Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 288 of 333
Found at i:95236751 original size:6 final size:6
Alignment explanation
Indices: 95236740--95236764 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
95236730 ACCGTATTGC
95236740 TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT T
95236765 TCGGCTTCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:95236928 original size:18 final size:18
Alignment explanation
Indices: 95236880--95236965 Score: 100
Period size: 18 Copynumber: 4.7 Consensus size: 18
95236870 AAAGATCGAC
* *
95236880 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAA-CTGAT
95236899 TGTTACTGAATAACTGAT
1 TGTTACTGAATAACTGAT
* * *
95236917 TATTATTGAATAATTGAT
1 TGTTACTGAATAACTGAT
* *
95236935 TGTTACCGAATAACTGAC
1 TGTTACTGAATAACTGAT
95236953 TGTTACTGAATAA
1 TGTTACTGAATAA
95236966 ATAATCATTC
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
18 43 0.77
19 13 0.23
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (18 bp):
TGTTACTGAATAACTGAT
Found at i:95236946 original size:36 final size:37
Alignment explanation
Indices: 95236877--95236965 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 37
95236867 TGGAAAGATC
* *
95236877 GACTGTTACTGAATAATTTAATTGTTACTGAATAACT
1 GACTATTACTGAATAATTTAATTGTTACCGAATAACT
* * *
95236914 GATTATTATTGAATAA-TTGATTGTTACCGAATAACT
1 GACTATTACTGAATAATTTAATTGTTACCGAATAACT
*
95236950 GACTGTTACTGAATAA
1 GACTATTACTGAATAA
95236966 ATAATCATTC
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 31 0.70
37 13 0.30
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (37 bp):
GACTATTACTGAATAATTTAATTGTTACCGAATAACT
Found at i:95238609 original size:27 final size:27
Alignment explanation
Indices: 95238555--95238607 Score: 99
Period size: 26 Copynumber: 2.0 Consensus size: 27
95238545 AAACACAAAA
95238555 ATTCATATACTTTTTCATACCCATTTT
1 ATTCATATACTTTTTCATACCCATTTT
95238582 ATTCATATAC-TTTTCATACCCATTTT
1 ATTCATATACTTTTTCATACCCATTTT
95238608 TACTTAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 16 0.62
27 10 0.38
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.51
Consensus pattern (27 bp):
ATTCATATACTTTTTCATACCCATTTT
Found at i:95241511 original size:26 final size:26
Alignment explanation
Indices: 95241476--95241531 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
95241466 TGAAATGCCC
95241476 ATCATAGAACATTTACCTAAACCATT
1 ATCATAGAACATTTACCTAAACCATT
* *
95241502 ATCATGGAACATTTACCTAACCCATT
1 ATCATAGAACATTTACCTAAACCATT
95241528 ATCA
1 ATCA
95241532 ATTTGTACCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.30
Consensus pattern (26 bp):
ATCATAGAACATTTACCTAAACCATT
Found at i:95247016 original size:26 final size:26
Alignment explanation
Indices: 95246987--95247039 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
95246977 TCAAACATGC
95246987 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
95247013 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
95247039 A
1 A
95247040 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:95248559 original size:26 final size:26
Alignment explanation
Indices: 95248530--95248634 Score: 174
Period size: 26 Copynumber: 4.0 Consensus size: 26
95248520 AATGCCCATG
*
95248530 ATGGAACATTTACCTAAACCATTATC
1 ATGGAACATTTACCTAACCCATTATC
95248556 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
* * *
95248582 ATGGAATATTTACTTAATCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
95248608 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
95248634 A
1 A
95248635 ATTTGTACCA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
ATGGAACATTTACCTAACCCATTATC
Found at i:95267238 original size:25 final size:25
Alignment explanation
Indices: 95267204--95267254 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
95267194 TATTAAGTTT
95267204 AGCTATGTGCATGTAAGTGAATTTG
1 AGCTATGTGCATGTAAGTGAATTTG
95267229 AGCTATGTGCATGTAAGTGAATTTG
1 AGCTATGTGCATGTAAGTGAATTTG
95267254 A
1 A
95267255 AACCCCTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.08, G:0.27, T:0.35
Consensus pattern (25 bp):
AGCTATGTGCATGTAAGTGAATTTG
Found at i:95271286 original size:21 final size:21
Alignment explanation
Indices: 95271262--95271301 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
95271252 ATTATATAAT
95271262 AATAAATTAAAAG-AATAAACA
1 AATAAA-TAAAAGAAATAAACA
95271283 AATAAATAAAAGAAATAAA
1 AATAAATAAAAGAAATAAA
95271302 AATAGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (21 bp):
AATAAATAAAAGAAATAAACA
Found at i:95271324 original size:16 final size:16
Alignment explanation
Indices: 95271303--95271335 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
95271293 AGAAATAAAA
95271303 ATAGAA-AAAGAGAAAG
1 ATAGAACAAA-AGAAAG
95271319 ATAGAACAAAAGAAAG
1 ATAGAACAAAAGAAAG
95271335 A
1 A
95271336 AGGAAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.70, C:0.03, G:0.21, T:0.06
Consensus pattern (16 bp):
ATAGAACAAAAGAAAG
Found at i:95271336 original size:12 final size:11
Alignment explanation
Indices: 95271290--95271361 Score: 56
Period size: 12 Copynumber: 6.2 Consensus size: 11
95271280 ACAAATAAAT
*
95271290 AAAAGAAATAA
1 AAAAGAAAGAA
95271301 AAATAGAAA-AA
1 AAA-AGAAAGAA
*
95271312 GAGAAAGATAGAA
1 -A-AAAGAAAGAA
95271325 CAAAAGAAAGAA
1 -AAAAGAAAGAA
*
95271337 GGAAAGAAAGAA
1 -AAAAGAAAGAA
*
95271349 AAAGGAAAGAA
1 AAAAGAAAGAA
95271360 AA
1 AA
95271362 GGAAAAATAA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
11 16 0.32
12 29 0.58
13 5 0.10
ACGTcount: A:0.74, C:0.01, G:0.21, T:0.04
Consensus pattern (11 bp):
AAAAGAAAGAA
Found at i:95271355 original size:15 final size:16
Alignment explanation
Indices: 95271327--95271360 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
95271317 AGATAGAACA
95271327 AAAGAAAGAAGGAAAG
1 AAAGAAAGAAGGAAAG
95271343 AAAGAAA-AAGGAAAG
1 AAAGAAAGAAGGAAAG
95271358 AAA
1 AAA
95271361 AGGAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (16 bp):
AAAGAAAGAAGGAAAG
Found at i:95271362 original size:16 final size:16
Alignment explanation
Indices: 95271326--95271368 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 16
95271316 AAGATAGAAC
95271326 AAAAGAAAGAAGGAAAG
1 AAAAGAAA-AAGGAAAG
95271343 -AAAGAAAAAGGAAAG
1 AAAAGAAAAAGGAAAG
95271358 AAAAGGAAAAA
1 AAAA-GAAAAA
95271369 TAAGGAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.33
16 10 0.42
17 6 0.25
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAGGAAAG
Found at i:95272251 original size:40 final size:41
Alignment explanation
Indices: 95272155--95272257 Score: 120
Period size: 41 Copynumber: 2.5 Consensus size: 41
95272145 GACTTCAAGT
* * *
95272155 CGATGAGACACTAGGTGTCAATTTACTACTTCAGATTAATT
1 CGATGAGACACTGGGTGTCAAATTACTACTTCAGATTAATC
* *
95272196 CGATGAAACACTGGGTGTCAAATTATTACTTC-GAATT-ATC
1 CGATGAGACACTGGGTGTCAAATTACTACTTCAG-ATTAATC
* *
95272236 CGATGAGGCACTGGGTGCCAAA
1 CGATGAGACACTGGGTGTCAAA
95272258 CTGGTGTGTT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
40 22 0.42
41 31 0.58
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (41 bp):
CGATGAGACACTGGGTGTCAAATTACTACTTCAGATTAATC
Found at i:95274948 original size:45 final size:45
Alignment explanation
Indices: 95274893--95275002 Score: 157
Period size: 45 Copynumber: 2.4 Consensus size: 45
95274883 ATGGTAGCAA
**
95274893 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATAGG
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCAAATAGG
* * * *
95274938 TAACGGTAACAGTAATAGTATTCGACACACAAAGTGTCAAATCGG
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCAAATAGG
*
95274983 TAACAGTAACGGTAACAGTA
1 TAACAGTAACAGTAACAGTA
95275003 ATAGTAGTCG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.43, C:0.16, G:0.19, T:0.22
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCAAATAGG
Found at i:95276346 original size:12 final size:13
Alignment explanation
Indices: 95276330--95276367 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
95276320 AAGTAATGTA
95276330 AGGTATAATATAT
1 AGGTATAATATAT
*
95276343 -GGTAAAATATAT
1 AGGTATAATATAT
95276355 AGTGTATAATATA
1 AG-GTATAATATA
95276368 ATTTGTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 11 0.52
13 1 0.05
14 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (13 bp):
AGGTATAATATAT
Found at i:95276424 original size:21 final size:19
Alignment explanation
Indices: 95276373--95276431 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 19
95276363 ATATAATTTG
*
95276373 TAAACAAAATATATAATAA
1 TAAAAAAAATATATAATAA
* **
95276392 TATAAACCATATGATAAGTAA
1 TAAAAAAAATAT-ATAA-TAA
95276413 TAAAAAAAATATATAATAA
1 TAAAAAAAATATATAATAA
95276432 GAAGTATATA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
19 11 0.35
20 8 0.26
21 12 0.39
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.27
Consensus pattern (19 bp):
TAAAAAAAATATATAATAA
Found at i:95276484 original size:27 final size:27
Alignment explanation
Indices: 95276449--95276519 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
95276439 ATAATATAAT
95276449 ATATAATAAAAAAATACCATAAGGAATA
1 ATAT-ATAAAAAAATACCATAAGGAATA
* ** * *
95276477 ATATATAATAAAATATGATATGTAATA
1 ATATATAAAAAAATACCATAAGGAATA
*
95276504 AAATATAAATAAAATA
1 ATATATAAA-AAAATA
95276520 TAATGAAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
27 25 0.71
28 10 0.29
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (27 bp):
ATATATAAAAAAATACCATAAGGAATA
Found at i:95276491 original size:12 final size:12
Alignment explanation
Indices: 95276418--95276521 Score: 58
Period size: 12 Copynumber: 8.7 Consensus size: 12
95276408 AGTAATAAAA
95276418 AAAATATATAAT
1 AAAATATATAAT
95276430 AAGAAGTATATAAT
1 AA-AA-TATATAAT
*
95276444 ATAATATATAAT
1 AAAATATATAAT
*
95276456 AAAA-AAATACCAT
1 AAAATATATA--AT
95276469 AAGGAATA-AT-AT
1 AA--AATATATAAT
*
95276481 ATAATA-A-AAT
1 AAAATATATAAT
** *
95276491 ATGATATGTAAT
1 AAAATATATAAT
95276503 AAAATATA-AAT
1 AAAATATATAAT
95276514 AAAATATA
1 AAAATATA
95276522 ATGAAATAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
10 12 0.16
11 15 0.21
12 24 0.33
13 8 0.11
14 9 0.12
15 4 0.05
16 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (12 bp):
AAAATATATAAT
Found at i:95276497 original size:17 final size:17
Alignment explanation
Indices: 95276477--95276509 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
95276467 ATAAGGAATA
95276477 ATATATAATAAAATATG
1 ATATATAATAAAATATG
*
95276494 ATATGTAATAAAATAT
1 ATATATAATAAAATAT
95276510 AAATAAAATA
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:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
ATATATAATAAAATATG
Found at i:95276659 original size:11 final size:12
Alignment explanation
Indices: 95276635--95276673 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
95276625 TTTACAGAAA
*
95276635 ATAAAAAAATAAT
1 ATAATAAAAT-AT
95276648 ATATATAAAATAT
1 ATA-ATAAAATAT
95276661 ATAATAAAATAT
1 ATAATAAAATAT
95276673 A
1 A
95276674 ATTTATAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 10 0.42
13 8 0.33
14 6 0.25
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
ATAATAAAATAT
Found at i:95276664 original size:26 final size:30
Alignment explanation
Indices: 95276635--95276697 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
95276625 TTTACAGAAA
95276635 ATAA-AAAA-ATAATATAT-A-TAAAATAT
1 ATAATAAAATATAATATATAAGTAAAATAT
*
95276661 ATAATAAAATATAATTTATAAGTAAAATAT
1 ATAATAAAATATAATATATAAGTAAAATAT
*
95276691 AAAATAA
1 ATAATAA
95276698 TAAAAATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 4 0.13
27 4 0.13
28 8 0.26
29 1 0.03
30 14 0.45
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (30 bp):
ATAATAAAATATAATATATAAGTAAAATAT
Found at i:95276674 original size:19 final size:20
Alignment explanation
Indices: 95276650--95276700 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 20
95276640 AAAATAATAT
95276650 ATATAAAATATATAA-TAAA
1 ATATAAAATATATAAGTAAA
*
95276669 ATAT--AATTTATAAGTAAA
1 ATATAAAATATATAAGTAAA
95276687 ATATAAAATA-ATAA
1 ATATAAAATATATAA
95276701 AAATAATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 8 0.30
18 8 0.30
19 8 0.30
20 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
ATATAAAATATATAAGTAAA
Found at i:95276680 original size:28 final size:29
Alignment explanation
Indices: 95276635--95276707 Score: 80
Period size: 33 Copynumber: 2.5 Consensus size: 29
95276625 TTTACAGAAA
95276635 ATAA-AAAAATAATATAT-A-TAAAATAT
1 ATAATAAAAATAATATATAAGTAAAATAT
*
95276661 ATAATAAAATATAATTTATAAGTAAAATAT
1 ATAATAAAA-ATAATATATAAGTAAAATAT
95276691 AAAATAATAAAAATAAT
1 ---ATAATAAAAATAAT
95276708 GTAATGGATA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
26 4 0.10
27 4 0.10
28 8 0.21
29 1 0.03
30 8 0.21
32 5 0.13
33 9 0.23
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (29 bp):
ATAATAAAAATAATATATAAGTAAAATAT
Found at i:95276725 original size:37 final size:37
Alignment explanation
Indices: 95276650--95276727 Score: 90
Period size: 37 Copynumber: 2.2 Consensus size: 37
95276640 AAAATAATAT
* **
95276650 ATATAAAATATATAATAAAATATAATTTATAAGTAAA
1 ATATAAAATATATAAAAAAATATAATGGATAAGTAAA
*
95276687 ATATAAAATA-ATAAAAATAATGTAATGGATAA-TAAA
1 ATATAAAATATATAAAAA-AATATAATGGATAAGTAAA
95276723 A-ATAA
1 ATATAA
95276728 TATACATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
35 4 0.11
36 11 0.31
37 21 0.58
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (37 bp):
ATATAAAATATATAAAAAAATATAATGGATAAGTAAA
Found at i:95289277 original size:39 final size:39
Alignment explanation
Indices: 95289223--95289336 Score: 192
Period size: 39 Copynumber: 2.9 Consensus size: 39
95289213 ATTTGATGTG
95289223 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
*
95289262 TATCCGGACTTAGGGTCTGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* * *
95289301 TATTCGGACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
95289337 ATATGTCCTG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 70 1.00
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:95289373 original size:78 final size:78
Alignment explanation
Indices: 95289227--95289380 Score: 179
Period size: 78 Copynumber: 2.0 Consensus size: 78
95289217 GATGTGTATC
* * * ** * *
95289227 CGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCTGCAGGCTATGTG
1 CGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGCTATGAG
95289292 CTGGAATTATATT
66 CTGGAATTATATT
*
95289305 CGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCTGG-C-TAAAGTCCCGCAGGCT-TC
1 CGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCC-GGACTTAAAGT-CCGCAGGCTAT-
*
95289367 GAGCTGGTATTATA
63 GAGCTGGAATTATA
95289381 CCGGGTTTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
77 5 0.08
78 57 0.89
79 2 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (78 bp):
CGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGCTATGAG
CTGGAATTATATT
Found at i:95296102 original size:39 final size:39
Alignment explanation
Indices: 95296048--95296171 Score: 212
Period size: 39 Copynumber: 3.2 Consensus size: 39
95296038 ATTTGATGTG
95296048 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
95296087 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* * *
95296126 TATCCGGACTTAAGGTCCTCAGGCTATGTGCTGGAAATA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
*
95296165 TGTCCGG
1 TATCCGG
95296172 GCTAAAGTCC
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:95296188 original size:39 final size:39
Alignment explanation
Indices: 95296048--95296241 Score: 198
Period size: 39 Copynumber: 5.0 Consensus size: 39
95296038 ATTTGATGTG
**
95296048 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAAGTCCGCAGGCTATGTGCTGGAATTA
**
95296087 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAAGTCCGCAGGCTATGTGCTGGAATTA
* * *
95296126 TATCCGGACTTAAGGTCCTCAGGCTATGTGCTGGAAATA
1 TATCCGGACTTAAAGTCCGCAGGCTATGTGCTGGAATTA
* * * *
95296165 TGTCCGGGC-TAAAGTCCCGCAGGCT-TCGAGCTGGTATTA
1 TATCCGGACTTAAAGT-CCGCAGGCTAT-GTGCTGGAATTA
** *
95296204 TA-CCGGGTTTAAATTCCCGCAGGCT-TGTGCTGGTAATT
1 TATCCGGACTTAAAGT-CCGCAGGCTATGTGCTGG-AATT
95296242 GGTTTCAAGT
Statistics
Matches: 136, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
38 17 0.12
39 119 0.88
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (39 bp):
TATCCGGACTTAAAGTCCGCAGGCTATGTGCTGGAATTA
Found at i:95303098 original size:21 final size:21
Alignment explanation
Indices: 95303072--95303131 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
95303062 CAGCTCTTAA
95303072 TTATGAG-TTTATGTTCAGCTC
1 TTATGAGCTTT-TGTTCAGCTC
95303093 TTATGAGCTTTTGTTCAGCTC
1 TTATGAGCTTTTGTTCAGCTC
*
95303114 TTACGAGC--TTGTTCAGCT
1 TTATGAGCTTTTGTTCAGCT
95303132 TTCGAGCTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 10 0.27
21 24 0.65
22 3 0.08
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.45
Consensus pattern (21 bp):
TTATGAGCTTTTGTTCAGCTC
Found at i:95303145 original size:19 final size:20
Alignment explanation
Indices: 95303083--95303145 Score: 78
Period size: 21 Copynumber: 3.2 Consensus size: 20
95303073 TATGAGTTTA
*
95303083 TGTTCAGCTCTTATGAGCTTT
1 TGTTCAGCTCTTACGAGC-TT
95303104 TGTTCAGCTCTTACGAGC-T
1 TGTTCAGCTCTTACGAGCTT
95303123 TGTTCAGCT-TT-CGAGCTT
1 TGTTCAGCTCTTACGAGCTT
95303141 CTGTT
1 -TGTT
95303146 GGCGTATTGG
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
17 5 0.13
18 3 0.08
19 14 0.36
21 17 0.44
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.44
Consensus pattern (20 bp):
TGTTCAGCTCTTACGAGCTT
Found at i:95308235 original size:42 final size:42
Alignment explanation
Indices: 95308171--95308322 Score: 160
Period size: 42 Copynumber: 3.6 Consensus size: 42
95308161 CGTGTTTTAC
* * *
95308171 TTTTCGTTTAGTTCTTACGAGCTTCTATTTAACTAATATGAG
1 TTTTCGTTCAGCTCTTACGAGCTTCTATTTAACTCATATGAG
* * * * * * *
95308213 TTTTCATTCAACTCTTTCGAGCTTCTGTTCAATTCTTATGAG
1 TTTTCGTTCAGCTCTTACGAGCTTCTATTTAACTCATATGAG
** * * *
95308255 TTACCGTTTAGCTCTTATGTGCTTCTATTTAACTCATATGAG
1 TTTTCGTTCAGCTCTTACGAGCTTCTATTTAACTCATATGAG
*
95308297 TTTTTGTTCAGCTCTTACGAGCTTCT
1 TTTTCGTTCAGCTCTTACGAGCTTCT
95308323 GTTCAACCCT
Statistics
Matches: 82, Mismatches: 28, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
42 82 1.00
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (42 bp):
TTTTCGTTCAGCTCTTACGAGCTTCTATTTAACTCATATGAG
Found at i:95308318 original size:84 final size:84
Alignment explanation
Indices: 95308175--95308364 Score: 256
Period size: 84 Copynumber: 2.3 Consensus size: 84
95308165 TTTTACTTTT
* *
95308175 CGTTTAGTTCTTACGAGCTTCTATTTAACTAATATGAGTTTTCATTCAACTCTTTCGAGCTTCTG
1 CGTTTAGCTCTTACGAGCTTCTATTTAACTAATATGAGTTTTCATTCAACTCTTACGAGCTTCTG
**
95308240 TTCAATTCTTAT-GAGTTAC
66 TTCAACCCTTATAG-GTTAC
* * * ** *
95308259 CGTTTAGCTCTTATGTGCTTCTATTTAACTCATATGAGTTTTTGTTCAGCTCTTACGAGCTTCTG
1 CGTTTAGCTCTTACGAGCTTCTATTTAACTAATATGAGTTTTCATTCAACTCTTACGAGCTTCTG
95308324 TTCAACCCTTATAGGTTAC
66 TTCAACCCTTATAGGTTAC
**
95308343 TTTTTAGCTCTTACGAGCTTCT
1 CGTTTAGCTCTTACGAGCTTCT
95308365 GTTAAGCTTT
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 90 0.99
85 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.45
Consensus pattern (84 bp):
CGTTTAGCTCTTACGAGCTTCTATTTAACTAATATGAGTTTTCATTCAACTCTTACGAGCTTCTG
TTCAACCCTTATAGGTTAC
Found at i:95308334 original size:21 final size:21
Alignment explanation
Indices: 95308219--95308386 Score: 85
Period size: 21 Copynumber: 8.1 Consensus size: 21
95308209 TGAGTTTTCA
*
95308219 TTCAACTCTTTCGAGCTTCTG
1 TTCAACTCTTACGAGCTTCTG
* * *
95308240 TTCAATTCTTATGAG-TTACCG
1 TTCAACTCTTACGAGCTT-CTG
* * * * *
95308261 TTTAGCTCTTATGTGCTTCTA
1 TTCAACTCTTACGAGCTTCTG
* * * * *
95308282 TTTAACTCATATGAGTTTTTG
1 TTCAACTCTTACGAGCTTCTG
*
95308303 TTCAGCTCTTACGAGCTTCTG
1 TTCAACTCTTACGAGCTTCTG
* * * *
95308324 TTCAACCCTTA-TAGGTTACTT
1 TTCAACTCTTACGAGCTT-CTG
* *
95308345 TTTAGCTCTTACGAGCTTCTG
1 TTCAACTCTTACGAGCTTCTG
95308366 TT-AAGCT-TT-CGAGCTTCTG
1 TTCAA-CTCTTACGAGCTTCTG
95308385 TT
1 TT
95308387 AATGATATAC
Statistics
Matches: 108, Mismatches: 34, Indels: 12
0.70 0.22 0.08
Matches are distributed among these distances:
19 12 0.11
20 9 0.08
21 81 0.75
22 6 0.06
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.45
Consensus pattern (21 bp):
TTCAACTCTTACGAGCTTCTG
Found at i:95308352 original size:42 final size:42
Alignment explanation
Indices: 95308224--95308367 Score: 150
Period size: 42 Copynumber: 3.4 Consensus size: 42
95308214 TTTCATTCAA
* * **
95308224 CTCTTTCGAGCTTCTGTTCAATTCTTATGAGTTACCGTTTAG
1 CTCTTACGAGCTTCTGTTCAACTCTTATGAGTTACTTTTTAG
* * * * *
95308266 CTCTTATGTGCTTCTATTTAACTCATATGAGTT--TTTGTTCAG
1 CTCTTACGAGCTTCTGTTCAACTCTTATGAGTTACTTT-TT-AG
*
95308308 CTCTTACGAGCTTCTGTTCAACCCTTAT-AGGTTACTTTTTAG
1 CTCTTACGAGCTTCTGTTCAACTCTTATGA-GTTACTTTTTAG
95308350 CTCTTACGAGCTTCTGTT
1 CTCTTACGAGCTTCTGTT
95308368 AAGCTTTCGA
Statistics
Matches: 82, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
40 1 0.01
41 3 0.04
42 73 0.89
43 2 0.02
44 3 0.04
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (42 bp):
CTCTTACGAGCTTCTGTTCAACTCTTATGAGTTACTTTTTAG
Found at i:95309383 original size:23 final size:24
Alignment explanation
Indices: 95309339--95309383 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
95309329 CAACTTATTT
* *
95309339 TGGCTTGTTTTATATGCCTAATTA
1 TGGCTTGTTTGATATGCATAATTA
*
95309363 TGGCTTG-TTGATATGTATAAT
1 TGGCTTGTTTGATATGCATAAT
95309384 GTTGATTGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.22, C:0.09, G:0.20, T:0.49
Consensus pattern (24 bp):
TGGCTTGTTTGATATGCATAATTA
Found at i:95310727 original size:51 final size:51
Alignment explanation
Indices: 95310651--95310752 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
95310641 GTTCGGGATT
*
95310651 GATCTTGTGGTTCAAGATTTCAGATTTAGGGCTGATTTAAATGAAGATAAA
1 GATCTTGGGGTTCAAGATTTCAGATTTAGGGCTGATTTAAATGAAGATAAA
95310702 GATCTTGGGGTTCAAGATTTCAGATTTAGGGCTGATTTAAATGAAGATAAA
1 GATCTTGGGGTTCAAGATTTCAGATTTAGGGCTGATTTAAATGAAGATAAA
95310753 TGGCAGCAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.34
Consensus pattern (51 bp):
GATCTTGGGGTTCAAGATTTCAGATTTAGGGCTGATTTAAATGAAGATAAA
Found at i:95313181 original size:44 final size:44
Alignment explanation
Indices: 95313126--95313265 Score: 154
Period size: 52 Copynumber: 3.0 Consensus size: 44
95313116 TATGTATGAG
* * *
95313126 GCATCCAAGCTCGTTGAGTTGGTCTGAGTTCATTATGGATGTGA
1 GCATCCGAGCTCGTTAAGTTGGTCCGAGTTCATTATGGATGTGA
* * *
95313170 GCATCCGAGCTCGTTAAGTTGGTCCGAGTTTATAATGGATGCGATACATGG
1 GCATCCGAGCTCGTTAAGTTGGTCCGAGTTCAT--T--ATG-GAT--GTGA
95313221 GACATCCGAGCTCGTTAAGTTGGTCCGAGTTCATTATGGATGTGA
1 G-CATCCGAGCTCGTTAAGTTGGTCCGAGTTCATTATGGATGTGA
95313266 TACATTTAAT
Statistics
Matches: 79, Mismatches: 9, Indels: 15
0.77 0.09 0.15
Matches are distributed among these distances:
44 29 0.37
45 2 0.03
46 1 0.01
47 3 0.04
48 6 0.08
49 3 0.04
50 1 0.01
51 3 0.04
52 31 0.39
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.31
Consensus pattern (44 bp):
GCATCCGAGCTCGTTAAGTTGGTCCGAGTTCATTATGGATGTGA
Found at i:95313233 original size:52 final size:52
Alignment explanation
Indices: 95313171--95313270 Score: 173
Period size: 52 Copynumber: 1.9 Consensus size: 52
95313161 TGGATGTGAG
*
95313171 CATCCGAGCTCGTTAAGTTGGTCCGAGTTTATAATGGATGCGATACATGGGA
1 CATCCGAGCTCGTTAAGTTGGTCCGAGTTCATAATGGATGCGATACATGGGA
* *
95313223 CATCCGAGCTCGTTAAGTTGGTCCGAGTTCATTATGGATGTGATACAT
1 CATCCGAGCTCGTTAAGTTGGTCCGAGTTCATAATGGATGCGATACAT
95313271 TTAATTGGGT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (52 bp):
CATCCGAGCTCGTTAAGTTGGTCCGAGTTCATAATGGATGCGATACATGGGA
Found at i:95321207 original size:23 final size:21
Alignment explanation
Indices: 95321157--95321208 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 21
95321147 AAATCTATTA
95321157 ACATATTGGAATCCTATGTCG
1 ACATATTGGAATCCTATGTCG
95321178 ACGCATATTGGAATCCTATGTCTTG
1 A--CATATTGGAATCCTATGTC--G
95321203 ACATAT
1 ACATAT
95321209 GTATCCTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 1 0.04
23 24 0.89
25 2 0.07
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (21 bp):
ACATATTGGAATCCTATGTCG
Found at i:95327235 original size:15 final size:15
Alignment explanation
Indices: 95327201--95327229 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
95327191 AATAAAAGTG
95327201 AATAAAACATGGCAA
1 AATAAAACATGGCAA
95327216 AATAAAA-ATGGCAA
1 AATAAAACATGGCAA
95327230 TGATAACGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.62, C:0.10, G:0.14, T:0.14
Consensus pattern (15 bp):
AATAAAACATGGCAA
Found at i:95327341 original size:11 final size:11
Alignment explanation
Indices: 95327306--95327387 Score: 66
Period size: 11 Copynumber: 7.7 Consensus size: 11
95327296 ATGGTATTAA
95327306 AATATATACAT
1 AATATATACAT
95327317 AATAT-TA-A-
1 AATATATACAT
95327325 AGATATATACAT
1 A-ATATATACAT
95327337 AATATATACAT
1 AATATATACAT
*
95327348 AAAAATATA-AT
1 -AATATATACAT
* * *
95327359 ATTAAATATAT
1 AATATATACAT
95327370 -ATATATACAT
1 AATATATACAT
*
95327380 GATATATA
1 AATATATA
95327388 TGAAATATAT
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
8 1 0.02
9 5 0.09
10 16 0.28
11 27 0.47
12 8 0.14
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (11 bp):
AATATATACAT
Found at i:95327370 original size:39 final size:42
Alignment explanation
Indices: 95327315--95327399 Score: 113
Period size: 39 Copynumber: 2.1 Consensus size: 42
95327305 AAATATATAC
95327315 ATAATATTAAAGATATATACATA-AT-ATATACAT-AAAAAT
1 ATAATATTAAAGATATATACATACATGATATACATGAAAAAT
* * * *
95327354 ATAATATTAAATATATATATATACATGATATATATGAAATAT
1 ATAATATTAAAGATATATACATACATGATATACATGAAAAAT
95327396 ATAA
1 ATAA
95327400 ATAATGTAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
39 21 0.54
40 2 0.05
41 7 0.18
42 9 0.23
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (42 bp):
ATAATATTAAAGATATATACATACATGATATACATGAAAAAT
Found at i:95327397 original size:13 final size:12
Alignment explanation
Indices: 95327307--95327403 Score: 63
Period size: 13 Copynumber: 7.7 Consensus size: 12
95327297 TGGTATTAAA
*
95327307 ATATATACATA-
1 ATATATAAATAT
*
95327318 ATAT-TAAAGAT
1 ATATATAAATAT
*
95327329 ATATACATAATAT
1 ATATATA-AATAT
* *
95327342 ATACATAAAAAT
1 ATATATAAATAT
95327354 ATAATATTAAATAT
1 AT-ATA-TAAATAT
95327368 ATATATATACATGAT
1 ATATATA-A-AT-AT
95327383 ATATATGAAATAT
1 ATATAT-AAATAT
*
95327396 ATAAATAA
1 ATATATAA
95327404 TGTAGTTATT
Statistics
Matches: 67, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
10 4 0.06
11 8 0.12
12 11 0.16
13 22 0.33
14 12 0.18
15 9 0.13
16 1 0.01
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (12 bp):
ATATATAAATAT
Found at i:95327436 original size:27 final size:26
Alignment explanation
Indices: 95327390--95327475 Score: 68
Period size: 27 Copynumber: 3.3 Consensus size: 26
95327380 GATATATATG
* *
95327390 AAATATATAAATAATGTAGTTATTAAA
1 AAATATATAAACAATATAG-TATTAAA
*
95327417 AAATATATACACAATATAGTATT-AA
1 AAATATATAAACAATATAGTATTAAA
* * * *
95327442 GAATATACACAACATGTATGGTATT-AA
1 AAATATATA-AACA-ATATAGTATTAAA
95327469 AAATATA
1 AAATATA
95327476 GTATTAAAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
25 9 0.19
26 7 0.15
27 32 0.67
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (26 bp):
AAATATATAAACAATATAGTATTAAA
Found at i:95327752 original size:3 final size:3
Alignment explanation
Indices: 95327746--95327787 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
95327736 ACACTACTAT
95327746 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
95327788 TAGAAATGTA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:95327952 original size:3 final size:3
Alignment explanation
Indices: 95327882--95327941 Score: 68
Period size: 3 Copynumber: 19.7 Consensus size: 3
95327872 AGATATACAC
* *
95327882 TAA TATA TAA TAA TAA TAG TAA TAA TAA TAA -ATA TAA TAA TAG TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
*
95327928 TAA TGA TAA TAA TA
1 TAA TAA TAA TAA TA
95327942 CGAAAATAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 1 0.02
3 43 0.90
4 4 0.08
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:95328020 original size:20 final size:20
Alignment explanation
Indices: 95327997--95328086 Score: 71
Period size: 20 Copynumber: 4.5 Consensus size: 20
95327987 TTTTAATGGC
*
95327997 AATAATAATAATAGTACAAT
1 AATAATAATAATAGTAAAAT
* * *
95328017 AATAACAA-AGTAGTAGAAAA
1 AATAATAATAATAGTA-AAAT
95328037 AATAACT-ATAATAGTAAAAT
1 AATAA-TAATAATAGTAAAAT
* *
95328057 -ATAATAAATAGTAGTAAAAG
1 AATAAT-AATAATAGTAAAAT
95328077 AA-AATAATAA
1 AATAATAATAA
95328087 AATTATCTAA
Statistics
Matches: 54, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
18 1 0.02
19 14 0.26
20 32 0.59
21 7 0.13
ACGTcount: A:0.63, C:0.03, G:0.09, T:0.24
Consensus pattern (20 bp):
AATAATAATAATAGTAAAAT
Found at i:95328041 original size:40 final size:40
Alignment explanation
Indices: 95327997--95328086 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 40
95327987 TTTTAATGGC
*
95327997 AATAATAATAATAGTACAATAATAACAAAGTAGTAG-AAAA-
1 AATAATAATAATAGTAAAAT-ATAACAAA-TAGTAGTAAAAG
*
95328037 AATAACT-ATAATAGTAAAATATAATAAATAGTAGTAAAAG
1 AATAA-TAATAATAGTAAAATATAACAAATAGTAGTAAAAG
95328077 AA-AATAATAA
1 AATAATAATAA
95328087 AATTATCTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
38 7 0.16
39 17 0.39
40 19 0.43
41 1 0.02
ACGTcount: A:0.63, C:0.03, G:0.09, T:0.24
Consensus pattern (40 bp):
AATAATAATAATAGTAAAATATAACAAATAGTAGTAAAAG
Found at i:95328066 original size:17 final size:17
Alignment explanation
Indices: 95328001--95328069 Score: 50
Period size: 19 Copynumber: 3.8 Consensus size: 17
95327991 AATGGCAATA
*
95328001 ATAAT-AATAGTACAAT
1 ATAATAAATAGTAAAAT
* *
95328017 AATAACAAAGTAGTAGAAAAA
1 -ATAATAAA-TAGT--AAAAT
95328038 ATAACTATAATAGTAAAAT
1 ATAA-TA-AATAGTAAAAT
95328057 ATAATAAATAGTA
1 ATAATAAATAGTA
95328070 GTAAAAGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
17 11 0.27
18 4 0.10
19 12 0.29
20 4 0.10
21 8 0.20
22 2 0.05
ACGTcount: A:0.61, C:0.04, G:0.09, T:0.26
Consensus pattern (17 bp):
ATAATAAATAGTAAAAT
Found at i:95329414 original size:15 final size:15
Alignment explanation
Indices: 95329389--95329424 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
95329379 AGCATAAATA
*
95329389 AATAAATTATATTAT
1 AATATATTATATTAT
*
95329404 ATTATATTATATTAT
1 AATATATTATATTAT
95329419 AATATA
1 AATATA
95329425 ATAGTTTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATATATTATATTAT
Found at i:95329427 original size:5 final size:5
Alignment explanation
Indices: 95329394--95329424 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
95329384 AAATAAATAA
*
95329394 ATTAT ATTAT ATTAT ATTAT ATTAT AATAT A
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A
95329425 ATAGTTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (5 bp):
ATTAT
Found at i:95329473 original size:19 final size:18
Alignment explanation
Indices: 95329438--95329476 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
95329428 GTTTAATAAT
*
95329438 AAAAAGAAAGAAATAAAG
1 AAAAAAAAAGAAATAAAG
*
95329456 AAAAAAAAAGAGACTAAAG
1 AAAAAAAAAGA-AATAAAG
95329475 AA
1 AA
95329477 CAGAATAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.77, C:0.03, G:0.15, T:0.05
Consensus pattern (18 bp):
AAAAAAAAAGAAATAAAG
Found at i:95329524 original size:12 final size:13
Alignment explanation
Indices: 95329499--95329523 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95329489 AACGTAGTAG
95329499 GGGAAAGAAAAAA
1 GGGAAAGAAAAAA
95329512 GGGAAAGAAAAA
1 GGGAAAGAAAAA
95329524 GAAGGAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (13 bp):
GGGAAAGAAAAAA
Found at i:95330785 original size:47 final size:47
Alignment explanation
Indices: 95330703--95330803 Score: 123
Period size: 47 Copynumber: 2.1 Consensus size: 47
95330693 CCATGTGTGT
** * *
95330703 CGTACTGTTACTGTTACTTCGGTTTAATCCAATGAGGTACTAAGTAC
1 CGTACTGTTACTGTTACTTCGGTCAAAGCCAATGAGGCACTAAGTAC
* * *
95330750 CGTACTGTTACTGTTTACTTTGG-CAAAGCCGATGAGGCACTGAGTAC
1 CGTACTGTTACTG-TTACTTCGGTCAAAGCCAATGAGGCACTAAGTAC
95330797 CGTACTG
1 CGTACTG
95330804 GTGTGTTGGT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
47 38 0.83
48 8 0.17
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.33
Consensus pattern (47 bp):
CGTACTGTTACTGTTACTTCGGTCAAAGCCAATGAGGCACTAAGTAC
Found at i:95330890 original size:18 final size:18
Alignment explanation
Indices: 95330867--95330964 Score: 142
Period size: 18 Copynumber: 5.4 Consensus size: 18
95330857 CGAATAAAGG
* * *
95330867 TACTGAATGACTGACTGT
1 TACTGAATAATTGATTGT
*
95330885 TACTGAATGATTGATTGT
1 TACTGAATAATTGATTGT
* *
95330903 TACTGAATAACTGATTGC
1 TACTGAATAATTGATTGT
95330921 TACTGAATAATTGATTGT
1 TACTGAATAATTGATTGT
95330939 TACTGAATAATTGATTGT
1 TACTGAATAATTGATTGT
95330957 TACTGAAT
1 TACTGAAT
95330965 GATACTGATA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 73 1.00
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (18 bp):
TACTGAATAATTGATTGT
Found at i:95330907 original size:36 final size:36
Alignment explanation
Indices: 95330867--95330967 Score: 157
Period size: 36 Copynumber: 2.8 Consensus size: 36
95330857 CGAATAAAGG
* *
95330867 TACTGAATGACTGACTGTTACTGAATGATTGATTGT
1 TACTGAATAACTGATTGTTACTGAATGATTGATTGT
* *
95330903 TACTGAATAACTGATTGCTACTGAATAATTGATTGT
1 TACTGAATAACTGATTGTTACTGAATGATTGATTGT
*
95330939 TACTGAATAATTGATTGTTACTGAATGAT
1 TACTGAATAACTGATTGTTACTGAATGAT
95330968 ACTGATAAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 58 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.40
Consensus pattern (36 bp):
TACTGAATAACTGATTGTTACTGAATGATTGATTGT
Found at i:95330925 original size:54 final size:56
Alignment explanation
Indices: 95330867--95330973 Score: 164
Period size: 54 Copynumber: 1.9 Consensus size: 56
95330857 CGAATAAAGG
* *
95330867 TACTGAATGACTGACTGTTACTGAATGATTGATTGTTACTGAAT-A-ACTGATTGC
1 TACTGAATAACTGACTGTTACTGAATAATTGATTGTTACTGAATGATACTGATTGC
* *
95330921 TACTGAATAATTGATTGTTACTGAATAATTGATTGTTACTGAATGATACTGAT
1 TACTGAATAACTGACTGTTACTGAATAATTGATTGTTACTGAATGATACTGAT
95330974 AAATTGATTG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
54 40 0.85
55 1 0.02
56 6 0.13
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (56 bp):
TACTGAATAACTGACTGTTACTGAATAATTGATTGTTACTGAATGATACTGATTGC
Found at i:95330991 original size:28 final size:28
Alignment explanation
Indices: 95330930--95330991 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
95330920 CTACTGAATA
* * *
95330930 ATTGATTGTTACTGAATAATTGATTGTT
1 ATTGAATGATACTGAATAATTGATTGAT
*
95330958 ACTGAATGATACTG-ATAAATTGATTGAT
1 ATTGAATGATACTGAAT-AATTGATTGAT
95330986 ATTGAA
1 ATTGAA
95330992 AAACACTGAC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.35, C:0.05, G:0.18, T:0.42
Consensus pattern (28 bp):
ATTGAATGATACTGAATAATTGATTGAT
Found at i:95336522 original size:26 final size:26
Alignment explanation
Indices: 95336491--95336598 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
95336481 TGAAATGCCC
*
95336491 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
95336517 ATCATGGAGCATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
95336543 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
95336569 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
95336595 ATCA
1 ATCA
95336599 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:95337861 original size:43 final size:43
Alignment explanation
Indices: 95337794--95337920 Score: 141
Period size: 44 Copynumber: 2.9 Consensus size: 43
95337784 CTTGTACAAC
* *
95337794 GCCAACGTCCCAAAC-GTGGTCTTACATGTAATCACATATCGAT
1 GCCAACGTCCCAGACAG-GGTCTTACACGTAATCACATATCGAT
* * *
95337837 GTC-ACTGTCCCAGATAGGGTCTTACACGTAAATCACAAATCGAT
1 GCCAAC-GTCCCAGACAGGGTCTTACACGT-AATCACATATCGAT
* * *
95337881 GCCAACGTCCCAGACATGGTATTACACGAAATCACATATC
1 GCCAACGTCCCAGACAGGGTCTTACACGTAATCACATATC
95337921 AGAATCCTAT
Statistics
Matches: 69, Mismatches: 11, Indels: 8
0.78 0.12 0.09
Matches are distributed among these distances:
42 2 0.03
43 30 0.43
44 35 0.51
45 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.24
Consensus pattern (43 bp):
GCCAACGTCCCAGACAGGGTCTTACACGTAATCACATATCGAT
Found at i:95338450 original size:19 final size:20
Alignment explanation
Indices: 95338407--95338447 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
95338397 TTTCATGGAG
95338407 TTCATATAAGCCCAAATATT
1 TTCATATAAGCCCAAATATT
95338427 TTCATATAAGCCCAAATATT
1 TTCATATAAGCCCAAATATT
95338447 T
1 T
95338448 CATTTATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.37
Consensus pattern (20 bp):
TTCATATAAGCCCAAATATT
Found at i:95341391 original size:33 final size:33
Alignment explanation
Indices: 95341327--95341395 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
95341317 TTGGAGAAAA
*
95341327 TAAATTAGGGTTTATGATGTTTTAAAAAATAAAT
1 TAAATTAGGATTTAT-ATGTTTTAAAAAATAAAT
95341361 TAAATTAGGATTTAT-TGTTTATAAAAAATAAAT
1 TAAATTAGGATTTATATGTTT-TAAAAAATAAAT
95341394 TA
1 TA
95341396 GGGTAAAGGG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 5 0.15
33 14 0.42
34 14 0.42
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (33 bp):
TAAATTAGGATTTATATGTTTTAAAAAATAAAT
Found at i:95342343 original size:13 final size:13
Alignment explanation
Indices: 95342325--95342360 Score: 65
Period size: 12 Copynumber: 2.8 Consensus size: 13
95342315 ATCCAATTAA
95342325 ATAAAATTTTAGC
1 ATAAAATTTTAGC
95342338 ATAAAA-TTTAGC
1 ATAAAATTTTAGC
95342350 ATAAAATTTTA
1 ATAAAATTTTA
95342361 TTTTAAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (13 bp):
ATAAAATTTTAGC
Found at i:95342474 original size:18 final size:18
Alignment explanation
Indices: 95342451--95342488 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
95342441 CGAGGATGTA
95342451 AAAATGGAAAGCGAAACT
1 AAAATGGAAAGCGAAACT
95342469 AAAATGGAAAGCGAAACT
1 AAAATGGAAAGCGAAACT
95342487 AA
1 AA
95342489 GCCCATGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.58, C:0.11, G:0.21, T:0.11
Consensus pattern (18 bp):
AAAATGGAAAGCGAAACT
Found at i:95344205 original size:42 final size:44
Alignment explanation
Indices: 95344105--95344215 Score: 126
Period size: 43 Copynumber: 2.6 Consensus size: 44
95344095 AACTCGTACA
* * * *
95344105 ATGCCAAC-GTCCCAGAC-GTGGTTTTACATGTAATCAAATGTCG
1 ATGCC-ACTGTCCCAGACAGTGGTCTTACACGAAATCAAATGACG
95344148 ATGCCACTGTCCCAGACAGT-GTCTTACACGAAATCAAAT-ACG
1 ATGCCACTGTCCCAGACAGTGGTCTTACACGAAATCAAATGACG
95344190 ATGCCGA-TGTCCCAGACA-TGGTCTTA
1 ATGCC-ACTGTCCCAGACAGTGGTCTTA
95344216 TGCGTAAATC
Statistics
Matches: 60, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
41 1 0.02
42 26 0.43
43 31 0.52
44 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (44 bp):
ATGCCACTGTCCCAGACAGTGGTCTTACACGAAATCAAATGACG
Found at i:95346202 original size:21 final size:21
Alignment explanation
Indices: 95346176--95346217 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
95346166 AGGAAATTGT
* *
95346176 AATTTAAAGATATATTTGAGA
1 AATTTAAAGAGAAATTTGAGA
95346197 AATTTAAAGAGAAATTTGAGA
1 AATTTAAAGAGAAATTTGAGA
95346218 GTTTTTTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (21 bp):
AATTTAAAGAGAAATTTGAGA
Found at i:95346734 original size:18 final size:19
Alignment explanation
Indices: 95346711--95346746 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
95346701 ATGTTTACAA
95346711 TTTTTTTTGTT-AATTTGG
1 TTTTTTTTGTTAAATTTGG
95346729 TTTTTTTTGTTAAATTTG
1 TTTTTTTTGTTAAATTTG
95346747 ACTATTACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.72
Consensus pattern (19 bp):
TTTTTTTTGTTAAATTTGG
Found at i:95351337 original size:25 final size:24
Alignment explanation
Indices: 95351300--95351367 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 24
95351290 TTTTTTTTGA
*
95351300 AAATTTTATAATTTTTTTAAAATAT
1 AAATTTT-GAATTTTTTTAAAATAT
95351325 AAATTTTGGAA--TTTTTAAAA-AT
1 AAATTTT-GAATTTTTTTAAAATAT
* *
95351347 -TATTTTGAATTTTTTTTAAAT
1 AAATTTTGAATTTTTTTAAAAT
95351368 TTCTTTCTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
20 3 0.08
21 5 0.14
22 10 0.28
23 9 0.25
25 9 0.25
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (24 bp):
AAATTTTGAATTTTTTTAAAATAT
Found at i:95351353 original size:21 final size:22
Alignment explanation
Indices: 95351313--95351360 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
95351303 TTTTATAATT
95351313 TTTTTAAAATATAAATTTTGGAA
1 TTTTTAAAATATAAATTTT-GAA
*
95351336 TTTTTAAAA-AT-TATTTTGAA
1 TTTTTAAAATATAAATTTTGAA
95351356 TTTTT
1 TTTTT
95351361 TTTAAATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 8 0.33
21 5 0.21
22 2 0.08
23 9 0.38
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (22 bp):
TTTTTAAAATATAAATTTTGAA
Found at i:95351361 original size:21 final size:24
Alignment explanation
Indices: 95351312--95351361 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 24
95351302 ATTTTATAAT
95351312 TTTTTTAAAATATAAATTTTGGAA
1 TTTTTTAAAATATAAATTTTGGAA
*
95351336 -TTTTTAAAA-AT-TATTTT-GAA
1 TTTTTTAAAATATAAATTTTGGAA
95351356 TTTTTT
1 TTTTTT
95351362 TTAAATTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 3 0.12
21 10 0.42
22 2 0.08
23 9 0.38
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (24 bp):
TTTTTTAAAATATAAATTTTGGAA
Found at i:95352571 original size:5 final size:5
Alignment explanation
Indices: 95352561--95352606 Score: 92
Period size: 5 Copynumber: 9.2 Consensus size: 5
95352551 ATGATTGTGA
95352561 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A
95352607 GCACACACAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:95376911 original size:25 final size:24
Alignment explanation
Indices: 95376882--95376928 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
95376872 ACAAGGGAAT
95376882 AGGGAAGGAAATGA-AGAAAAATGGA
1 AGGGAAGG-AA-GACAGAAAAATGGA
*
95376907 AGGGAATGAAGACAGAAAAATG
1 AGGGAAGGAAGACAGAAAAATG
95376929 AGAGAGAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 11 0.55
25 7 0.35
ACGTcount: A:0.55, C:0.02, G:0.34, T:0.09
Consensus pattern (24 bp):
AGGGAAGGAAGACAGAAAAATGGA
Found at i:95376941 original size:25 final size:24
Alignment explanation
Indices: 95376896--95376943 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
95376886 AAGGAAATGA
*
95376896 AGAAAAATGGAAGGGAATGAAGAC
1 AGAAAAATGGAAGAGAATGAAGAC
95376920 AGAAAAAT-GAGAGAGAAGTGAAGA
1 AGAAAAATGGA-AGAGAA-TGAAGA
95376944 GATGAGAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 13 0.62
25 6 0.29
ACGTcount: A:0.56, C:0.02, G:0.33, T:0.08
Consensus pattern (24 bp):
AGAAAAATGGAAGAGAATGAAGAC
Found at i:95389036 original size:27 final size:27
Alignment explanation
Indices: 95388984--95389038 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
95388974 ACGATCAACC
*
95388984 ATAAATAAGAACAAATAACAAAAATAA
1 ATAAATAAGAACAAATAAAAAAAATAA
*
95389011 ATAAATAAG-TCAAATAAAAAACAATAA
1 ATAAATAAGAACAAATAAAAAA-AATAA
95389038 A
1 A
95389039 CCAATCAGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.73, C:0.07, G:0.04, T:0.16
Consensus pattern (27 bp):
ATAAATAAGAACAAATAAAAAAAATAA
Found at i:95393333 original size:40 final size:40
Alignment explanation
Indices: 95393069--95393320 Score: 323
Period size: 40 Copynumber: 6.3 Consensus size: 40
95393059 GCTCCTCGTT
* * * * * *
95393069 CAAATGCCTTCGGGACATAGCCCGG-TTTTAGTAACTCACA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
* * ** *
95393109 C-AATGCCTTCGGGACATAACCCGG-ATTTAACAACTCGCA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
* *
95393148 CGAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
*
95393188 CAAAGGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
95393228 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
95393268 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
95393308 CAAATGCCTTCGG
1 CAAATGCCTTCGG
95393321 ATCTTAGTCC
Statistics
Matches: 197, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 34 0.17
40 159 0.81
41 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
Found at i:95393357 original size:80 final size:80
Alignment explanation
Indices: 95393142--95393373 Score: 276
Period size: 80 Copynumber: 2.9 Consensus size: 80
95393132 GATTTAACAA
* * *
95393142 CTCGCACGAATGCCTTCGG-GACTTAACCCGG-ATTTAGTATCTCGCACAAAGGCCTTCGGGGCT
1 CTCGCACAAATGCCTTCGGAG-CTTAACCCGGAATTT-GCATCTAGCACAAAGGCCTTCGGGGCT
95393205 TAACCCGGAATTTGTAT
64 TAACCCGGAATTTGTAT
* * * *
95393222 CTCGCACAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCACAAATGCCTTCGGGGCTTA
1 CTCGCACAAATGCCTTCGGAGCTTAACCCGGAATTTGCATCTAGCACAAAGGCCTTCGGGGCTTA
95393287 ACCCGGAATTTGTAT
66 ACCCGGAATTTGTAT
* ** *
95393302 CTCGCACAAATGCCTTCGGATCTTAGTCCGGATATATT-CA-CTTAGCACAAA-GCCTTCGGGAC
1 CTCGCACAAATGCCTTCGGAGCTTAACCCGGA-AT-TTGCATC-TAGCACAAAGGCCTTCGGGGC
*
95393364 TTAGCCCGGA
63 TTAACCCGGA
95393374 CAGCATTCAA
Statistics
Matches: 137, Mismatches: 10, Indels: 10
0.87 0.06 0.06
Matches are distributed among these distances:
80 119 0.87
81 16 0.12
82 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.26
Consensus pattern (80 bp):
CTCGCACAAATGCCTTCGGAGCTTAACCCGGAATTTGCATCTAGCACAAAGGCCTTCGGGGCTTA
ACCCGGAATTTGTAT
Found at i:95393357 original size:120 final size:120
Alignment explanation
Indices: 95393107--95393373 Score: 310
Period size: 120 Copynumber: 2.2 Consensus size: 120
95393097 TAGTAACTCA
* * *
95393107 CACAATGCCTTCGGGACATAACCCGG-ATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCC
1 CACAAAGCCTTCGGGACTTAACCCGGAATTTAACAACTCGCACAAATGCCTTCGGGACTTAACCC
* * *
95393171 GGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTTGTATCTCG
66 GGATTTAGTATCTCGCACAAAGGCCTTCGGAGCTTAACCCGGAATTTGCATCTAG
* ** * *
95393226 CACAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACAAATGCCTTCGGGGCTTAACC
1 CACAAA-GCCTTCGGGACTTAACCCGGAATTTAACAACTCGCACAAATGCCTTCGGGACTTAACC
* * **
95393290 CGGAATTT-GTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATATT-CA-CTTAG
65 CGG-ATTTAGTATCTCGCACAAAGGCCTTCGGAGCTTAACCCGGA-AT-TTGCATC-TAG
*
95393347 CACAAAGCCTTCGGGACTTAGCCCGGA
1 CACAAAGCCTTCGGGACTTAACCCGGA
95393374 CAGCATTCAA
Statistics
Matches: 125, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
119 5 0.04
120 99 0.79
121 19 0.15
122 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
CACAAAGCCTTCGGGACTTAACCCGGAATTTAACAACTCGCACAAATGCCTTCGGGACTTAACCC
GGATTTAGTATCTCGCACAAAGGCCTTCGGAGCTTAACCCGGAATTTGCATCTAG
Found at i:95393382 original size:41 final size:41
Alignment explanation
Indices: 95393305--95393382 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
95393295 TTTGTATCTC
* * *
95393305 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
95393346 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
95393383 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:95395901 original size:49 final size:48
Alignment explanation
Indices: 95395829--95395927 Score: 153
Period size: 49 Copynumber: 2.0 Consensus size: 48
95395819 TGGCACATCG
* * *
95395829 TATTGATCCCTATTATCCACCTTAATGACTCTTTTCCCGCTCACTGCCT
1 TATTGATCCCTATTATCCACCTTAATGAC-CCTTTCCCACGCACTGCCT
*
95395878 TATTGATCCCTATTCTCCACCTTAATGACCCTTTCCCACGCACTGCCT
1 TATTGATCCCTATTATCCACCTTAATGACCCTTTCCCACGCACTGCCT
95395926 TA
1 TA
95395928 CTTCTCCTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 18 0.39
49 28 0.61
ACGTcount: A:0.19, C:0.36, G:0.08, T:0.36
Consensus pattern (48 bp):
TATTGATCCCTATTATCCACCTTAATGACCCTTTCCCACGCACTGCCT
Found at i:95396911 original size:34 final size:28
Alignment explanation
Indices: 95396850--95396907 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
95396840 ATAAGAAAAG
95396850 AAGTTACCCGATTGATCATGATCACTCT
1 AAGTTACCCGATTGATCATGATCACTCT
95396878 AAGTTACCCGATTGATCATGATCACTCT
1 AAGTTACCCGATTGATCATGATCACTCT
95396906 AA
1 AA
95396908 CTCTTATTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (28 bp):
AAGTTACCCGATTGATCATGATCACTCT
Found at i:95403525 original size:13 final size:13
Alignment explanation
Indices: 95403507--95403531 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95403497 ACCATTTCAC
95403507 AATTTTACTATTG
1 AATTTTACTATTG
95403520 AATTTTACTATT
1 AATTTTACTATT
95403532 TTCTCAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (13 bp):
AATTTTACTATTG
Found at i:95410560 original size:18 final size:18
Alignment explanation
Indices: 95410495--95410609 Score: 81
Period size: 18 Copynumber: 6.3 Consensus size: 18
95410485 AGCAATTAAT
*
95410495 CAATCAGTAATATTCATTAA
1 CAATCAGT--TATTCAGTAA
*
95410515 CAATCAGTCAATT-AG-AA
1 CAATCAGT-TATTCAGTAA
* *
95410532 CAATTATTTATTCAGTAA
1 CAATCAGTTATTCAGTAA
* * **
95410550 CAGTTAGTTATTTGGTAA
1 CAATCAGTTATTCAGTAA
* *
95410568 CAATCAATTATTCAATAA
1 CAATCAGTTATTCAGTAA
* *
95410586 TAATCAGTTATTCAGTAT
1 CAATCAGTTATTCAGTAA
95410604 CAATCA
1 CAATCA
95410610 ATTGATCGGT
Statistics
Matches: 72, Mismatches: 21, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
16 3 0.04
17 10 0.14
18 48 0.67
19 3 0.04
20 8 0.11
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.37
Consensus pattern (18 bp):
CAATCAGTTATTCAGTAA
Found at i:95410684 original size:19 final size:19
Alignment explanation
Indices: 95410635--95410686 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
95410625 AGTAATAGTC
*
95410635 AATTATTCAGTAAAAATCA
1 AATTATTCAGTAACAATCA
* * *
95410654 GA-TATGCAGTAACAATTA
1 AATTATTCAGTAACAATCA
95410672 AATTATTCAGTAACA
1 AATTATTCAGTAACA
95410687 GTCGATCTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.31
Consensus pattern (19 bp):
AATTATTCAGTAACAATCA
Found at i:95410813 original size:6 final size:6
Alignment explanation
Indices: 95410802--95410832 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
95410792 CCGAAGTCAG
*
95410802 AACAGT AACAGT AACAGT AACAGT AGCAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
95410833 CGGTACACAG
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:0.48, C:0.16, G:0.19, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:95410937 original size:12 final size:12
Alignment explanation
Indices: 95410920--95410944 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95410910 AGTGTCGAAT
95410920 CGGTAACAGTAA
1 CGGTAACAGTAA
95410932 CGGTAACAGTAA
1 CGGTAACAGTAA
95410944 C
1 C
95410945 AGTAGTCGGC
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:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:95411100 original size:20 final size:23
Alignment explanation
Indices: 95411072--95411126 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 23
95411062 CTTTTCAGTT
95411072 TTCAATTAATT-CATATTTT-AA
1 TTCAATTAATTACATATTTTCAA
*
95411093 TT-AATTAATTATATATTTTCAA
1 TTCAATTAATTACATATTTTCAA
95411115 TTCAATATAATT
1 TTCAAT-TAATT
95411127 TCATTCACTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 8 0.28
21 9 0.31
22 4 0.14
23 3 0.10
24 5 0.17
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (23 bp):
TTCAATTAATTACATATTTTCAA
Found at i:95411486 original size:57 final size:57
Alignment explanation
Indices: 95411398--95411511 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
95411388 TTAAGTTCGG
*
95411398 ATTATAGAAATACAAACTGTAATTTCCGAGCTAACTCCCGTTGTCTTTTTCATTTCC
1 ATTATAGAAATACAAACTGTAATTTCCGAGCTAACTCCCGTTGTCTTTGTCATTTCC
95411455 ATTATAGAAATACAAACTGTAATTTCCGAGCTAACTCCCGTTGTCTTTGTCATTTCC
1 ATTATAGAAATACAAACTGTAATTTCCGAGCTAACTCCCGTTGTCTTTGTCATTTCC
95411512 TTGCTTAGTC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (57 bp):
ATTATAGAAATACAAACTGTAATTTCCGAGCTAACTCCCGTTGTCTTTGTCATTTCC
Found at i:95412047 original size:15 final size:15
Alignment explanation
Indices: 95412027--95412064 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
95412017 AATTTTCCCC
*
95412027 TTTTTCCTTCTTTCT
1 TTTTTCCTTCCTTCT
95412042 TTTTTCCTTCCTTCT
1 TTTTTCCTTCCTTCT
95412057 TTCTTTCC
1 TT-TTTCC
95412065 CCTGCTCTCT
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTTCCTTCCTTCT
Found at i:95429477 original size:15 final size:15
Alignment explanation
Indices: 95429457--95429488 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
95429447 TTGTTCTTAT
95429457 TGATTTATTAATTAC
1 TGATTTATTAATTAC
95429472 TGATTTATTAATTAC
1 TGATTTATTAATTAC
95429487 TG
1 TG
95429489 TCATTCATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.53
Consensus pattern (15 bp):
TGATTTATTAATTAC
Found at i:95429608 original size:16 final size:16
Alignment explanation
Indices: 95429587--95429617 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
95429577 TGTTAGTTCC
95429587 AGTTTAGTTAAATCCA
1 AGTTTAGTTAAATCCA
95429603 AGTTTAGTTAAATCC
1 AGTTTAGTTAAATCC
95429618 CAATCTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (16 bp):
AGTTTAGTTAAATCCA
Found at i:95429718 original size:15 final size:15
Alignment explanation
Indices: 95429700--95429732 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
95429690 CATTTTGTTC
*
95429700 TTACTGATTTATTAA
1 TTACTAATTTATTAA
95429715 TTACTAATTTATTAA
1 TTACTAATTTATTAA
95429730 TTA
1 TTA
95429733 TTGTTATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (15 bp):
TTACTAATTTATTAA
Found at i:95437519 original size:46 final size:46
Alignment explanation
Indices: 95437469--95437644 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
95437459 TGATTGAGCA
95437469 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * **
95437515 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAATAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT--G
*
95437560 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
95437608 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
95437645 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 7 0.06
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 6 0.05
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:95437625 original size:93 final size:93
Alignment explanation
Indices: 95437466--95437637 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
95437456 GGATGATTGA
*
95437466 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
95437531 TGAGTCCGAGTTCGTGAGATGTAAATAG
66 TGAGTCCGAGTTCGTGAGATGTAAATAG
*
95437559 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
95437623 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
95437638 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAAATAG
Found at i:95444462 original size:24 final size:24
Alignment explanation
Indices: 95444433--95444493 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
95444423 TAAGAAATTT
* *
95444433 CAGCACTATGTGTGCGAGGTTATG
1 CAGCACTATGTGTGCGAGATTATA
*
95444457 CGGCACTATGTGTGCGAGATTATA
1 CAGCACTATGTGTGCGAGATTATA
*
95444481 TAGCACTATGTGT
1 CAGCACTATGTGT
95444494 ATGAGGAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (24 bp):
CAGCACTATGTGTGCGAGATTATA
Found at i:95448725 original size:30 final size:29
Alignment explanation
Indices: 95448690--95448755 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
95448680 TAGGCATTTT
95448690 CACACGGCTAAACCACACGCCCGTGTGTGA
1 CACACGGC-AAACCACACGCCCGTGTGTGA
** *
95448720 CACACGGGCAGGCCATACGCCCGTGTGTGA
1 CACAC-GGCAAACCACACGCCCGTGTGTGA
95448750 CACACG
1 CACACG
95448756 CTGTGTCAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 1 0.03
30 28 0.88
31 3 0.09
ACGTcount: A:0.24, C:0.36, G:0.27, T:0.12
Consensus pattern (29 bp):
CACACGGCAAACCACACGCCCGTGTGTGA
Found at i:95452196 original size:21 final size:21
Alignment explanation
Indices: 95452172--95452224 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
95452162 GAAACCCTGA
*
95452172 AAAAAAAAAGA-AGAGAAAACT
1 AAAAAAAAACATA-AGAAAACT
*
95452193 AAAAGAAAACATAAGAAAACT
1 AAAAAAAAACATAAGAAAACT
95452214 AAAGAAAAAAC
1 AAA-AAAAAAC
95452225 TATCCTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.75, C:0.08, G:0.11, T:0.06
Consensus pattern (21 bp):
AAAAAAAAACATAAGAAAACT
Found at i:95452199 original size:11 final size:11
Alignment explanation
Indices: 95452185--95452221 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
95452175 AAAAAAGAAG
95452185 AGAAAACTAAA
1 AGAAAACTAAA
*
95452196 AGAAAAC-ATA
1 AGAAAACTAAA
95452206 AGAAAACT-AA
1 AGAAAACTAAA
95452216 AGAAAA
1 AGAAAA
95452222 AACTATCCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 16 0.70
11 7 0.30
ACGTcount: A:0.73, C:0.08, G:0.11, T:0.08
Consensus pattern (11 bp):
AGAAAACTAAA
Found at i:95475443 original size:9 final size:9
Alignment explanation
Indices: 95475429--95475454 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
95475419 TTTAATTAAA
95475429 AATTTAATT
1 AATTTAATT
95475438 AATTTAATT
1 AATTTAATT
95475447 AATTTAAT
1 AATTTAAT
95475455 AAATAATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
AATTTAATT
Found at i:95475667 original size:22 final size:21
Alignment explanation
Indices: 95475641--95475681 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
95475631 AGGAGATCAT
95475641 TTTTTTTATTAAATAGGCATA
1 TTTTTTTATTAAATAGGCATA
95475662 TTTTTTTATTAAATAGGCAT
1 TTTTTTTATTAAATAGGCAT
95475682 TAAACGCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.05, G:0.10, T:0.54
Consensus pattern (21 bp):
TTTTTTTATTAAATAGGCATA
Found at i:95476619 original size:6 final size:6
Alignment explanation
Indices: 95476608--95476641 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
95476598 GTGTATCTCA
*
95476608 TTTTTC TTTTTC TTTTTC TTTTT- ATTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
95476642 TTATTTTCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:95476625 original size:12 final size:11
Alignment explanation
Indices: 95476608--95476643 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
95476598 GTGTATCTCA
95476608 TTTTTCTTTTT
1 TTTTTCTTTTT
95476619 CTTTTTCTTTTT
1 -TTTTTCTTTTT
*
95476631 ATTTTCTTTTT
1 TTTTTCTTTTT
95476642 TT
1 TT
95476644 ATTTTCTCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:95476629 original size:11 final size:12
Alignment explanation
Indices: 95476607--95476648 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
95476597 CGTGTATCTC
95476607 ATTTTTCTTTTT
1 ATTTTTCTTTTT
*
95476619 CTTTTTCTTTTT
1 ATTTTTCTTTTT
*
95476631 ATTTTCTTTTTTT
1 ATTTT-TCTTTTT
95476644 ATTTT
1 ATTTT
95476649 CTCTCATTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (12 bp):
ATTTTTCTTTTT
Found at i:95478119 original size:26 final size:26
Alignment explanation
Indices: 95478076--95478142 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 26
95478066 ACAAACCCAA
* *
95478076 AAAAACAAAAGAAAATGAA-AAGAAAC
1 AAAAAGAAAAGAAGATGAAGAA-AAAC
* *
95478102 AAAAAGAAAGGAAGATGAAGAAAAAT
1 AAAAAGAAAAGAAGATGAAGAAAAAC
*
95478128 AAAAAGGAAATGAAG
1 AAAAA-GAAAAGAAG
95478143 TATAATAAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 24 0.71
27 10 0.29
ACGTcount: A:0.72, C:0.03, G:0.19, T:0.06
Consensus pattern (26 bp):
AAAAAGAAAAGAAGATGAAGAAAAAC
Found at i:95479829 original size:3 final size:3
Alignment explanation
Indices: 95479821--95479882 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
95479811 ATCACATGTT
95479821 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
95479869 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
95479883 TGGATGTAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:95485166 original size:3 final size:3
Alignment explanation
Indices: 95485158--95485219 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
95485148 ATCACATGTT
95485158 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
95485206 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
95485220 TGGATGTAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:95486302 original size:15 final size:15
Alignment explanation
Indices: 95486278--95486314 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
95486268 AATGGCAGGA
* *
95486278 GGAGGGGGTGGTGGT
1 GGAGGAGGTGGTGGC
95486293 GGAGGAGGTGGTGGC
1 GGAGGAGGTGGTGGC
95486308 GGAGGAG
1 GGAGGAG
95486315 CTGCACCACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.14, C:0.03, G:0.70, T:0.14
Consensus pattern (15 bp):
GGAGGAGGTGGTGGC
Found at i:95486314 original size:18 final size:18
Alignment explanation
Indices: 95486274--95486314 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
95486264 AAAAAATGGC
*
95486274 AGGAGGAGGGGGTGGTGG
1 AGGAGGAGGGGGTGGCGG
* *
95486292 TGGAGGAGGTGGTGGCGG
1 AGGAGGAGGGGGTGGCGG
95486310 AGGAG
1 AGGAG
95486315 CTGCACCACC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.02, G:0.68, T:0.12
Consensus pattern (18 bp):
AGGAGGAGGGGGTGGCGG
Found at i:95488733 original size:11 final size:11
Alignment explanation
Indices: 95488717--95488743 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
95488707 GTTCAACTAC
95488717 ATAGCATCACA
1 ATAGCATCACA
95488728 ATAGCATCACA
1 ATAGCATCACA
95488739 ATAGC
1 ATAGC
95488744 CAACTAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.26, G:0.11, T:0.19
Consensus pattern (11 bp):
ATAGCATCACA
Found at i:95494029 original size:11 final size:11
Alignment explanation
Indices: 95494013--95494043 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
95494003 AAGTATGGGT
95494013 AGGTATGGGAA
1 AGGTATGGGAA
*
95494024 AGGTATGGGCA
1 AGGTATGGGAA
95494035 AGGTATGGG
1 AGGTATGGG
95494044 GTATGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:95498149 original size:36 final size:36
Alignment explanation
Indices: 95498097--95498183 Score: 156
Period size: 36 Copynumber: 2.4 Consensus size: 36
95498087 CCCAACTACT
*
95498097 GTATACGTGAACAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
95498133 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
*
95498169 ATATACGTGAATAGT
1 GTATACGTGAATAGT
95498184 GCCGTAAACG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (36 bp):
GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
Found at i:95498184 original size:18 final size:18
Alignment explanation
Indices: 95498097--95498189 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
95498087 CCCAACTACT
* * *
95498097 GTATACGTGAACAGTACT
1 GTATACGTGAATAGTGCC
95498115 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
* *
95498133 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTGCC
95498151 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
*
95498169 ATATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
95498187 GTA
1 GTA
95498190 AACGGTCGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTGCC
Found at i:95498749 original size:11 final size:11
Alignment explanation
Indices: 95498733--95498763 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
95498723 AAGTATGGGT
95498733 AGGTATGGGAA
1 AGGTATGGGAA
*
95498744 AGGTATGGGCA
1 AGGTATGGGAA
95498755 AGGTATGGG
1 AGGTATGGG
95498764 GTATGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:95499381 original size:13 final size:12
Alignment explanation
Indices: 95499356--95499390 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
95499346 GGTTTGCTTC
95499356 TCATGTTTATAA
1 TCATGTTTATAA
*
95499368 TCATGTTTGTTAA
1 TCATGTTT-ATAA
95499381 TCATGTTTAT
1 TCATGTTTAT
95499391 CTTATGTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.26, C:0.09, G:0.11, T:0.54
Consensus pattern (12 bp):
TCATGTTTATAA
Found at i:95503890 original size:15 final size:16
Alignment explanation
Indices: 95503855--95503896 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
95503845 TAATTATTTA
*
95503855 ATATTTATACTAAAAT
1 ATATTTATACAAAAAT
95503871 ATATTTATA-AAAAAT
1 ATATTTATACAAAAAT
*
95503886 TTATTTA-ACAA
1 ATATTTATACAA
95503897 TTGAATCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 1 0.04
15 13 0.57
16 9 0.39
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATTTATACAAAAAT
Found at i:95510925 original size:22 final size:22
Alignment explanation
Indices: 95510895--95510945 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
95510885 GACTATGGAC
*
95510895 ATTTATTGGATTTTTATTTTGC-G
1 ATTT-TTGGATTTTTAATTT-CTG
*
95510918 ATTTTTGGTTTTTTAATTTCTG
1 ATTTTTGGATTTTTAATTTCTG
95510940 ATTTTT
1 ATTTTT
95510946 TTTTAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 20 0.80
23 4 0.16
ACGTcount: A:0.16, C:0.04, G:0.14, T:0.67
Consensus pattern (22 bp):
ATTTTTGGATTTTTAATTTCTG
Found at i:95518644 original size:5 final size:5
Alignment explanation
Indices: 95518634--95518664 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
95518624 GACGAAACAG
*
95518634 AAAGA AAAGA AAAAA AAAGA AAAGA AAAGA A
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA A
95518665 GAAATTTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:95519553 original size:9 final size:9
Alignment explanation
Indices: 95519539--95519606 Score: 84
Period size: 9 Copynumber: 7.6 Consensus size: 9
95519529 ATAAGTATAA
*
95519539 AATTAATCG
1 AATTAACCG
95519548 AATTAACCG
1 AATTAACCG
* *
95519557 AAATAATCG
1 AATTAACCG
95519566 AATTAACCG
1 AATTAACCG
*
95519575 AATTACCCG
1 AATTAACCG
95519584 AATT-ACCTG
1 AATTAACC-G
95519593 AATTAACCG
1 AATTAACCG
95519602 AATTA
1 AATTA
95519607 TTTGTATAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
8 2 0.04
9 45 0.90
10 3 0.06
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:95520081 original size:36 final size:38
Alignment explanation
Indices: 95519998--95520093 Score: 112
Period size: 37 Copynumber: 2.6 Consensus size: 38
95519988 CCCTATATGT
*
95519998 GTGGAA-TTGAATTGAATAT-TGACTTGAAAATGGAAAA
1 GTGGAATTTGAATTGAAT-TGTGACTTGAAAATGAAAAA
*
95520035 GTGGATTTTGAATTGAATTGTGA-TTGAAAGA-GAAAAA
1 GTGGAATTTGAATTGAATTGTGACTTGAAA-ATGAAAAA
*
95520072 GT-GAATTTGAATTGAAATGTGA
1 GTGGAATTTGAATTGAATTGTGA
95520094 ATTTGGAGAC
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
36 18 0.35
37 19 0.37
38 15 0.29
ACGTcount: A:0.41, C:0.01, G:0.26, T:0.32
Consensus pattern (38 bp):
GTGGAATTTGAATTGAATTGTGACTTGAAAATGAAAAA
Found at i:95525527 original size:154 final size:154
Alignment explanation
Indices: 95525247--95525547 Score: 489
Period size: 154 Copynumber: 2.0 Consensus size: 154
95525237 AGGTTGGAGA
* *
95525247 TAGTATTCAGGTAAAATTTTCTCAACAATGTCGACTTTAAAATTTAAACTTAATTCAAATACTTA
1 TAGTATTCAAGTAAAATTTTCTCAACAATGTCGACTTCAAAATTTAAACTTAATTCAAATACTTA
* *
95525312 TAGAAGAAATTCACTTTCACTTTTTCTAATCACTTGTTAATTGTTTTGGTGTATTTTTGTTAATT
66 TAGAAGAAATTCAATTTCACTTTTTCTAACCACTTGTTAATTGTTTTGGTGTATTTTTGTTAATT
*
95525377 GTTATTATTCATGTTATTAATTGT
131 GTTATCATTCATGTTATTAATTGT
* *
95525401 TAGTATTCAAGTAAAATTTTCTTAACAATGTCGACTTCAAGATTTAAACTTAA-TCTAAATACTT
1 TAGTATTCAAGTAAAATTTTCTCAACAATGTCGACTTCAAAATTTAAACTTAATTC-AAATACTT
* *
95525465 GT-GAAAGAAATTCAATTTCACTTTTTCTAACCATTTGTTAATTGTTTTGGTGTATTTTTGTTAA
65 ATAG-AAGAAATTCAATTTCACTTTTTCTAACCACTTGTTAATTGTTTTGGTGTATTTTTGTTAA
95525529 TTGTTATCATTCATGTTAT
129 TTGTTATCATTCATGTTAT
95525548 ATATATTTCG
Statistics
Matches: 136, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
153 3 0.02
154 133 0.98
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (154 bp):
TAGTATTCAAGTAAAATTTTCTCAACAATGTCGACTTCAAAATTTAAACTTAATTCAAATACTTA
TAGAAGAAATTCAATTTCACTTTTTCTAACCACTTGTTAATTGTTTTGGTGTATTTTTGTTAATT
GTTATCATTCATGTTATTAATTGT
Done.