAACAATGGTAAATCACCAAATCACCT
1 ATTTAGTCAATAATGATAAATCACTAAATCACCT
* * *
777453 ATTTAATTAATAATGATAAA-CTACTAAATCACCC
1 ATTTAGTCAATAATGATAAATC-ACTAAATCACCT
* * * *
777487 ATTTAATCAATAATAACAAATCACTAAATCACTT
1 ATTTAGTCAATAATGATAAATCACTAAATCACCT
* *
777521 ATTTAGTCAATAATGGTAAATCACTAAATGACCCT
1 ATTTAGTCAATAATGATAAATCACTAAATCA-CCT
777556 ATTTAGTCAA
1 ATTTAGTCAA
777566 CAGCTTTAAC
Statistics
Matches: 93, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
33 1 0.01
34 79 0.85
35 13 0.14
ACGTcount: A:0.44, C:0.18, G:0.06, T:0.31
Consensus pattern (34 bp):
ATTTAGTCAATAATGATAAATCACTAAATCACCT
Found at i:780823 original size:14 final size:14
Alignment explanation
Indices: 780804--780832 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
780794 GACTACTAGC
780804 TTGTTCTTTTTCGA
1 TTGTTCTTTTTCGA
780818 TTGTTCTTTTTCGA
1 TTGTTCTTTTTCGA
780832 T
1 T
780833 ATATCAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.14, G:0.14, T:0.66
Consensus pattern (14 bp):
TTGTTCTTTTTCGA
Found at i:780917 original size:12 final size:12
Alignment explanation
Indices: 780900--780951 Score: 50
Period size: 14 Copynumber: 3.9 Consensus size: 12
780890 AGCTTTTAAA
780900 ATTAATTAATAT
1 ATTAATTAATAT
780912 ATTAATTATAATAAT
1 ATTAA-T-TAAT-AT
780927 ATTATATTAAATAT
1 ATTA-ATT-AATAT
*
780941 AATAATTAATA
1 ATTAATTAATA
780952 ATTTTATGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 9 0.26
13 4 0.12
14 10 0.29
15 10 0.29
16 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
ATTAATTAATAT
Found at i:780934 original size:20 final size:20
Alignment explanation
Indices: 780909--780946 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
780899 AATTAATTAA
*
780909 TATATTAATTATAATAATAT
1 TATATTAAATATAATAATAT
780929 TATATTAAATATAATAAT
1 TATATTAAATATAATAAT
780947 TAATAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TATATTAAATATAATAATAT
Found at i:780940 original size:27 final size:28
Alignment explanation
Indices: 780900--780958 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
780890 AGCTTTTAAA
*
780900 ATTA-ATTAATATATTAATTA-TAATAAT
1 ATTATATTAATATA-TAATAATTAATAAT
780927 ATTATATTAA-ATATAATAATTAATAAT
1 ATTATATTAATATATAATAATTAATAAT
*
780954 TTTAT
1 ATTAT
780959 GTAATTACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 5 0.18
27 18 0.64
28 5 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
ATTATATTAATATATAATAATTAATAAT
Found at i:781403 original size:52 final size:52
Alignment explanation
Indices: 781325--781426 Score: 204
Period size: 52 Copynumber: 2.0 Consensus size: 52
781315 TGTTAGAAAA
781325 CTTGGGTACCCAACTTTGTTTCTTCACTTGAATTGGAAAGATATTATTTTGG
1 CTTGGGTACCCAACTTTGTTTCTTCACTTGAATTGGAAAGATATTATTTTGG
781377 CTTGGGTACCCAACTTTGTTTCTTCACTTGAATTGGAAAGATATTATTTT
1 CTTGGGTACCCAACTTTGTTTCTTCACTTGAATTGGAAAGATATTATTTT
781427 TGGTTTTGTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.43
Consensus pattern (52 bp):
CTTGGGTACCCAACTTTGTTTCTTCACTTGAATTGGAAAGATATTATTTTGG
Found at i:785364 original size:5 final size:5
Alignment explanation
Indices: 785354--785394 Score: 66
Period size: 5 Copynumber: 8.2 Consensus size: 5
785344 CATTCTCTAA
785354 TCTTT TCTTT TCTTT TCTTT TCTTT T-TTT TCTGTT TCTTT T
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCT-TT TCTTT T
785395 GCCGCTCACA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.12
5 25 0.74
6 5 0.15
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.80
Consensus pattern (5 bp):
TCTTT
Found at i:789363 original size:21 final size:21
Alignment explanation
Indices: 789316--789356 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
789306 AAAATTTTTA
*
789316 TTTTTTATTTAATTTTTAGTG
1 TTTTTTATTTAATTTTTAATG
*
789337 TTTTTTATTTGATTTTTAAT
1 TTTTTTATTTAATTTTTAAT
789357 TTATTTTTTA
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:0.00, G:0.07, T:0.73
Consensus pattern (21 bp):
TTTTTTATTTAATTTTTAATG
Found at i:789589 original size:2 final size:2
Alignment explanation
Indices: 789582--789615 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
789572 TATTTTTATG
789582 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
789616 TATGATAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:791031 original size:3 final size:3
Alignment explanation
Indices: 791023--791059 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
791013 ATATTTCCAA
791023 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
791060 CATAGATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:794165 original size:121 final size:121
Alignment explanation
Indices: 793946--794174 Score: 305
Period size: 121 Copynumber: 1.9 Consensus size: 121
793936 CTCAGATATC
* *
793946 TCTTAACTGTTCCAAGATAATAATAACTAAATAAAGCATCCAGTATTCACAATTGTTTCATGCAT
1 TCTTAACTGTCCCAAGATAATAATAACTAAATAAAGCATCCAGTATTCACAATTGTTTCATACAT
* * *
794011 ATATCACGATAGTGAAATAGATCAAGGTACAAAACAGATTAGATATTATGAAAATT
66 ATATCAAGATAATGAAATAGACCAAGGTACAAAACAGATTAGATATTATGAAAATT
* * * * * * ** * *
794067 TCTTCACTGTCCCAAGATAATGATGATTAAATAGAGCATCCAGTGTTCTTAGTTGTTTGATACAT
1 TCTTAACTGTCCCAAGATAATAATAACTAAATAAAGCATCCAGTATTCACAATTGTTTCATACAT
* *
794132 ATATCAAGATAATGGAATAGGCCAAGGTACAAAACAGATTAGA
66 ATATCAAGATAATGAAATAGACCAAGGTACAAAACAGATTAGA
794175 ATAAGAAAAG
Statistics
Matches: 91, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
121 91 1.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.30
Consensus pattern (121 bp):
TCTTAACTGTCCCAAGATAATAATAACTAAATAAAGCATCCAGTATTCACAATTGTTTCATACAT
ATATCAAGATAATGAAATAGACCAAGGTACAAAACAGATTAGATATTATGAAAATT
Found at i:797369 original size:36 final size:36
Alignment explanation
Indices: 797329--797407 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 36
797319 ATGTAACTCT
* * *
797329 GTCCATAACGAGGATTTGCTCCTTGCCCAGAATTCG
1 GTCCATAACCAGGATTTGCCCCTTGCCCAAAATTCG
* * *
797365 GTCCATAGCCAGGATTTGCCCCTTGTCCAAAATTTG
1 GTCCATAACCAGGATTTGCCCCTTGCCCAAAATTCG
*
797401 GCCCATA
1 GTCCATA
797408 GCCGAAACTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (36 bp):
GTCCATAACCAGGATTTGCCCCTTGCCCAAAATTCG
Found at i:797408 original size:36 final size:36
Alignment explanation
Indices: 797339--797410 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
797329 GTCCATAACG
* * *
797339 AGGATTTGCTCCTTGCCCAGAATTCGGTCCATAGCC
1 AGGATTTGCCCCTTGCCCAAAATTCGGCCCATAGCC
* *
797375 AGGATTTGCCCCTTGTCCAAAATTTGGCCCATAGCC
1 AGGATTTGCCCCTTGCCCAAAATTCGGCCCATAGCC
797411 GAAACTTGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.28
Consensus pattern (36 bp):
AGGATTTGCCCCTTGCCCAAAATTCGGCCCATAGCC
Found at i:802467 original size:12 final size:12
Alignment explanation
Indices: 802452--802476 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
802442 GGAAAACGTT
802452 AAAAAAAAAAAG
1 AAAAAAAAAAAG
802464 AAAAAAAAAAAG
1 AAAAAAAAAAAG
802476 A
1 A
802477 GGAAAGTAAC
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:808447 original size:24 final size:23
Alignment explanation
Indices: 808398--808447 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
808388 GCTGAAAGAA
**
808398 AGAAAAGAAAAGTAAGATTTGAC
1 AGAAAAGAAAAGTAAGATCAGAC
* *
808421 AGAAAAGTAAAGATAAGATCAGGC
1 AGAAAAGAAAAG-TAAGATCAGAC
808445 AGA
1 AGA
808448 GGGAAGGCAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.56, C:0.06, G:0.24, T:0.14
Consensus pattern (23 bp):
AGAAAAGAAAAGTAAGATCAGAC
Found at i:812667 original size:2 final size:2
Alignment explanation
Indices: 812660--812689 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
812650 ATTTAAATAA
812660 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
812690 TAAGCGTTGA
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):
AT
Found at i:813099 original size:2 final size:2
Alignment explanation
Indices: 813092--813124 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
813082 TCTATTTGTA
813092 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
813125 GCGTTGAAGT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:814386 original size:3 final size:3
Alignment explanation
Indices: 814378--814407 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
814368 TATTTCCATA
814378 AAT AAT AAT AAT AAT AAT AAT AAT ATAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA
814408 ATTAAAACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:814640 original size:27 final size:27
Alignment explanation
Indices: 814610--814685 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
814600 ATTTTTTAAG
*
814610 ATTAATTAATATATTATTTATAATAAT
1 ATTAATTAATATATTATTAATAATAAT
*
814637 ATTATATTAA-ATA-TAATAATTAATAAT
1 ATTA-ATTAATATATTATTAA-TAATAAT
* *
814664 TTTATTTAAT-TATTATTAATAA
1 ATTAATTAATATATTATTAATAA
814686 GGTAAAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
26 13 0.32
27 22 0.55
28 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
ATTAATTAATATATTATTAATAATAAT
Found at i:821636 original size:11 final size:10
Alignment explanation
Indices: 821617--821665 Score: 50
Period size: 9 Copynumber: 5.2 Consensus size: 10
821607 GCACCATAAA
821617 AAAATAATAT
1 AAAATAATAT
821627 AAAATAA-AT
1 AAAATAATAT
*
821636 AAAATTAT-T
1 AAAATAATAT
* *
821645 AAATTTATAT
1 AAAATAATAT
821655 -AAATAATAT
1 AAAATAATAT
821664 AA
1 AA
821666 TTTTTAAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
9 23 0.72
10 9 0.28
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATAATAT
Found at i:822381 original size:2 final size:2
Alignment explanation
Indices: 822374--822405 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
822364 CAAGAATAAA
822374 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
822406 CAAGGAGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:823384 original size:29 final size:29
Alignment explanation
Indices: 823322--823380 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
823312 AAAAAAATTT
* *
823322 AATAATATAAAATTTTAATTAATTAATAT
1 AATAATATAAAATATTAATTAATTAATAA
*
823351 CATAAT-TAATAATATTAATTAATT-ATAA
1 AATAATATAA-AATATTAATTAATTAATAA
823379 AA
1 AA
823381 ATAAAAAACA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (29 bp):
AATAATATAAAATATTAATTAATTAATAA
Found at i:832024 original size:23 final size:23
Alignment explanation
Indices: 831988--832053 Score: 75
Period size: 22 Copynumber: 2.9 Consensus size: 23
831978 GATTCATAAA
831988 TTAATATAAATATAAATATTTAT-
1 TTAATA-AAATATAAATATTTATG
*
832011 TTAATAAAAT-TATAT-TTTATG
1 TTAATAAAATATAAATATTTATG
*
832032 TTATATTAAATATAAATATTTA
1 TTA-ATAAAATATAAATATTTA
832054 AATATATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
20 5 0.14
21 7 0.19
22 10 0.28
23 10 0.28
24 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TTAATAAAATATAAATATTTATG
Found at i:832056 original size:14 final size:14
Alignment explanation
Indices: 832033--832078 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 14
832023 TATTTTATGT
832033 TATA-TTAAATATA
1 TATATTTAAATATA
*
832046 AATATTTAAATATA
1 TATATTTAAATATA
*
832060 TATATTTATATATA
1 TATATTTAAATATA
832074 TATAT
1 TATAT
832079 GAATAACTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
13 3 0.10
14 26 0.90
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TATATTTAAATATA
Found at i:833229 original size:24 final size:24
Alignment explanation
Indices: 833202--833253 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
833192 AATAGTCAAG
*
833202 ATTATATATAATATA-ATTATTTTA
1 ATTATATACAATATAGA-TATTTTA
833226 ATTATATACAATATAGATATTTTA
1 ATTATATACAATATAGATATTTTA
833250 ATTA
1 ATTA
833254 ATGAAGGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (24 bp):
ATTATATACAATATAGATATTTTA
Found at i:833357 original size:34 final size:34
Alignment explanation
Indices: 833319--833384 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
833309 TGTAGTCTTA
*
833319 AATTTTCATCAGTAATTATAATATAATTAATATG
1 AATTTTCATCAGTAATTATAACATAATTAATATG
** * *
833353 AATTTTCATTGGTAGTTATAACGTAATTAATA
1 AATTTTCATCAGTAATTATAACATAATTAATA
833385 CGAGTGATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (34 bp):
AATTTTCATCAGTAATTATAACATAATTAATATG
Found at i:834056 original size:2 final size:2
Alignment explanation
Indices: 834049--834081 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
834039 AAGGTTCCCT
834049 TC TC TC TC -C T- TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
834082 TAGCGTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:838682 original size:2 final size:2
Alignment explanation
Indices: 838675--838718 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
838665 TGAATAAGAA
838675 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
838717 AG
1 AG
838719 CTGGAGAACA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:841766 original size:41 final size:42
Alignment explanation
Indices: 841683--841768 Score: 138
Period size: 42 Copynumber: 2.1 Consensus size: 42
841673 AGTGCTATTA
*
841683 AAAAAATTGTGTTTTTAAAAGAAATAAAAAAATTATTGGAGT
1 AAAAAATTGTATTTTTAAAAGAAATAAAAAAATTATTGGAGT
* *
841725 AAAAGATTGTATTTTTAAAAGAAAT-AAAAAATTATTTGAGT
1 AAAAAATTGTATTTTTAAAAGAAATAAAAAAATTATTGGAGT
841766 AAA
1 AAA
841769 TGAAGTATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 18 0.44
42 23 0.56
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.34
Consensus pattern (42 bp):
AAAAAATTGTATTTTTAAAAGAAATAAAAAAATTATTGGAGT
Done.