Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 46 of 113
Found at i:12421539 original size:21 final size:21
Alignment explanation
Indices: 12421442--12421576 Score: 110
Period size: 21 Copynumber: 6.3 Consensus size: 21
12421432 TATCATAAGT
12421442 TATCAAAAGATTATTAAAATTA
1 TATCAAAAG-TTATTAAAATTA
* * *
12421464 TATCAATAAATTACTAAAATTT
1 TATCAA-AAGTTATTAAAATTA
* * *
12421486 TATCAAAAATTACTAAAATTG
1 TATCAAAAGTTATTAAAATTA
* * **
12421507 TGTTAATGGTTATTAAAATTA
1 TATCAAAAGTTATTAAAATTA
* *
12421528 TATCATAAGTTATCAAAATTA
1 TATCAAAAGTTATTAAAATTA
* *
12421549 TATCGAAAAG-TATCAAAATTT
1 TATC-AAAAGTTATTAAAATTA
12421570 TATCAAA
1 TATCAAA
12421577 GACTATCAAA
Statistics
Matches: 92, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
20 3 0.03
21 61 0.66
22 26 0.28
23 2 0.02
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.38
Consensus pattern (21 bp):
TATCAAAAGTTATTAAAATTA
Found at i:12421583 original size:21 final size:21
Alignment explanation
Indices: 12421521--12421586 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
12421511 AATGGTTATT
*
12421521 AAAATTATATCATAAG-TTATC
1 AAAATTATATCA-AAGACTATC
*
12421542 AAAATTATATCGAAA-AGTATC
1 AAAATTATATC-AAAGACTATC
*
12421563 AAAATTTTATCAAAGACTATC
1 AAAATTATATCAAAGACTATC
12421584 AAA
1 AAA
12421587 TTTTACTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
20 3 0.08
21 35 0.90
22 1 0.03
ACGTcount: A:0.52, C:0.11, G:0.06, T:0.32
Consensus pattern (21 bp):
AAAATTATATCAAAGACTATC
Found at i:12422564 original size:28 final size:24
Alignment explanation
Indices: 12422526--12422579 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 24
12422516 TATGTGAGAT
*
12422526 CATTAAATTTTGAATTTTAATTATTAA
1 CATTAAATTTT-AATATT--TTATTAA
12422553 CATTAAAATTTTAATATTTTATTAA
1 CATT-AAATTTTAATATTTTATTAA
12422578 CA
1 CA
12422580 AATCGATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 9 0.36
27 9 0.36
28 7 0.28
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.50
Consensus pattern (24 bp):
CATTAAATTTTAATATTTTATTAA
Found at i:12425134 original size:11 final size:11
Alignment explanation
Indices: 12425115--12425177 Score: 51
Period size: 11 Copynumber: 5.6 Consensus size: 11
12425105 ATAATTAATT
*
12425115 ATTATATTATA
1 ATTAAATTATA
12425126 ATTAAATTATA
1 ATTAAATTATA
12425137 ATT--ATTGAATA
1 ATTAAATT--ATA
12425148 ATT-AATTAATAA
1 ATTAAATT-AT-A
*
12425160 ATTAAAATATA
1 ATTAAATTATA
12425171 ATTAAAT
1 ATTAAAT
12425178 AATTAAACCC
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
9 3 0.07
11 29 0.66
12 9 0.20
13 3 0.07
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (11 bp):
ATTAAATTATA
Found at i:12426808 original size:16 final size:16
Alignment explanation
Indices: 12426767--12426811 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
12426757 AAATGGTAAT
*
12426767 TAATAAATTGAAAAAA
1 TAATAAATTAAAAAAA
*
12426783 T-ATGAA--AAAAAAA
1 TAATAAATTAAAAAAA
12426796 TAATAAATTAAAAAAA
1 TAATAAATTAAAAAAA
12426812 AAAAAGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 6
0.72 0.09 0.19
Matches are distributed among these distances:
13 7 0.30
14 4 0.17
15 4 0.17
16 8 0.35
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.22
Consensus pattern (16 bp):
TAATAAATTAAAAAAA
Found at i:12428259 original size:2 final size:2
Alignment explanation
Indices: 12428246--12428281 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
12428236 AGCAACAGGA
*
12428246 AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
12428282 GCAGGGGCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:12430336 original size:19 final size:19
Alignment explanation
Indices: 12430295--12430337 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
12430285 TTATTTCTCC
* *
12430295 TTCTTCCTTTTTTTCTTTT
1 TTCTTCCTTTTTTTCTCTA
12430314 TTCTTCCTTTCTTTT-TCTA
1 TTCTTCCTTT-TTTTCTCTA
12430333 TTCTT
1 TTCTT
12430338 TATCCTTCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.74
Consensus pattern (19 bp):
TTCTTCCTTTTTTTCTCTA
Found at i:12430450 original size:2 final size:2
Alignment explanation
Indices: 12430443--12430472 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
12430433 ATATTATGTG
12430443 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12430473 GGGACAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12440500 original size:26 final size:26
Alignment explanation
Indices: 12440471--12440560 Score: 80
Period size: 24 Copynumber: 3.5 Consensus size: 26
12440461 CATACTTTAT
*
12440471 ATATATAAATAAATTTTTATTAAAT-
1 ATATATAAATATATTTTTATTAAATA
* *
12440496 A-ATATAAATATTATTTTAAATTAATTA
1 ATATATAAATA-TATTTT-TATTAAATA
* *
12440523 AAAT-TAAA-ATATTTTTATTAAAAA
1 ATATATAAATATATTTTTATTAAATA
*
12440547 ATATATTAATATAT
1 ATATATAAATATAT
12440561 ACTAATAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
24 18 0.35
25 15 0.29
26 11 0.22
27 5 0.10
28 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
ATATATAAATATATTTTTATTAAATA
Found at i:12441417 original size:29 final size:29
Alignment explanation
Indices: 12441336--12441441 Score: 108
Period size: 29 Copynumber: 3.6 Consensus size: 29
12441326 TTATAATTTT
* *
12441336 ATTTAAATAAATTATTATATTTTTATTATAC
1 ATTTAAATAAATTTTTA-ATTTTAATT-TAC
12441367 --TTAAATAAATTTTTAATATTTAATTTAC
1 ATTTAAATAAATTTTTAAT-TTTAATTTAC
* * *
12441395 ATTTAAATAATTTTTTAATTTTAATATAT
1 ATTTAAATAAATTTTTAATTTTAATTTAC
* *
12441424 ATTCAAATAAATTCTTAA
1 ATTTAAATAAATTTTTAA
12441442 CCTTTTAACT
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
28 5 0.08
29 43 0.67
30 16 0.25
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (29 bp):
ATTTAAATAAATTTTTAATTTTAATTTAC
Found at i:12442227 original size:11 final size:11
Alignment explanation
Indices: 12442213--12442253 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
12442203 TAAAGTTTGC
12442213 TTGTTTATTAT
1 TTGTTTATTAT
12442224 TTGTTTTATT-T
1 TTG-TTTATTAT
12442235 TTGTTTATTAT
1 TTGTTTATTAT
*
12442246 TCGTTTAT
1 TTGTTTAT
12442254 AATAATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 6 0.22
11 15 0.56
12 6 0.22
ACGTcount: A:0.15, C:0.02, G:0.10, T:0.73
Consensus pattern (11 bp):
TTGTTTATTAT
Found at i:12442356 original size:25 final size:25
Alignment explanation
Indices: 12442326--12442389 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 25
12442316 TTTATTTAAG
12442326 TTTATTTATATTCGTTTAGAGTT-T-A
1 TTTATTTATATTCG-TTAGA-TTATGA
* *
12442351 TTTATTTAAATTTGTTAGATTATGA
1 TTTATTTATATTCGTTAGATTATGA
12442376 TTTATTTATTATTC
1 TTTATTTA-TATTC
12442390 ATGAATATGT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
23 2 0.06
24 6 0.19
25 21 0.66
26 3 0.09
ACGTcount: A:0.27, C:0.03, G:0.09, T:0.61
Consensus pattern (25 bp):
TTTATTTATATTCGTTAGATTATGA
Found at i:12442432 original size:26 final size:25
Alignment explanation
Indices: 12442349--12442456 Score: 75
Period size: 23 Copynumber: 4.4 Consensus size: 25
12442339 GTTTAGAGTT
* * *
12442349 TATTTATTTAAATTTGTTA-GATTA
1 TATTTATTTAAATATATTATGAATA
12442373 TGATTTATTT--AT-TATTCATGAATA
1 T-ATTTATTTAAATATATT-ATGAATA
* **
12442397 TGTTCGTTTAAATATATTCATGAATA
1 TATTTATTTAAATATATT-ATGAATA
*
12442423 TATTTATTT-AATAT-TTACGAATA
1 TATTTATTTAAATATATTATGAATA
*
12442446 AATTTATTTAA
1 TATTTATTTAA
12442457 TTTAATTAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
22 3 0.04
23 22 0.33
24 9 0.13
25 15 0.22
26 18 0.27
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.53
Consensus pattern (25 bp):
TATTTATTTAAATATATTATGAATA
Found at i:12444276 original size:17 final size:18
Alignment explanation
Indices: 12444250--12444283 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
12444240 GTCGCCTTAC
*
12444250 CTTTTTCTTT-TTTCCAG
1 CTTTTGCTTTCTTTCCAG
12444267 CTTTTGCTTTCTTTCCA
1 CTTTTGCTTTCTTTCCA
12444284 TGTTTCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.06, C:0.26, G:0.06, T:0.62
Consensus pattern (18 bp):
CTTTTGCTTTCTTTCCAG
Found at i:12446624 original size:20 final size:23
Alignment explanation
Indices: 12446598--12446645 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 23
12446588 ATATAAAAAT
12446598 TATTTTTTAATTAT-TA-ATTTA
1 TATTTTTTAATTATATATATTTA
*
12446619 -ATTTTTTATTTATATATATTTA
1 TATTTTTTAATTATATATATTTA
12446641 TATTT
1 TATTT
12446646 AAAAAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 12 0.52
21 2 0.09
22 5 0.22
23 4 0.17
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (23 bp):
TATTTTTTAATTATATATATTTA
Found at i:12446662 original size:21 final size:22
Alignment explanation
Indices: 12446632--12446684 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
12446622 TTTTATTTAT
12446632 ATATATTTATA-TTTAAAAAATA
1 ATAT-TTTATATTTTAAAAAATA
* *
12446654 ATTTTTTATATTTTACAAAATA
1 ATATTTTATATTTTAAAAAATA
12446676 ATATTTTAT
1 ATATTTTAT
12446685 TAATTTCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 6 0.22
22 21 0.78
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
ATATTTTATATTTTAAAAAATA
Found at i:12448736 original size:11 final size:11
Alignment explanation
Indices: 12448720--12448747 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
12448710 ACCAAGGGTA
12448720 AAAAAAAAAAC
1 AAAAAAAAAAC
12448731 AAAAAAAAAAC
1 AAAAAAAAAAC
12448742 AAAAAA
1 AAAAAA
12448748 GAGAAAAGTG
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:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:12451820 original size:14 final size:15
Alignment explanation
Indices: 12451796--12451827 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
12451786 AAATATTTAA
12451796 ATAATATATATGTAT
1 ATAATATATATGTAT
12451811 ATAA-ATATATGTAT
1 ATAATATATATGTAT
12451825 ATA
1 ATA
12451828 TGCGTACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (15 bp):
ATAATATATATGTAT
Found at i:12455151 original size:29 final size:28
Alignment explanation
Indices: 12455098--12455156 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
12455088 GAACTATAGT
*
12455098 AAAATTTCAATGTAGTACCTAAATTTTA
1 AAAATTTCAATGTAGTACCTAAATTATA
* *
12455126 AAAATTTCTAATG-AGGTATCTGAATTATA
1 AAAATTTC-AATGTA-GTACCTAAATTATA
12455155 AA
1 AA
12455157 TTTGTTAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.37
Consensus pattern (28 bp):
AAAATTTCAATGTAGTACCTAAATTATA
Found at i:12461944 original size:22 final size:22
Alignment explanation
Indices: 12461911--12461953 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
12461901 GAAAATATAA
12461911 ACTTATACTTTA-TGTATAAATG
1 ACTTATACTTTACTGTA-AAATG
12461933 ACTTA-ACATTTACTGTAAAAT
1 ACTTATAC-TTTACTGTAAAAT
12461954 ATTTAAGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 2 0.11
22 13 0.68
23 4 0.21
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.42
Consensus pattern (22 bp):
ACTTATACTTTACTGTAAAATG
Found at i:12463982 original size:23 final size:21
Alignment explanation
Indices: 12463939--12463984 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
12463929 TCATGATATT
*
12463939 ATATAAAAAATTAAATATAAA
1 ATATAAAAAAATAAATATAAA
*
12463960 ATATAAAAATAATATAATTTAAA
1 ATATAAAAA-AATA-AATATAAA
12463983 AT
1 AT
12463985 TTTAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 9 0.43
22 3 0.14
23 9 0.43
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
ATATAAAAAAATAAATATAAA
Found at i:12466080 original size:2 final size:2
Alignment explanation
Indices: 12466073--12466109 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
12466063 CGCCTATGCT
12466073 TA TA 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 TA TA T
12466110 GTGTATGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12467302 original size:14 final size:13
Alignment explanation
Indices: 12467277--12467310 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
12467267 GGAAAGAAAA
12467277 AAATTATAAATATT
1 AAATT-TAAATATT
12467291 GAAATTTAAATATT
1 -AAATTTAAATATT
12467305 AAATTT
1 AAATTT
12467311 GTAGGGTGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 8 0.42
15 5 0.26
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (13 bp):
AAATTTAAATATT
Found at i:12475632 original size:133 final size:133
Alignment explanation
Indices: 12475394--12475660 Score: 498
Period size: 133 Copynumber: 2.0 Consensus size: 133
12475384 CAAGGGTGTG
12475394 AACTGTAGCAGATAGACTGATATGGGACGCCAGATGAGTGGATGATCGAGTTTCGAAATCGCACA
1 AACTGTAGCAGATAGACTGATATGGGACGCCAGATGAGTGGATGATCGAGTTTCGAAATCGCACA
12475459 GATTCAAAACTTAAGTCTCGACCCGTGATACATATACTTGCTCATTAGGATGGGGGTGAAAAATC
66 GATTCAAAACTTAAGTCTCGACCCGTGATACATATACTTGCTCATTAGGATGGGGGTGAAAAATC
12475524 TTT
131 TTT
*
12475527 AACTGTAGCAGATAGACTGATATGGGACGCTAGATGAGTGGATGATCGAGTTTCGAAATCGCACA
1 AACTGTAGCAGATAGACTGATATGGGACGCCAGATGAGTGGATGATCGAGTTTCGAAATCGCACA
* * *
12475592 GATTCGAAACTTAAGTTTCGACCCGTGATACATATACTTGCTCATTGGGATGGGGGTGAAAAATC
66 GATTCAAAACTTAAGTCTCGACCCGTGATACATATACTTGCTCATTAGGATGGGGGTGAAAAATC
12475657 TTT
131 TTT
12475660 A
1 A
12475661 TAAAACCGTA
Statistics
Matches: 130, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
133 130 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.27
Consensus pattern (133 bp):
AACTGTAGCAGATAGACTGATATGGGACGCCAGATGAGTGGATGATCGAGTTTCGAAATCGCACA
GATTCAAAACTTAAGTCTCGACCCGTGATACATATACTTGCTCATTAGGATGGGGGTGAAAAATC
TTT
Found at i:12476020 original size:3 final size:3
Alignment explanation
Indices: 12476012--12476054 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
12476002 TTATATCAAG
12476012 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
12476055 GGTAAAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:12480022 original size:3 final size:3
Alignment explanation
Indices: 12480016--12480053 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
12480006 AACAACATCA
12480016 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
12480054 CCAACTCAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:12480458 original size:18 final size:19
Alignment explanation
Indices: 12480423--12480462 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
12480413 TCATAGTTGA
12480423 TATTTGTTTAAATTATTTT
1 TATTTGTTTAAATTATTTT
12480442 TATTT-TTT-AATTAATTTT
1 TATTTGTTTAAATT-ATTTT
12480460 TAT
1 TAT
12480463 ATTTAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 11 0.55
19 5 0.25
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (19 bp):
TATTTGTTTAAATTATTTT
Found at i:12480459 original size:17 final size:19
Alignment explanation
Indices: 12480423--12480459 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
12480413 TCATAGTTGA
*
12480423 TATTTGTTTAAATTATTTT
1 TATTTGTTTAAATTAATTT
12480442 TATTT-TTT-AATTAATTT
1 TATTTGTTTAAATTAATTT
12480459 T
1 T
12480460 TATATTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 3 0.18
19 5 0.29
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (19 bp):
TATTTGTTTAAATTAATTT
Found at i:12480473 original size:18 final size:18
Alignment explanation
Indices: 12480433--12480470 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
12480423 TATTTGTTTA
*
12480433 AATT-ATTTTTATTTTTT
1 AATTAATTTTTATTATTT
12480450 AATTAATTTTTA-TATTT
1 AATTAATTTTTATTATTT
12480467 AATT
1 AATT
12480471 TAAAATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
AATTAATTTTTATTATTT
Found at i:12480715 original size:22 final size:23
Alignment explanation
Indices: 12480690--12480738 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
12480680 TATTTGTTTA
12480690 AATTATT-TTTACTTTTTA-AATT
1 AATTATTATTTA-TTTTTATAATT
* *
12480712 AATTTTTATTTATTTTTATATTT
1 AATTATTATTTATTTTTATAATT
12480735 AATT
1 AATT
12480739 TAAAATCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (23 bp):
AATTATTATTTATTTTTATAATT
Found at i:12480891 original size:256 final size:255
Alignment explanation
Indices: 12480457--12481070 Score: 748
Period size: 256 Copynumber: 2.4 Consensus size: 255
12480447 TTTAATTAAT
* * * *
12480457 TTTTATATTTAATTTAAAATTATTAAATTTCAATCATAAATTTAGTTGAATATGCATTATTAACC
1 TTTTATATTCAATTTAAAATCATTAAATTTCAATCATAAATTTAGCTGAATATACATTATTAACC
* * * *
12480522 ATTAAATAAATTAGTGTAAACTTTTATTACTTTTTAAGTAATGGAGAAGATTTTTTTCCTATCGA
66 ATTAAATAAATTAATGCAAAC-----TT-C-----CACT-A-GGAGAAGATTTTTTTCCTATCGA
* ** *
12480587 AAAAGGATTATCTCCGTTACTTAAAAAATAATGAAAGTTTTTACTAATTTATCTAATGACCAATA
118 AAAAGGATCATCTCCGTTACTTAAAAAATAATGAAAGTTTCCACTAATTTATCTAATAACCAATA
** * * *
12480652 ATGTACACTAATCTAAATTTATAGTTGATATTTGTTTAAATTATTTT-TACTTTTTAAATTAATT
183 ATGTACACTAATCTAAATCCATAGTTGATATTTGTATAAATTATTTTAAAATTTTT-AATTAATT
*
12480716 TTTATTTAT
247 TTTATTTAC
* * * *
12480725 TTTTATATTTAATTTAAAATCATTAAATTTCAA-CAATAATTTTAGTTGAATATGCATTATTAAC
1 TTTTATATTCAATTTAAAATCATTAAATTTCAATC-ATAAATTTAGCTGAATATACATTATTAAC
* * *
12480789 CATTAAATAAATTAGTGCAAACTTCCACTAGGAGAAGATCTTTTTTCCTA-CAGAGAAAGGATCC
65 CATTAAATAAATTAATGCAAACTTCCACTAGGAGAAGAT-TTTTTTCCTATC-GAAAAAGGATCA
* * * * *
12480853 TCTCCGTTACTTAAAAAGTAGTGGAAGTTTCCACTAATTTATCTAGTAACCAATAATGTACATTA
128 TCTCCGTTACTTAAAAAATAATGAAAGTTTCCACTAATTTATCTAATAACCAATAATGTACACTA
12480918 ATCTAAATCCATAGTTGATATTTGTATAAATTATTTTAAAATTTTTAATTAATTTTTATTTAC
193 ATCTAAATCCATAGTTGATATTTGTATAAATTATTTTAAAATTTTTAATTAATTTTTATTTAC
* *
12480981 TTTTATATTCAATTTAAAATCATTAAATTTCAATCATAAATTTAGCTGAATATATATTATTAATC
1 TTTTATATTCAATTTAAAATCATTAAATTTCAATCATAAATTTAGCTGAATATACATTATTAACC
* *
12481046 ATTATATAAATTAATGCAAAGTTCC
66 ATTAAATAAATTAATGCAAACTTCC
12481071 TAAAGAGATC
Statistics
Matches: 310, Mismatches: 31, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
255 10 0.03
256 206 0.66
257 9 0.03
262 1 0.00
263 2 0.01
267 1 0.00
268 81 0.26
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.43
Consensus pattern (255 bp):
TTTTATATTCAATTTAAAATCATTAAATTTCAATCATAAATTTAGCTGAATATACATTATTAACC
ATTAAATAAATTAATGCAAACTTCCACTAGGAGAAGATTTTTTTCCTATCGAAAAAGGATCATCT
CCGTTACTTAAAAAATAATGAAAGTTTCCACTAATTTATCTAATAACCAATAATGTACACTAATC
TAAATCCATAGTTGATATTTGTATAAATTATTTTAAAATTTTTAATTAATTTTTATTTAC
Found at i:12482771 original size:36 final size:34
Alignment explanation
Indices: 12482731--12482834 Score: 80
Period size: 28 Copynumber: 3.1 Consensus size: 34
12482721 CTATACCTTA
12482731 TTACTTATCTAATTGAAAAAGATATTACCCTTTACC
1 TTACTTA-CTAATTGAAAAA-ATATTACCCTTTACC
*
12482767 TTAC-TACTTAATTG-GAAAA-A-TA-CC-TTA-C
1 TTACTTAC-TAATTGAAAAAATATTACCCTTTACC
* *
12482795 -TATTTACCTAATTGAAAAAAATATTACCCTATACC
1 TTACTTA-CTAATTG-AAAAAATATTACCCTTTACC
12482830 TTACT
1 TTACT
12482835 ATTTACTATA
Statistics
Matches: 52, Mismatches: 5, Indels: 22
0.66 0.06 0.28
Matches are distributed among these distances:
27 2 0.04
28 9 0.17
29 4 0.08
30 6 0.12
31 3 0.06
32 3 0.06
33 3 0.06
34 6 0.12
35 9 0.17
36 7 0.13
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (34 bp):
TTACTTACTAATTGAAAAAATATTACCCTTTACC
Found at i:12483481 original size:2 final size:2
Alignment explanation
Indices: 12483474--12483516 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
12483464 TACATACATG
* * * *
12483474 TA TA TA TA TA TA CA TG TA TA TA TA TA TA TA CA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12483516 T
1 T
12483517 TTGCTTGGAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.47
Consensus pattern (2 bp):
TA
Found at i:12483486 original size:16 final size:16
Alignment explanation
Indices: 12483467--12483516 Score: 82
Period size: 16 Copynumber: 3.0 Consensus size: 16
12483457 ATATACATAC
12483467 ATACATGTATATATAT
1 ATACATGTATATATAT
12483483 ATACATGTATATATATAT
1 ATACATG--TATATATAT
12483501 ATACATGTATATATAT
1 ATACATGTATATATAT
12483517 TTGCTTGGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 16 0.50
18 16 0.50
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (16 bp):
ATACATGTATATATAT
Found at i:12483514 original size:18 final size:18
Alignment explanation
Indices: 12483457--12483516 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
12483447 GTGTACATAC
* *
12483457 ATATACATACATACATG-
1 ATATATATATATACATGT
12483474 -TATATATATATACATGT
1 ATATATATATATACATGT
12483491 ATATATATATATACATGT
1 ATATATATATATACATGT
12483509 ATATATAT
1 ATATATAT
12483517 TTGCTTGGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
16 14 0.36
18 25 0.64
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (18 bp):
ATATATATATATACATGT
Found at i:12487608 original size:19 final size:18
Alignment explanation
Indices: 12487581--12487618 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
12487571 ATTTATTTCT
12487581 TAAAAAATATATACTTTTA
1 TAAAAAATATATA-TTTTA
*
12487600 TAAATAATATATATTTTA
1 TAAAAAATATATATTTTA
12487618 T
1 T
12487619 CCTTTCTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAAAAATATATATTTTA
Found at i:12488418 original size:12 final size:12
Alignment explanation
Indices: 12488381--12488446 Score: 50
Period size: 12 Copynumber: 5.7 Consensus size: 12
12488371 TCTTTTCTTA
*
12488381 TTTAATTTTTAT
1 TTTAATTATTAT
* * *
12488393 TCTAATTCTAAT
1 TTTAATTATTAT
12488405 TTTAATTATTAT
1 TTTAATTATTAT
12488417 TTT-ATTAATTAT
1 TTTAATT-ATTAT
12488429 TATT-A-TATT-T
1 T-TTAATTATTAT
12488439 TTTAATTA
1 TTTAATTA
12488447 AATTTTTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
9 2 0.05
10 3 0.07
11 8 0.18
12 28 0.64
13 3 0.07
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTAATTATTAT
Found at i:12488426 original size:15 final size:15
Alignment explanation
Indices: 12488406--12488437 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
12488396 AATTCTAATT
*
12488406 TTAATTATTATTTTA
1 TTAATTATTATTATA
12488421 TTAATTATTATTATA
1 TTAATTATTATTATA
12488436 TT
1 TT
12488438 TTTTAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTAATTATTATTATA
Found at i:12488719 original size:3 final size:3
Alignment explanation
Indices: 12488711--12488785 Score: 150
Period size: 3 Copynumber: 25.0 Consensus size: 3
12488701 CGGATATTTC
12488711 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
12488759 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
12488786 CGTTCCTTTT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:12488852 original size:3 final size:3
Alignment explanation
Indices: 12488844--12488882 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
12488834 AAATTGCATT
12488844 ATA ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA AT
12488883 TTATGTGATG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12490001 original size:3 final size:3
Alignment explanation
Indices: 12489995--12490040 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
12489985 CAAGCATGAG
12489995 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
12490041 TCAAAACCTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:12491187 original size:197 final size:197
Alignment explanation
Indices: 12490845--12491233 Score: 672
Period size: 197 Copynumber: 2.0 Consensus size: 197
12490835 TTTTCCCTTG
*
12490845 GGCTTCTTTTTGGGCTTTAAAAGGGTCATAATTGGACAGCAAATTAAACTTACAATTAGGTTTTT
1 GGCTTCTTTTTGGGCTTTAAAAGGGTCATAATTAGACAGCAAATTAAACTTACAATTAGGTTTTT
*
12490910 TTGGGGTTGTGAATGGCCCATTAATCAACTTTTTCTTTTTTATCAATTCCACACGTTATTTAATG
66 TTGGGGTTGTGAATGGCCCATTAATCAACTTTTTCTTTTTTATCAATTCCACACATTATTTAATG
* *
12490975 ATTAGCTTAGGCCATTAATCGGGCCAAGAAATG-GATCATTTTAAATTATCAATTTTGATCTCTT
131 ATTAGCTTAGGCCATTAATCGGGCCAAAAAAAGAG-TCATTTTAAATTATCAATTTTGATCTCTT
12491039 TTA
195 TTA
** *
12491042 GGCTTCTTTTTGGGCTTTAAAAGGGTCATAATTAGACAGTGAATTAAACTTACAATTGGGTTTTT
1 GGCTTCTTTTTGGGCTTTAAAAGGGTCATAATTAGACAGCAAATTAAACTTACAATTAGGTTTTT
12491107 TTGGGGTTGTGAATGGCCCATTAATCAACTTTTTCTTTTTTATCAATTCCACACATTATTTAATG
66 TTGGGGTTGTGAATGGCCCATTAATCAACTTTTTCTTTTTTATCAATTCCACACATTATTTAATG
* * *
12491172 ATTAGCTTGGGCCATTAATCGGGCTAAAAAAAGAGTCGTTTTAAATTATCAATTTTGATCTC
131 ATTAGCTTAGGCCATTAATCGGGCCAAAAAAAGAGTCATTTTAAATTATCAATTTTGATCTC
12491234 CATTTTGATA
Statistics
Matches: 181, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
197 180 0.99
198 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.40
Consensus pattern (197 bp):
GGCTTCTTTTTGGGCTTTAAAAGGGTCATAATTAGACAGCAAATTAAACTTACAATTAGGTTTTT
TTGGGGTTGTGAATGGCCCATTAATCAACTTTTTCTTTTTTATCAATTCCACACATTATTTAATG
ATTAGCTTAGGCCATTAATCGGGCCAAAAAAAGAGTCATTTTAAATTATCAATTTTGATCTCTTT
TA
Found at i:12491512 original size:23 final size:23
Alignment explanation
Indices: 12491471--12491514 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
12491461 GCTTTCCTTT
**
12491471 TTTTTAAGTTTTTTGATTTTTGG
1 TTTTTAAGTTTTTAAATTTTTGG
*
12491494 TTTTTGAGTTTTTAAATTTTT
1 TTTTTAAGTTTTTAAATTTTT
12491515 TGATTTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.14, T:0.70
Consensus pattern (23 bp):
TTTTTAAGTTTTTAAATTTTTGG
Found at i:12491784 original size:50 final size:50
Alignment explanation
Indices: 12491679--12491808 Score: 154
Period size: 50 Copynumber: 2.6 Consensus size: 50
12491669 AATGACTTCA
* * * ** *
12491679 TTTAAACGGAGATTTTGAAACTTTAAAAACCTTGTCTGAAAATGGTTACC
1 TTTAAACAGAGGTTTTGAAATTTTAAAAATATTGTCTGAAAATGGTCACC
*
12491729 CTTAAACAGAGGTTTTGAAATTTTAAAAATATTGTCTGAAAATGGCTCA-C
1 TTTAAACAGAGGTTTTGAAATTTTAAAAATATTGTCTGAAAATGG-TCACC
* * *
12491779 TTTAAATAAAAGTTTTGAAATTTTAAAAAT
1 TTTAAACAGAGGTTTTGAAATTTTAAAAAT
12491809 TTAAAGTGTT
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
50 66 0.97
51 2 0.03
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (50 bp):
TTTAAACAGAGGTTTTGAAATTTTAAAAATATTGTCTGAAAATGGTCACC
Found at i:12492316 original size:23 final size:23
Alignment explanation
Indices: 12492283--12492339 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
12492273 ATGCCAGTTA
* *
12492283 AACTGCACTTAAAATACCTACCT
1 AACTGGACTTAAAATACCAACCT
* * *
12492306 AACTGGGCTTAAAGTGCCAACCT
1 AACTGGACTTAAAATACCAACCT
12492329 AACTGGACTTA
1 AACTGGACTTA
12492340 GTTATCATCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (23 bp):
AACTGGACTTAAAATACCAACCT
Found at i:12492902 original size:26 final size:25
Alignment explanation
Indices: 12492867--12492937 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 25
12492857 TCTACAAATA
12492867 TTTTTCTATGATGCAAATGCAAACGTC
1 TTTTT-TATGATGCAAATGCAAACG-C
* *
12492894 TTTTTTATGATACAAATGCAAATGC
1 TTTTTTATGATGCAAATGCAAACGC
* *
12492919 TTTGATTATGATGTAAATG
1 TTT-TTTATGATGCAAATG
12492938 ATATAAATGC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
25 4 0.11
26 29 0.76
27 5 0.13
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.41
Consensus pattern (25 bp):
TTTTTTATGATGCAAATGCAAACGC
Found at i:12492965 original size:35 final size:35
Alignment explanation
Indices: 12492900--12492966 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
12492890 CGTCTTTTTT
*
12492900 ATGATACAAATGCAAATGCTTTGATTATGATGTAA
1 ATGATACAAATGCAAATGCTTTGATCATGATGTAA
* * *
12492935 ATGATATAAATGCGAATGTCTTT-CTCATGATG
1 ATGATACAAATGCAAATG-CTTTGATCATGATG
12492967 CAGATGTAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 23 0.85
36 4 0.15
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (35 bp):
ATGATACAAATGCAAATGCTTTGATCATGATGTAA
Found at i:12493024 original size:32 final size:32
Alignment explanation
Indices: 12492987--12493065 Score: 106
Period size: 32 Copynumber: 2.5 Consensus size: 32
12492977 TGATGCAACT
*
12492987 GCGAATATCTTTTTTATGATGTAGATACGAA-A
1 GCGAATGTCTTTTTTATGATGTAGATAC-AAGA
* * *
12493019 GCGAATGTCTTTCTTATGATGTATATACAAGT
1 GCGAATGTCTTTTTTATGATGTAGATACAAGA
12493051 GCGAATGTCTTTTTT
1 GCGAATGTCTTTTTT
12493066 TTTTATAGCA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
31 2 0.05
32 39 0.95
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.42
Consensus pattern (32 bp):
GCGAATGTCTTTTTTATGATGTAGATACAAGA
Found at i:12493768 original size:55 final size:55
Alignment explanation
Indices: 12493701--12493809 Score: 191
Period size: 55 Copynumber: 2.0 Consensus size: 55
12493691 TTTTTAATGG
* *
12493701 GTACTGATCTTTTAAAAGATTTTGTATCGTAATTTTTTATTTTAGATAGAACCTA
1 GTACTAATCTTTTAAAAGATTTTGTATCGTAACTTTTTATTTTAGATAGAACCTA
*
12493756 GTACTAATCTTTTAAAAGATTTTGTATCGTAACTTTTTATTTTGGATAGAACCT
1 GTACTAATCTTTTAAAAGATTTTGTATCGTAACTTTTTATTTTAGATAGAACCT
12493810 TGAAACTCTA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (55 bp):
GTACTAATCTTTTAAAAGATTTTGTATCGTAACTTTTTATTTTAGATAGAACCTA
Found at i:12498439 original size:29 final size:24
Alignment explanation
Indices: 12498375--12498441 Score: 109
Period size: 24 Copynumber: 2.8 Consensus size: 24
12498365 CCTTTTATCT
12498375 ATTATTTC-TTTTTTTTTCATTTC
1 ATTATTTCTTTTTTTTTTCATTTC
*
12498398 ATTATTTCTTTTTTTTTTCTTTTC
1 ATTATTTCTTTTTTTTTTCATTTC
12498422 ATTATTTCTTTTTATTTTTC
1 ATTATTTCTTTTT-TTTTTC
12498442 TACCTGCTGC
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
23 8 0.20
24 27 0.66
25 6 0.15
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (24 bp):
ATTATTTCTTTTTTTTTTCATTTC
Found at i:12500670 original size:187 final size:191
Alignment explanation
Indices: 12500354--12500723 Score: 547
Period size: 187 Copynumber: 2.0 Consensus size: 191
12500344 TGACGATCCG
*
12500354 TTATTGCAGATAAAAATAAGTGTTCTAGCAATGGGTAAAAGGTATTGGAGCTGGTGACAAAGAGA
1 TTATTGCAGATAAAAATAAGTGATCTAGCAATGGGTAAAAGGTATTGGAGCTGGTGACAAAGAGA
* * * *
12500419 GGATGAAGACAATAGCAAAACTTGGGTAGCAAGAACCTGGACAGTATGAAAAAAAGACTGCATTT
66 GGATGAAAACAATAACAAAACTTAGGTAGCAAGAACCTGGACAATATGAAAAAAAGACTGCATTT
* * * *
12500484 TTTAAAAAGT-G-GA-AAAAAAAAA-GAGTTTTTGAATAAGGTAGAAGTGATGATGGTTTA
131 TTGAAAAAATGGAGAGAAAAAAAAAGGAATTTTTGAAGAAGGTAGAAGTGATGATGGTTTA
12500541 TTATTGCAGATAAAAATAAGTGATCTAGCAATGGGTAAAAGGTAGTT-GAGCTGGTGACAAAGAG
1 TTATTGCAGATAAAAATAAGTGATCTAGCAATGGGTAAAAGGTA-TTGGAGCTGGTGACAAAGAG
* * *
12500605 AGGATGAAAACAATAACAAAACTTAGGTAGTATA-AACCTGGACAATATG-AAAGAAGAATTGCA
65 AGGATGAAAACAATAACAAAACTTAGGTAGCA-AGAACCTGGACAATATGAAAAAAAG-ACTGCA
*
12500668 TTTTTGAAAAAATGGAGAGAAAAAAAAAGGAATTTTTTAAGAAGGTAGAAGTGATG
128 TTTTTGAAAAAATGGAGAGAAAAAAAAAGGAATTTTTGAAGAAGGTAGAAGTGATG
12500724 GTTTTCTGGA
Statistics
Matches: 163, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
186 6 0.04
187 118 0.72
188 4 0.02
189 2 0.01
190 9 0.06
191 24 0.15
ACGTcount: A:0.44, C:0.07, G:0.25, T:0.24
Consensus pattern (191 bp):
TTATTGCAGATAAAAATAAGTGATCTAGCAATGGGTAAAAGGTATTGGAGCTGGTGACAAAGAGA
GGATGAAAACAATAACAAAACTTAGGTAGCAAGAACCTGGACAATATGAAAAAAAGACTGCATTT
TTGAAAAAATGGAGAGAAAAAAAAAGGAATTTTTGAAGAAGGTAGAAGTGATGATGGTTTA
Found at i:12501193 original size:3 final size:3
Alignment explanation
Indices: 12501185--12501232 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
12501175 AAGGTTTTGA
12501185 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
12501233 TTACTCATGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:12502340 original size:3 final size:3
Alignment explanation
Indices: 12502332--12502387 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
12502322 AATGCCATAA
12502332 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
12502380 ATT ATT AT
1 ATT ATT AT
12502388 GCAATTTAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:12502798 original size:18 final size:17
Alignment explanation
Indices: 12502746--12502821 Score: 55
Period size: 18 Copynumber: 4.4 Consensus size: 17
12502736 TGTATTTTTC
* *
12502746 AAAAAAATAATTAAAA-
1 AAAATAATAATAAAAAT
* *
12502762 AATATAATAATAATCAAT
1 AAAATAATAATAA-AAAT
12502780 AAAATAATAATTAAAAAT
1 AAAATAATAA-TAAAAAT
* * *
12502798 AGAATTAGAATAAAAAT
1 AAAATAATAATAAAAAT
*
12502815 TAAATAA
1 AAAATAA
12502822 AAAAGACAAA
Statistics
Matches: 45, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
16 10 0.22
17 13 0.29
18 19 0.42
19 3 0.07
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.26
Consensus pattern (17 bp):
AAAATAATAATAAAAAT
Found at i:12506175 original size:44 final size:44
Alignment explanation
Indices: 12506120--12506209 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 44
12506110 AAATAATAAT
12506120 TAATATATAAGCACAAACATTTCCCCATAAGATCAAACATCTTA
1 TAATATATAAGCACAAACATTTCCCCATAAGATCAAACATCTTA
* * * **
12506164 TAATATGTAAGCATAAACCTTTCCTTATAAGATCAAACATCTTA
1 TAATATATAAGCACAAACATTTCCCCATAAGATCAAACATCTTA
12506208 TA
1 TA
12506210 TACTTGAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.31
Consensus pattern (44 bp):
TAATATATAAGCACAAACATTTCCCCATAAGATCAAACATCTTA
Found at i:12506436 original size:22 final size:22
Alignment explanation
Indices: 12506411--12506454 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
12506401 CTAAATCTTC
12506411 CTTAATTCTA-AGGATACAAATA
1 CTTAATTCTAGA-GATACAAATA
12506433 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
12506455 TAAATATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:12507037 original size:20 final size:20
Alignment explanation
Indices: 12507012--12507051 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
12507002 TGTAGACACC
*
12507012 CAATTGGGTCTGGCCCAAAT
1 CAATTGGGCCTGGCCCAAAT
12507032 CAATTGGGCCTGGCCCAAAT
1 CAATTGGGCCTGGCCCAAAT
12507052 GGGTAAGCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.23
Consensus pattern (20 bp):
CAATTGGGCCTGGCCCAAAT
Found at i:12507138 original size:10 final size:11
Alignment explanation
Indices: 12507121--12507209 Score: 57
Period size: 12 Copynumber: 8.5 Consensus size: 11
12507111 TTTTATGTAT
12507121 TGTATTATTTA
1 TGTATTATTTA
12507132 T-TATTA-TTA
1 TGTATTATTTA
*
12507141 TGTATTAATATA
1 TGTATT-ATTTA
12507153 TGTATATATTTA
1 TGTAT-TATTTA
* *
12507165 TTTATT-TTTT
1 TGTATTATTTA
*
12507175 TGTTAGTATTTA
1 TG-TATTATTTA
*
12507187 TGT-GTA-TT-
1 TGTATTATTTA
12507195 T-TATTATTTA
1 TGTATTATTTA
12507205 TGTAT
1 TGTAT
12507210 ATATATATAT
Statistics
Matches: 60, Mismatches: 8, Indels: 20
0.68 0.09 0.23
Matches are distributed among these distances:
7 1 0.02
8 3 0.05
9 8 0.13
10 17 0.28
11 10 0.17
12 20 0.33
13 1 0.02
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (11 bp):
TGTATTATTTA
Found at i:12507141 original size:13 final size:13
Alignment explanation
Indices: 12507109--12507162 Score: 51
Period size: 12 Copynumber: 4.3 Consensus size: 13
12507099 TCTTCTTTTG
12507109 TATT-TTATGTAT
1 TATTATTATGTAT
* *
12507121 T-GTATTATTTAT
1 TATTATTATGTAT
12507133 TATTATTATGTAT
1 TATTATTATGTAT
*
12507146 TAATA-TATGTAT
1 TATTATTATGTAT
12507158 ATATT
1 -TATT
12507163 TATTTATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
11 1 0.03
12 16 0.48
13 16 0.48
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.61
Consensus pattern (13 bp):
TATTATTATGTAT
Found at i:12507171 original size:58 final size:60
Alignment explanation
Indices: 12507104--12507230 Score: 138
Period size: 62 Copynumber: 2.1 Consensus size: 60
12507094 TTTCTTCTTC
* * *
12507104 TTTTGTATTTTATGTATTGTA-TTAT-T-TATTATTATTATGTAT-TA-ATATATGTATATA
1 TTTTTTATTTTATGT-TAGTATTTATGTGTATT-TTATTATGTATGTATATATATATATATA
* *
12507161 TTTATTTATTTTTTTGTTAGTATTTATGTGTATTTTATTATTTATGTATATATATATATATA
1 TTT-TTTA-TTTTATGTTAGTATTTATGTGTATTTTATTATGTATGTATATATATATATATA
12507223 TTTTTTAT
1 TTTTTTAT
12507231 CTTTTTTATT
Statistics
Matches: 58, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
57 3 0.05
58 7 0.12
59 11 0.19
60 12 0.21
61 10 0.17
62 15 0.26
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.65
Consensus pattern (60 bp):
TTTTTTATTTTATGTTAGTATTTATGTGTATTTTATTATGTATGTATATATATATATATA
Found at i:12507261 original size:64 final size:63
Alignment explanation
Indices: 12507118--12507296 Score: 163
Period size: 65 Copynumber: 2.8 Consensus size: 63
12507108 GTATTTTATG
*
12507118 TATTGTATTATTTATTATTATTATGTATTAATATATGTATATATTTATTTA-TTTTTTTGTTAGT
1 TATTGTATT-TTTATTA-TATTATGTA-T-ATATATATATATATTT-TTTATTTTTTTTGTTAGT
12507182 ATT
61 ATT
* *
12507185 TATGTGTA-TTTTATTAT-TTATGTATATATATATATATATTTTTTATCTTTTTTATTTTATTCA
1 TAT-TGTATTTTTATTATATTATGTATATATATATATATATTTTTTAT-TTTTTT-TGTTAGT-A
12507248 TT
62 TT
* * *
12507250 T-TTGTATTTTTACTTATCTAAT-TATATATCTGATATAT-TTTTTTATT
1 TATTGTATTTTTA-TTATATTATGTATATATAT-ATATATATTTTTTATT
12507297 ATTATTTATC
Statistics
Matches: 98, Mismatches: 5, Indels: 21
0.79 0.04 0.17
Matches are distributed among these distances:
61 4 0.04
62 15 0.15
63 11 0.11
64 19 0.19
65 25 0.26
66 16 0.16
67 4 0.04
68 4 0.04
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.65
Consensus pattern (63 bp):
TATTGTATTTTTATTATATTATGTATATATATATATATATTTTTTATTTTTTTTGTTAGTATT
Found at i:12507667 original size:26 final size:24
Alignment explanation
Indices: 12507625--12507678 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
12507615 CTGGGAGTGA
*
12507625 GAAAAATTTTTTAGAAATTTTTGG
1 GAAAAATTTTTTAGAAATTTCTGG
* *
12507649 CGAAAATTTTTTCTGGAAATTTCTGG
1 -GAAAAATTTTT-TAGAAATTTCTGG
12507675 GAAA
1 GAAA
12507679 TTTCCAGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.41
Consensus pattern (24 bp):
GAAAAATTTTTTAGAAATTTCTGG
Found at i:12508211 original size:12 final size:11
Alignment explanation
Indices: 12508191--12508237 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
12508181 TTTTTTTGAA
12508191 TTTTT-TTTAT
1 TTTTTATTTAT
*
12508201 TTCTTTGTTTAT
1 TT-TTTATTTAT
12508213 TTGTTTATTTTAT
1 TT-TTTA-TTTAT
12508226 TTTTTATTTAT
1 TTTTTATTTAT
12508237 T
1 T
12508238 AGATTAGGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 2 0.06
11 9 0.28
12 14 0.44
13 7 0.22
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.81
Consensus pattern (11 bp):
TTTTTATTTAT
Found at i:12508442 original size:116 final size:116
Alignment explanation
Indices: 12508313--12508705 Score: 628
Period size: 116 Copynumber: 3.4 Consensus size: 116
12508303 AAAAAATTCC
12508313 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAA
12508378 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCA
66 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCA
* *
12508429 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAA
*
12508494 TATTTTTGGGGAAGAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCA
66 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCA
* * *
12508545 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAATTTCAAAAA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT--AAATTTC-CAAA
* *
12508610 AAATATTTTTGGTGAAAAGTTGAAAGTATCAATTTTCCT-TGAAAATCGAAATTTC-
63 AAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAG-AAAT--AAATTTCA
* *
12508665 CAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
12508706 TCCTACAAAA
Statistics
Matches: 258, Mismatches: 13, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
116 161 0.62
118 7 0.03
119 44 0.17
120 39 0.15
121 7 0.03
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (116 bp):
AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAA
TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCA
Found at i:12508552 original size:60 final size:57
Alignment explanation
Indices: 12508306--12508710 Score: 555
Period size: 57 Copynumber: 6.9 Consensus size: 57
12508296 TAAAAATAAA
* * *
12508306 AAATTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
1 AAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC-TAGAAAT
*
12508364 AAATTTC-CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
1 AAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT-AGAAAT
*
12508421 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 AAATTTC-AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC-TAGAAAT
*
12508480 AAATTTTC--AAAAAATATTTTTGGGGAAGAGTTGAAAGTATCAATTTTCCTCAGAAAT
1 AAA-TTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT-AGAAAT
* * *
12508537 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
1 AAATTTC-AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTAG-AAAT
* *
12508596 CAAAATTTCAAAAAAAATATTTTTGGTGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
1 --AAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTAG-AAAT
*
12508656 CGAAATTTCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCCTA
1 --AAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAA-TTTTCCTA
12508711 CAAAAAAAAA
Statistics
Matches: 315, Mismatches: 19, Indels: 23
0.88 0.05 0.06
Matches are distributed among these distances:
56 6 0.02
57 100 0.32
58 7 0.02
59 92 0.29
60 96 0.30
61 14 0.04
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.34
Consensus pattern (57 bp):
AAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTAGAAAT
Found at i:12512526 original size:22 final size:22
Alignment explanation
Indices: 12512498--12512541 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
12512488 CTAAATCTTC
*
12512498 CTTAATTCTAGGAATACAAATA
1 CTTAATTCTAGAAATACAAATA
12512520 CTTAATTCTAGAAATACAAATA
1 CTTAATTCTAGAAATACAAATA
12512542 TAAATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAAATACAAATA
Found at i:12512553 original size:22 final size:22
Alignment explanation
Indices: 12512501--12512553 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
12512491 AATCTTCCTT
* * *
12512501 AATTCTAGGAATACAAATACTT
1 AATTATAGAAATACAAATACTA
*
12512523 AATTCTAGAAATACAAATA-TA
1 AATTATAGAAATACAAATACTA
12512544 AATATATAGA
1 AAT-TATAGA
12512554 TTACAAGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.53, C:0.09, G:0.08, T:0.30
Consensus pattern (22 bp):
AATTATAGAAATACAAATACTA
Found at i:12517946 original size:2 final size:2
Alignment explanation
Indices: 12517939--12517979 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
12517929 TAACGAACTT
* *
12517939 TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12517980 GTAATTATGC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12518017 original size:30 final size:32
Alignment explanation
Indices: 12517968--12518031 Score: 114
Period size: 30 Copynumber: 2.1 Consensus size: 32
12517958 ATATATATAT
12517968 ATATATTTATATGTAATTATGCTAGAGTAAAA
1 ATATATTTATATGTAATTATGCTAGAGTAAAA
12518000 ATATATTTAT-T-TAATTATGCTAGAGTAAAA
1 ATATATTTATATGTAATTATGCTAGAGTAAAA
12518030 AT
1 AT
12518032 CAATATAACC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 21 0.66
31 1 0.03
32 10 0.31
ACGTcount: A:0.44, C:0.03, G:0.11, T:0.42
Consensus pattern (32 bp):
ATATATTTATATGTAATTATGCTAGAGTAAAA
Found at i:12518269 original size:14 final size:15
Alignment explanation
Indices: 12518245--12518274 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
12518235 TAAGATTAAA
12518245 TTTCAAAGTTTTTGT
1 TTTCAAAGTTTTTGT
12518260 TTTC-AAGTTTTTGT
1 TTTCAAAGTTTTTGT
12518274 T
1 T
12518275 ATTATTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.17, C:0.07, G:0.13, T:0.63
Consensus pattern (15 bp):
TTTCAAAGTTTTTGT
Found at i:12524036 original size:13 final size:13
Alignment explanation
Indices: 12524017--12524056 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
12524007 ATCTACTTAA
12524017 ATATATTAAAATT
1 ATATATTAAAATT
* *
12524030 TTATATTAAAATA
1 ATATATTAAAATT
*
12524043 ATATATAAAAATT
1 ATATATTAAAATT
12524056 A
1 A
12524057 AAAAACTTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATATATTAAAATT
Found at i:12524812 original size:26 final size:26
Alignment explanation
Indices: 12524746--12524819 Score: 79
Period size: 26 Copynumber: 3.1 Consensus size: 26
12524736 AATAATTAAT
12524746 CTATTTTAGAAAGGCACAATATA-T-
1 CTATTTTAGAAAGGCACAATATAGTC
* * *
12524770 -TAATTT--CAA-GCAAAATATAGTC
1 CTATTTTAGAAAGGCACAATATAGTC
12524792 CTATTTTAGAAAGGCACAATATAGTC
1 CTATTTTAGAAAGGCACAATATAGTC
12524818 CT
1 CT
12524820 TAAAAGTAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
20 9 0.24
21 3 0.08
23 10 0.26
25 2 0.05
26 14 0.37
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (26 bp):
CTATTTTAGAAAGGCACAATATAGTC
Found at i:12526267 original size:13 final size:13
Alignment explanation
Indices: 12526249--12526273 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12526239 ATCATATGCA
12526249 ACAAATATTTTAG
1 ACAAATATTTTAG
12526262 ACAAATATTTTA
1 ACAAATATTTTA
12526274 AAAAAATGTA
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:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (13 bp):
ACAAATATTTTAG
Found at i:12528342 original size:26 final size:24
Alignment explanation
Indices: 12528300--12528353 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
12528290 CTGGGAGTGA
*
12528300 GAAAAATTTTTTAGAAATTTTTGG
1 GAAAAATTTTTTAGAAATTTCTGG
* *
12528324 CGAAAATTTTTTCTGGAAATTTCTGG
1 -GAAAAATTTTT-TAGAAATTTCTGG
12528350 GAAA
1 GAAA
12528354 TTTCCAGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.41
Consensus pattern (24 bp):
GAAAAATTTTTTAGAAATTTCTGG
Found at i:12529096 original size:58 final size:56
Alignment explanation
Indices: 12528947--12529271 Score: 530
Period size: 58 Copynumber: 5.7 Consensus size: 56
12528937 AAAATTCCAA
*
12528947 AAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
1 AAAAAA-ATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
*
12529005 CAAAAAA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
1 AAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
*
12529061 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTTC
1 -AAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
12529119 AAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAATAAATTTC
1 AAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
*
12529174 AAAAAAA-ATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTC
1 AAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT--AAATTTC
12529231 AAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCC
12529272 CTACAAAAAA
Statistics
Matches: 255, Mismatches: 4, Indels: 16
0.93 0.01 0.06
Matches are distributed among these distances:
54 35 0.14
55 25 0.10
56 75 0.29
57 35 0.14
58 84 0.33
59 1 0.00
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (56 bp):
AAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
Found at i:12529138 original size:114 final size:113
Alignment explanation
Indices: 12528946--12529271 Score: 554
Period size: 114 Copynumber: 2.9 Consensus size: 113
12528936 AAAAATTCCA
*
12528946 AAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATTTCCAAAA
1 AAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATAAATTTCAAAAA
12529010 AA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
64 AATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTT-AAAATAAATTTC
12529061 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTTCAAAAAAA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTTCAAAAAAA
12529126 TATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTTC
66 TATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTTC
12529174 -AAAAAAA-ATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTCAAAAA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT--AAATTTCAAAAA
12529236 AATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCC
64 AATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCC
12529272 CTACAAAAAA
Statistics
Matches: 206, Mismatches: 1, Indels: 11
0.94 0.00 0.05
Matches are distributed among these distances:
110 35 0.17
111 6 0.03
112 55 0.27
113 12 0.06
114 83 0.40
115 15 0.07
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (113 bp):
AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTTCAAAAAAA
TATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTTC
Found at i:12531622 original size:40 final size:41
Alignment explanation
Indices: 12531437--12531776 Score: 554
Period size: 41 Copynumber: 8.4 Consensus size: 41
12531427 NNTCAAAGTT
*
12531437 GTGCCTCTGTTTAGAGGAGCAATTT-TTTTTC-AAGTTCGT-
1 GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTG
* *
12531476 -TGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTG
1 GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTG
12531516 GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTG
1 GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTG
12531557 GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTG
1 GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTG
12531598 GTGCCTCTG-TTAGAGGAGCAATTTACTTTTCAAAGTCGTG
1 GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTG
12531638 GTGCCTCTG-TTAGAGGAGCAATTTACTTTTTCAAAGTCGTG
1 GTGCCTCTGTTTAGAGGAGCAATTTAC-TTTTCAAAGTCGTG
12531679 GTGCCTC--TTTAGAGGAGCAATTTACTTTTCCAAAGTCGTG
1 GTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGTG
*
12531719 GTGCCTCTGTTTAGA-GAGCAATTTATTTTTCAAAGTCGTG
1 GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTG
12531759 GTGCCTCTGTTTAGAGGA
1 GTGCCTCTGTTTAGAGGA
12531777 ACTTCGGCAA
Statistics
Matches: 285, Mismatches: 6, Indels: 18
0.92 0.02 0.06
Matches are distributed among these distances:
38 23 0.08
39 12 0.04
40 119 0.42
41 125 0.44
42 6 0.02
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.37
Consensus pattern (41 bp):
GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTG
Found at i:12531669 original size:81 final size:82
Alignment explanation
Indices: 12531437--12531776 Score: 554
Period size: 81 Copynumber: 4.2 Consensus size: 82
12531427 NNTCAAAGTT
* *
12531437 GTGCCTCTGTTTAGAGGAGCAATTT-TTTTTC-AAGTTCGT--TGCCTCTGTTGAGAGGAGCAAT
1 GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAAT
*
12531498 TTACTTTCCAAAGTCGTG
65 TTACTTTTCAAAGTCGTG
12531516 GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATT
1 GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATT
12531581 TACTTTTCAAAGTCGTG
66 TACTTTTCAAAGTCGTG
12531598 GTGCCTCTG-TTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTG-TTAGAGGAGCAATT
1 GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATT
12531661 TACTTTTTCAAAGTCGTG
66 TAC-TTTTCAAAGTCGTG
12531679 GTGCCTC--TTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGA-GAGCAAT
1 GTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAAT
*
12531741 TTATTTTTCAAAGTCGTG
65 TTACTTTTCAAAGTCGTG
12531759 GTGCCTCTGTTTAGAGGA
1 GTGCCTCTGTTTAGAGGA
12531777 ACTTCGGCAA
Statistics
Matches: 247, Mismatches: 4, Indels: 17
0.92 0.01 0.06
Matches are distributed among these distances:
79 25 0.10
80 68 0.28
81 93 0.38
82 61 0.25
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.37
Consensus pattern (82 bp):
GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATT
TACTTTTCAAAGTCGTG
Found at i:12531791 original size:1 final size:1
Alignment explanation
Indices: 12531785--12531895 Score: 123
Period size: 1 Copynumber: 111.0 Consensus size: 1
12531775 GAACTTCGGC
* * * * *
12531785 AAAAAAAAAACAAAAAAAAAAAAAAAACAAAAAAAAAAAACAAAAAAAACAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * ** *
12531850 ACAAAAAACAAAAAAACAAAAAAAAAAAAAAATCAAAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
12531896 TGTTGAGTTG
Statistics
Matches: 89, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 89 1.00
ACGTcount: A:0.90, C:0.08, G:0.00, T:0.02
Consensus pattern (1 bp):
A
Found at i:12531807 original size:17 final size:17
Alignment explanation
Indices: 12531785--12531895 Score: 145
Period size: 17 Copynumber: 6.3 Consensus size: 17
12531775 GAACTTCGGC
12531785 AAAAAAAAAACAAAAAA
1 AAAAAAAAAACAAAAAA
12531802 AAAAAAAAAACAAAAAA
1 AAAAAAAAAACAAAAAA
12531819 AAAAAACAAAA-AAAACAA
1 AAAAAA-AAAACAAAA-AA
12531837 AAAAAACAAAA-AAACAAA
1 AAAAAA-AAAACAAA-AAA
12531855 AAACAAAAAAACAAAAAA
1 AAA-AAAAAAACAAAAAA
*
12531873 AAAAAAAAATCAAAAAA
1 AAAAAAAAAACAAAAAA
12531890 TAAAAA
1 -AAAAA
12531896 TGTTGAGTTG
Statistics
Matches: 87, Mismatches: 1, Indels: 11
0.88 0.01 0.11
Matches are distributed among these distances:
17 40 0.46
18 40 0.46
19 7 0.08
ACGTcount: A:0.90, C:0.08, G:0.00, T:0.02
Consensus pattern (17 bp):
AAAAAAAAAACAAAAAA
Found at i:12531835 original size:39 final size:41
Alignment explanation
Indices: 12531787--12531881 Score: 160
Period size: 39 Copynumber: 2.4 Consensus size: 41
12531777 ACTTCGGCAA
12531787 AAAAAAAACAAAAAAAAAAAAAAAAC-AAAAA-AAAAAAAC
1 AAAAAAAACAAAAAAAAAAAAAAAACAAAAAACAAAAAAAC
*
12531826 AAAAAAAACAAAAAAAACAAAAAAACAAAAAACAAAAAAAC
1 AAAAAAAACAAAAAAAAAAAAAAAACAAAAAACAAAAAAAC
12531867 AAAAAAAA-AAAAAAA
1 AAAAAAAACAAAAAAA
12531882 TCAAAAAATA
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
39 25 0.47
40 12 0.23
41 16 0.30
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (41 bp):
AAAAAAAACAAAAAAAAAAAAAAAACAAAAAACAAAAAAAC
Found at i:12531888 original size:39 final size:37
Alignment explanation
Indices: 12531786--12531895 Score: 141
Period size: 39 Copynumber: 2.8 Consensus size: 37
12531776 AACTTCGGCA
*
12531786 AAAAAAAAACAAAAAAAAAAAAAAAACAAAAAAAAAAA
1 AAAAAAAAAC-AAAAAAAAAAAAAAACAAAAAACAAAA
12531824 ACAAAAAAAACAAAAAAAACAAAAAAACAAAAAACAAAA
1 A-AAAAAAAACAAAAAAAA-AAAAAAACAAAAAACAAAA
*
12531863 AAACAAAAAA-AAAAAAAAATCAAAAAATAAAAA
1 AAA-AAAAAACAAAAAAAAA--AAAAAACAAAAA
12531896 TGTTGAGTTG
Statistics
Matches: 65, Mismatches: 2, Indels: 9
0.86 0.03 0.12
Matches are distributed among these distances:
37 1 0.02
38 19 0.29
39 45 0.69
ACGTcount: A:0.90, C:0.08, G:0.00, T:0.02
Consensus pattern (37 bp):
AAAAAAAAACAAAAAAAAAAAAAAACAAAAAACAAAA
Found at i:12532269 original size:22 final size:24
Alignment explanation
Indices: 12532243--12532296 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 24
12532233 TTATTATCTG
12532243 TTAATTTTATCTGAT-TT-TTTTT
1 TTAATTTTATCTGATATTATTTTT
12532265 TTAA--TTATCTGATATTATTTTT
1 TTAATTTTATCTGATATTATTTTT
*
12532287 TTATTTTTAT
1 TTAATTTTAT
12532297 ACTATCATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 9 0.33
21 2 0.07
22 12 0.44
24 4 0.15
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (24 bp):
TTAATTTTATCTGATATTATTTTT
Found at i:12532274 original size:20 final size:22
Alignment explanation
Indices: 12532249--12532289 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
12532239 TCTGTTAATT
12532249 TTATCTGAT-TT-TTTTTTTAA
1 TTATCTGATATTATTTTTTTAA
12532269 TTATCTGATATTATTTTTTTA
1 TTATCTGATATTATTTTTTTA
12532290 TTTTTATACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (22 bp):
TTATCTGATATTATTTTTTTAA
Found at i:12533308 original size:58 final size:59
Alignment explanation
Indices: 12533245--12533467 Score: 264
Period size: 58 Copynumber: 3.8 Consensus size: 59
12533235 AAATAAAAAA
*
12533245 TTCCAAAAAATATTTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAATCGAAT
1 TTCCAAAAAATATTTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCGAAT
* *
12533303 TTCCAAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAT
1 TTCCAAAAAATAT-TTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCGAAT
* *
12533361 TTTCAAAAAAAAGGGGGTTTTTT-GAGGAAAAGTTGAAAGT-TCAATTTTCCTTAAAAATCGAAA
1 TTCCAAAAAATA-----TTTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCG-AA
12533424 T
59 T
*
12533425 TTTC-AAAAATA-TTTTTAGGGAAAAGTTGAAAGTATC-ATTTTCC
1 TTCCAAAAAATATTTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
12533468 CTACAAAAAA
Statistics
Matches: 146, Mismatches: 6, Indels: 27
0.82 0.03 0.15
Matches are distributed among these distances:
57 29 0.20
58 59 0.40
59 5 0.03
62 19 0.13
63 26 0.18
64 8 0.05
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (59 bp):
TTCCAAAAAATATTTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCGAAT
Found at i:12534738 original size:19 final size:19
Alignment explanation
Indices: 12534700--12534738 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
12534690 TAACATTATT
*
12534700 AATATAAAACACATATATA
1 AATATAAAACACATAAATA
12534719 AATATAAAACTA-ATAAATA
1 AATATAAAAC-ACATAAATA
12534738 A
1 A
12534739 TTAAAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.26
Consensus pattern (19 bp):
AATATAAAACACATAAATA
Found at i:12538311 original size:18 final size:18
Alignment explanation
Indices: 12538288--12538325 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
12538278 TTAAATTTAT
12538288 TTATAATTTTTATTAAAA
1 TTATAATTTTTATTAAAA
*
12538306 TTATAATTTTTGTTAAAA
1 TTATAATTTTTATTAAAA
12538324 TT
1 TT
12538326 TTGAGTACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
TTATAATTTTTATTAAAA
Found at i:12539699 original size:22 final size:22
Alignment explanation
Indices: 12539671--12539714 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
12539661 CTAAATCTTC
12539671 CTTAATTCTAG-GAATACAAATA
1 CTTAATTCTAGAG-ATACAAATA
12539693 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
12539715 TAAATATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:12547610 original size:2 final size:2
Alignment explanation
Indices: 12547603--12547634 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
12547593 CCCTCACTGG
12547603 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12547635 GTTTACAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12553109 original size:15 final size:15
Alignment explanation
Indices: 12553089--12553118 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
12553079 AAAAAGTGGA
12553089 ATAAAAATTTTATTG
1 ATAAAAATTTTATTG
12553104 ATAAAAATTTTATTG
1 ATAAAAATTTTATTG
12553119 TTTTTCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (15 bp):
ATAAAAATTTTATTG
Found at i:12554062 original size:34 final size:34
Alignment explanation
Indices: 12554019--12554098 Score: 79
Period size: 34 Copynumber: 2.4 Consensus size: 34
12554009 TGCATGTGTA
* *
12554019 GTAAATTTTATAACTTACCAGATATAAAAATCTG
1 GTAAGTTTTATAACTTACCAGATATAAAAATCCG
* * ** ** *
12554053 GTAAGTTTTACAATTTATGAGATATGCATATCCG
1 GTAAGTTTTATAACTTACCAGATATAAAAATCCG
12554087 GTAAGTTTTATA
1 GTAAGTTTTATA
12554099 CTTTACCGGA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.39
Consensus pattern (34 bp):
GTAAGTTTTATAACTTACCAGATATAAAAATCCG
Found at i:12562034 original size:22 final size:22
Alignment explanation
Indices: 12562006--12562049 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
12561996 CTAAATTTTT
*
12562006 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
12562028 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
12562050 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:12567517 original size:30 final size:32
Alignment explanation
Indices: 12567468--12567531 Score: 105
Period size: 30 Copynumber: 2.1 Consensus size: 32
12567458 AAATATATAT
12567468 ATATATTTATATGTAATTATGCTAGAGTAAAA
1 ATATATTTATATGTAATTATGCTAGAGTAAAA
*
12567500 ATATATTTAT-T-TAATTATGTTAGAGTAAAA
1 ATATATTTATATGTAATTATGCTAGAGTAAAA
12567530 AT
1 AT
12567532 CAATATAACC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 20 0.65
31 1 0.03
32 10 0.32
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.44
Consensus pattern (32 bp):
ATATATTTATATGTAATTATGCTAGAGTAAAA
Found at i:12567769 original size:14 final size:15
Alignment explanation
Indices: 12567745--12567774 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
12567735 TAAGATTAAA
12567745 TTTCAAAGTTTTTGT
1 TTTCAAAGTTTTTGT
12567760 TTTC-AAGTTTTTGT
1 TTTCAAAGTTTTTGT
12567774 T
1 T
12567775 ATTATTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.17, C:0.07, G:0.13, T:0.63
Consensus pattern (15 bp):
TTTCAAAGTTTTTGT
Found at i:12573526 original size:13 final size:13
Alignment explanation
Indices: 12573508--12573533 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12573498 AATCTACTTA
12573508 AATATATTAAAAT
1 AATATATTAAAAT
12573521 AATATATTAAAAT
1 AATATATTAAAAT
12573534 TAAAAATTGA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATATTAAAAT
Found at i:12578580 original size:7 final size:7
Alignment explanation
Indices: 12578568--12578629 Score: 56
Period size: 7 Copynumber: 8.9 Consensus size: 7
12578558 TGTTAAATAT
12578568 AAATAAA
1 AAATAAA
12578575 AAATAAA
1 AAATAAA
*
12578582 AAACAAA
1 AAATAAA
*
12578589 AAA-AAT
1 AAATAAA
12578595 AAAT-AA
1 AAATAAA
12578601 AAATAAA
1 AAATAAA
**
12578608 AAGGGAAA
1 AA-ATAAA
12578616 AAATAAA
1 AAATAAA
12578623 TAAATAA
1 -AAATAA
12578630 GGTGACAAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
6 10 0.23
7 23 0.52
8 11 0.25
ACGTcount: A:0.81, C:0.02, G:0.05, T:0.13
Consensus pattern (7 bp):
AAATAAA
Found at i:12578608 original size:25 final size:26
Alignment explanation
Indices: 12578566--12578626 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
12578556 TTTGTTAAAT
12578566 ATAAATAAAAAATAAAAAACAAAAAAA
1 ATAAAT-AAAAATAAAAAACAAAAAAA
***
12578593 ATAAATAAAAAT-AAAAAGGGAAAAA
1 ATAAATAAAAATAAAAAACAAAAAAA
12578618 ATAAATAAA
1 ATAAATAAA
12578627 TAAGGTGACA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 19 0.61
26 6 0.19
27 6 0.19
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.13
Consensus pattern (26 bp):
ATAAATAAAAATAAAAAACAAAAAAA
Found at i:12579948 original size:18 final size:18
Alignment explanation
Indices: 12579925--12579959 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12579915 TAAATTTATT
12579925 TATAATTTTTATTAAAAA
1 TATAATTTTTATTAAAAA
*
12579943 TATAATTTTTGTTAAAA
1 TATAATTTTTATTAAAA
12579960 TTTTGAGTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TATAATTTTTATTAAAAA
Found at i:12581340 original size:22 final size:22
Alignment explanation
Indices: 12581312--12581355 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
12581302 CTAAATCTTC
12581312 CTTAATTCTAG-GAATACAAATA
1 CTTAATTCTAGAG-ATACAAATA
12581334 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
12581356 TAAATATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:12584433 original size:2 final size:2
Alignment explanation
Indices: 12584421--12584454 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
12584411 TTTGTTGATA
12584421 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12584455 CCCAAACTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:12601735 original size:37 final size:36
Alignment explanation
Indices: 12601688--12601762 Score: 91
Period size: 35 Copynumber: 2.1 Consensus size: 36
12601678 TAAGAACATT
*
12601688 TTTTGAATTATAAATTAA-AAATTTATTTTAAATTTTTA
1 TTTTGAATTAT-AATTAATAAA-TT-TTTAAAATTTTTA
*
12601726 TTTT-AATTATAATTAATTAATTTTTAAAATTTTTA
1 TTTTGAATTATAATTAATAAATTTTTAAAATTTTTA
12601761 TT
1 TT
12601763 CAATTAAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
35 14 0.41
36 8 0.24
37 8 0.24
38 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (36 bp):
TTTTGAATTATAATTAATAAATTTTTAAAATTTTTA
Found at i:12602036 original size:18 final size:17
Alignment explanation
Indices: 12602015--12602072 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
12602005 AAAATAAAAA
*
12602015 ATAAAAAATTGTTTAATT
1 ATAAATAATT-TTTAATT
*
12602033 ATAATTAATTTTTAATTT
1 ATAAATAATTTTTAA-TT
* *
12602051 TTAAATAATTATTAAATT
1 ATAAATAATT-TTTAATT
12602069 ATAA
1 ATAA
12602073 TTTAAAGATA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
17 5 0.16
18 23 0.72
19 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
ATAAATAATTTTTAATT
Found at i:12603282 original size:20 final size:20
Alignment explanation
Indices: 12603259--12603300 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
12603249 ACGATCACAT
12603259 AAAACTATAATTAATCAAAG
1 AAAACTATAATTAATCAAAG
12603279 AAAACTATAATTAATCAAAG
1 AAAACTATAATTAATCAAAG
12603299 AA
1 AA
12603301 CTGATTACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.62, C:0.10, G:0.05, T:0.24
Consensus pattern (20 bp):
AAAACTATAATTAATCAAAG
Found at i:12605245 original size:111 final size:109
Alignment explanation
Indices: 12605051--12605275 Score: 346
Period size: 111 Copynumber: 2.0 Consensus size: 109
12605041 TAAGGATATG
* *
12605051 AGAATATGACCCTTCAAATATAGGGGAAATCTTAGGAACAACTGAAAGCACATGAGCAAACACCC
1 AGAATATGAACCTTCAAATATAGGGGAAATCTTAGGAACAACTGAAAGCACAT-AGCAAACACAC
* **
12605116 CTATCGTCAACATTCACACCAAATTTCAAGAGAACTTGGGGACAAT
65 CTATCGTCAAAATTCACACCAAATTTCAAGAGAAC-CAGGGACAAT
12605162 AGAATATGAACCTTCAAATATAGGGGAAATCTTAGGAACAACTGAAAGCACAT-GCAAACACATA
1 AGAATATGAACCTTCAAATATAGGGGAAATCTTAGGAACAACTGAAAGCACATAGCAAACAC--A
12605226 CCTATC-TCCAAAATTCACACCAAATTTCAAGAGAACCAGGGACAAT
64 CCTATCGT-CAAAATTCACACCAAATTTCAAGAGAACCAGGGACAAT
12605272 AGAA
1 AGAA
12605276 CAAACTTTAC
Statistics
Matches: 106, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
109 8 0.08
110 13 0.12
111 85 0.80
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19
Consensus pattern (109 bp):
AGAATATGAACCTTCAAATATAGGGGAAATCTTAGGAACAACTGAAAGCACATAGCAAACACACC
TATCGTCAAAATTCACACCAAATTTCAAGAGAACCAGGGACAAT
Found at i:12605546 original size:23 final size:23
Alignment explanation
Indices: 12605520--12605575 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
12605510 GCTAAATATA
* **
12605520 TACATGCATTAGCCTTGCAGGTT
1 TACATGCATTAGCCTTACACATT
12605543 TACATGCATTAGCCTTACACATT
1 TACATGCATTAGCCTTACACATT
12605566 TACATGCATT
1 TACATGCATT
12605576 TCTGTAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (23 bp):
TACATGCATTAGCCTTACACATT
Found at i:12608438 original size:17 final size:17
Alignment explanation
Indices: 12608416--12608451 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
12608406 CAAATGACAA
12608416 AGCAATTTTATCATCAC
1 AGCAATTTTATCATCAC
12608433 AGCAATTTTATCATCAC
1 AGCAATTTTATCATCAC
12608450 AG
1 AG
12608452 TCATTAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.33
Consensus pattern (17 bp):
AGCAATTTTATCATCAC
Found at i:12614183 original size:50 final size:50
Alignment explanation
Indices: 12614119--12614218 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 50
12614109 ATTGATTTTT
* * *
12614119 CCTTTAGGACTATTATTTTCTATGCATCGGCAGTGCACAATTTTCTTTAC
1 CCTTTAGGACTATTATTTTCTATACATCAGCAGTGCACAACTTTCTTTAC
12614169 CCTTTAGGACTATTATTTTCTATACATCAGCAGTGCACAACTTTCTTTAC
1 CCTTTAGGACTATTATTTTCTATACATCAGCAGTGCACAACTTTCTTTAC
12614219 TTCTTTATAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.41
Consensus pattern (50 bp):
CCTTTAGGACTATTATTTTCTATACATCAGCAGTGCACAACTTTCTTTAC
Found at i:12615973 original size:22 final size:22
Alignment explanation
Indices: 12615942--12615983 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
12615932 ATGAAATGAC
* *
12615942 AAATAGGATAATTTTTTTAAAA
1 AAATAAGATAATTATTTTAAAA
12615964 AAATAAGATAATTATTTTAA
1 AAATAAGATAATTATTTTAA
12615984 TTACAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.40
Consensus pattern (22 bp):
AAATAAGATAATTATTTTAAAA
Found at i:12615991 original size:24 final size:22
Alignment explanation
Indices: 12615940--12616000 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
12615930 CTATGAAATG
* *
12615940 ACAAATAGGATAATTTTTTTAA
1 ACAAATAAGATAATTATTTTAA
*
12615962 AAAAATAAGATAATTATTTTAA
1 ACAAATAAGATAATTATTTTAA
12615984 TTACAAATTAA-ATAATT
1 --ACAAA-TAAGATAATT
12616001 TTAAATTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 19 0.59
24 10 0.31
25 3 0.09
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.39
Consensus pattern (22 bp):
ACAAATAAGATAATTATTTTAA
Found at i:12618392 original size:19 final size:19
Alignment explanation
Indices: 12618368--12618405 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
12618358 TACTAAATTA
12618368 TTTGGAAACTATATAAATG
1 TTTGGAAACTATATAAATG
12618387 TTTGGAAACTATATAAATG
1 TTTGGAAACTATATAAATG
12618406 CTGAAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.16, T:0.37
Consensus pattern (19 bp):
TTTGGAAACTATATAAATG
Found at i:12619131 original size:66 final size:67
Alignment explanation
Indices: 12619060--12619205 Score: 192
Period size: 66 Copynumber: 2.2 Consensus size: 67
12619050 TTTTAATCTT
* *
12619060 ATTTTTAAAATTTTTTG-TTTCTCTTTATGTATATGATTGTATTATAATTTTTGGAAAA-TTTTT
1 ATTTTTAAAATTTTTTGTTTTCTCTTTACGTATATGATTG-ATTATAATTTTTGAAAAACTTTTT
12619123 ATG
65 ATG
* * * *
12619126 ATTTTT--AATTTGTTTGTTTTTTCTTTACGTGTGTGATTGATTATAATTTTTTAAAAACTTTTT
1 ATTTTTAAAATTT-TTTGTTTTCTCTTTACGTATATGATTGATTATAATTTTTGAAAAACTTTTT
12619189 ATG
65 ATG
12619192 ATTTTTAAAATTTT
1 ATTTTTAAAATTTT
12619206 CTTGCTTTAT
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
64 5 0.07
65 20 0.29
66 38 0.55
67 1 0.01
68 5 0.07
ACGTcount: A:0.26, C:0.03, G:0.10, T:0.60
Consensus pattern (67 bp):
ATTTTTAAAATTTTTTGTTTTCTCTTTACGTATATGATTGATTATAATTTTTGAAAAACTTTTTA
TG
Found at i:12619650 original size:29 final size:30
Alignment explanation
Indices: 12619589--12619651 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
12619579 TTTATTTTTG
* *
12619589 TATTTTTGTATTTGTATTTGTATTTTGTTT
1 TATTTTTGTATTTGTATTTGTAATTTGTCT
*
12619619 TATTTTT-TATTTGTATTTATTAATTTG-CT
1 TATTTTTGTATTTGTATTT-GTAATTTGTCT
12619648 TATT
1 TATT
12619652 AATTGGTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 16 0.55
30 13 0.45
ACGTcount: A:0.17, C:0.02, G:0.10, T:0.71
Consensus pattern (30 bp):
TATTTTTGTATTTGTATTTGTAATTTGTCT
Found at i:12627349 original size:56 final size:56
Alignment explanation
Indices: 12627289--12627400 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 56
12627279 AATTAGCAAT
* *
12627289 GATACATAATGTCAACATAGTTATGGGAAACATAAATTAGTGTAGGCTATATTATA
1 GATACATAATGTCAACATAGTCATGGGAAACATAAATTAGTGTAGGCAATATTATA
12627345 GATACATAATGTCAACATAGTCATGGGAAACATAAATTAGTGTAGGCAATATTATA
1 GATACATAATGTCAACATAGTCATGGGAAACATAAATTAGTGTAGGCAATATTATA
12627401 AACTCCAATT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.30
Consensus pattern (56 bp):
GATACATAATGTCAACATAGTCATGGGAAACATAAATTAGTGTAGGCAATATTATA
Found at i:12629720 original size:27 final size:27
Alignment explanation
Indices: 12629690--12629742 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
12629680 GAAATACTAT
12629690 ATATTCTT-TTAATTTTAATTTT-TTATA
1 ATATT-TTGTTAATTTT-ATTTTGTTATA
*
12629717 ATATTTTGTTTATTTTATTTTGTTAT
1 ATATTTTGTTAATTTTATTTTGTTAT
12629743 TATTTTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (27 bp):
ATATTTTGTTAATTTTATTTTGTTATA
Found at i:12630418 original size:9 final size:9
Alignment explanation
Indices: 12630401--12630430 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
12630391 TATATTTAAT
12630401 AAATATTTTA
1 AAAT-TTTTA
12630411 AAATTTTTA
1 AAATTTTTA
12630420 AAATTTTTA
1 AAATTTTTA
12630429 AA
1 AA
12630431 TGTGAAGTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.80
10 4 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
AAATTTTTA
Found at i:12631659 original size:10 final size:10
Alignment explanation
Indices: 12631644--12631682 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
12631634 TTTCAAGAAC
12631644 AAAAAAAATA
1 AAAAAAAATA
*
12631654 AAAAAAAATG
1 AAAAAAAATA
*
12631664 AAAAAAAACA
1 AAAAAAAATA
12631674 AAATAAAAA
1 AAA-AAAAA
12631683 GGACATGTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 20 0.80
11 5 0.20
ACGTcount: A:0.87, C:0.03, G:0.03, T:0.08
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:12637222 original size:2 final size:2
Alignment explanation
Indices: 12637215--12637258 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
12637205 ATACACAAAA
*
12637215 AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12637257 AT
1 AT
12637259 TGGATCAAGC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12641476 original size:2 final size:2
Alignment explanation
Indices: 12641469--12641521 Score: 79
Period size: 2 Copynumber: 26.5 Consensus size: 2
12641459 TCGAAAATTT
* * *
12641469 TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12641511 TA TA TA TA TA T
1 TA TA TA TA TA T
12641522 TATGTGTGTG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:12645158 original size:144 final size:143
Alignment explanation
Indices: 12644897--12645180 Score: 451
Period size: 144 Copynumber: 2.0 Consensus size: 143
12644887 CTTCAAAAGA
*
12644897 TTGTTTCCCTCATTATTCAATCAAAATCCTAACAACTTTTAGTGTGAAGTCTACCAACTATCCAA
1 TTGTTTCCCTCATTATTCAATCAAAATCCTAACAACTTTCAGTGTGAAGTCTACCAACTATCCAA
*
12644962 CCATGCTCATACCACATATCCTAATCAGCCTTACAAACCATCACATCCTTTTTTAATGATACTCA
66 CCATACTCATACCACATATCCTAATCAGCCTTACAAACCATCACA-CCTTTTTTAATGATACTCA
12645027 ATGACATTTGGAGT
130 ATGACATTTGGAGT
*
12645041 TTGTTTCCCTCATTATTCAATCAAAATCCTAACAACTTTCAGTGTGAAGTCTGCCAACTATCCAA
1 TTGTTTCCCTCATTATTCAATCAAAATCCTAACAACTTTCAGTGTGAAGTCTACCAACTATCCAA
** * * * ** *
12645106 CCATACTGGTACTACATATCCTAATCAGCCTTACAAGCCATCCCATTTTTTTTAATGATACTCAG
66 CCATACTCATACCACATATCCTAATCAGCCTTACAAACCATCACACCTTTTTTAATGATACTCAA
*
12645171 TGATATTTGG
131 TGACATTTGG
12645181 GGTCCCTCCA
Statistics
Matches: 128, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
143 26 0.20
144 102 0.80
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.34
Consensus pattern (143 bp):
TTGTTTCCCTCATTATTCAATCAAAATCCTAACAACTTTCAGTGTGAAGTCTACCAACTATCCAA
CCATACTCATACCACATATCCTAATCAGCCTTACAAACCATCACACCTTTTTTAATGATACTCAA
TGACATTTGGAGT
Found at i:12656113 original size:33 final size:33
Alignment explanation
Indices: 12656076--12656146 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
12656066 CAAATGCAGA
* *
12656076 AATTTTAAGAATTATTTTCTGAATGAAGGGTAG
1 AATTTTAAGAATTATTTCCTCAATGAAGGGTAG
12656109 AATTTTAAGAATTATTTCCTCAATGAAGGGTAG
1 AATTTTAAGAATTATTTCCTCAATGAAGGGTAG
12656142 AATTT
1 AATTT
12656147 CCATTATCCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.39
Consensus pattern (33 bp):
AATTTTAAGAATTATTTCCTCAATGAAGGGTAG
Done.