Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 49 of 84
Found at i:11266387 original size:27 final size:30
Alignment explanation
Indices: 11266357--11266418 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 30
11266347 CTCGTATAAA
*
11266357 AATAATATAT-ATCATATTT-GATAA-TTT
1 AATAATAAATAATCATATTTAGATAATTTT
*
11266384 AAT-ATAAATAATTATATTTGAGATAATTTT
1 AATAATAAATAATCATATTT-AGATAATTTT
11266414 AATAA
1 AATAA
11266419 ATAATTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
26 5 0.18
27 11 0.39
29 5 0.18
30 6 0.21
31 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (30 bp):
AATAATAAATAATCATATTTAGATAATTTT
Found at i:11267575 original size:44 final size:43
Alignment explanation
Indices: 11267527--11267612 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 43
11267517 TAATATGTAA
*
11267527 AAAAAAATTAT-TTAAAATTTAAATTTAAATAATATTTATTTAAC
1 AAAAAAATTATATCAAAATTTAAA-TTAAA-AATATTTATTTAAC
* **
11267571 AAAAAAATTATATCAATATTTTTATTAAAAATATTTATTTAA
1 AAAAAAATTATATCAAAATTTAAATTAAAAATATTTATTTAA
11267613 TAAATATATC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 13 0.35
44 16 0.43
45 8 0.22
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (43 bp):
AAAAAAATTATATCAAAATTTAAATTAAAAATATTTATTTAAC
Found at i:11268545 original size:19 final size:18
Alignment explanation
Indices: 11268510--11268548 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
11268500 TTTAAATAAG
* *
11268510 TTTTTTAACAAATATATA
1 TTTTTTAAAAAAAATATA
11268528 TTTTTTAATAAAAAATATA
1 TTTTTTAA-AAAAAATATA
11268547 TT
1 TT
11268549 AATTTTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTTTAAAAAAAATATA
Found at i:11268594 original size:27 final size:26
Alignment explanation
Indices: 11268531--11268594 Score: 62
Period size: 25 Copynumber: 2.5 Consensus size: 26
11268521 ATATATATTT
11268531 TTTAATAAAAAATATATTAATTTTAA
1 TTTAATAAAAAATATATTAATTTTAA
**
11268557 -TTAATTTAAAATA-A-TAATTTATATCA
1 TTTAATAAAAAATATATTAATTT-TA--A
11268583 TTTAATAAAAAA
1 TTTAATAAAAAA
11268595 ATTGTATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
23 6 0.20
24 3 0.10
25 11 0.37
26 1 0.03
27 9 0.30
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (26 bp):
TTTAATAAAAAATATATTAATTTTAA
Found at i:11277220 original size:26 final size:25
Alignment explanation
Indices: 11277187--11277312 Score: 64
Period size: 26 Copynumber: 5.0 Consensus size: 25
11277177 TTTAATATAT
11277187 ATATTTATTTGTTTATATTATTAATA
1 ATATTTATTT-TTTATATTATTAATA
* ** *
11277213 ATATTTATATATTTATACAATTCTAATG
1 ATATTTAT-TTTTTATATTA-T-TAATA
* * *
11277241 ATATTTATATTGTATATTTTATTTATA
1 ATATTTAT-TT-TTTATATTATTAATA
11277268 CATA--TATTTTTTAT-TT-TTAATA
1 -ATATTTATTTTTTATATTATTAATA
* * *
11277290 GTA-TTATTTTTTTTATAATTAAT
1 ATATTTATTTTTTATATTATTAAT
11277313 TTTTTATCTC
Statistics
Matches: 76, Mismatches: 16, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
21 2 0.03
22 14 0.18
23 3 0.04
24 9 0.12
25 2 0.03
26 18 0.24
27 5 0.07
28 18 0.24
29 5 0.07
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.60
Consensus pattern (25 bp):
ATATTTATTTTTTATATTATTAATA
Found at i:11277281 original size:19 final size:18
Alignment explanation
Indices: 11277242--11277319 Score: 68
Period size: 19 Copynumber: 4.2 Consensus size: 18
11277232 ATTCTAATGA
* * *
11277242 TATTTATATTGTATATTT
1 TATTTATAATATATTTTT
11277260 TATTTATACATATATTTTT
1 TATTTATA-ATATATTTTT
*
11277279 TATTTTTAATAGTATTATTT
1 TATTTATAATA-TATT-TTT
*
11277299 TTTTTATAAT-TAATTTTT
1 TATTTATAATAT-ATTTTT
11277317 TAT
1 TAT
11277320 CTCATCAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
18 17 0.35
19 21 0.43
20 11 0.22
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (18 bp):
TATTTATAATATATTTTT
Found at i:11286634 original size:17 final size:17
Alignment explanation
Indices: 11286614--11286662 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
11286604 TATATTCAGA
*
11286614 TTTTATTAATATTTAAC
1 TTTTTTTAATATTTAAC
* **
11286631 TTTTTTTCAT-TTTCCC
1 TTTTTTTAATATTTAAC
11286647 TTTTTTTAATATTTAA
1 TTTTTTTAATATTTAA
11286663 TTATTTTTTC
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTTTAATATTTAAC
Found at i:11286887 original size:21 final size:19
Alignment explanation
Indices: 11286851--11286890 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
11286841 ATATTTTTTT
*
11286851 TTTTTTATTTTTATTTTAA
1 TTTTTTATTTTAATTTTAA
11286870 TTTTTTACTATTTAATTTTAA
1 TTTTTTA-T-TTTAATTTTAA
11286891 ACTAGGTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 1 0.06
21 10 0.56
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTTTATTTTAATTTTAA
Found at i:11286965 original size:18 final size:20
Alignment explanation
Indices: 11286923--11286965 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
11286913 ATGCTCATGT
*
11286923 TTTTTTGTTTGATTTTGTAC
1 TTTTTTGTTTCATTTTGTAC
11286943 TTTTTT-TTTCATTTTGTAC
1 TTTTTTGTTTCATTTTGTAC
11286962 TTTT
1 TTTT
11286966 ACTTTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.09, C:0.07, G:0.09, T:0.74
Consensus pattern (20 bp):
TTTTTTGTTTCATTTTGTAC
Found at i:11293892 original size:2 final size:2
Alignment explanation
Indices: 11293885--11293909 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11293875 GGGTATGGGT
11293885 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
11293910 TTATTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11297577 original size:5 final size:5
Alignment explanation
Indices: 11297567--11297594 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
11297557 TTCTGGCCTG
11297567 TAAAT TAAAT TAAAT TAAAT TAAAT TAA
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAA
11297595 TCAAATCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
TAAAT
Found at i:11299021 original size:11 final size:11
Alignment explanation
Indices: 11299005--11299032 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
11298995 AAAAGTTCGT
11299005 AATATTAATAA
1 AATATTAATAA
11299016 AATATTAATAA
1 AATATTAATAA
11299027 AATATT
1 AATATT
11299033 TTTTATTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
AATATTAATAA
Found at i:11302692 original size:28 final size:28
Alignment explanation
Indices: 11302585--11302684 Score: 173
Period size: 28 Copynumber: 3.6 Consensus size: 28
11302575 CTTATGTTTG
* *
11302585 AAACGACATCGTTTTGGTCCTATACTCA
1 AAACGACATCGTTTTGATCCTATGCTCA
11302613 AAACGACATCGTTTTGATCCTATGCTCA
1 AAACGACATCGTTTTGATCCTATGCTCA
11302641 AAACGACATCGTTTTGATCCTATGCTCA
1 AAACGACATCGTTTTGATCCTATGCTCA
*
11302669 AAACGACGTCGTTTTG
1 AAACGACATCGTTTTG
11302685 CTTCTATGTT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 69 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (28 bp):
AAACGACATCGTTTTGATCCTATGCTCA
Found at i:11303515 original size:20 final size:20
Alignment explanation
Indices: 11303490--11303528 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11303480 CCAATATTAT
* *
11303490 TATTATTTTTTTTAAAAAAA
1 TATTATTATTATTAAAAAAA
11303510 TATTATTATTATTAAAAAA
1 TATTATTATTATTAAAAAA
11303529 TGTAGACCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTATTATTATTAAAAAAA
Found at i:11304372 original size:27 final size:27
Alignment explanation
Indices: 11304319--11304429 Score: 72
Period size: 27 Copynumber: 4.1 Consensus size: 27
11304309 TATATACATG
11304319 TATTTTA-TTATATA-TATTCT-CATTTA
1 TATTTTATTTATATATTATT-TACA-TTA
11304345 TATTTTATTTATATATTATTTACATTA
1 TATTTTATTTATATATTATTTACATTA
* * * *
11304372 T-TGTATATTTATCTATTTTATTATA-TA
1 TAT-TTTATTTATATATTAT-TTACATTA
* * *
11304399 TATTGTAATTTATATTTTATTTATATT-
1 TATT-TTATTTATATATTATTTACATTA
11304426 TATT
1 TATT
11304430 GATTGATATA
Statistics
Matches: 68, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
26 8 0.12
27 38 0.56
28 22 0.32
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.64
Consensus pattern (27 bp):
TATTTTATTTATATATTATTTACATTA
Found at i:11304379 original size:66 final size:65
Alignment explanation
Indices: 11304303--11304429 Score: 191
Period size: 66 Copynumber: 1.9 Consensus size: 65
11304293 TTTATTATTT
* *
11304303 TTATTATATATACATGTATTTTATTATATATATTCTCATTTATATTTTATTTATATATTATTTAC
1 TTATTATATATACATCTATTTTATTATATATATTCTAATTTATATTTTATTTATAT-TTATTTAC
11304368 A
65 A
* ** *
11304369 TTATTGTATATTTATCTATTTTATTATATATATTGTAATTTATATTTTATTTATATTTATT
1 TTATTATATATACATCTATTTTATTATATATATTCTAATTTATATTTTATTTATATTTATT
11304430 GATTGATATA
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
65 5 0.09
66 50 0.91
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (65 bp):
TTATTATATATACATCTATTTTATTATATATATTCTAATTTATATTTTATTTATATTTATTTACA
Found at i:11304392 original size:20 final size:20
Alignment explanation
Indices: 11304345--11304402 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
11304335 TTCTCATTTA
*
11304345 TATTTTATTTATATATTATT
1 TATTTTATTTATATATTATC
**
11304365 TACATTATTGTATAT-TTATC
1 TATTTTATT-TATATATTATC
11304385 TATTTTATTATATATATT
1 TATTTTATT-TATATATT
11304403 GTAATTTATA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 23 0.77
21 7 0.23
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (20 bp):
TATTTTATTTATATATTATC
Found at i:11304430 original size:27 final size:27
Alignment explanation
Indices: 11304351--11304447 Score: 94
Period size: 27 Copynumber: 3.6 Consensus size: 27
11304341 TTTATATTTT
* *
11304351 ATTTATATATTATTTACA-TTATTGTA
1 ATTTATATTTTATTTATATTTATTGTA
*
11304377 TATTTATCTATTTTA-TTATATATATTGTA
1 -ATTTA--TATTTTATTTATATTTATTGTA
11304406 ATTTATATTTTATTTATATTTATTG--
1 ATTTATATTTTATTTATATTTATTGTA
11304431 ATTGATATATTTTATTT
1 ATT--TATATTTTATTT
11304448 CGATAAAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
25 3 0.05
26 7 0.12
27 28 0.47
28 9 0.15
29 13 0.22
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (27 bp):
ATTTATATTTTATTTATATTTATTGTA
Found at i:11304768 original size:19 final size:18
Alignment explanation
Indices: 11304744--11304781 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
11304734 TTTTTCGATA
*
11304744 TTTTTGTTAGATGGTTTGT
1 TTTTTGTT-GATAGTTTGT
11304763 TTTTTGTTGATAGTTTGT
1 TTTTTGTTGATAGTTTGT
11304781 T
1 T
11304782 GTTGTTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.11, C:0.00, G:0.24, T:0.66
Consensus pattern (18 bp):
TTTTTGTTGATAGTTTGT
Found at i:11304919 original size:16 final size:17
Alignment explanation
Indices: 11304893--11304925 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11304883 AGGTTATTGT
11304893 ATTTATTTTTTACGTTG
1 ATTTATTTTTTACGTTG
*
11304910 ATTT-TTTTTTATGTTG
1 ATTTATTTTTTACGTTG
11304926 GTATTTGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.15, C:0.03, G:0.12, T:0.70
Consensus pattern (17 bp):
ATTTATTTTTTACGTTG
Found at i:11305835 original size:30 final size:30
Alignment explanation
Indices: 11305800--11305861 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
11305790 GTTTTAAGAC
* * *
11305800 ATGTAACAGAGTTGTATAAACTGTTTTGAT
1 ATGTAACAAAATTATATAAACTGTTTTGAT
11305830 ATGTAACAAAATTATATAAACTGTTTTGAT
1 ATGTAACAAAATTATATAAACTGTTTTGAT
11305860 AT
1 AT
11305862 ATAGTATGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.40
Consensus pattern (30 bp):
ATGTAACAAAATTATATAAACTGTTTTGAT
Found at i:11312511 original size:12 final size:14
Alignment explanation
Indices: 11312496--11312551 Score: 66
Period size: 12 Copynumber: 4.3 Consensus size: 14
11312486 AAATTATTTT
11312496 TTTAATT-T-TATA
1 TTTAATTATATATA
11312508 TTTAATTATATATA
1 TTTAATTATATATA
11312522 TTT--TTATATATA
1 TTTAATTATATATA
* *
11312534 TTTAATTTTATATT
1 TTTAATTATATATA
11312548 TTTA
1 TTTA
11312552 TTTAAAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
12 19 0.50
13 1 0.03
14 18 0.47
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTAATTATATATA
Found at i:11312540 original size:26 final size:24
Alignment explanation
Indices: 11312504--11312552 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
11312494 TTTTTAATTT
11312504 TATATTTAATTATATATATTTTTATA
1 TATATTTAATT-T-TATATTTTTATA
11312530 TATATTTAATTTTATATTTTTAT
1 TATATTTAATTTTATATTTTTAT
11312553 TTAAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 11 0.48
25 1 0.04
26 11 0.48
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (24 bp):
TATATTTAATTTTATATTTTTATA
Found at i:11314528 original size:25 final size:24
Alignment explanation
Indices: 11314494--11314566 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 24
11314484 TTAACATTTT
11314494 TTAT-AATGAAAATAAATTATAAAA
1 TTATAAATGAAAA-AAATTATAAAA
11314518 TTATAAATGAAAAAAAATCGTA-AAAA
1 TTATAAATG-AAAAAAAT--TATAAAA
* * *
11314544 ATATAAGTGAAAAAAAGTATAAA
1 TTATAAATGAAAAAAATTATAAA
11314567 CTACAATAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
23 2 0.05
24 7 0.17
25 15 0.37
26 15 0.37
27 2 0.05
ACGTcount: A:0.64, C:0.01, G:0.08, T:0.26
Consensus pattern (24 bp):
TTATAAATGAAAAAAATTATAAAA
Found at i:11314543 original size:26 final size:25
Alignment explanation
Indices: 11314494--11314559 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
11314484 TTAACATTTT
*
11314494 TTAT-AATGAAAATAAATTATAAAA
1 TTATAAATGAAAAAAAATTATAAAA
11314518 TTATAAATGAAAAAAAATCGTA-AAAA
1 TTATAAATGAAAAAAAAT--TATAAAA
* *
11314544 ATATAAGTGAAAAAAA
1 TTATAAATGAAAAAAA
11314560 GTATAAACTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 4 0.11
25 12 0.33
26 18 0.50
27 2 0.06
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.26
Consensus pattern (25 bp):
TTATAAATGAAAAAAAATTATAAAA
Found at i:11324494 original size:22 final size:23
Alignment explanation
Indices: 11324467--11324545 Score: 67
Period size: 24 Copynumber: 3.4 Consensus size: 23
11324457 AGAACTCTAG
*
11324467 AAATTTTCAT-TT-ATATAAGTCC
1 AAATTTT-ATATTAATAAAAGTCC
11324489 AAATTTTATGATTAATAAAAGTCC
1 AAATTTTAT-ATTAATAAAAGTCC
*
11324513 AAATTTT-T-TTATTTAAACATGTCC
1 AAATTTTATATTA-ATAAA-A-GTCC
11324537 AAATTTTAT
1 AAATTTTAT
11324546 GATATGTACA
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
21 5 0.10
22 11 0.23
23 4 0.08
24 27 0.56
25 1 0.02
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (23 bp):
AAATTTTATATTAATAAAAGTCC
Found at i:11324515 original size:24 final size:22
Alignment explanation
Indices: 11324483--11324548 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 22
11324473 TCATTTATAT
11324483 AAGTCCAAATTTTATGATTAATAA
1 AAGTCCAAATTTTATGATT--TAA
* *
11324507 AAGTCCAAATTTTTTTATTTAA
1 AAGTCCAAATTTTATGATTTAA
11324529 ACATGTCCAAATTTTATGAT
1 A-A-GTCCAAATTTTATGAT
11324549 ATGTACAAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.11
23 1 0.03
24 31 0.86
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (22 bp):
AAGTCCAAATTTTATGATTTAA
Found at i:11336861 original size:16 final size:17
Alignment explanation
Indices: 11336833--11336870 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
11336823 TGTACCCCTC
11336833 AATTTTTATAATAAAAT
1 AATTTTTATAATAAAAT
*
11336850 TATTTTTA-AATAAAAT
1 AATTTTTATAATAAAAT
11336866 AATTT
1 AATTT
11336871 AATTATCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTTTTATAATAAAAT
Found at i:11337152 original size:22 final size:22
Alignment explanation
Indices: 11337126--11337168 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11337116 TTTAAAACAA
*
11337126 TTTTAAAAGTTTTTGAATTTAT
1 TTTTAAAAATTTTTGAATTTAT
*
11337148 TTTTAAAAATTTTTGGATTTA
1 TTTTAAAAATTTTTGAATTTA
11337169 CGAATATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (22 bp):
TTTTAAAAATTTTTGAATTTAT
Found at i:11337223 original size:34 final size:33
Alignment explanation
Indices: 11337148--11337282 Score: 112
Period size: 34 Copynumber: 4.1 Consensus size: 33
11337138 TTGAATTTAT
* ** *
11337148 TTTTAAAAATTTTTGGATTTACGAATAT-GAAAA
1 TTTTAAAAATTTTTGAATTTAAAAAT-TCAAAAA
* * *
11337181 TTAATAAAAACTTTTGAATTTAAAAATTCCAAAAC
1 TT-TTAAAAATTTTTGAATTTAAAAATT-CAAAAA
* * * *
11337216 TTTTAAAATTTTTTGGATTTATAAATTTAAAAA
1 TTTTAAAAATTTTTGAATTTAAAAATTCAAAAA
* *
11337249 TTTTAAAAATTTTTAAATTTAAAAA-TAAAAAA
1 TTTTAAAAATTTTTGAATTTAAAAATTCAAAAA
11337281 TT
1 TT
11337283 AAATAATAAT
Statistics
Matches: 80, Mismatches: 19, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
32 8 0.10
33 28 0.35
34 39 0.49
35 5 0.06
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (33 bp):
TTTTAAAAATTTTTGAATTTAAAAATTCAAAAA
Found at i:11337243 original size:8 final size:8
Alignment explanation
Indices: 11337232--11337274 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
11337222 AATTTTTTGG
*
11337232 ATTTATAA
1 ATTTAAAA
11337240 ATTTAAAA
1 ATTTAAAA
11337248 ATTTTAAAA
1 A-TTTAAAA
**
11337257 ATTTTTAA
1 ATTTAAAA
11337265 ATTTAAAA
1 ATTTAAAA
11337273 AT
1 AT
11337275 AAAAAATTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
8 21 0.72
9 8 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
ATTTAAAA
Found at i:11340386 original size:14 final size:16
Alignment explanation
Indices: 11340355--11340386 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
11340345 GAAAAGGAAA
11340355 AAGTACTTCCTCCCTC
1 AAGTACTTCCTCCCTC
11340371 AAGT-CTTCCT-CCTC
1 AAGTACTTCCTCCCTC
11340385 AA
1 AA
11340387 AATCTTCACG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 6 0.38
16 4 0.25
ACGTcount: A:0.22, C:0.41, G:0.06, T:0.31
Consensus pattern (16 bp):
AAGTACTTCCTCCCTC
Found at i:11344621 original size:15 final size:16
Alignment explanation
Indices: 11344599--11344636 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
11344589 AAATAATTTT
* *
11344599 ATTAATTTGATTTTAA
1 ATTAATTTAATTTAAA
11344615 A-TAATTTAATTTAAA
1 ATTAATTTAATTTAAA
11344630 ATTAATT
1 ATTAATT
11344637 GATCGAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
ATTAATTTAATTTAAA
Found at i:11358925 original size:382 final size:383
Alignment explanation
Indices: 11358217--11358962 Score: 1208
Period size: 382 Copynumber: 2.0 Consensus size: 383
11358207 AAAAAAAAAA
11358217 CCATTGAACTTTATTATTTTTATCTAGATAAAATCTTATATTTTATTATATATAAATAAGTTCTT
1 CCATTGAACTTTATTATTTTTATCTAGATAAAATCTTATATTTTATTATATATAAATAAGTTCTT
* * * * *
11358282 ATTCTTTTGTTTGTATTCCAATAAACCCTTATTTCAAATAAAAAATCGATTTATGTTAAGGGTTT
66 ATTATTTTATTTGTATTCAAATAAACACTTATTTCAAATAAAAAATCGATTTATATTAAGGGTTT
* *
11358347 AATTATATATAAATTAAAAGTTATAACTTATTTAGATACAAATTATAAATTTAAAATTTATTTAG
131 AATTAGATATAAATTAAAAGTTATAACTTATTTAGATACAAATTATAAATTTAAAATTTATTTAA
* * * * *
11358412 GTGTAAATTAAAGATCGATGACTAATTTGGATGCAATAAAATATAAGAGTTTATCTAAATAAAGT
196 GTGGAAATTAAAGATCGATGACTAATCTGAATACAATAAAATATAAGAGTTTATCTAAATAAAAT
* * *
11358477 AATAAAATTCATGAGCTTTTTATTATGTTAGCCATTTTAATTTATTGGGTTAAGGAAATTTTGGA
261 AATAAAATTCATAAGCTTTTTATTATGTTAGCCATTTTAATTTAATGGGTTAAGGAAAATTTGGA
*
11358542 TTGTTTTAGATTTAAGTTATTTCGAATTTGAATTATTTTGGCTAAAGTATTAAACAAAG
326 TTGTTTTAGATCTAAGTTATTT-GAATTTGAATTATTTTGGCTAAAGTATTAAACAAAG
*
11358601 CCATTGAACTTTATTATTTTTATTTAGATAAAATCTTATATTTTA-T-TATATAAATAAGTTCTT
1 CCATTGAACTTTATTATTTTTATCTAGATAAAATCTTATATTTTATTATATATAAATAAGTTCTT
* *
11358664 ATTATTTTATTTGTATTCAAATAAACATTTATTTCAAATAAAAGATCGATTTATATTAAGGGTTT
66 ATTATTTTATTTGTATTCAAATAAACACTTATTTCAAATAAAAAATCGATTTATATTAAGGGTTT
* * * * *
11358729 ATTTAGATATAAATTAAAAGTTATAGCTTATTTGGATACAATTTATAAGTTTAAAATTTATTTAA
131 AATTAGATATAAATTAAAAGTTATAACTTATTTAGATACAAATTATAAATTTAAAATTTATTTAA
* * *
11358794 GTGGAAATTAAAGATCGATGATTAATCTGAATACAATAAAATATAAGAGTTTATTTAAGTAAAAT
196 GTGGAAATTAAAGATCGATGACTAATCTGAATACAATAAAATATAAGAGTTTATCTAAATAAAAT
*
11358859 AATAAAATTCATAAGCTTTTTATTATGTTGGCCATTTTAATTTAATGGGTTAAGGAAAATTTGGA
261 AATAAAATTCATAAGCTTTTTATTATGTTAGCCATTTTAATTTAATGGGTTAAGGAAAATTTGGA
*
11358924 TTGTTTTATATCTAAGTTATTTGAATTTGAATTATTTTG
326 TTGTTTTAGATCTAAGTTATTTGAATTTGAATTATTTTG
11358963 AGTTCAAGTC
Statistics
Matches: 333, Mismatches: 29, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
381 17 0.05
382 271 0.81
383 1 0.00
384 44 0.13
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.44
Consensus pattern (383 bp):
CCATTGAACTTTATTATTTTTATCTAGATAAAATCTTATATTTTATTATATATAAATAAGTTCTT
ATTATTTTATTTGTATTCAAATAAACACTTATTTCAAATAAAAAATCGATTTATATTAAGGGTTT
AATTAGATATAAATTAAAAGTTATAACTTATTTAGATACAAATTATAAATTTAAAATTTATTTAA
GTGGAAATTAAAGATCGATGACTAATCTGAATACAATAAAATATAAGAGTTTATCTAAATAAAAT
AATAAAATTCATAAGCTTTTTATTATGTTAGCCATTTTAATTTAATGGGTTAAGGAAAATTTGGA
TTGTTTTAGATCTAAGTTATTTGAATTTGAATTATTTTGGCTAAAGTATTAAACAAAG
Found at i:11366843 original size:12 final size:13
Alignment explanation
Indices: 11366826--11366863 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
11366816 AAATTAGACC
11366826 CATGCAAA-ATAT
1 CATGCAAATATAT
11366838 CATGCAAATATAT
1 CATGCAAATATAT
* *
11366851 AATGCCAATATAT
1 CATGCAAATATAT
11366864 TAATAATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 8 0.35
13 15 0.65
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (13 bp):
CATGCAAATATAT
Found at i:11367128 original size:3 final size:3
Alignment explanation
Indices: 11367120--11367144 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11367110 AAGAAAAAAC
11367120 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
11367145 AGCCAAAAAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11368097 original size:6 final size:6
Alignment explanation
Indices: 11368088--11368189 Score: 105
Period size: 6 Copynumber: 16.7 Consensus size: 6
11368078 AAACTTAAAA
* * * *
11368088 AAAATT AAAATT AAAATT AAAATT AAAATC AAAATT AAAATC AAGATC
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
* * * * *
11368136 AAAACT AAAATC AAAATAA AAAATC AAAATC AAAATT AAAATT AAAAATT
1 AAAATT AAAATT AAAAT-T AAAATT AAAATT AAAATT AAAATT -AAAATT
11368186 AAAA
1 AAAA
11368190 ATTTTGGACT
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
6 71 0.87
7 11 0.13
ACGTcount: A:0.69, C:0.07, G:0.01, T:0.24
Consensus pattern (6 bp):
AAAATT
Found at i:11368833 original size:21 final size:20
Alignment explanation
Indices: 11368796--11368885 Score: 65
Period size: 21 Copynumber: 4.3 Consensus size: 20
11368786 TAGGTTTTAT
*
11368796 TATAATAAAAGTTGGTAATC
1 TATAATAAAATTTGGTAATC
*
11368816 TATAATACAAATTTGGTAACC
1 TATAATA-AAATTTGGTAATC
* * ** *
11368837 TTTGATATTATCTTGGTAATT
1 TATAATAAAAT-TTGGTAATC
*
11368858 TATAATACAATTTTGGTAA-C
1 TATAATA-AAATTTGGTAATC
11368878 TATTAATA
1 TA-TAATA
11368886 TAAACCTGAT
Statistics
Matches: 52, Mismatches: 14, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
20 11 0.21
21 40 0.77
22 1 0.02
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (20 bp):
TATAATAAAATTTGGTAATC
Found at i:11368899 original size:42 final size:42
Alignment explanation
Indices: 11368811--11368900 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 42
11368801 TAAAAGTTGG
* * * * * *
11368811 TAATCTATAATACAAATTTGGTAACCTTTGATATTATCTTGG
1 TAATTTATAATACAAATTTGGTAACCTTTAATATAAACCTGA
*
11368853 TAATTTATAATACAATTTTGGTAA-CTATTAATATAAACCTGA
1 TAATTTATAATACAAATTTGGTAACCT-TTAATATAAACCTGA
11368895 TAATTT
1 TAATTT
11368901 TTGACAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 2 0.05
42 38 0.95
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.43
Consensus pattern (42 bp):
TAATTTATAATACAAATTTGGTAACCTTTAATATAAACCTGA
Found at i:11376863 original size:16 final size:17
Alignment explanation
Indices: 11376832--11376864 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11376822 TAAATTATAT
11376832 ATTTTATTATTAATTTA
1 ATTTTATTATTAATTTA
*
11376849 ATTTTA-TATTTATTTA
1 ATTTTATTATTAATTTA
11376865 TATATTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTTTATTATTAATTTA
Found at i:11376865 original size:24 final size:25
Alignment explanation
Indices: 11376824--11376874 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
11376814 TATATATATA
11376824 AATTATATATTTTATTAT-TAATTT
1 AATTATATATTTTATTATATAATTT
* *
11376848 AATTTTATA-TTTATTTATATATTTT
1 AATTATATATTTTA-TTATATAATTT
11376873 AA
1 AA
11376875 ACTCTATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.17
24 12 0.52
25 7 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
AATTATATATTTTATTATATAATTT
Found at i:11385407 original size:101 final size:101
Alignment explanation
Indices: 11385237--11385421 Score: 271
Period size: 101 Copynumber: 1.8 Consensus size: 101
11385227 ACAAAATAAG
* * *
11385237 AAAACCTTATCTTATATGGCAAATAAAAAATAAATCTAATCTAACCAAATAAAAAACAAATCCAT
1 AAAACCTTATCTTATATGGCAAATAAAAAATAAATCTAATCCAACCAAATAAAAAACAAATACAA
* *
11385302 TCATAGCATTATTTTTGCAATCACATAAAGAACAAA
66 TCATAACATTATTCTTGCAATCACATAAAGAACAAA
* * * * * *
11385338 AAAATCTTATCTTATCTGGTAAATAAAAAATAAATCTAATCCAACCAAATAAAAGATAAATATAA
1 AAAACCTTATCTTATATGGCAAATAAAAAATAAATCTAATCCAACCAAATAAAAAACAAATACAA
11385403 TCATAACATTATTCTTGCA
66 TCATAACATTATTCTTGCA
11385422 GTAACATGAA
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 73 1.00
ACGTcount: A:0.51, C:0.16, G:0.05, T:0.29
Consensus pattern (101 bp):
AAAACCTTATCTTATATGGCAAATAAAAAATAAATCTAATCCAACCAAATAAAAAACAAATACAA
TCATAACATTATTCTTGCAATCACATAAAGAACAAA
Found at i:11386576 original size:36 final size:36
Alignment explanation
Indices: 11386502--11386604 Score: 154
Period size: 36 Copynumber: 2.9 Consensus size: 36
11386492 ATTCAAAAAA
* * * *
11386502 AAACCTTACACTAATAGTTTGA-GATATTTCTAAGG
1 AAACCTAACACCAATATTTTGAGGATATTTCTAAAG
11386537 AAACCTAACACCAATATTTTGAGGATATTTCTAAAG
1 AAACCTAACACCAATATTTTGAGGATATTTCTAAAG
*
11386573 AAACCTAACACCAATATTTTGGGGATATTTCT
1 AAACCTAACACCAATATTTTGAGGATATTTCT
11386605 CAACAAGTCT
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
35 19 0.31
36 43 0.69
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.33
Consensus pattern (36 bp):
AAACCTAACACCAATATTTTGAGGATATTTCTAAAG
Found at i:11403058 original size:19 final size:19
Alignment explanation
Indices: 11402999--11403059 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
11402989 TTTTAATATA
11402999 AAAAAAT-AGTATTATAAAT
1 AAAAAATAAGTATTA-AAAT
* **
11403018 AAAAAATAA-TTTTAAACC
1 AAAAAATAAGTATTAAAAT
* *
11403036 AAAAAATAAGTGTTAAAGT
1 AAAAAATAAGTATTAAAAT
11403055 AAAAA
1 AAAAA
11403060 TGTGAAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 11 0.32
19 22 0.65
20 1 0.03
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.26
Consensus pattern (19 bp):
AAAAAATAAGTATTAAAAT
Found at i:11403164 original size:211 final size:214
Alignment explanation
Indices: 11402560--11403313 Score: 583
Period size: 211 Copynumber: 3.5 Consensus size: 214
11402550 TATTTTTGGC
* * * * ** *
11402560 ACATAAAAGAATAATTATTATAATTAAATAATAATTCTAAATAAAAAAAATAAGTGTTAATATAA
1 ACATAAAAAAAT-ATTATTATAAATAAAAAATAATTTTAAA-CCAAAAAATAAGTGTTAATGT-A
* * ** * * * ** * * *
11402625 AAAATATGAAAATAATTGTAAAATTGGTATTATTTAACGTTAAATGGTTATAAATGTCA-TAACA
63 AAAATGTGAAAAAAATCATAAAA-TGATATAATTTAACGTAAAATAATTAGAAGTAT-AGTAACA
* * * * * *
11402689 CTTTTAAGAAAAAATTATGATAATTCTAAACGT-ATTAAAACGTAACAA-AAAGTGTAAAAAGAT
126 C-CTTAACAAAAAATTATAATAATTCTAAACATAATGAAAA-GTAACAACAAA-CGTAAAAA-A-
** * *
11402752 ATTATTATAACATAAATATTTAAGTTAGA-A
186 ATTATTAT-ATGTAAATAATTAAATT-GACA
* *
11402782 ATGCA-AAAAAATTATTATTACAAATAAAAAATAATTTTAAA-CAAAAAATAA-TAG-TAATGTA
1 A--CATAAAAAAATATTATTATAAATAAAAAATAATTTTAAACCAAAAAATAAGT-GTTAATGTA
** * * * * *
11402843 AAACGGTGAGAATAATCATAAAATTAGTATTATTTAACGTAAAATAATTAGAAGTATAGTTACAC
63 AAAATGTGAAAAAAATCATAAAATGA-TATAATTTAACGTAAAATAATTAGAAGTATAGTAACAC
* * *
11402908 CTTAACAAAAAATTATAATAATTTTAAACGTAATGAAAAGTAACAACAAACGTAAAAAGA-TATT
127 CTTAACAAAAAATTATAATAATTCTAAACATAATGAAAAGTAACAACAAACGTAAAAAAATTATT
***
11402972 AT-TG-AAATGCAA-TAAATTTTTA
192 ATATGTAAAT--AATTAAATTGACA
* * *
11402994 ATATAAAAAAATAGTATTATAAATAAAAAATAATTTTAAACCAAAAAATAAGTGTTAAAGTAAAA
1 ACATAAAAAAATATTATTATAAATAAAAAATAATTTTAAACCAAAAAATAAGTGTTAATGTAAAA
* * * ** * * *
11403059 ATGTGAAAAAAATAATAAACTGATATAATTTAGCG-AAAATGTGTTTGAAGTATTGTAATA-CTT
66 ATGTGAAAAAAATCATAAAATGATATAATTTAACGTAAAAT-AATTAGAAGTATAGTAACACCTT
* * ** *
11403122 AAGAAAAAATTATGATAATTCTGCATATAAT-AAAAGGTAACAACAAACGTAAAAAAATTTATTA
130 AACAAAAAATTATAATAATTCTAAACATAATGAAAA-GTAACAACAAACGTAAAAAAA-TTATTA
11403186 TAATGTAAATAATTAAATTGACA
193 T-ATGTAAATAATTAAATTGACA
* *
11403209 ACATAAAAAAA-ATTATTATAAAT-AAAAA-AATTCTAAACTAAAAAATAAGTGTTAATGTAAAA
1 ACATAAAAAAATATTATTATAAATAAAAAATAATTTTAAACCAAAAAATAAGTGTTAATGTAAAA
* *
11403271 ATGT-AAAAATAATCGTAAAATTGATATAATTTAATGTAAAATA
66 ATGTGAAAAA-AATCATAAAA-TGATATAATTTAACGTAAAATA
11403314 TGTTAAAAAT
Statistics
Matches: 429, Mismatches: 78, Indels: 59
0.76 0.14 0.10
Matches are distributed among these distances:
210 5 0.01
211 94 0.22
212 83 0.19
213 51 0.12
214 24 0.06
215 20 0.05
216 4 0.01
217 43 0.10
218 56 0.13
219 6 0.01
220 10 0.02
222 25 0.06
223 6 0.01
224 2 0.00
ACGTcount: A:0.54, C:0.05, G:0.09, T:0.31
Consensus pattern (214 bp):
ACATAAAAAAATATTATTATAAATAAAAAATAATTTTAAACCAAAAAATAAGTGTTAATGTAAAA
ATGTGAAAAAAATCATAAAATGATATAATTTAACGTAAAATAATTAGAAGTATAGTAACACCTTA
ACAAAAAATTATAATAATTCTAAACATAATGAAAAGTAACAACAAACGTAAAAAAATTATTATAT
GTAAATAATTAAATTGACA
Found at i:11403607 original size:219 final size:217
Alignment explanation
Indices: 11403350--11404248 Score: 511
Period size: 217 Copynumber: 4.1 Consensus size: 217
11403340 GTAAAAATAG
** * * * *
11403350 TCGTAAAATTGGTATCGTTTTGGATAGAATGAGTTAAAAGTGTTGTAACATCTTAAAAAAGAGTT
1 TCGTAAAATTGGTATAATTTTGCATAAAATGAGTTAAAAGTATT-TAACACCTTAAAAAAGAGTT
* * * * * *
11403415 GTGATAATTCTAAACATAATGAAAGGAAAAAAACAAG-TATAAAACA-TATCATTGTTATGTAAA
65 GTAATAATTCTAAACATAATAAAAAG-AAAAAA-AAGCTATAAAAAAGTATCATTATAATGTAAA
11403478 TAAATAACTTGACAATGTAAAAAAATTATTATTATAAATACAAAAAAATTATAAACCAAATAATA
128 TAAATAACTTGACAATGTAAAAAAATTATTATTATAAATA-AAAAAAATTATAAACCAAATAATA
11403543 AATGTTTATGTAAAAGATGAGAATCA
192 AATGTTTATGTAAAAGATGAGAATCA
* * *
11403569 TCGTAAAATTGGTATAATTTTGCTTAAAATGGGTTAAAAGTATTTAACACCTTAAAAAAGTGTTG
1 TCGTAAAATTGGTATAATTTTGCATAAAATGAGTTAAAAGTATTTAACACCTTAAAAAAGAGTTG
* * * * * *
11403634 TAATAATTTTAAACTTAATAAAAAGTAAGAAAAGCTATAAAAAAGTATTATTATAATGTCAATAA
66 TAATAATTCTAAACATAATAAAAAGAAAAAAAAGCTATAAAAAAGTATCATTATAATGTAAATAA
* * ** * * * *
11403699 TTAAGTTGGTAATGTTAAAAAATTATTATTATAAATAAAAATAATTCTGAA-CAAA-AA-AAATT
131 ATAACTTGACAATGTAAAAAAATTATTATTATAAATAAAAAAAATTATAAACCAAATAATAAA-T
* * * *
11403761 GTTAACAT-TAAAAAATAAGAATAA
195 GTT--TATGTAAAAGATGAGAATCA
* ** * * * * * * ** *
11403785 TCGTAAAATTAGTACCA-TTTGACATAAAATAAGTTAGAACTATCATAATAACTTAAGGAAGGGT
1 TCGTAAAATTGGTATAATTTTG-CATAAAATGAGTTAAAAGTAT-TTAACACCTTAAAAAAGAGT
* * * * *
11403849 TGTAATAATTCTAAACGT-ATAAAATGTAAAAACAAA--TATAAACAAA-TATTATTATGACGTA
64 TGTAATAATTCTAAACATAATAAAAAG-AAAAA-AAAGCTATAAA-AAAGTATCATTATAATGTA
* *** ** *
11403910 AATAATTTTGTT-AGCAACATAAAAGAATTATTATTATAAATAAAAAATAATTCA-ATAA--AAA
126 AATAAATAACTTGA-CAATGTAAAAAAATTATTATTATAAATAAAAAA-AATT-ATA-AACCAAA
* * * * * *
11403971 -AATAAGTATTTATGTAAAAAGGTAAAAATAA
187 TAATAAATGTTTATGT-AAAAGATGAGAATCA
* ** * * * * *
11404002 TCATAAAATTTATATCATTTAGCATAAAA-GTA-TATCAGAAGTGTTGTTACACCTTAAAAAA-A
1 TCGTAAAATTGGTATAATTTTGCATAAAATG-AGT-T-AAAAGTATT-TAACACCTTAAAAAAGA
* * * * * *
11404064 -TTGTGATAATTCTAAGCGTAAT-AAAAGATAAAAACAA-CTGTAAAAACA-TATTATTATAACG
62 GTTGTAATAATTCTAAACATAATAAAAAGA-AAAAA-AAGCTATAAAAA-AGTATCATTATAATG
* * * * * * * * *
11404125 TAAATAATTAAATTAATAACGT--AAAAATTACTATTATAAATAAAAAGGAATTTTAAACAAAAA
124 TAAATAAATAACTTGACAATGTAAAAAAATTATTATTATAAATAAAAA-AAATTATAAAC-CAAA
* * * *
11404188 AAATAAGTGTTAATGTAAAA-AGTGAGAATAA
187 TAATAAATGTTTATGTAAAAGA-TGAGAATCA
** * *
11404219 TAATAAAATTGATATCA-TTTGACATAAAAT
1 TCGTAAAATTGGTATAATTTTG-CATAAAAT
11404249 ATACTAGAGC
Statistics
Matches: 534, Mismatches: 109, Indels: 75
0.74 0.15 0.10
Matches are distributed among these distances:
214 5 0.01
215 41 0.08
216 146 0.27
217 178 0.33
218 127 0.24
219 37 0.07
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.32
Consensus pattern (217 bp):
TCGTAAAATTGGTATAATTTTGCATAAAATGAGTTAAAAGTATTTAACACCTTAAAAAAGAGTTG
TAATAATTCTAAACATAATAAAAAGAAAAAAAAGCTATAAAAAAGTATCATTATAATGTAAATAA
ATAACTTGACAATGTAAAAAAATTATTATTATAAATAAAAAAAATTATAAACCAAATAATAAATG
TTTATGTAAAAGATGAGAATCA
Found at i:11404163 original size:20 final size:20
Alignment explanation
Indices: 11404115--11404163 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
11404105 AAAAACATAT
11404115 TATTATAACGTAAATAATTA
1 TATTATAACGTAAATAATTA
*
11404135 AATTAATAACGTAAA-AATTA
1 TATT-ATAACGTAAATAATTA
11404155 CTATTATAA
1 -TATTATAA
11404164 ATAAAAAGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.37
Consensus pattern (20 bp):
TATTATAACGTAAATAATTA
Found at i:11427977 original size:15 final size:15
Alignment explanation
Indices: 11427959--11427998 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
11427949 CCACCGTTGT
11427959 CACCACCATCGCTTC
1 CACCACCATCGCTTC
11427974 CACCACCATCGCTTC
1 CACCACCATCGCTTC
11427989 CACCACCATC
1 CACCACCATC
11427999 TCTGTTACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.23, C:0.55, G:0.05, T:0.17
Consensus pattern (15 bp):
CACCACCATCGCTTC
Found at i:11435660 original size:30 final size:30
Alignment explanation
Indices: 11435603--11435660 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
11435593 ACATAATATA
*** **
11435603 TAAATTTTTAAAATTTTAATACTTTTTACT
1 TAAATTTTTAAAATAAAAATAAGTTTTACT
11435633 TAAATTTTTAAAATAAAAATAAGTTTTA
1 TAAATTTTTAAAATAAAAATAAGTTTTA
11435661 TAAAATCAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (30 bp):
TAAATTTTTAAAATAAAAATAAGTTTTACT
Found at i:11437245 original size:10 final size:10
Alignment explanation
Indices: 11437232--11437257 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
11437222 TATTTAATTT
11437232 TATATTTATG
1 TATATTTATG
11437242 TATATTTATG
1 TATATTTATG
11437252 TATATT
1 TATATT
11437258 AATAAAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (10 bp):
TATATTTATG
Found at i:11438423 original size:21 final size:22
Alignment explanation
Indices: 11438379--11438424 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
11438369 TATATAAGTA
*
11438379 TTATATTAATAAAGTTATTATT
1 TTATATTAATAAAGTTAATATT
11438401 TTATATTAA-AATA-TTAATATT
1 TTATATTAATAA-AGTTAATATT
11438422 TTA
1 TTA
11438425 AATTCAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TTATATTAATAAAGTTAATATT
Found at i:11438998 original size:17 final size:16
Alignment explanation
Indices: 11438976--11439024 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 16
11438966 AAAAGTATAT
11438976 ATTTTATTATTAATTTA
1 ATTTTA-TATTAATTTA
*
11438993 ATTTTATATTTATTTA
1 ATTTTATATTAATTTA
11439009 TATGTATTATATTAAT
1 -AT-T-TTATATTAAT
11439025 AAAGTTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 9 0.33
17 8 0.30
18 1 0.04
19 9 0.33
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
ATTTTATATTAATTTA
Found at i:11440201 original size:202 final size:202
Alignment explanation
Indices: 11439808--11440206 Score: 421
Period size: 203 Copynumber: 2.0 Consensus size: 202
11439798 TATGATGTGA
* *
11439808 TTATTTAAGGCGTTTTTACCAAAAACACCTTAAAATAATCCCTAATTTTAAAGGTTTAAAGTTTA
1 TTATTTAAGGCGTTTATACCAAAAAAACCTTAAAATAATCCCTAATTTTAAAGGTTTAAAGTTTA
* * ** * *
11439873 GGGTTTAATGGATTATTCAAGGCATTTTTTGAGTAAAGACGCATTGAATAATCCCTAATAAAATT
66 AGATTTAAAAGATTATTCAAGGCATTTTCTGAGTAAAAACGCATTGAATAATCCCTAATAAAATT
* * * * * ** * *
11439938 TTGAAAGAGATTATTCAATACGCTTTTGGCCAGAAATACTTTGAATAATTTCTTATAAAAAATTT
131 TTGAAAGAGATTATTCAAGACGCTTTTAGCCAAAAACACCTTGAATAATCCCTAATAAAAAAATT
11440003 AATGAAG
196 AATGAAG
* * ** * * **
11440010 TTATTTAAGGCGTTTATAGCAAAAAAACATTTTGAATAATCTCC-AATTTTTATGGTTTAGGGTT
1 TTATTTAAGGCGTTTATACCAAAAAAAC-CTTAAAATAATC-CCTAATTTTAAAGGTTTAAAGTT
* * *
11440074 TAAGATTTAAAAGATTATTCAAGGCGTTTTCTGAG-AAAAACTCCTTGAATAAT-CC-AA-AAAA
64 TAAGATTTAAAAGATTATTCAAGGCATTTTCTGAGTAAAAACGCATTGAATAATCCCTAATAAAA
* * * * *
11440135 TTTTTTGGAAGGGATTATTTAAGGCGTTTTTAGCCAAAAACACCTTGAATAATCCCTAAGTAAAA
129 --TTTTGAAAGAGATTATTCAAGACGCTTTTAGCCAAAAACACCTTGAATAATCCCTAA-TAAAA
11440200 AAATTAA
191 AAATTAA
11440207 AAGGGATTAT
Statistics
Matches: 159, Mismatches: 33, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
199 4 0.03
200 2 0.01
201 46 0.29
202 51 0.32
203 54 0.34
204 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (202 bp):
TTATTTAAGGCGTTTATACCAAAAAAACCTTAAAATAATCCCTAATTTTAAAGGTTTAAAGTTTA
AGATTTAAAAGATTATTCAAGGCATTTTCTGAGTAAAAACGCATTGAATAATCCCTAATAAAATT
TTGAAAGAGATTATTCAAGACGCTTTTAGCCAAAAACACCTTGAATAATCCCTAATAAAAAAATT
AATGAAG
Found at i:11440264 original size:64 final size:64
Alignment explanation
Indices: 11440143--11440264 Score: 145
Period size: 64 Copynumber: 1.9 Consensus size: 64
11440133 AATTTTTTGG
* * * * **
11440143 AAGGGATTATTTAAGGCGTTTTTAGCCAAAAACACCTTGAATAATCCCTAAGTAAAAAAATTAA
1 AAGGGATTATTGAAGGCATTTTTAGCCAAAAACAACTTGAATAATACCTAACAAAAAAAATTAA
* * * * *
11440207 AAGGGATTATTGAATGCATTTTTAGCTAAAAACAACTTGAATATTACTTTACAAAAAA
1 AAGGGATTATTGAAGGCATTTTTAGCCAAAAACAACTTGAATAATACCTAACAAAAAA
11440265 TTTAATAGAG
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
64 47 1.00
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.30
Consensus pattern (64 bp):
AAGGGATTATTGAAGGCATTTTTAGCCAAAAACAACTTGAATAATACCTAACAAAAAAAATTAA
Found at i:11442066 original size:3 final size:3
Alignment explanation
Indices: 11442058--11442098 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
11442048 AAATGGGCCC
11442058 ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11442099 TATTTTGTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:11442085 original size:20 final size:19
Alignment explanation
Indices: 11442059--11442102 Score: 79
Period size: 20 Copynumber: 2.3 Consensus size: 19
11442049 AATGGGCCCA
11442059 TTATTATTATTATTATTAT
1 TTATTATTATTATTATTAT
11442078 TATATTATTATTATTATTAT
1 T-TATTATTATTATTATTAT
11442098 TTATT
1 TTATT
11442103 TTGTTCTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTATTATTATTATTAT
Found at i:11442138 original size:17 final size:16
Alignment explanation
Indices: 11442058--11442152 Score: 54
Period size: 17 Copynumber: 5.8 Consensus size: 16
11442048 AAATGGGCCC
*
11442058 ATTATTA-TTATTATT
1 ATTATTATTTTTTATT
*
11442073 ATTATTATATTATTATT
1 ATTATTAT-TTTTTATT
*
11442090 ATTATTATTTATTTTGTT
1 ATTATTA-TT-TTTTATT
* *
11442108 CTGAATT-TTGTTTTAATT
1 AT-TATTATT-TTTT-ATT
11442126 ATTATTATTTTTTA-T
1 ATTATTATTTTTTATT
*
11442141 A-TATAATTTTTT
1 ATTATTATTTTTT
11442153 GTTTTAGAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
14 10 0.16
15 9 0.14
16 1 0.02
17 29 0.45
18 12 0.19
19 3 0.05
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.67
Consensus pattern (16 bp):
ATTATTATTTTTTATT
Found at i:11442585 original size:16 final size:15
Alignment explanation
Indices: 11442564--11442603 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
11442554 AGAGAGAAAA
11442564 AAGAGAAAAAGAAGGG
1 AAGAGAAAAA-AAGGG
*
11442580 AAGAGAGAGAAAAGGG
1 AAGAGA-AAAAAAGGG
11442596 AAGAGAAA
1 AAGAGAAA
11442604 TTTGAAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 1 0.05
16 17 0.81
17 3 0.14
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (15 bp):
AAGAGAAAAAAAGGG
Found at i:11443681 original size:64 final size:64
Alignment explanation
Indices: 11443574--11443699 Score: 184
Period size: 64 Copynumber: 2.0 Consensus size: 64
11443564 GTGAAACATT
* * *
11443574 TAAAAATAAATAAAAAAAAATAAAATATTTCTAAATTGACCCAAATGGT-AAAAAATTTAGAGA
1 TAAAAATAAATAAAAAAAAAAAAAAAATTTCTAAATAGACCCAAATGGTGAAAAAATTTAGAGA
*
11443637 TAAAAA-AAATAAAAAAACAAAAAAAGAATTTCTAAATAGGCCCAAATGGTGAAAAAATTTAGA
1 TAAAAATAAATAAAAAAA-AAAAAAA-AATTTCTAAATAGACCCAAATGGTGAAAAAATTTAGA
11443700 AATTCAAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
62 11 0.20
63 12 0.21
64 21 0.38
65 12 0.21
ACGTcount: A:0.61, C:0.07, G:0.10, T:0.22
Consensus pattern (64 bp):
TAAAAATAAATAAAAAAAAAAAAAAAATTTCTAAATAGACCCAAATGGTGAAAAAATTTAGAGA
Found at i:11443709 original size:64 final size:60
Alignment explanation
Indices: 11443544--11443702 Score: 173
Period size: 57 Copynumber: 2.6 Consensus size: 60
11443534 AAAAATGGAG
* * * * *
11443544 TTTCTAAATAGGCTCAAATGGTG-AAACATTTA-AAA-ATAAATAAAAAAAAATAAAATA
1 TTTCTAAATAGGCCCAAATGGTGAAAAAATTTAGAAATAAAAATAAAAAAAAAAAAAAAA
* * *
11443601 TTTCTAAATTGACCCAAATGGT-AAAAAATTTAGAGATAAAAAAAATAAAAAAACAAAAAAAGAA
1 TTTCTAAATAGGCCCAAATGGTGAAAAAATTT--AGA-AATAAAAATAAAAAAA-AAAAAAA-AA
11443665 TTTCTAAATAGGCCCAAATGGTGAAAAAATTTAGAAAT
1 TTTCTAAATAGGCCCAAATGGTGAAAAAATTTAGAAAT
11443703 TCAAAAAAGA
Statistics
Matches: 83, Mismatches: 10, Indels: 13
0.78 0.09 0.12
Matches are distributed among these distances:
57 26 0.31
59 1 0.01
60 1 0.01
61 2 0.02
62 14 0.17
63 9 0.11
64 21 0.25
65 9 0.11
ACGTcount: A:0.57, C:0.08, G:0.11, T:0.25
Consensus pattern (60 bp):
TTTCTAAATAGGCCCAAATGGTGAAAAAATTTAGAAATAAAAATAAAAAAAAAAAAAAAA
Found at i:11446867 original size:23 final size:22
Alignment explanation
Indices: 11446836--11446879 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
11446826 TCTTGTCATT
11446836 TTAGAATTTATTTTAGAGTAATG
1 TTAGAATTTATTTTAG-GTAATG
* *
11446859 TTAGGATTTCTTTTAGGTAAT
1 TTAGAATTTATTTTAGGTAAT
11446880 AGGATTTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.30, C:0.02, G:0.18, T:0.50
Consensus pattern (22 bp):
TTAGAATTTATTTTAGGTAATG
Found at i:11448855 original size:21 final size:21
Alignment explanation
Indices: 11448812--11448858 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 21
11448802 TATGAGAGTA
11448812 TTTGAATTTCAAATGAAAATC
1 TTTGAATTTCAAATGAAAATC
11448833 TTTGAATTTCAAA-GAAAAGTC
1 TTTGAATTTCAAATGAAAA-TC
11448854 TTTGA
1 TTTGA
11448859 GTTTTAAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (21 bp):
TTTGAATTTCAAATGAAAATC
Found at i:11449268 original size:42 final size:41
Alignment explanation
Indices: 11449205--11449347 Score: 196
Period size: 42 Copynumber: 3.4 Consensus size: 41
11449195 TCAAAAAGCA
**
11449205 ATTTATTTTTTTTAAGTTCTGTTGCCTCTATTCAGATGAGCC
1 ATTTATTTTTTCAAAG-TCTGTTGCCTCTATTCAGATGAGCC
*
11449247 ATTTATTTTTTCAAAGATCTGTTGCCTCTATTCAGAGGAGCC
1 ATTTATTTTTTCAAAG-TCTGTTGCCTCTATTCAGATGAGCC
* * * *
11449289 ATTTAATTTTTCAAAGTCACGTTGACTCTATTCAGATGAGCT
1 ATTTATTTTTTCAAAGTC-TGTTGCCTCTATTCAGATGAGCC
11449331 ATTTATTTTTTCAAAGT
1 ATTTATTTTTTCAAAGT
11449348 TTTGTTGTCT
Statistics
Matches: 90, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
41 2 0.02
42 88 0.98
ACGTcount: A:0.24, C:0.16, G:0.14, T:0.45
Consensus pattern (41 bp):
ATTTATTTTTTCAAAGTCTGTTGCCTCTATTCAGATGAGCC
Found at i:11449378 original size:42 final size:42
Alignment explanation
Indices: 11449205--11449392 Score: 182
Period size: 42 Copynumber: 4.5 Consensus size: 42
11449195 TCAAAAAGCA
** * * * *
11449205 ATTTATTTTTTTTAAGTTCTGTTGCCTCTATTCAGATGAGCC
1 ATTTATTTTTTCAAAGTTATGTTGACTCTATTCAGAGGAGCT
* * * *
11449247 ATTTATTTTTTCAAAGATCTGTTGCCTCTATTCAGAGGAGCC
1 ATTTATTTTTTCAAAGTTATGTTGACTCTATTCAGAGGAGCT
* * * *
11449289 ATTTAATTTTTCAAAGTCACGTTGACTCTATTCAGATGAGCT
1 ATTTATTTTTTCAAAGTTATGTTGACTCTATTCAGAGGAGCT
* * * *
11449331 ATTTATTTTTTCAAAGTTTTGTTGTCTCTGTTTAGAGGAG-T
1 ATTTATTTTTTCAAAGTTATGTTGACTCTATTCAGAGGAGCT
11449372 ATTT-TATTTTTCAAAAGTTAT
1 ATTTAT-TTTTTC-AAAGTTAT
11449393 TGAGCTTCTG
Statistics
Matches: 123, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
40 1 0.01
41 11 0.09
42 111 0.90
ACGTcount: A:0.24, C:0.14, G:0.15, T:0.47
Consensus pattern (42 bp):
ATTTATTTTTTCAAAGTTATGTTGACTCTATTCAGAGGAGCT
Found at i:11449389 original size:84 final size:84
Alignment explanation
Indices: 11449225--11449386 Score: 236
Period size: 84 Copynumber: 1.9 Consensus size: 84
11449215 TTTAAGTTCT
*
11449225 GTTGCCTCTATTCAGATGAGCCATTTATTTTTTCAAAGATCTGTTGCCTCTATTCAGAGGAGCCA
1 GTTGACTCTATTCAGATGAGCCATTTATTTTTTCAAAGATCTGTTGCCTCTATTCAGAGGAGCCA
11449290 TTTAATTTTTCAAAGTCAC
66 TTTAATTTTTCAAAGTCAC
* * * * * * *
11449309 GTTGACTCTATTCAGATGAGCTATTTATTTTTTCAAAGTTTTGTTGTCTCTGTTTAGAGGAG-TA
1 GTTGACTCTATTCAGATGAGCCATTTATTTTTTCAAAGATCTGTTGCCTCTATTCAGAGGAGCCA
*
11449373 TTTTATTTTTCAAA
66 TTTAATTTTTCAAA
11449387 AGTTATTGAG
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
83 14 0.20
84 55 0.80
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.44
Consensus pattern (84 bp):
GTTGACTCTATTCAGATGAGCCATTTATTTTTTCAAAGATCTGTTGCCTCTATTCAGAGGAGCCA
TTTAATTTTTCAAAGTCAC
Found at i:11449633 original size:3 final size:3
Alignment explanation
Indices: 11449625--11449654 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
11449615 AGATGGGCCC
11449625 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11449655 TTGTTTTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:11450429 original size:13 final size:12
Alignment explanation
Indices: 11450409--11450442 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
11450399 GGTATTTTCT
11450409 TATTTATTTAAG
1 TATTTATTTAAG
*
11450421 TATTTTATTTATG
1 TA-TTTATTTAAG
11450434 TATTTATTT
1 TATTTATTT
11450443 TTTTCCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (12 bp):
TATTTATTTAAG
Found at i:11450458 original size:16 final size:16
Alignment explanation
Indices: 11450437--11450467 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11450427 ATTTATGTAT
11450437 TTATTTTTTTCCTTTA
1 TTATTTTTTTCCTTTA
*
11450453 TTATTTTTTTTCTTT
1 TTATTTTTTTCCTTT
11450468 GCTATTAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.81
Consensus pattern (16 bp):
TTATTTTTTTCCTTTA
Found at i:11450695 original size:16 final size:15
Alignment explanation
Indices: 11450661--11450703 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
11450651 ATTTATTTTC
11450661 AAATAAAAAAATAAA
1 AAATAAAAAAATAAA
11450676 AAATGAAAAAACAT-AA
1 AAAT-AAAAAA-ATAAA
*
11450692 AAATAATAAAAT
1 AAATAAAAAAAT
11450704 TTTTGAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 2 0.08
15 9 0.36
16 12 0.48
17 2 0.08
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.16
Consensus pattern (15 bp):
AAATAAAAAAATAAA
Found at i:11450702 original size:17 final size:18
Alignment explanation
Indices: 11450662--11450702 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
11450652 TTTATTTTCA
11450662 AATAAAAAAATAAAAAAT
1 AATAAAAAAATAAAAAAT
* *
11450680 GA-AAAAACAT-AAAAAT
1 AATAAAAAAATAAAAAAT
11450696 AATAAAA
1 AATAAAA
11450703 TTTTTGAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 3
0.76 0.12 0.12
Matches are distributed among these distances:
16 7 0.37
17 11 0.58
18 1 0.05
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.15
Consensus pattern (18 bp):
AATAAAAAAATAAAAAAT
Found at i:11450703 original size:8 final size:8
Alignment explanation
Indices: 11450661--11450702 Score: 50
Period size: 9 Copynumber: 5.0 Consensus size: 8
11450651 ATTTATTTTC
11450661 AAATAAAA
1 AAATAAAA
11450669 AAAT-AAA
1 AAATAAAA
11450676 AAATGAAAA
1 AAAT-AAAA
11450685 AACATAAAA
1 AA-ATAAAA
11450694 ATAATAAAA
1 A-AATAAAA
11450703 TTTTTGAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
7 7 0.23
8 4 0.13
9 16 0.53
10 3 0.10
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (8 bp):
AAATAAAA
Found at i:11451133 original size:54 final size:54
Alignment explanation
Indices: 11451071--11451262 Score: 221
Period size: 54 Copynumber: 3.6 Consensus size: 54
11451061 GAAAATGGAG
11451071 TTTCTAAATAGGCTCAAATGGTGAAAAATTTAGAAATTAAAAAAAAAGAAAATA
1 TTTCTAAATAGGCTCAAATGGTGAAAAATTTAGAAATTAAAAAAAAAGAAAATA
* * * * * *
11451125 TTTTTAAATTGACTAAAATGGTGAAAATTTTA-AAGA-TAAAAAAAAA-AAAAAA
1 TTTCTAAATAGGCTCAAATGGTGAAAAATTTAGAA-ATTAAAAAAAAAGAAAATA
* * *
11451177 TTTCTAAATAGGCCCAAATGGTGAAAAAATTTAGAAATTCAAAAAAGAGAAAATA
1 TTTCTAAATAGGCTCAAATGGTG-AAAAATTTAGAAATTAAAAAAAAAGAAAATA
* *
11451232 TTTCTAATTTGGC-CTAAATGGTGAAATAATT
1 TTTCTAAATAGGCTC-AAATGGTGAAA-AATT
11451263 AGATATATTT
Statistics
Matches: 114, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
52 23 0.20
53 21 0.18
54 42 0.37
55 28 0.25
ACGTcount: A:0.52, C:0.06, G:0.13, T:0.29
Consensus pattern (54 bp):
TTTCTAAATAGGCTCAAATGGTGAAAAATTTAGAAATTAAAAAAAAAGAAAATA
Found at i:11451251 original size:55 final size:53
Alignment explanation
Indices: 11451071--11451262 Score: 203
Period size: 55 Copynumber: 3.6 Consensus size: 53
11451061 GAAAATGGAG
*
11451071 TTTCTAAATAGG-CTCAAATGGTGAAAAATTTAGAAATTAAAAAAAAAGAAAATA
1 TTTCTAAATTGGCCT-AAATGGTGAAAAATTTAGAAATT-AAAAAAAAGAAAATA
* * * * *
11451125 TTTTTAAATT-GACTAAAATGGTGAAAATTTTA-AAGA-TAAAAAAAAAAAAAAA
1 TTTCTAAATTGGCCT-AAATGGTGAAAAATTTAGAA-ATTAAAAAAAAGAAAATA
* * *
11451177 TTTCTAAATAGGCCCAAATGGTGAAAAAATTTAGAAATTCAAAAAAGAGAAAATA
1 TTTCTAAATTGGCCTAAATGGTG-AAAAATTTAGAAATT-AAAAAAAAGAAAATA
*
11451232 TTTCTAATTTGGCCTAAATGGTGAAATAATT
1 TTTCTAAATTGGCCTAAATGGTGAAA-AATT
11451263 AGATATATTT
Statistics
Matches: 113, Mismatches: 17, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
52 29 0.26
53 15 0.13
54 33 0.29
55 36 0.32
ACGTcount: A:0.52, C:0.06, G:0.13, T:0.29
Consensus pattern (53 bp):
TTTCTAAATTGGCCTAAATGGTGAAAAATTTAGAAATTAAAAAAAAGAAAATA
Found at i:11463325 original size:18 final size:16
Alignment explanation
Indices: 11463298--11463345 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 16
11463288 AATCATAATA
* *
11463298 TAAACTAAAAAAATAT
1 TAAAATAAAAAAAAAT
11463314 TAAATATAAAAAAGTAAAT
1 TAAA-ATAAAAAA--AAAT
11463333 TAAAATAAAAAAA
1 TAAAATAAAAAAA
11463346 TATAAATCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 5 0.19
17 7 0.26
18 8 0.30
19 7 0.26
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (16 bp):
TAAAATAAAAAAAAAT
Found at i:11463351 original size:20 final size:20
Alignment explanation
Indices: 11463303--11463364 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
11463293 TAATATAAAC
11463303 TAAAAAAAT--ATT-AAATA
1 TAAAAAAATAAATTAAAATA
*
11463320 TAAAAAAGTAAATTAAAATA
1 TAAAAAAATAAATTAAAATA
*
11463340 -AAAAAATATAAATCTATAATA
1 TAAAAAA-ATAAAT-TAAAATA
11463361 TAAA
1 TAAA
11463365 TTTTTAAGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.22
19 9 0.25
20 10 0.28
21 6 0.17
22 3 0.08
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (20 bp):
TAAAAAAATAAATTAAAATA
Found at i:11463540 original size:16 final size:17
Alignment explanation
Indices: 11463519--11463551 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11463509 CTTAACAACC
11463519 TATTTT-GCTTTTTTTA
1 TATTTTAGCTTTTTTTA
*
11463535 TATTTTAGGTTTTTTTA
1 TATTTTAGCTTTTTTTA
11463552 ATCAAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.15, C:0.03, G:0.09, T:0.73
Consensus pattern (17 bp):
TATTTTAGCTTTTTTTA
Found at i:11463821 original size:26 final size:25
Alignment explanation
Indices: 11463768--11463826 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
11463758 TATCTTGCCC
11463768 ATATATGTTAATTTATATTTTAAATT
1 ATATAT-TTAATTTATATTTTAAATT
* *
11463794 ATTTATTTAATTTTATATTTGT-ATTT
1 ATATATTTAA-TTTATATTT-TAAATT
11463820 ATATATT
1 ATATATT
11463827 ATATTAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
25 4 0.14
26 23 0.82
27 1 0.04
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (25 bp):
ATATATTTAATTTATATTTTAAATT
Found at i:11463830 original size:19 final size:20
Alignment explanation
Indices: 11463778--11463832 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 20
11463768 ATATATGTTA
* *
11463778 ATTTATATTTTAAATTATTT
1 ATTTATATTTTATATTATGT
11463798 ATTTA-ATTTTATATT-TGT
1 ATTTATATTTTATATTATGT
*
11463816 ATTTATATATTATATTA
1 ATTTATATTTTATATTA
11463833 ATAAAGTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 7 0.23
19 18 0.60
20 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
ATTTATATTTTATATTATGT
Found at i:11464361 original size:17 final size:17
Alignment explanation
Indices: 11464339--11464371 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
11464329 ATCCATGTGG
11464339 TATCCCATTTTAGTTTT
1 TATCCCATTTTAGTTTT
11464356 TATCCCATTTTAGTTT
1 TATCCCATTTTAGTTT
11464372 ATTTAACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.58
Consensus pattern (17 bp):
TATCCCATTTTAGTTTT
Found at i:11465198 original size:2 final size:2
Alignment explanation
Indices: 11465191--11465223 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
11465181 ATGCGATCAT
11465191 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11465224 TGAGATGGAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11465308 original size:15 final size:15
Alignment explanation
Indices: 11465288--11465318 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11465278 TCTTCGTGGC
11465288 GTCGGTATAAATGTA
1 GTCGGTATAAATGTA
11465303 GTCGGTATAAATGTA
1 GTCGGTATAAATGTA
11465318 G
1 G
11465319 GCCCATTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.32
Consensus pattern (15 bp):
GTCGGTATAAATGTA
Found at i:11466649 original size:20 final size:21
Alignment explanation
Indices: 11466616--11466655 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
11466606 AAAAATTAAC
* *
11466616 TATTAAATATTTAAATAATTT
1 TATTAAATACTTAAAAAATTT
11466637 TATTAAA-ACTTAAAAAATT
1 TATTAAATACTTAAAAAATT
11466656 GAAATTATCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (21 bp):
TATTAAATACTTAAAAAATTT
Found at i:11467363 original size:31 final size:31
Alignment explanation
Indices: 11467274--11467387 Score: 130
Period size: 31 Copynumber: 3.8 Consensus size: 31
11467264 TTGAACTTTA
* *
11467274 TAATTT-TATTTAAATAAA-TTTTATATTTT
1 TAATTTGTATTCAAATAAATTTTTAAATTTT
** *
11467303 T-A-TTACATTTAAATAAATTTTT-AATTTT
1 TAATTTGTATTCAAATAAATTTTTAAATTTT
11467331 TAATTTGTATTCAAATAAATTTTTAAATTTT
1 TAATTTGTATTCAAATAAATTTTTAAATTTT
* *
11467362 TAATTTGTAGTCAAATAAGTTTTTAA
1 TAATTTGTATTCAAATAAATTTTTAA
11467388 CACAAATTAT
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
27 2 0.03
28 18 0.25
29 6 0.08
30 17 0.23
31 30 0.41
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.55
Consensus pattern (31 bp):
TAATTTGTATTCAAATAAATTTTTAAATTTT
Found at i:11468242 original size:145 final size:146
Alignment explanation
Indices: 11468075--11468351 Score: 402
Period size: 145 Copynumber: 1.9 Consensus size: 146
11468065 AGTGAATGAC
* *
11468075 ATAAATATCTTTATAAATTTTAAGAAATAACAAATTTA-CTTTTAAATTTCTAGCA-TT-TTTAT
1 ATAAATATCTTTATAAATTTTAAAAAATAAAAAATTTATC-TTTAAATTTCTAGCATTTATTTAT
11468137 TTATTTAATAAAAATTATTTATCATTAAATATATAG-CTTTTA-TTAGTTAGTTATTTAAATTTA
65 TTATTTAATAAAAATTATTTATCATTAAATATATAGTCTTTTACTT-GTTAGTTATTTAAATTTA
11468200 AATCTAAAAGTAATAAAA
129 AATCTAAAAGTAATAAAA
* *
11468218 ATAAATATGCCTTTATAAATTTTAAAAAATAAAAAATTTATCTTTCAATTTTTAGCATTTATTTA
1 ATAAATAT--CTTTATAAATTTTAAAAAATAAAAAATTTATCTTTAAATTTCTAGCATTTATTTA
* * * * *
11468283 TTTATTTAATAAAGATTATTTGTCATTAAATATATAGTTTTTTACTTGTTATTTTTTTAAATTTA
64 TTTATTTAATAAAAATTATTTATCATTAAATATATAGTCTTTTACTTGTTAGTTATTTAAATTTA
11468348 AATC
129 AATC
11468352 AATTAAAAAT
Statistics
Matches: 118, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
143 8 0.07
145 41 0.35
146 3 0.03
147 39 0.33
148 25 0.21
149 2 0.02
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (146 bp):
ATAAATATCTTTATAAATTTTAAAAAATAAAAAATTTATCTTTAAATTTCTAGCATTTATTTATT
TATTTAATAAAAATTATTTATCATTAAATATATAGTCTTTTACTTGTTAGTTATTTAAATTTAAA
TCTAAAAGTAATAAAA
Found at i:11474071 original size:16 final size:17
Alignment explanation
Indices: 11474050--11474086 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
11474040 AACACTTTTA
*
11474050 TTTTTATTATTTA-TTG
1 TTTTTATTATATACTTG
11474066 TTTTTATTATATACTTG
1 TTTTTATTATATACTTG
11474083 TTTT
1 TTTT
11474087 CAATCATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.19, C:0.03, G:0.05, T:0.73
Consensus pattern (17 bp):
TTTTTATTATATACTTG
Found at i:11474205 original size:13 final size:13
Alignment explanation
Indices: 11474187--11474212 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11474177 TTGAATTCTT
11474187 TTATATTTTAAAA
1 TTATATTTTAAAA
11474200 TTATATTTTAAAA
1 TTATATTTTAAAA
11474213 GATTTATTAA
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTATATTTTAAAA
Found at i:11476157 original size:19 final size:19
Alignment explanation
Indices: 11476133--11476180 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
11476123 TACAAAAGTC
11476133 ATATTCAAAGGATAATTTA
1 ATATTCAAAGGATAATTTA
*
11476152 ATATTCAAAAGATAATTTA
1 ATATTCAAAGGATAATTTA
11476171 ATATTCAAAG
1 ATATTCAAAG
11476181 ACACATGCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.35
Consensus pattern (19 bp):
ATATTCAAAGGATAATTTA
Found at i:11479721 original size:22 final size:22
Alignment explanation
Indices: 11479693--11479747 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
11479683 ATAAAAGATT
*
11479693 TAGTAGTAAATCAATTATAATA
1 TAGTAGTAAATCAATAATAATA
**
11479715 TAGTAGTAAATGTATAATAATA
1 TAGTAGTAAATCAATAATAATA
*
11479737 TAGTAGCAAAT
1 TAGTAGTAAAT
11479748 TACTGAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.49, C:0.04, G:0.13, T:0.35
Consensus pattern (22 bp):
TAGTAGTAAATCAATAATAATA
Found at i:11479852 original size:22 final size:22
Alignment explanation
Indices: 11479827--11479884 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
11479817 TGACAGCTAT
* *
11479827 ATAGTAAATT-ATAAATAATTTG
1 ATAGTAAATTAAT-AATAAATTA
11479849 ATAGTAAATTAATAATAAATTA
1 ATAGTAAATTAATAATAAATTA
*
11479871 ATAGTAAATAAATA
1 ATAGTAAATTAATA
11479885 CAATTTAGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 30 0.94
23 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (22 bp):
ATAGTAAATTAATAATAAATTA
Found at i:11479952 original size:19 final size:20
Alignment explanation
Indices: 11479928--11479984 Score: 57
Period size: 22 Copynumber: 2.9 Consensus size: 20
11479918 TATGCCAGTG
11479928 ATAATATAATAGTAAAT-AC
1 ATAATATAATAGTAAATAAC
11479947 ATAATAATATAGTAGTAAATAAC
1 ATAAT-ATA-A-TAGTAAATAAC
*
11479970 A-AAT-TATTAGTAAAT
1 ATAATATAATAGTAAAT
11479985 TATTTTATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
18 8 0.24
19 5 0.15
20 5 0.15
21 1 0.03
22 11 0.33
23 3 0.09
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (20 bp):
ATAATATAATAGTAAATAAC
Found at i:11480091 original size:22 final size:22
Alignment explanation
Indices: 11480022--11480114 Score: 80
Period size: 22 Copynumber: 4.2 Consensus size: 22
11480012 AAAATTGTAG
* *
11480022 TAAATTAAGGATAACTTAATAA
1 TAAATTAATGATAATTTAATAA
* * **
11480044 -AAAATAAGTGATAATTTAGTGG
1 TAAATTAA-TGATAATTTAATAA
*
11480066 TAAATTAATGATAATTTAGTAA
1 TAAATTAATGATAATTTAATAA
** *
11480088 TAAATTAAAAATAATTTAATAG
1 TAAATTAATGATAATTTAATAA
11480110 TAAAT
1 TAAAT
11480115 AAGATTCAAT
Statistics
Matches: 56, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
21 6 0.11
22 44 0.79
23 6 0.11
ACGTcount: A:0.53, C:0.01, G:0.11, T:0.35
Consensus pattern (22 bp):
TAAATTAATGATAATTTAATAA
Found at i:11480460 original size:22 final size:22
Alignment explanation
Indices: 11480435--11480660 Score: 122
Period size: 22 Copynumber: 10.2 Consensus size: 22
11480425 AACTTAGTAA
11480435 TAAATTAATGATAATTTAATAG
1 TAAATTAATGATAATTTAATAG
* * *
11480457 TAAA-TAATTAGAATTTAGTAG
1 TAAATTAATGATAATTTAATAG
* *
11480478 TAATTAATAATTGAAAATTTAA-AG
1 TAA--ATTAA-TGATAATTTAATAG
* *
11480502 TAAATCAAT-ATAACTTAATAG
1 TAAATTAATGATAATTTAATAG
* *
11480523 T-AA-TAATTGATAAATTAATAA
1 TAAATTAA-TGATAATTTAATAG
* * *
11480544 TTAATCAGTGATAATTTAATATAG
1 TAAATTAATGATAATTT-A-ATAG
* * * *
11480568 TGAATTAGTGATAACTTAACAG
1 TAAATTAATGATAATTTAATAG
* * *
11480590 TATATCAATGATAATTTAGTAG
1 TAAATTAATGATAATTTAATAG
* *
11480612 TAAA-TAATTGATAACTTAATAC
1 TAAATTAA-TGATAATTTAATAG
* * **
11480634 TAAATCAATAATAATCCAATAG
1 TAAATTAATGATAATTTAATAG
11480656 TAAAT
1 TAAAT
11480661 ACATAATAAC
Statistics
Matches: 152, Mismatches: 39, Indels: 26
0.70 0.18 0.12
Matches are distributed among these distances:
19 2 0.01
20 10 0.07
21 34 0.22
22 67 0.44
23 6 0.04
24 25 0.16
25 8 0.05
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (22 bp):
TAAATTAATGATAATTTAATAG
Found at i:11480465 original size:25 final size:24
Alignment explanation
Indices: 11480429--11480506 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 24
11480419 ATAAAAAACT
11480429 TAGT-AATAAATTAATGATAATTTAA
1 TAGTAAAT-AATTAATGA-AATTTAA
*
11480454 TAGTAAATAATT-A-G-AATTTAG
1 TAGTAAATAATTAATGAAATTTAA
*
11480475 TAGTAATTAA-TAATTGAAAATTTAA
1 TAGTAAATAATTAA-TG-AAATTTAA
11480500 -AGTAAAT
1 TAGTAAAT
11480507 CAATATAACT
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
20 1 0.02
21 16 0.37
23 2 0.05
24 7 0.16
25 14 0.33
26 3 0.07
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.38
Consensus pattern (24 bp):
TAGTAAATAATTAATGAAATTTAA
Found at i:11480471 original size:21 final size:21
Alignment explanation
Indices: 11480447--11480530 Score: 66
Period size: 21 Copynumber: 3.9 Consensus size: 21
11480437 AATTAATGAT
*
11480447 AATTTAATAGTAAATAATTAG
1 AATTTAATAGTAAATAATTAA
*
11480468 AATTTAGTAGTAATTAATAATTGAA
1 AATTTAATAGT-A--AATAATT-AA
*
11480493 AATTTAA-AGTAAATCAA-TAT
1 AATTTAATAGTAAAT-AATTAA
*
11480513 AACTTAATAGT-AATAATT
1 AATTTAATAGTAAATAATT
11480531 GATAAATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
19 2 0.04
20 11 0.22
21 17 0.33
22 3 0.06
23 1 0.02
24 10 0.20
25 7 0.14
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.38
Consensus pattern (21 bp):
AATTTAATAGTAAATAATTAA
Found at i:11480503 original size:24 final size:24
Alignment explanation
Indices: 11480459--11480504 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
11480449 TTTAATAGTA
* *
11480459 AATAATTAGAATTTAGTAGTAATT
1 AATAATTAAAATTTAGAAGTAATT
11480483 AATAATTGAAAATTTA-AAGTAA
1 AATAATT-AAAATTTAGAAGTAA
11480505 ATCAATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (24 bp):
AATAATTAAAATTTAGAAGTAATT
Found at i:11480524 original size:45 final size:46
Alignment explanation
Indices: 11480429--11480528 Score: 116
Period size: 45 Copynumber: 2.2 Consensus size: 46
11480419 ATAAAAAACT
* * *
11480429 TAGTAATAAATTAATGATAATTTAATAGTAAATAATTAGAATTTAG
1 TAGTAATAAATTAATGAAAATTTAATAGTAAATAATTAGAACTTAA
* *
11480475 TAGTAATTAA-TAATTGAAAATTTAA-AGTAAATCAA-TATAACTTAA
1 TAGTAATAAATTAA-TGAAAATTTAATAGTAAAT-AATTAGAACTTAA
11480520 TAGTAATAA
1 TAGTAATAA
11480529 TTGATAAATT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
45 25 0.54
46 21 0.46
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.37
Consensus pattern (46 bp):
TAGTAATAAATTAATGAAAATTTAATAGTAAATAATTAGAACTTAA
Found at i:11480657 original size:44 final size:44
Alignment explanation
Indices: 11480435--11480661 Score: 151
Period size: 44 Copynumber: 5.1 Consensus size: 44
11480425 AACTTAGTAA
* * * * *
11480435 TAAATTAA-TGATAATTTAATAGTAAAT-AATTAGAATTTAGTAG
1 TAAA-TAATTGATAACTTAATAGTAAATCAATGATAATCTAATAG
* *
11480478 TAATTAATAATTGAAAATTTAA-AGTAAATCAAT-ATAA-CTTAATAG
1 T-A--AATAATTGATAACTTAATAGTAAATCAATGATAATC-TAATAG
* * * * *
11480523 T-AATAATTGATAAATTAATAATTAATCAGTGATAATTTAATATAG
1 TAAATAATTGATAACTTAATAGTAAATCAATGATAATCT-A-ATAG
* * * * * * *
11480568 TGAATTAGTGATAACTTAACAGTATATCAATGATAATTTAGTAG
1 TAAATAATTGATAACTTAATAGTAAATCAATGATAATCTAATAG
* * *
11480612 TAAATAATTGATAACTTAATACTAAATCAATAATAATCCAATAG
1 TAAATAATTGATAACTTAATAGTAAATCAATGATAATCTAATAG
11480656 TAAATA
1 TAAATA
11480662 CATAATAACT
Statistics
Matches: 143, Mismatches: 29, Indels: 23
0.73 0.15 0.12
Matches are distributed among these distances:
41 15 0.10
42 8 0.06
43 6 0.04
44 45 0.31
45 25 0.17
46 44 0.31
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (44 bp):
TAAATAATTGATAACTTAATAGTAAATCAATGATAATCTAATAG
Found at i:11480712 original size:30 final size:30
Alignment explanation
Indices: 11480677--11480737 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
11480667 TAACTTAGTG
11480677 AATTAATTATAATACAGTTATAAATGCATA
1 AATTAATTATAATACAGTTATAAATGCATA
* * *
11480707 AATTAATTATAATATAGTTGTAAGTGCATA
1 AATTAATTATAATACAGTTATAAATGCATA
11480737 A
1 A
11480738 TAGCATAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.38
Consensus pattern (30 bp):
AATTAATTATAATACAGTTATAAATGCATA
Found at i:11480777 original size:19 final size:19
Alignment explanation
Indices: 11480750--11480786 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11480740 GCATAATAGT
*
11480750 AAATCAATGATAACTTAAA
1 AAATAAATGATAACTTAAA
*
11480769 AAATAAATGATAATTTAA
1 AAATAAATGATAACTTAA
11480787 TAGTTATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (19 bp):
AAATAAATGATAACTTAAA
Found at i:11480845 original size:22 final size:22
Alignment explanation
Indices: 11480805--11480847 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11480795 TATTGATAAT
**
11480805 TTTAATAGTAAATCTATTTTAG
1 TTTAATAGTAAATAAATTTTAG
*
11480827 TTTAATAGTAATTAAATTTTA
1 TTTAATAGTAAATAAATTTTA
11480848 AACTTAGTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (22 bp):
TTTAATAGTAAATAAATTTTAG
Found at i:11480893 original size:22 final size:22
Alignment explanation
Indices: 11480868--11480937 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
11480858 TAAATCATAA
11480868 ATAACTTAATAATAAATCAATG
1 ATAACTTAATAATAAATCAATG
* * * *
11480890 ATAATTTAATAGTTAATCATTG
1 ATAACTTAATAATAAATCAATG
11480912 A-AA-TTCAATAATAAATCAATG
1 ATAACTT-AATAATAAATCAATG
11480933 ATAAC
1 ATAAC
11480938 ATAGTAGCAA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 2 0.05
21 15 0.39
22 21 0.55
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (22 bp):
ATAACTTAATAATAAATCAATG
Found at i:11480928 original size:21 final size:22
Alignment explanation
Indices: 11480875--11480936 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 22
11480865 TAAATAACTT
*
11480875 AATAATAAATCAATGATAATTT
1 AATAATAAATCAATGATAATTC
* * *
11480897 AATAGTTAATCATTGA-AATTC
1 AATAATAAATCAATGATAATTC
11480918 AATAATAAATCAATGATAA
1 AATAATAAATCAATGATAA
11480937 CATAGTAGCA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
21 17 0.53
22 15 0.47
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (22 bp):
AATAATAAATCAATGATAATTC
Found at i:11481014 original size:22 final size:22
Alignment explanation
Indices: 11480961--11481014 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
11480951 CATAACAATA
* *
11480961 TAGTAGTAAATTATGGATAATT
1 TAGTAGTAAACTATGGATAACT
* * *
11480983 TAATAATAAACTATTGATAACT
1 TAGTAGTAAACTATGGATAACT
11481005 TAGTAGTAAA
1 TAGTAGTAAA
11481015 TCACTAATAA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.46, C:0.04, G:0.13, T:0.37
Consensus pattern (22 bp):
TAGTAGTAAACTATGGATAACT
Found at i:11481060 original size:22 final size:22
Alignment explanation
Indices: 11481032--11481114 Score: 132
Period size: 22 Copynumber: 3.8 Consensus size: 22
11481022 TAATGTCATA
11481032 ATAATTTAGTTACAAATCGATG
1 ATAATTTAGTTACAAATCGATG
*
11481054 ATAATTTAGTTATAAATC-AGTG
1 ATAATTTAGTTACAAATCGA-TG
11481076 ATAATTTAGTTACAAATCGATG
1 ATAATTTAGTTACAAATCGATG
*
11481098 ATAATTTAGTTATAAAT
1 ATAATTTAGTTACAAAT
11481115 TAATTAATTA
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
21 1 0.02
22 54 0.96
23 1 0.02
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (22 bp):
ATAATTTAGTTACAAATCGATG
Found at i:11481145 original size:22 final size:22
Alignment explanation
Indices: 11481115--11481174 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
11481105 AGTTATAAAT
*
11481115 TAATTAATTATTAATAATTTCA
1 TAATAAATTATTAATAATTTCA
* * *
11481137 TAGTAAATTAGTAATAATTTTA
1 TAATAAATTATTAATAATTTCA
*
11481159 TAATAAATCATTAATA
1 TAATAAATTATTAATA
11481175 GCGTAACGGT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (22 bp):
TAATAAATTATTAATAATTTCA
Found at i:11481208 original size:22 final size:22
Alignment explanation
Indices: 11481178--11481245 Score: 91
Period size: 22 Copynumber: 3.1 Consensus size: 22
11481168 ATTAATAGCG
*
11481178 TAACGGTAAATCATCCATAACT
1 TAACAGTAAATCATCCATAACT
* * **
11481200 TAATAGTAAATTATTTATAACT
1 TAACAGTAAATCATCCATAACT
11481222 TAACAGTAAATCATCCATAACT
1 TAACAGTAAATCATCCATAACT
11481244 TA
1 TA
11481246 GTGATAAATT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (22 bp):
TAACAGTAAATCATCCATAACT
Found at i:11481210 original size:44 final size:44
Alignment explanation
Indices: 11481162--11481245 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
11481152 AATTTTATAA
* *
11481162 TAAATCATTAATAGCGTAACGGTAAATCATCCATAACTTAATAG
1 TAAATCATTAATAACGTAACAGTAAATCATCCATAACTTAATAG
* * *
11481206 TAAATTATTTATAACTTAACAGTAAATCATCCATAACTTA
1 TAAATCATTAATAACGTAACAGTAAATCATCCATAACTTA
11481246 GTGATAAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.33
Consensus pattern (44 bp):
TAAATCATTAATAACGTAACAGTAAATCATCCATAACTTAATAG
Found at i:11481770 original size:22 final size:22
Alignment explanation
Indices: 11481745--11481881 Score: 105
Period size: 22 Copynumber: 6.2 Consensus size: 22
11481735 TTAATTAGTT
* * *
11481745 AATCATTTATAATTTTGTAGTA
1 AATCATTTATAACTTTATAATA
** * *
11481767 AATCATGGATAACTTCATAGTA
1 AATCATTTATAACTTTATAATA
* *
11481789 AATTAGTTATAACTTTATAATA
1 AATCATTTATAACTTTATAATA
* * **
11481811 AATCATTCATAACTTAATTTTA
1 AATCATTTATAACTTTATAATA
*
11481833 AATCATTCATAA-TTTACTAATA
1 AATCATTTATAACTTTA-TAATA
* * *
11481855 AATCACTTATAACATTGTAATA
1 AATCATTTATAACTTTATAATA
11481877 AATCA
1 AATCA
11481882 ATAATAGCTT
Statistics
Matches: 89, Mismatches: 24, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
21 3 0.03
22 84 0.94
23 2 0.02
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (22 bp):
AATCATTTATAACTTTATAATA
Found at i:11481814 original size:44 final size:42
Alignment explanation
Indices: 11481730--11481859 Score: 107
Period size: 44 Copynumber: 2.9 Consensus size: 42
11481720 TATATCAATT
* * * * *
11481730 ATAATTTAATTAGTTAATCATTTATAATTTTGTAGTAAATCATGG
1 ATAACTTAA-TAGTAAATCA-TTATAA-TTTATAATAAATCATGC
* * *
11481775 ATAACTTCATAGTAAATTAGTTATAACTTTATAATAAATCATTC
1 ATAACTTAATAGTAAATCA-TTATAA-TTTATAATAAATCATGC
**
11481819 ATAACTTAATTTTAAATCATTCATAATTTACTAATAAATCA
1 ATAACTTAATAGTAAATCATT-ATAATTTA-TAATAAATCA
11481860 CTTATAACAT
Statistics
Matches: 69, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
43 6 0.09
44 56 0.81
45 7 0.10
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.43
Consensus pattern (42 bp):
ATAACTTAATAGTAAATCATTATAATTTATAATAAATCATGC
Found at i:11482108 original size:21 final size:22
Alignment explanation
Indices: 11482082--11482151 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
11482072 GTGAGAACAA
11482082 TAAATCAATGATAACTTA-TAG
1 TAAATCAATGATAACTTAGTAG
* ** *
11482103 TAAATCAGTTTTAACTTAGTAA
1 TAAATCAATGATAACTTAGTAG
*
11482125 TAAAAC-ATGGATAACTTAGTAG
1 TAAATCAAT-GATAACTTAGTAG
11482147 TAAAT
1 TAAAT
11482152 TATTCATATT
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
21 16 0.43
22 21 0.57
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.34
Consensus pattern (22 bp):
TAAATCAATGATAACTTAGTAG
Found at i:11484069 original size:14 final size:15
Alignment explanation
Indices: 11484050--11484080 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
11484040 GTTTATGAAT
11484050 AATAAATAAAT-TTA
1 AATAAATAAATCTTA
11484064 AATAAATAAATCTTA
1 AATAAATAAATCTTA
11484079 AA
1 AA
11484081 CGAATATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (15 bp):
AATAAATAAATCTTA
Found at i:11484364 original size:4 final size:4
Alignment explanation
Indices: 11484355--11484484 Score: 67
Period size: 4 Copynumber: 32.8 Consensus size: 4
11484345 TTTGTATTTG
* * *
11484355 TATT TATT TA-T TA-T TATT TATA TATA TATTT TATT TATC TATT AATATT
1 TATT TATT TATT TATT TATT TATT TATT TA-TT TATT TATT TATT --TATT
* * * *
11484404 T-TT TA-T TATT TATC TATT AATA TATT TATT TATT TA-T TATC TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
* * *
11484449 AGTATA TATA TATT TATC TATT T-TT T-TT TACTT TAT
1 --TATT TATT TATT TATT TATT TATT TATT TA-TT TAT
11484485 CTTTTTCTTG
Statistics
Matches: 99, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
3 21 0.21
4 64 0.65
5 7 0.07
6 7 0.07
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (4 bp):
TATT
Found at i:11484412 original size:24 final size:24
Alignment explanation
Indices: 11484385--11484470 Score: 88
Period size: 27 Copynumber: 3.5 Consensus size: 24
11484375 TATATATATT
11484385 TTATTTATCTATTAATATTTTTTA
1 TTATTTATCTATTAATATTTTTTA
11484409 TTATTTATCTATTAATATATTTATTTA
1 TTATTTATCTATT-A-ATATTT-TTTA
* * *
11484436 TT-TATTATCTATTAGTA-TATATA
1 TTAT-TTATCTATTAATATTTTTTA
11484459 -TATTTATCTATT
1 TTATTTATCTATT
11484471 TTTTTTTACT
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
22 10 0.19
23 4 0.07
24 14 0.26
25 3 0.06
26 8 0.15
27 15 0.28
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (24 bp):
TTATTTATCTATTAATATTTTTTA
Found at i:11485394 original size:59 final size:59
Alignment explanation
Indices: 11485325--11485533 Score: 312
Period size: 58 Copynumber: 3.5 Consensus size: 59
11485315 TTTTTAAATG
* *
11485325 ATTTTCCTTAAAAATAAAATTCTAAAAAAAATATTTCTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTCTTAAAAATAAAATTCTAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCA
* *
11485384 ATTTTTCTTAAAAATAAAATTCT-AAAAAAATATTTTTAGGAAAAAGTTAAAAGTATCA
1 ATTTTTCTTAAAAATAAAATTCTAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCA
* * *
11485442 ATTTTTCTTAAAATTAAAAATTCTAAAAAATATATTTTTAAGGAAAAGTTGAAAGTATCA
1 ATTTTTCTTAAAAAT-AAAATTCTAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCA
* * *
11485502 ATTTTTCTTAAAATTAAAATTTTTAAAAAAAT
1 ATTTTTCTTAAAAATAAAATTCTAAAAAAAAT
11485534 TGAAAGTATC
Statistics
Matches: 136, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
58 46 0.34
59 44 0.32
60 46 0.34
ACGTcount: A:0.50, C:0.06, G:0.07, T:0.37
Consensus pattern (59 bp):
ATTTTTCTTAAAAATAAAATTCTAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCA
Found at i:11485531 original size:103 final size:103
Alignment explanation
Indices: 11485415--11485632 Score: 330
Period size: 103 Copynumber: 2.1 Consensus size: 103
11485405 CTAAAAAAAT
*
11485415 ATTTTTAGGAAAAAGTTAAAAGTATCAATTTTTCTTAAAATTAAAAATTCTAAAA-AATATATTT
1 ATTTTTA--AAAAAATTAAAAGTATCAATTTTTCTTAAAATTAAAAATTC-AAAACAATATATTT
* *
11485479 TTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAA
63 TTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAGTAAA
* * *
11485520 ATTTTTAAAAAAATTGAAAGTATCAATTTTTCTTAAAATTAAAATTTCAAAACAATATATTTTTG
1 ATTTTTAAAAAAATTAAAAGTATCAATTTTTCTTAAAATTAAAAATTCAAAACAATATATTTTTA
*
11485585 AGAAAAAGTTGAAAGTATTAATTTTTCTTAAAAGTAAA
66 AGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAGTAAA
*
11485623 ATTTCTAAAA
1 ATTTTTAAAA
11485633 TAAAATTTTC
Statistics
Matches: 104, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
102 4 0.04
103 93 0.89
105 7 0.07
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (103 bp):
ATTTTTAAAAAAATTAAAAGTATCAATTTTTCTTAAAATTAAAAATTCAAAACAATATATTTTTA
AGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAGTAAA
Found at i:11485538 original size:43 final size:44
Alignment explanation
Indices: 11485475--11485566 Score: 159
Period size: 43 Copynumber: 2.1 Consensus size: 44
11485465 TAAAAAATAT
*
11485475 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAA
1 ATTTTTAA-GAAAAATTGAAAGTATCAATTTTTCTTAAAATTAAA
11485520 ATTTTTAA-AAAAATTGAAAGTATCAATTTTTCTTAAAATTAAA
1 ATTTTTAAGAAAAATTGAAAGTATCAATTTTTCTTAAAATTAAA
11485563 ATTT
1 ATTT
11485567 CAAAACAATA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
43 38 0.83
45 8 0.17
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (44 bp):
ATTTTTAAGAAAAATTGAAAGTATCAATTTTTCTTAAAATTAAA
Found at i:11485597 original size:60 final size:59
Alignment explanation
Indices: 11485520--11485649 Score: 176
Period size: 60 Copynumber: 2.2 Consensus size: 59
11485510 TAAAATTAAA
*
11485520 ATTTTTAAAAAAATTGAAAGTATCAATTTTTCTTAAAATTAAAATTTC-AAAACAATAT
1 ATTTTTAAAAAAATTGAAAGTATCAATTTTTCTTAAAAGTAAAATTTCTAAAACAATAT
* * *
11485578 ATTTTTGAGAAAAAGTTGAAAGTATTAATTTTTCTTAAAAGTAAAATTTCTAAAATAA-A-
1 ATTTTT-A-AAAAAATTGAAAGTATCAATTTTTCTTAAAAGTAAAATTTCTAAAACAATAT
*
11485637 ATTTTCAAAAAAA
1 ATTTTTAAAAAAA
11485650 AATATTTTGA
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
57 5 0.08
58 7 0.11
59 6 0.10
60 39 0.62
61 6 0.10
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.38
Consensus pattern (59 bp):
ATTTTTAAAAAAATTGAAAGTATCAATTTTTCTTAAAAGTAAAATTTCTAAAACAATAT
Found at i:11485638 original size:14 final size:16
Alignment explanation
Indices: 11485608--11485640 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
11485598 AGTATTAATT
11485608 TTTCTTAAAAGTAAAA
1 TTTCTTAAAAGTAAAA
11485624 TTTC-TAAAA-TAAAA
1 TTTCTTAAAAGTAAAA
11485638 TTT
1 TTT
11485641 TCAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 5 0.29
16 4 0.24
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (16 bp):
TTTCTTAAAAGTAAAA
Found at i:11485646 original size:14 final size:15
Alignment explanation
Indices: 11485607--11485652 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
11485597 AAGTATTAAT
11485607 TTTTCTTAAAAGTAAAA
1 TTTTC-TAAAA-TAAAA
11485624 -TTTCTAAAATAAAA
1 TTTTCTAAAATAAAA
*
11485638 TTTTC-AAAAAAAAA
1 TTTTCTAAAATAAAA
11485652 T
1 T
11485653 ATTTTGAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 14 0.52
15 9 0.33
16 4 0.15
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (15 bp):
TTTTCTAAAATAAAA
Found at i:11485651 original size:60 final size:57
Alignment explanation
Indices: 11485505--11485650 Score: 168
Period size: 60 Copynumber: 2.5 Consensus size: 57
11485495 AGTATCAATT
* *
11485505 TTTCTTAAAATTAAAATTTTTAAAAAAATTGAAAGTATCAATTTTTCTTAAAATTAAAA
1 TTTC-TAAAA-TAAAATTTTAAAAAAAATTGAAAGTATCAATTTTTCTTAAAAGTAAAA
* * * *
11485564 TTTC-AAAACAATATATTTTTGAGAAAAAGTTGAAAGTATTAATTTTTCTTAAAAGTAAAA
1 TTTCTAAAATAA-A-A-TTTT-AAAAAAAATTGAAAGTATCAATTTTTCTTAAAAGTAAAA
11485624 TTTCTAAAATAAAATTTTCAAAAAAAA
1 TTTCTAAAATAAAATTTT-AAAAAAAA
11485651 ATATTTTGAA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
56 2 0.03
57 5 0.07
58 11 0.15
59 9 0.12
60 39 0.54
61 6 0.08
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (57 bp):
TTTCTAAAATAAAATTTTAAAAAAAATTGAAAGTATCAATTTTTCTTAAAAGTAAAA
Done.