Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 146 of 204
Found at i:44536508 original size:36 final size:36
Alignment explanation
Indices: 44536467--44536703 Score: 267
Period size: 36 Copynumber: 6.0 Consensus size: 36
44536457 GGTAGCTTTA
44536467 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
44536503 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGTTTT
1 GCTACACTTATCTGATCAAGTGACAAAGTGAT-A-----AG---T
44536548 AGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
44536585 ACTACACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
44536621 ACTACACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTT
1 GCTACACTTATCTGATCAAGTGACAAAGTGAT-A-----AG---T
44536666 AGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
44536703 G
1 G
44536704 GTAGTCTTAG
Statistics
Matches: 177, Mismatches: 4, Indels: 40
0.80 0.02 0.18
Matches are distributed among these distances:
36 99 0.56
37 4 0.02
40 4 0.02
42 4 0.02
45 4 0.02
46 62 0.35
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
Found at i:44536568 original size:82 final size:82
Alignment explanation
Indices: 44536431--44536748 Score: 415
Period size: 82 Copynumber: 3.9 Consensus size: 82
44536421 TTTGAGTACT
* *
44536431 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGACAAAGT
44536496 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
44536513 TCTGATCAAGAGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGACAAAGT
*
44536578 GATAAGTACTACACTTA
66 GATAAGTGCTACACTTA
*
44536595 TCTGATCAAGTGACAAAGTGAT-A-----AG---TA-CTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGACAAAGT
44536650 GATAAGTGTTAGCTTTAGCTACACTTA
66 GAT-A-----AG---T-GCTACACTTA
* *
44536677 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTCTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGACAAAGT
44536742 GA-AAGTG
66 GATAAGTG
44536749 GTAGCCTTAG
Statistics
Matches: 211, Mismatches: 5, Indels: 41
0.82 0.02 0.16
Matches are distributed among these distances:
72 31 0.15
73 3 0.01
76 2 0.01
78 2 0.01
81 3 0.01
82 132 0.63
83 1 0.00
85 2 0.01
88 2 0.01
90 1 0.00
91 2 0.01
92 30 0.14
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGCTACACTTA
Found at i:44536633 original size:72 final size:76
Alignment explanation
Indices: 44536550--44536791 Score: 228
Period size: 91 Copynumber: 3.0 Consensus size: 76
44536540 GTAGTTTTAG
44536550 CTACACTTATCTGATCAAGTGACAAAGTGAT-A-AG-TA-CTACACTTATCTGATCAAGTGACAA
1 CTACACTTATCTGATCAAGTGACAAAGTGATAATAGTTAGCTACACTTATCTGATCAAGTGACAA
44536611 AGTGATAAGTA
66 AGTGATAAGTA
44536622 CTACACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTATCTGATCAAG
1 CTACACTTATCTGATCAAGTGACAAAGTGATAA----TAG--TTAGCTACACTTATCTGATCAAG
44536687 TGACAAAGTGATAAGTGGTAGTCTTA
60 TGACAAAGTGAT-A-----AG---TA
*
44536713 GCTACACTTATCTGATCAAGTGACAAAGTGA-AAGTGGTAGCCTTAGCTACACTTATTTGATCAA
1 -CTACACTTATCTGATCAAGTGACAAAGTGATAA----TAG--TTAGCTACACTTATCTGATCAA
44536777 G-GAC-AAGTGATAAGT
59 GTGACAAAGTGATAAGT
44536792 GATCATACGT
Statistics
Matches: 147, Mismatches: 3, Indels: 32
0.81 0.02 0.18
Matches are distributed among these distances:
72 31 0.21
73 1 0.01
78 2 0.01
80 1 0.01
81 2 0.01
82 31 0.21
83 3 0.02
88 3 0.02
89 7 0.05
90 3 0.02
91 33 0.22
92 30 0.20
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (76 bp):
CTACACTTATCTGATCAAGTGACAAAGTGATAATAGTTAGCTACACTTATCTGATCAAGTGACAA
AGTGATAAGTA
Found at i:44536676 original size:118 final size:118
Alignment explanation
Indices: 44536468--44536702 Score: 434
Period size: 118 Copynumber: 2.0 Consensus size: 118
44536458 GTAGCTTTAG
*
44536468 CTACACTTATCTGATCAAGTGACAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTG
1 CTACACTTATCTGATCAAGTGACAAAGTGATAAGTACTACACTTATCTGATCAAGAGACAAAGTG
*
44536533 ATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTA
66 ATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTA
*
44536586 CTACACTTATCTGATCAAGTGACAAAGTGATAAGTACTACACTTATCTGATCAAGTGACAAAGTG
1 CTACACTTATCTGATCAAGTGACAAAGTGATAAGTACTACACTTATCTGATCAAGAGACAAAGTG
*
44536651 ATAAGTGTTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
66 ATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
44536703 GGTAGTCTTA
Statistics
Matches: 113, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 113 1.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (118 bp):
CTACACTTATCTGATCAAGTGACAAAGTGATAAGTACTACACTTATCTGATCAAGAGACAAAGTG
ATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTA
Found at i:44541903 original size:20 final size:20
Alignment explanation
Indices: 44541865--44541903 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
44541855 CTCAATCCAA
* * *
44541865 TTGAAACATGAGAATTTTTT
1 TTGAAACACGAAAACTTTTT
44541885 TTGAAACACGAAAACTTTT
1 TTGAAACACGAAAACTTTT
44541904 GAAATACAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (20 bp):
TTGAAACACGAAAACTTTTT
Found at i:44544331 original size:47 final size:47
Alignment explanation
Indices: 44544276--44544727 Score: 760
Period size: 47 Copynumber: 9.6 Consensus size: 47
44544266 TATTTGAATA
*
44544276 AATGTGAAAGTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44544323 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
44544372 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
44544419 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTAATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
44544466 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44544513 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
44544560 AAGGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44544607 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
44544654 AATGTGAAAGTGTATATATGTGACAGGGTCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
44544701 GATGTAAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
44544728 TCCCGAAGGG
Statistics
Matches: 384, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 338 0.88
49 46 0.12
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:44544558 original size:22 final size:22
Alignment explanation
Indices: 44544530--44544605 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
44544520 AAGTGTATAT
44544530 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
*** ****
44544552 ATGTGATGAAGGTGAAAGTGTATAT
1 ATGTGAT-AAGGCCTAA-TG-GCCG
44544577 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
44544599 ATGTGAT
1 ATGTGAT
44544606 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.30, C:0.11, G:0.32, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:44544901 original size:36 final size:37
Alignment explanation
Indices: 44544846--44544923 Score: 113
Period size: 36 Copynumber: 2.1 Consensus size: 37
44544836 CCGAGCTCTA
* * *
44544846 AAGACTCGATGACTACGTGTGG-GATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
44544882 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
44544919 AAGAC
1 AAGAC
44544924 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 19 0.51
37 18 0.49
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:44546428 original size:159 final size:159
Alignment explanation
Indices: 44546134--44546515 Score: 638
Period size: 159 Copynumber: 2.4 Consensus size: 159
44546124 GAGAATTGAG
44546134 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGT-CCG
44546199 AGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATAT
65 AGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATAT
* *
44546264 TCGGGCTAAGTCCCGAGGAGCATTCGTGCT
130 CCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
44546294 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCGA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCGA
*
44546359 GGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTATC
66 GGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATC
*
44546424 CGGGCTAAGTTCCGAAGAGCATTCGTGCT
131 CGGGCTAAGTCCCGAAGAGCATTCGTGCT
* ** * * * * *
44546453 AGTGATATATCCGTGCTAAACCCCAAAGAGCATTCGTGTTGGTGTTATATCCGGGCTAGGTCC
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCC
44546516 CGAAGAGTAA
Statistics
Matches: 208, Mismatches: 14, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
159 148 0.71
160 60 0.29
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (159 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCGA
GGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATC
CGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:44546486 original size:199 final size:200
Alignment explanation
Indices: 44546134--44546518 Score: 637
Period size: 199 Copynumber: 1.9 Consensus size: 200
44546124 GAGAATTGAG
44546134 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
*
44546199 AGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATAT
66 AGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* ** * *
44546264 TCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTC
131 CCGGGCTAAACCCCAAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTC
44546329 GTGCT
196 GTGCT
*
44546334 AGTGATATATCCGGGCTAAGT-CCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
* *
44546398 AGGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
66 AGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* * * * *
44546463 CCGTGCTAAACCCCAAAGAGCATTCGTGTTGGTGTTATATCCGGGCTAGGTCCCGA
131 CCGGGCTAAACCCCAAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
44546519 AGAGTAATCA
Statistics
Matches: 171, Mismatches: 14, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
199 150 0.88
200 21 0.12
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (200 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
AGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
CCGGGCTAAACCCCAAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTC
GTGCT
Found at i:44546536 original size:40 final size:40
Alignment explanation
Indices: 44546134--44546518 Score: 637
Period size: 40 Copynumber: 9.7 Consensus size: 40
44546124 GAGAATTGAG
*
44546134 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
44546174 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
44546214 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
44546254 AGTGATATATTCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
44546294 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
44546334 AGTGATATATCCGGGCTAAGT-CCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
44546373 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
44546413 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* ** * * *
44546453 AGTGATATATCCGTGCTAAACCCCAAAGAGCATTCGTGTT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
44546493 GGTGTTATATCCGGGCTAGGTCCCGA
1 AGTGATATATCCGGGCTAAGTCCCGA
44546519 AGAGTAATCA
Statistics
Matches: 324, Mismatches: 20, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
39 39 0.12
40 285 0.88
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:44550251 original size:47 final size:47
Alignment explanation
Indices: 44550196--44550693 Score: 881
Period size: 47 Copynumber: 10.6 Consensus size: 47
44550186 TATTTGAATA
*
44550196 AATGTGAAAGTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44550243 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
44550292 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44550339 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44550386 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44550433 AATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44550479 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44550526 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44550573 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
44550620 AATGTGAAAGTGTATATATGTGACAGGGTCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
44550667 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
44550694 TCCCGAAGGG
Statistics
Matches: 436, Mismatches: 12, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
46 46 0.11
47 344 0.79
49 46 0.11
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:44550575 original size:234 final size:236
Alignment explanation
Indices: 44550196--44550693 Score: 883
Period size: 234 Copynumber: 2.1 Consensus size: 236
44550186 TATTTGAATA
*
44550196 AATGTGAAAGTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATA
44550261 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
65 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
44550326 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
130 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * *
44550391 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
195 GAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
44550433 AATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTG-TATAT
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATAT
44550496 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
44550561 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
131 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* * *
44550626 AAAGTGTATATATGTGACAGGGTCGAGTGGCCAACGTGATG
196 AAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
* *
44550667 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
44550694 TCCCGAAGGG
Statistics
Matches: 251, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
234 194 0.77
236 24 0.10
237 33 0.13
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (236 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
AAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
Found at i:44550868 original size:37 final size:37
Alignment explanation
Indices: 44550812--44550890 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
44550802 CCGAGCTTTA
* * * *
44550812 AAGACTCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
44550849 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
44550886 AAGAC
1 AAGAC
44550891 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:44551680 original size:18 final size:18
Alignment explanation
Indices: 44551654--44551878 Score: 206
Period size: 18 Copynumber: 12.2 Consensus size: 18
44551644 GTTACAAGAA
*
44551654 TTTTAAAAACACGAAAAT
1 TTTTGAAAACACGAAAAT
44551672 TTTTGAAAACACGAAAAT
1 TTTTGAAAACACGAAAAT
* *
44551690 TTTTGTAACAAGA-GAAATT
1 TTTTG-AA-AACACGAAAAT
**
44551709 TTTTGAAAACACGAGGATTTTT
1 TTTTGAAAACACGA--A--AAT
*
44551731 TTTTGAAAACACAAAAAT
1 TTTTGAAAACACGAAAAT
* *
44551749 TTGTG-AAACACGAGAATT
1 TTTTGAAAACACGA-AAAT
* *
44551767 TTTTGAAAACGCGAGAAT
1 TTTTGAAAACACGAAAAT
44551785 TTTTGAAAACACGAAAAT
1 TTTTGAAAACACGAAAAT
** * *
44551803 TTACG-AAGCACGAGAATT
1 TTTTGAAAACACGA-AAAT
44551821 TTTTGAAAACACGAAAAT
1 TTTTGAAAACACGAAAAT
44551839 TTTTGAAAACACGAAAAT
1 TTTTGAAAACACGAAAAT
*
44551857 TTTTG-AAACAAGAGAAAT
1 TTTTGAAAACACGA-AAAT
44551875 TTTT
1 TTTT
44551879 TTTTTAAATT
Statistics
Matches: 169, Mismatches: 26, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
17 24 0.14
18 99 0.59
19 26 0.15
20 5 0.03
22 15 0.09
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (18 bp):
TTTTGAAAACACGAAAAT
Found at i:44551750 original size:22 final size:22
Alignment explanation
Indices: 44551707--44551750 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
44551697 ACAAGAGAAA
* **
44551707 TTTTTTGAAAACACGAGGATTT
1 TTTTTTGAAAACACAAAAATTT
44551729 TTTTTTGAAAACACAAAAATTT
1 TTTTTTGAAAACACAAAAATTT
44551751 GTGAAACACG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (22 bp):
TTTTTTGAAAACACAAAAATTT
Found at i:44551804 original size:54 final size:55
Alignment explanation
Indices: 44551654--44551879 Score: 285
Period size: 54 Copynumber: 4.1 Consensus size: 55
44551644 GTTACAAGAA
* *
44551654 TTTTAAAAACACGAAAATTTTTGAAAACACGAAAATTTTTGTAACAAGAGAAATT
1 TTTTGAAAACACGAAAATTTTTGAAAACACGAAAATTTTTGAAACAAGAGAAATT
** * * *
44551709 TTTTGAAAACACGAGGATTTTTTTTTGAAAACACAAAAATTTGTGAAACACGAG-AATT
1 TTTTGAAAACACGA--A--AATTTTTGAAAACACGAAAATTTTTGAAACAAGAGAAATT
* * ** * *
44551767 TTTTGAAAACGCGAGAATTTTTGAAAACACGAAAATTTACGAAGCACGAG-AATT
1 TTTTGAAAACACGAAAATTTTTGAAAACACGAAAATTTTTGAAACAAGAGAAATT
44551821 TTTTGAAAACACGAAAATTTTTGAAAACACGAAAATTTTTGAAACAAGAGAAATT
1 TTTTGAAAACACGAAAATTTTTGAAAACACGAAAATTTTTGAAACAAGAGAAATT
44551876 TTTT
1 TTTT
44551880 TTTTAAATTT
Statistics
Matches: 145, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
54 77 0.53
55 21 0.14
57 1 0.01
58 17 0.12
59 29 0.20
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (55 bp):
TTTTGAAAACACGAAAATTTTTGAAAACACGAAAATTTTTGAAACAAGAGAAATT
Found at i:44551941 original size:17 final size:18
Alignment explanation
Indices: 44551921--44551997 Score: 68
Period size: 17 Copynumber: 4.2 Consensus size: 18
44551911 AACATGAGGA
44551921 TTTTTGAAACAC-AATTT
1 TTTTTGAAACACGAATTT
* *
44551938 TTTTTAAAACACTAACTTTT
1 TTTTTGAAACACGAA--TTT
**
44551958 TGTTTTGAAACACGAA-AA
1 T-TTTTGAAACACGAATTT
44551976 TTTTTGAAAACACGAATTT
1 TTTTTG-AAACACGAATTT
44551995 TTT
1 TTT
44551998 AAGACATGAG
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
17 16 0.34
18 12 0.26
19 3 0.06
20 4 0.09
21 12 0.26
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (18 bp):
TTTTTGAAACACGAATTT
Found at i:44551967 original size:38 final size:39
Alignment explanation
Indices: 44551922--44551997 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 39
44551912 ACATGAGGAT
** * *
44551922 TTTTGAAACAC-AATTTTTTTTAAAACACTAACTTTTTG
1 TTTTGAAACACGAAAATTTTTGAAAACACGAACTTTTTG
*
44551960 TTTTGAAACACGAAAATTTTTGAAAACACGAATTTTTT
1 TTTTGAAACACGAAAATTTTTGAAAACACGAACTTTTT
44551998 AAGACATGAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
38 11 0.34
39 21 0.66
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (39 bp):
TTTTGAAACACGAAAATTTTTGAAAACACGAACTTTTTG
Found at i:44551979 original size:21 final size:19
Alignment explanation
Indices: 44551921--44551980 Score: 52
Period size: 21 Copynumber: 3.1 Consensus size: 19
44551911 AACATGAGGA
44551921 TTTTTGAAACAC--AATTT
1 TTTTTGAAACACAAAATTT
* **
44551938 TTTTTAAAACACTAACTTTT
1 TTTTTGAAACAC-AAAATTT
44551958 TGTTTTGAAACACGAAAATTT
1 T-TTTTGAAACAC-AAAATTT
44551979 TT
1 TT
44551981 GAAAACACGA
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
17 11 0.34
20 5 0.16
21 16 0.50
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.47
Consensus pattern (19 bp):
TTTTTGAAACACAAAATTT
Found at i:44551988 original size:18 final size:18
Alignment explanation
Indices: 44551960--44552028 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 18
44551950 TAACTTTTTG
44551960 TTTTG-AAACACGAAAAT
1 TTTTGAAAACACGAAAAT
44551977 TTTTGAAAACACG--AAT
1 TTTTGAAAACACGAAAAT
* * * *
44551993 TTTTTAAGACATGAGAAT
1 TTTTGAAAACACGAAAAT
*
44552011 TTGTTGAAAATACGAAAA
1 TT-TTGAAAACACGAAAA
44552029 CATGAAATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
16 13 0.32
17 5 0.12
18 12 0.30
19 10 0.25
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (18 bp):
TTTTGAAAACACGAAAAT
Found at i:44552221 original size:21 final size:21
Alignment explanation
Indices: 44552162--44552223 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
44552152 CGTTGCCTTA
*
44552162 TTTTTGAAA-ACGCG-AATATT
1 TTTTTGAAACACGAGAAAT-TT
*
44552182 TTTTTGAAACATGAGAAATTT
1 TTTTTGAAACACGAGAAATTT
*
44552203 TTTTTGAAGATACGA-AAATTT
1 TTTTTGAA-ACACGAGAAATTT
44552224 CAAAACACGG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 9 0.26
21 19 0.54
22 7 0.20
ACGTcount: A:0.37, C:0.06, G:0.15, T:0.42
Consensus pattern (21 bp):
TTTTTGAAACACGAGAAATTT
Found at i:44552604 original size:18 final size:18
Alignment explanation
Indices: 44552578--44552657 Score: 72
Period size: 19 Copynumber: 4.3 Consensus size: 18
44552568 CAAATTGAAC
*
44552578 TTTTCTTTTCTTTTTCTT
1 TTTTTTTTTCTTTTTCTT
*
44552596 TTTTTTTTTGTTTTT-TT
1 TTTTTTTTTCTTTTTCTT
* *
44552613 CTCTTTTTTCTCTTTTTTCTC
1 -T-TTTTTTTTC-TTTTTCTT
*
44552634 TTTTTTTTTCTTCTCTCTT
1 TTTTTTTTTCTT-TTTCTT
44552653 TTTTT
1 TTTTT
44552658 CTGGCCTACT
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
17 2 0.04
18 16 0.33
19 24 0.49
20 6 0.12
21 1 0.02
ACGTcount: A:0.00, C:0.16, G:0.01, T:0.82
Consensus pattern (18 bp):
TTTTTTTTTCTTTTTCTT
Found at i:44552609 original size:9 final size:9
Alignment explanation
Indices: 44552577--44552641 Score: 69
Period size: 9 Copynumber: 7.0 Consensus size: 9
44552567 GCAAATTGAA
44552577 CTTTTCTTTT
1 CTTTT-TTTT
44552587 CTTTTTCTTT
1 CTTTTT-TTT
44552597 -TTTTTTTT
1 CTTTTTTTT
*
44552605 GTTTTTTTCT
1 CTTTTTTT-T
*
44552615 CTTTTTTCT
1 CTTTTTTTT
*
44552624 CTTTTTTCT
1 CTTTTTTTT
44552633 CTTTTTTTT
1 CTTTTTTTT
44552642 TCTTCTCTCT
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
8 3 0.06
9 31 0.63
10 15 0.31
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:44552623 original size:35 final size:35
Alignment explanation
Indices: 44552588--44552656 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
44552578 TTTTCTTTTC
*
44552588 TTTT-TCTTTTTT-T-TTTTGTTTT-TT-TCTCTT
1 TTTTCTCTTTTTTCTCTTTTTTTTTCTTCTCTCTT
44552618 TTTTCTCTTTTTTCTCTTTTTTTTTCTTCTCTCTT
1 TTTTCTCTTTTTTCTCTTTTTTTTTCTTCTCTCTT
44552653 TTTT
1 TTTT
44552657 TCTGGCCTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
30 4 0.12
31 8 0.24
32 1 0.03
33 8 0.24
34 2 0.06
35 10 0.30
ACGTcount: A:0.00, C:0.16, G:0.01, T:0.83
Consensus pattern (35 bp):
TTTTCTCTTTTTTCTCTTTTTTTTTCTTCTCTCTT
Found at i:44552654 original size:15 final size:15
Alignment explanation
Indices: 44552625--44552659 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
44552615 CTTTTTTCTC
*
44552625 TTTT-TTCTCTTTTT
1 TTTTCTTCTCTCTTT
44552639 TTTTCTTCTCTCTTT
1 TTTTCTTCTCTCTTT
44552654 TTTTCT
1 TTTTCT
44552660 GGCCTACTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTCTTCTCTCTTT
Found at i:44552786 original size:7 final size:7
Alignment explanation
Indices: 44552774--44552815 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
44552764 GTTGTAAATT
44552774 TTTTTTC
1 TTTTTTC
44552781 TTTTTTC
1 TTTTTTC
*
44552788 -TTTGT-
1 TTTTTTC
44552793 TTTTTTC
1 TTTTTTC
44552800 -TTTTTC
1 TTTTTTC
44552806 TTTTTTC
1 TTTTTTC
44552813 TTT
1 TTT
44552816 CCCCCTTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
6 14 0.47
7 16 0.53
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.86
Consensus pattern (7 bp):
TTTTTTC
Found at i:44552803 original size:5 final size:6
Alignment explanation
Indices: 44552775--44552863 Score: 56
Period size: 6 Copynumber: 14.3 Consensus size: 6
44552765 TTGTAAATTT
** **
44552775 TTTTTC TTTTTTC TTTGTT- TTTTTC TTTTTC TTTTTTC TTTCCC CCTTTC
1 TTTTTC -TTTTTC TTT-TTC TTTTTC TTTTTC -TTTTTC TTTTTC TTTTTC
* * *
44552825 TTTTTCC TTCTTC TTTTTC TTCTTC -CTTTC TTTCTTC TT
1 TTTTT-C TTTTTC TTTTTC TTTTTC TTTTTC TTT-TTC TT
44552864 CTTCCATGTT
Statistics
Matches: 62, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
5 5 0.08
6 33 0.53
7 24 0.39
ACGTcount: A:0.00, C:0.25, G:0.01, T:0.74
Consensus pattern (6 bp):
TTTTTC
Found at i:44552841 original size:12 final size:12
Alignment explanation
Indices: 44552826--44552868 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
44552816 CCCCCTTTCT
44552826 TTTTCCTTCTTC
1 TTTTCCTTCTTC
*
44552838 TTTTTCTTCTTC
1 TTTTCCTTCTTC
* *
44552850 CTTTCTTTCTTC
1 TTTTCCTTCTTC
44552862 TTCTTCC
1 TT-TTCC
44552869 ATGTTCAGCC
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
12 21 0.88
13 3 0.12
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTTCCTTCTTC
Found at i:44552864 original size:18 final size:17
Alignment explanation
Indices: 44552775--44552868 Score: 67
Period size: 18 Copynumber: 5.8 Consensus size: 17
44552765 TTGTAAATTT
* * *
44552775 TTTTTCTTTTTTCTTTG
1 TTTTTCTTCTTCCTTTC
44552792 TTTTT-TTCTT--TTTC
1 TTTTTCTTCTTCCTTTC
**
44552806 TTTTTTCTTTCCCCCTTTC
1 -TTTTTC-TTCTTCCTTTC
44552825 TTTTTC--CTT-C-TTC
1 TTTTTCTTCTTCCTTTC
44552838 TTTTTCTTCTTCCTTTC
1 TTTTTCTTCTTCCTTTC
44552855 TTTCTTCTTCTTCC
1 TTT-TTCTTCTTCC
44552869 ATGTTCAGCC
Statistics
Matches: 61, Mismatches: 6, Indels: 19
0.71 0.07 0.22
Matches are distributed among these distances:
13 9 0.15
14 4 0.07
15 9 0.15
16 5 0.08
17 14 0.23
18 16 0.26
19 4 0.07
ACGTcount: A:0.00, C:0.27, G:0.01, T:0.72
Consensus pattern (17 bp):
TTTTTCTTCTTCCTTTC
Found at i:44553133 original size:20 final size:19
Alignment explanation
Indices: 44553104--44553141 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 19
44553094 GAGGCTACTG
44553104 TTTTTGCTTGATTTCTTTTTC
1 TTTTTGCTTG-TTT-TTTTTC
44553125 TTTTT-CTTGTTTTTTTT
1 TTTTTGCTTGTTTTTTTT
44553142 TTGCTTAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 3 0.18
20 4 0.24
21 5 0.29
ACGTcount: A:0.03, C:0.11, G:0.08, T:0.79
Consensus pattern (19 bp):
TTTTTGCTTGTTTTTTTTC
Found at i:44553137 original size:15 final size:17
Alignment explanation
Indices: 44553119--44553160 Score: 63
Period size: 15 Copynumber: 2.6 Consensus size: 17
44553109 GCTTGATTTC
44553119 TTTTTCTTTTT-CTT-G
1 TTTTTCTTTTTGCTTAG
44553134 TTTTT-TTTTTGCTTAG
1 TTTTTCTTTTTGCTTAG
44553150 TTTTTCTTTTT
1 TTTTTCTTTTT
44553161 TGGCTGCCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 5 0.21
15 8 0.33
16 6 0.25
17 5 0.21
ACGTcount: A:0.02, C:0.10, G:0.07, T:0.81
Consensus pattern (17 bp):
TTTTTCTTTTTGCTTAG
Found at i:44553142 original size:20 final size:21
Alignment explanation
Indices: 44553104--44553143 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
44553094 GAGGCTACTG
44553104 TTTTTGCTTGATTTCTTTTTC
1 TTTTTGCTTGATTTCTTTTTC
* *
44553125 TTTTT-CTTGTTTTTTTTTT
1 TTTTTGCTTGATTTCTTTTT
44553144 GCTTAGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.03, C:0.10, G:0.07, T:0.80
Consensus pattern (21 bp):
TTTTTGCTTGATTTCTTTTTC
Found at i:44553356 original size:30 final size:30
Alignment explanation
Indices: 44553320--44553524 Score: 204
Period size: 30 Copynumber: 6.9 Consensus size: 30
44553310 AAATACAGTA
*
44553320 AAAGTTTTGGGGCCAAAATGTAATTTTAAG
1 AAAGTTTTGGGGTCAAAATGTAATTTTAAG
* *
44553350 AAAGTTTAGGGGTCAAAATGTAATTTCAAG
1 AAAGTTTTGGGGTCAAAATGTAATTTTAAG
* * *
44553380 AAAGTTTAGTGGTCAAAATGTAATTTCAAG
1 AAAGTTTTGGGGTCAAAATGTAATTTTAAG
* *
44553410 AAA-TTTTAGGGATTAAAATGTAA-TTT-AG
1 AAAGTTTT-GGGGTCAAAATGTAATTTTAAG
* ** * *
44553438 AAAATTTTAGGGGTTGAAATGTAATTCTGAG
1 AAAGTTTT-GGGGTCAAAATGTAATTTTAAG
44553469 AAA-TTTTAGGGGTCAAAATGTAATTTTAA-
1 AAAGTTTT-GGGGTCAAAATGTAATTTTAAG
** *
44553498 AAAGTTTAAGGGTTAAAATGTAATTTT
1 AAAGTTTTGGGGTCAAAATGTAATTTT
44553525 TTTAAACAAG
Statistics
Matches: 151, Mismatches: 19, Indels: 11
0.83 0.10 0.06
Matches are distributed among these distances:
28 5 0.03
29 43 0.28
30 98 0.65
31 5 0.03
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.36
Consensus pattern (30 bp):
AAAGTTTTGGGGTCAAAATGTAATTTTAAG
Found at i:44553458 original size:89 final size:88
Alignment explanation
Indices: 44553334--44553523 Score: 242
Period size: 89 Copynumber: 2.1 Consensus size: 88
44553324 TTTTGGGGCC
*
44553334 AAAATGTAATTTTAAGAAAGTTTAGGGGTCAAAATGTAATT-TCAAGAAAGTTTAGTGGTCAAAA
1 AAAATGTAA-TTTAAGAAAGTTTAGGGGTCAAAATGTAATTCT-AAGAAAGTTTAGGGGTCAAAA
*
44553398 TGTAATTTCAAGAAA-TTTTAGGGATT
64 TGTAATTTCAA-AAAGTTTAAGGG-TT
* ** * *
44553424 AAAATGTAATTT-AGAAAATTTTAGGGGTTGAAATGTAATTCTGAGAAATTTTAGGGGTCAAAAT
1 AAAATGTAATTTAAG-AAAGTTTAGGGGTCAAAATGTAATTCTAAGAAAGTTTAGGGGTCAAAAT
*
44553488 GTAATTTTAAAAAGTTTAAGGGTT
65 GTAATTTCAAAAAGTTTAAGGGTT
44553512 AAAATGTAATTT
1 AAAATGTAATTT
44553524 TTTTAAACAA
Statistics
Matches: 89, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
88 19 0.21
89 60 0.67
90 10 0.11
ACGTcount: A:0.41, C:0.03, G:0.20, T:0.36
Consensus pattern (88 bp):
AAAATGTAATTTAAGAAAGTTTAGGGGTCAAAATGTAATTCTAAGAAAGTTTAGGGGTCAAAATG
TAATTTCAAAAAGTTTAAGGGTT
Found at i:44553472 original size:59 final size:57
Alignment explanation
Indices: 44553319--44553523 Score: 239
Period size: 59 Copynumber: 3.5 Consensus size: 57
44553309 TAAATACAGT
* ** *
44553319 AAAAGTTTTGGGGCCAAAATGTAATTTTAAGAAAGTTTAGGGGTCAAAATGTAATTTCA
1 AAAAGTTTAGGGGTTAAAATGTAA-TTTAAGAAATTTTAGGGGTCAAAATGTAATTT-A
* * * *
44553378 AGAAAGTTTAGTGGTCAAAATGTAATTTCAAGAAATTTTAGGGATTAAAATGTAATTTA
1 A-AAAGTTTAGGGGTTAAAATGTAATTT-AAGAAATTTTAGGGGTCAAAATGTAATTTA
* * *
44553437 GAAAATTTTAGGGGTTGAAATGTAATTCTGAGAAATTTTAGGGGTCAAAATGTAATTTTA
1 -AAAAGTTTAGGGGTTAAAATGTAATT-TAAGAAATTTTAGGGGTCAAAATGTAA-TTTA
*
44553497 AAAAGTTTAAGGGTTAAAATGTAATTT
1 AAAAGTTTAGGGGTTAAAATGTAATTT
44553524 TTTTAAACAA
Statistics
Matches: 125, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
58 1 0.01
59 72 0.58
60 52 0.42
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.35
Consensus pattern (57 bp):
AAAAGTTTAGGGGTTAAAATGTAATTTAAGAAATTTTAGGGGTCAAAATGTAATTTA
Found at i:44554041 original size:12 final size:12
Alignment explanation
Indices: 44554024--44554058 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
44554014 TTAATTTTTT
44554024 AAATTATAAAAA
1 AAATTATAAAAA
*
44554036 AAATTATTTAAAA
1 AAATTA-TAAAAA
44554049 AAATTATAAA
1 AAATTATAAA
44554059 TTATTAAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAATTATAAAAA
Found at i:44569588 original size:43 final size:44
Alignment explanation
Indices: 44569482--44569603 Score: 128
Period size: 43 Copynumber: 2.9 Consensus size: 44
44569472 AATCGTTACT
* * *
44569482 CGGTGGAATCACTATTTAGCAACCACC-TTATATTC-AGTGATA
1 CGGTGGAATCAGTATTTAGCAACCACCTTTACAATCAAGTGATA
* * **
44569524 CGG-GGATTCAGCACATAGCAACC-CCTTTCACAATCAAG-GATA
1 CGGTGGAATCAGTATTTAGCAACCACCTTT-ACAATCAAGTGATA
*
44569566 CGGTGGAATCAGTATTTAGCAACCACCTTTAGAATCAA
1 CGGTGGAATCAGTATTTAGCAACCACCTTTACAATCAA
44569604 TAATTTGGGG
Statistics
Matches: 63, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
40 2 0.03
41 17 0.27
42 14 0.22
43 25 0.40
44 5 0.08
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (44 bp):
CGGTGGAATCAGTATTTAGCAACCACCTTTACAATCAAGTGATA
Found at i:44569640 original size:26 final size:26
Alignment explanation
Indices: 44569611--44569660 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
44569601 CAATAATTTG
44569611 GGGAAT-TAGCACTTAGCAACCCCTAA
1 GGGAATCT-GCACTTAGCAACCCCTAA
44569637 GGGAATCTGCACTTAGCAACCCCT
1 GGGAATCTGCACTTAGCAACCCCT
44569661 TTTACATCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (26 bp):
GGGAATCTGCACTTAGCAACCCCTAA
Found at i:44576365 original size:31 final size:31
Alignment explanation
Indices: 44576327--44576392 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
44576317 AGTAAAAATG
44576327 GGCCTACAAGCCTATGATGTTCACCAGTGTA
1 GGCCTACAAGCCTATGATGTTCACCAGTGTA
* *
44576358 GGCCTACAAGTCTATGATGTTCACCAGTGTG
1 GGCCTACAAGCCTATGATGTTCACCAGTGTA
44576389 GGCC
1 GGCC
44576393 CACACACCCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (31 bp):
GGCCTACAAGCCTATGATGTTCACCAGTGTA
Found at i:44577111 original size:28 final size:28
Alignment explanation
Indices: 44577079--44577181 Score: 145
Period size: 28 Copynumber: 3.7 Consensus size: 28
44577069 AGTACAATGA
* * *
44577079 GGGCCTTAACCCAATGCAGTAA-AAGTGT
1 GGGCCTTAGCCCAATACAG-AATCAGTGT
*
44577107 GGGCCTTAGCCCAATATAGAATCAGTGT
1 GGGCCTTAGCCCAATACAGAATCAGTGT
*
44577135 GGGCATTAGCCCAATACAGAATCAGTGT
1 GGGCCTTAGCCCAATACAGAATCAGTGT
44577163 GGGCCTTAGCCCAATACAG
1 GGGCCTTAGCCCAATACAG
44577182 TAACAATGCA
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 2 0.03
28 65 0.97
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.21
Consensus pattern (28 bp):
GGGCCTTAGCCCAATACAGAATCAGTGT
Found at i:44577586 original size:27 final size:26
Alignment explanation
Indices: 44577560--44577954 Score: 333
Period size: 27 Copynumber: 14.7 Consensus size: 26
44577550 ATAGTTATTT
* *
44577560 TACCCTATGGGGATATTTTGGTCATTT
1 TACCCTATGGGG-TATTTCGGTCATTC
* * * *
44577587 TACCCTACGAAGGCATTTCGTTCATTC
1 TACCCTATG-GGGTATTTCGGTCATTC
*** * *
44577614 TACCCTATAGGGGTATTTTTTTTATTT
1 TACCCTAT-GGGGTATTTCGGTCATTC
* *
44577641 TACCCTATGGAGGTATTTCGATCATTT
1 TACCCTATGG-GGTATTTCGGTCATTC
*
44577668 TACCCTATGGGGGTATTTCGGTTATTC
1 TACCCTAT-GGGGTATTTCGGTCATTC
* *
44577695 AACCCTATGGGGGTATTTCAGTCATTC
1 TACCCTAT-GGGGTATTTCGGTCATTC
* * * *
44577722 TATCCTATAGGGTATTTCTGTCATTT
1 TACCCTATGGGGTATTTCGGTCATTC
* *
44577748 TACCCTATAAGGGTATTTTGGTCATTC
1 TACCCTAT-GGGGTATTTCGGTCATTC
**
44577775 TACCCTATAGGGGTATTTTAGTCATTC
1 TACCCTAT-GGGGTATTTCGGTCATTC
*
44577802 TACCCTATGAGGGTATTTCAGTCATTC
1 TACCCTATG-GGGTATTTCGGTCATTC
44577829 TACCCTATGGGGGTATTTCGGTCATTC
1 TACCCTAT-GGGGTATTTCGGTCATTC
* *
44577856 TACTCTATGGGGGTATCTT-GGTCATTT
1 TACCCTAT-GGGGTAT-TTCGGTCATTC
* * *
44577883 TACCCTACGAAGGTATTTCGATCATTC
1 TACCCTATG-GGGTATTTCGGTCATTC
* * * *
44577910 TACTCTATGGGGGTATTTCGATTATTT
1 TACCCTAT-GGGGTATTTCGGTCATTC
*
44577937 TACCCTACGGGGGTATTT
1 TACCCTA-TGGGGTATTT
44577955 TAGTTATTTT
Statistics
Matches: 306, Mismatches: 50, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
26 28 0.09
27 269 0.88
28 9 0.03
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (26 bp):
TACCCTATGGGGTATTTCGGTCATTC
Found at i:44577629 original size:81 final size:80
Alignment explanation
Indices: 44577540--44577965 Score: 404
Period size: 81 Copynumber: 5.3 Consensus size: 80
44577530 TTTCATCTCC
** * * * *
44577540 TAGGGGTATAATAGTTATTTTACCCTATGGGGATATTTTGGTCATTTTACCCTACGAAGGCATTT
1 TAGGGGTATTTTAGTCATTTTACCCTATGGGG-TATTTCGGTCATTTTACCCTATGAAGGTATTT
*
44577605 CGTTCATTCTACCCTA
65 CGGTCATTCTACCCTA
** * * **
44577621 TAGGGGTATTTTTTTTATTTTACCCTATGGAGGTATTTCGATCATTTTACCCTATGGGGGTATTT
1 TAGGGGTATTTTAGTCATTTTACCCTATGG-GGTATTTCGGTCATTTTACCCTATGAAGGTATTT
* *
44577686 CGGTTATTCAACCCTA
65 CGGTCATTCTACCCTA
* * * * * *
44577702 TGGGGGTATTTCAGTCATTCTATCCTATAGGGTATTTCTGTCATTTTACCCTAT-AAGGGTATTT
1 TAGGGGTATTTTAGTCATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTATGAA-GGTATTT
*
44577766 TGGTCATTCTACCCTA
65 CGGTCATTCTACCCTA
* * * **
44577782 TAGGGGTATTTTAGTCATTCTACCCTATGAGGGTATTTCAGTCATTCTACCCTATGGGGGTATTT
1 TAGGGGTATTTTAGTCATTTTACCCTATG-GGGTATTTCGGTCATTTTACCCTATGAAGGTATTT
*
44577847 CGGTCATTCTACTCTA
65 CGGTCATTCTACCCTA
* * * * * * * * **
44577863 TGGGGGTATCTTGGTCATTTTACCCTACGAAGGTATTTCGATCATTCTACTCTATGGGGGTATTT
1 TAGGGGTATTTTAGTCATTTTACCCTATG-GGGTATTTCGGTCATTTTACCCTATGAAGGTATTT
* * *
44577928 CGATTATTTTACCCTA
65 CGGTCATTCTACCCTA
** *
44577944 CGGGGGTATTTTAGTTATTTTA
1 TAGGGGTATTTTAGTCATTTTA
44577966 TTAACCTCAC
Statistics
Matches: 286, Mismatches: 55, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
80 67 0.23
81 217 0.76
82 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (80 bp):
TAGGGGTATTTTAGTCATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTATGAAGGTATTTC
GGTCATTCTACCCTA
Found at i:44582685 original size:43 final size:43
Alignment explanation
Indices: 44582623--44582709 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
44582613 TTCGAGGATC
44582623 AACCCTAATCCCCTCAGCAGAAACCACATGGCCCAAAAATGTT
1 AACCCTAATCCCCTCAGCAGAAACCACATGGCCCAAAAATGTT
* *
44582666 AACCCTAATCCCCTGAGCAGAAACCACATGGCCCAGAAATGTT
1 AACCCTAATCCCCTCAGCAGAAACCACATGGCCCAAAAATGTT
44582709 A
1 A
44582710 CTTTCCGTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.37, C:0.33, G:0.14, T:0.16
Consensus pattern (43 bp):
AACCCTAATCCCCTCAGCAGAAACCACATGGCCCAAAAATGTT
Found at i:44585347 original size:25 final size:25
Alignment explanation
Indices: 44585319--44585367 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
44585309 TACAGTTTAT
* *
44585319 CTATAATAGTCTCAGTATATACTAC
1 CTATAACAGTCTCAGGATATACTAC
* *
44585344 CTATAGCAGTTTCAGGATATACTA
1 CTATAACAGTCTCAGGATATACTA
44585368 TAAAAAATAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (25 bp):
CTATAACAGTCTCAGGATATACTAC
Found at i:44592286 original size:18 final size:18
Alignment explanation
Indices: 44592253--44592287 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44592243 ACGATGTGCC
*
44592253 AAACTATTTTCTTGCTTG
1 AAACTATTTTCATGCTTG
*
44592271 AAACTATTTTGATGCTT
1 AAACTATTTTCATGCTT
44592288 CATGTTCTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.14, G:0.11, T:0.49
Consensus pattern (18 bp):
AAACTATTTTCATGCTTG
Found at i:44594951 original size:43 final size:43
Alignment explanation
Indices: 44594901--44594987 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
44594891 ATTCACTTTT
* * *
44594901 AAGCATATATCTTATTACGCATATAATCACCTAACATTCAAGC
1 AAGCATATATCATAATACGCATATAATCACATAACATTCAAGC
* *
44594944 AAGCATATATCATAATACTCATATAATCATATAACATTCAAGC
1 AAGCATATATCATAATACGCATATAATCACATAACATTCAAGC
44594987 A
1 A
44594988 TATTTCACAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.30
Consensus pattern (43 bp):
AAGCATATATCATAATACGCATATAATCACATAACATTCAAGC
Found at i:44595010 original size:39 final size:39
Alignment explanation
Indices: 44594943--44595019 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
44594933 AACATTCAAG
*
44594943 CAAGCATATATCATAATACTCATATAATCAT-ATAACATT
1 CAAGCATATATCACAATACTCATATAATC-TCATAACATT
* *
44594982 CAAGCATATTTCACAATA-TACATTTAATCTCATAACAT
1 CAAGCATATATCACAATACT-CATATAATCTCATAACAT
44595020 ATTTATAGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 2 0.06
39 31 0.94
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.34
Consensus pattern (39 bp):
CAAGCATATATCACAATACTCATATAATCTCATAACATT
Found at i:44600337 original size:13 final size:13
Alignment explanation
Indices: 44600321--44600345 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44600311 TTTCTCTCTG
44600321 TCTTTTTTATTTT
1 TCTTTTTTATTTT
44600334 TCTTTTTTATTT
1 TCTTTTTTATTT
44600346 GTCCTTTCTC
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:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (13 bp):
TCTTTTTTATTTT
Found at i:44603936 original size:16 final size:18
Alignment explanation
Indices: 44603915--44603958 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
44603905 ATTAAGTTTT
44603915 TATCA-TATAAAAT-TTA
1 TATCATTATAAAATATTA
*
44603931 TATCATTCTAAAATATTA
1 TATCATTATAAAATATTA
*
44603949 TATTATTATA
1 TATCATTATA
44603959 TTATTAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 5 0.22
17 7 0.30
18 11 0.48
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (18 bp):
TATCATTATAAAATATTA
Found at i:44604210 original size:7 final size:7
Alignment explanation
Indices: 44604198--44604228 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
44604188 TACAATGTTT
44604198 AAATTAA
1 AAATTAA
44604205 AAATTAA
1 AAATTAA
*
44604212 AAATCAA
1 AAATTAA
44604219 AAATTAA
1 AAATTAA
44604226 AAA
1 AAA
44604229 ATAATTATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (7 bp):
AAATTAA
Found at i:44606484 original size:39 final size:40
Alignment explanation
Indices: 44606381--44606517 Score: 206
Period size: 40 Copynumber: 3.5 Consensus size: 40
44606371 GCGTTTGGAT
*
44606381 AAAAAACGCCGCTAAAAATCGAGCATTAGCGGCACTTTTC
1 AAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTC
* *
44606421 AAAAAACGCCGCTAAAGATCGAGCATTAGCGGTGCTTTTC
1 AAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTC
* *
44606461 AAAAAACGCCGCTAAAAAT-GAGCATTAGCGGCGTTTTTA
1 AAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTC
44606500 AAAAAAGCGCCGC-AAAAA
1 AAAAAA-CGCCGCTAAAAA
44606518 CCTAAGCCCA
Statistics
Matches: 89, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 28 0.31
40 61 0.69
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (40 bp):
AAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTC
Found at i:44607057 original size:14 final size:14
Alignment explanation
Indices: 44607026--44607068 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
44607016 AAAGTTTATA
*
44607026 GATTATGGAATTAGG
1 GATTATGG-ATTAAG
44607041 GATTATGGATTAAG
1 GATTATGGATTAAG
* *
44607055 GATTCTGGTTTAAG
1 GATTATGGATTAAG
44607069 AGTTGTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.30, C:0.02, G:0.30, T:0.37
Consensus pattern (14 bp):
GATTATGGATTAAG
Found at i:44607224 original size:7 final size:7
Alignment explanation
Indices: 44607212--44607263 Score: 63
Period size: 7 Copynumber: 7.6 Consensus size: 7
44607202 TAAATAATGT
44607212 TTAGGGG
1 TTAGGGG
44607219 TTAGGGG
1 TTAGGGG
44607226 TT-GGGG
1 TTAGGGG
44607232 TT-GGAGG
1 TTAGG-GG
**
44607239 TTAGTAG
1 TTAGGGG
44607246 TTAGGGG
1 TTAGGGG
44607253 TTAGGGG
1 TTAGGGG
44607260 TTAG
1 TTAG
44607264 ATGTTAGAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
6 8 0.21
7 30 0.77
8 1 0.03
ACGTcount: A:0.15, C:0.00, G:0.52, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:44607269 original size:14 final size:14
Alignment explanation
Indices: 44607212--44607276 Score: 60
Period size: 14 Copynumber: 4.7 Consensus size: 14
44607202 TAAATAATGT
*
44607212 TTAGGGGTTAGGGG
1 TTAGGGGTTAGAGG
*
44607226 TT-GGGGTTGGAGG
1 TTAGGGGTTAGAGG
** *
44607239 TTAGTAGTTAGGGG
1 TTAGGGGTTAGAGG
*
44607253 TTAGGGGTTAGATG
1 TTAGGGGTTAGAGG
*
44607267 TTAGAGGTTA
1 TTAGGGGTTA
44607277 AGAGTTAGTA
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
13 11 0.28
14 28 0.72
ACGTcount: A:0.18, C:0.00, G:0.48, T:0.34
Consensus pattern (14 bp):
TTAGGGGTTAGAGG
Found at i:44607283 original size:21 final size:21
Alignment explanation
Indices: 44607238--44607301 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
44607228 GGGGTTGGAG
* *
44607238 GTTAGTA-GTTAGGGGTTAGGG
1 GTTAGTATGTTA-GGGTTAAGA
44607259 GTTAG-ATGTTAGAGGTTAAGA
1 GTTAGTATGTTAG-GGTTAAGA
* *
44607280 GTTAGTATTTTAGGGTTTAGA
1 GTTAGTATGTTAGGGTTAAGA
44607301 G
1 G
44607302 ATTTAGGGTC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 2 0.06
21 28 0.78
22 6 0.17
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (21 bp):
GTTAGTATGTTAGGGTTAAGA
Found at i:44607433 original size:7 final size:7
Alignment explanation
Indices: 44607390--44607421 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
44607380 ATTGTAAAAG
44607390 AGGGGTT
1 AGGGGTT
44607397 AGGGGTT
1 AGGGGTT
*
44607404 AGAGGTT
1 AGGGGTT
44607411 AGGGGTT
1 AGGGGTT
44607418 AGGG
1 AGGG
44607422 ATTTAGGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.19, C:0.00, G:0.56, T:0.25
Consensus pattern (7 bp):
AGGGGTT
Found at i:44608244 original size:12 final size:12
Alignment explanation
Indices: 44608211--44608243 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
44608201 TGTGGTTTGA
44608211 TTTTATTTTATT
1 TTTTATTTTATT
44608223 TTTTAGTTTTA-T
1 TTTTA-TTTTATT
44608235 TTTTATTTT
1 TTTTATTTT
44608244 TTTGAGGGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.20
12 11 0.55
13 5 0.25
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:44617391 original size:5 final size:5
Alignment explanation
Indices: 44617381--44617411 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
44617371 CTCGAAAATT
*
44617381 TTCGA TTCGA TTCGA TTCGA TTCTA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
44617412 CGAATGCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.45
Consensus pattern (5 bp):
TTCGA
Found at i:44622286 original size:37 final size:37
Alignment explanation
Indices: 44622242--44622312 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
44622232 TATCATTTTT
* *
44622242 ATTAAATTTTATTTAATAATAATTATATTAAAATATG
1 ATTAAATTATATTTAATAATAATCATATTAAAATATG
*
44622279 ATTAAATTATATTTAATAATAATCCTATTAAAAT
1 ATTAAATTATATTTAATAATAATCATATTAAAAT
44622313 TTAATAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (37 bp):
ATTAAATTATATTTAATAATAATCATATTAAAATATG
Found at i:44628724 original size:93 final size:93
Alignment explanation
Indices: 44628578--44628850 Score: 284
Period size: 97 Copynumber: 2.9 Consensus size: 93
44628568 TTTTTTTAAT
* * ** **
44628578 TAAATTAATTATAAAATTTTT--AAAATTAGATTAGGGTTTCGTCTTTATAGTTTTT-TTAAAAA
1 TAAATTAA-T-TAAAATTTTTAAAAAATTAGATTA-GGTTTAGTGTTTAGGGTTTTTAGGAAAAA
*
44628640 -TAAATTAAATTAGGGTTTAGGATTACTTGAG
63 TTAAA-TAAATTAGAGTTTAGGATTACTTGAG
* *
44628671 TAAATTAATTAAAATTTTTAAAAAATTAGATTAGGCTTTGGTGTTAAGGGTTTTTAAGGAAAAAT
1 TAAATTAATTAAAATTTTTAAAAAATTAGATTAGG-TTTAGTGTTTAGGGTTTTT-AGGAAAAAT
*
44628736 TAAATAAATTAGAGTTTAGGGTTACTTGAG
64 TAAATAAATTAGAGTTTAGGATTACTTGAG
* * * *
44628766 TCAATTAAATATAAATTTTAAAAAAAATTAGATTAATGTTTAGTGTTTAGGGTTTTTAAGGAAAA
1 TAAATTAATTA-AAATTTT-TAAAAAATTAGATT-AGGTTTAGTGTTTAGGGTTTTT-AGGAAAA
*
44628831 ATTCAAATAAATTAGGGTTT
62 ATT-AAATAAATTAGAGTTT
44628851 TGGGTTTAGG
Statistics
Matches: 154, Mismatches: 16, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
91 10 0.06
92 3 0.02
93 34 0.22
95 38 0.25
96 11 0.07
97 41 0.27
98 17 0.11
ACGTcount: A:0.40, C:0.03, G:0.16, T:0.41
Consensus pattern (93 bp):
TAAATTAATTAAAATTTTTAAAAAATTAGATTAGGTTTAGTGTTTAGGGTTTTTAGGAAAAATTA
AATAAATTAGAGTTTAGGATTACTTGAG
Found at i:44628766 original size:95 final size:97
Alignment explanation
Indices: 44628635--44628856 Score: 308
Period size: 97 Copynumber: 2.3 Consensus size: 97
44628625 TAGTTTTTTT
* * *
44628635 AAAAA-TAAATTAAATTAGGGTTTAGGATTACTTGAGTAAATTAATTA-AAATTTT-TAAAAAAT
1 AAAAATTAAA-TAAATTAGGGTTTAGGGTTACTTGAGTAAATTAAATATAAATTTTAAAAAAAAT
*
44628697 TAGATT-AGGCTTTGGTGTTAAGGGTTTTTAAGG
65 TAGATTAAGG-TTTAGTGTTAAGGGTTTTTAAGG
* *
44628730 AAAAATTAAATAAATTAGAGTTTAGGGTTACTTGAGTCAATTAAATATAAATTTTAAAAAAAATT
1 AAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAAATATAAATTTTAAAAAAAATT
* *
44628795 AGATTAATGTTTAGTGTTTAGGGTTTTTAAGG
66 AGATTAAGGTTTAGTGTTAAGGGTTTTTAAGG
*
44628827 AAAAATTCAAATAAATTAGGGTTTTGGGTT
1 AAAAATT-AAATAAATTAGGGTTTAGGGTT
44628857 TAGGGTTAAT
Statistics
Matches: 112, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
95 38 0.34
96 11 0.10
97 41 0.37
98 22 0.20
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (97 bp):
AAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAAATATAAATTTTAAAAAAAATT
AGATTAAGGTTTAGTGTTAAGGGTTTTTAAGG
Found at i:44629156 original size:126 final size:126
Alignment explanation
Indices: 44628928--44629176 Score: 340
Period size: 126 Copynumber: 2.0 Consensus size: 126
44628918 AATAGCTCTT
* * *** *
44628928 GAAAAAATAATTTTGAGAAGACGTTTTTGAGCAAATAGTGTTAAAAACGTTTTAAGCAGGATGCA
1 GAAAAAATAATTTCGAGAAGACGTTTTTGAGCAAATAGTGTAAAAAACACCTTAAACAGGATGCA
* * * * *
44628993 TTGTCAGTAAAAGTATTGAAAGAAGTTCCCACGTGGACG-TTCTTTTGTTACAGTAGCTTCC
66 TTGTCAGCAAAAGTATTGAAAGAAGTTCACACATGGACGCAT-TTTTGCTACAGTAGCTTCC
* * *
44629054 GAAAAAATAATTTCGAGTAGACGTTTTTGAGCAAATAGTGTAAAAAATACCTTAAACAGGATGCT
1 GAAAAAATAATTTCGAGAAGACGTTTTTGAGCAAATAGTGTAAAAAACACCTTAAACAGGATGCA
44629119 TTGTCAGCAAAAGTATTGAAAGAAGCTT-ACACATGGACGCATTTTTGCTACAGTAGCT
66 TTGTCAGCAAAAGTATTGAAAGAAG-TTCACACATGGACGCATTTTTGCTACAGTAGCT
44629177 CCTGTTTGGC
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
126 104 0.97
127 3 0.03
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.30
Consensus pattern (126 bp):
GAAAAAATAATTTCGAGAAGACGTTTTTGAGCAAATAGTGTAAAAAACACCTTAAACAGGATGCA
TTGTCAGCAAAAGTATTGAAAGAAGTTCACACATGGACGCATTTTTGCTACAGTAGCTTCC
Found at i:44633082 original size:36 final size:38
Alignment explanation
Indices: 44633042--44633141 Score: 104
Period size: 36 Copynumber: 2.8 Consensus size: 38
44633032 AAAACCAGCT
* *
44633042 TATGTTTTGTAATA-TTG-TTGCTGGTATATTGTTGCG
1 TATGTTTTGTAATACATGACTGCTGGTATATTGTTGCG
* *
44633078 TATG--TTGTTATACATGACTGCTGGTATATTGTTGCT
1 TATGTTTTGTAATACATGACTGCTGGTATATTGTTGCG
* *
44633114 TATG--TTGTTATACATGACTGCTAGTATA
1 TATGTTTTGTAATACATGACTGCTGGTATA
44633142 CATGGCTAAC
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
34 7 0.12
35 2 0.04
36 48 0.84
ACGTcount: A:0.21, C:0.09, G:0.22, T:0.48
Consensus pattern (38 bp):
TATGTTTTGTAATACATGACTGCTGGTATATTGTTGCG
Found at i:44635767 original size:31 final size:31
Alignment explanation
Indices: 44635701--44635776 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
44635691 GTTGGGATAG
* * * *
44635701 TAAACACAAAATAGACAATCCGCTATGATAG
1 TAAACACAGAATAGACAATCCGCTAGGACAA
* *
44635732 TAAACACAGAATAGACAATCTGTTAGGACAA
1 TAAACACAGAATAGACAATCCGCTAGGACAA
44635763 TAAACACAGAATAG
1 TAAACACAGAATAG
44635777 TTAGTTCATC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.18
Consensus pattern (31 bp):
TAAACACAGAATAGACAATCCGCTAGGACAA
Found at i:44639032 original size:106 final size:106
Alignment explanation
Indices: 44638576--44639709 Score: 724
Period size: 106 Copynumber: 10.6 Consensus size: 106
44638566 CGGTCATTTA
* * * *
44638576 CAGGCCATCACCAAATTTTTTTTTTACTTTTCTCGTATACTGGTG-CAGGCCATTAACAAACCAA
1 CAGGCCACCACCAAATTTTTTTTTTACTTTTTTCGTATACTGGTGCCA-GCCATTGACAGACCAA
* * ** *
44638640 AAGTAAAAAAAAAATTTGGAAAAAAGGT-G-GCTTGCCAATGG
65 AAATAAAAAAAAAAATTGG-AAAAAGGTGGTGCCGGCCATTGG
* ** *
44638681 CCGGCAGCACCTGTTTTCAAATTTTTTTTTTTACTTTTTTCGTTTACTGGTGCCTA-CCATTGAC
1 CAGGC--CACC----ACCAAA-TTTTTTTTTTACTTTTTTCGTATACTGGTGCC-AGCCATTGAC
* * * *
44638745 --ACCAAAAAAGTAAAAAAAAAAAATT-TAAAACAAGTGTTGCCGACCATTGG
58 AGACC-AAAAA-T-AAAAAAAAAAATTGGAAAA-AGGTGGTGCCGGCCATTGG
* * *
44638795 CAAGCCACCACCAAAAAATAATTTTTTTTTACTTTTTTCGTATACTGGTGCCTGCCATTAACATG
1 CAGGCCACCACC---AAAT--TTTTTTTTTACTTTTTTCGTATACTGGTGCCAGCCATTGACA-G
** * * * ***
44638860 AAAAAAGTAAAAAAAAAAACAAAATTTGGAAACAGGTGGAGCAAACCATTGG
60 -ACCAA--AAATAAAAAAA-AAAA-TTGGAAAAAGGTGGTGCCGGCCATTGG
44638912 CAGGCCACCACCAAATTTTTTTTTTACTTTTTTCGTATACTGGTGCCAGCCATTGACAGACCAAA
1 CAGGCCACCACCAAATTTTTTTTTTACTTTTTTCGTATACTGGTGCCAGCCATTGACAGACCAAA
* * *
44638977 AATAAAAAAAAAAATTGGAAACAGGTGGAGCTGGCCATTGG
66 AATAAAAAAAAAAATTGGAAAAAGGTGGTGCCGGCCATTGG
44639018 CAGGCCACCACCAAA-TTTTTTTTT-CTTTTTTCGTATACTGGTGCC-GACCATTGACACGA--A
1 CAGGCCACCACCAAATTTTTTTTTTACTTTTTTCGTATACTGGTGCCAG-CCATTGACA-GACCA
*
44639078 AAAAGT--AAAAAAAAATTGGAAAAAAGGTGGTGCTGGCCATTGG
64 AAAA-TAAAAAAAAAAATTGG-AAAAAGGTGGTGCCGGCCATTGG
* *
44639121 CAGGCCACCACCAAAACAATTTTTTTTTTACTTTTTTCGTATACTGATGCCAACCATTGACAGAC
1 CAGGCCACCACC---A-AATTTTTTTTTTACTTTTTTCGTATACTGGTGCCAGCCATTGACAGAC
* * * ***
44639186 TAAAAAT--AAAAAAAAATTGGAAACAGGTGGAGCCAATCATTGG
62 CAAAAATAAAAAAAAAAATTGGAAAAAGGTGGTGCCGGCCATTGG
* ** ** * *
44639229 CAGGCCACCACAAAAAACATTTTTTTCCCTTTTTTCGTATATTGGTGCCGGCCATTGACAGACCA
1 CAGGCCACCAC--CAAATTTTTTTTTTACTTTTTTCGTATACTGGTGCCAGCCATTGACAGACCA
* * *
44639294 AAAGT--AAAAAAAATTTGGGAAAAAGGTGATGCCGGCCATTGG
64 AAAATAAAAAAAAAAATT-GGAAAAAGGTGGTGCCGGCCATTGG
* ** * * * * * * *
44639336 CAGGCCACCAACAAAACAAATTTTTTTTACTTTTTTCGTTTCAAT--AGCAAG-CACT-AGTATA
1 CAGGCCACC-AC-CAA-ATTTTTTTTTTACTTTTTTCGTAT-ACTGGTGCCAGCCATTGA-CAGA
* * ******* *
44639397 CGAAAAA-AGTAATTTTTTTTTGCAAAAAGGTGGTGCCGGCCATTGG
61 CCAAAAATA-AAAAAAAAAATTGGAAAAAGGTGGTGCCGGCCATTGG
* * *
44639443 CAGGCCACCATCAAATTTTTTTTTCTACTTTTTTCGTATATTGGTTCCTA-CCATTGACATGA--
1 CAGGCCACCACCAAATTTTTTTTT-TACTTTTTTCGTATACTGGTGCC-AGCCATTGACA-GACC
* * * *
44639505 AAAAAGT-AAAAAAAAATTTGAAAAAAGGTGGTGCCGACCATTAG
63 AAAAA-TAAAAAAAAAAATTGGAAAAAGGTGGTGCCGGCCATTGG
* * * * *
44639549 CAGGCTACCA-CTAA---TTTTTTT--TTTTTTCTTATACTGGTGCCTA-CAATTGAC--ACAAA
1 CAGGCCACCACCAAATTTTTTTTTTACTTTTTTCGTATACTGGTGCC-AGCCATTGACAGACCAA
***
44639605 AAAGTAAAAAAAAAATTACTT--TTTAAGGTGGTGCCGGCCATTGG
65 AAA-TAAAAAAAAAA--A-TTGGAAAAAGGTGGTGCCGGCCATTGG
* * * ** *
44639649 CAGACCACCACCAAATTTTTTTTTTACCTTTTTCATATTTTGGTGCCGGCCATTGACAGAC
1 CAGGCCACCACCAAATTTTTTTTTTACTTTTTTCGTATACTGGTGCCAGCCATTGACAGAC
44639710 AAATACCTGA
Statistics
Matches: 818, Mismatches: 134, Indels: 151
0.74 0.12 0.14
Matches are distributed among these distances:
96 1 0.00
98 7 0.01
99 35 0.04
100 26 0.03
101 4 0.00
102 21 0.03
103 39 0.05
104 48 0.06
105 34 0.04
106 171 0.21
107 82 0.10
108 81 0.10
109 45 0.06
110 12 0.01
111 16 0.02
112 120 0.15
113 13 0.02
114 16 0.02
115 9 0.01
116 5 0.01
117 30 0.04
118 3 0.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (106 bp):
CAGGCCACCACCAAATTTTTTTTTTACTTTTTTCGTATACTGGTGCCAGCCATTGACAGACCAAA
AATAAAAAAAAAAATTGGAAAAAGGTGGTGCCGGCCATTGG
Found at i:44639520 original size:215 final size:210
Alignment explanation
Indices: 44638814--44639558 Score: 667
Period size: 213 Copynumber: 3.5 Consensus size: 210
44638804 ACCAAAAAAT
* *
44638814 AATTTTTTTT-TACTTTTTTCGTATACTGGTGCCTG-CCATTAACATGAAAAAAGTAAAAAAAAA
1 AATTTTTTTTCT-CTTTTTTCGTATATTGGTGCC-GACCATTGACA-GAAAAAAGT------AAA
* * *** * *
44638877 AACAAAATTTGG-AAACAGGTGGAGCAAACCATTGGCAGGCCACC-AC--CA-AATTTTTTTTTT
57 AA-AAAATTTGGAAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCAACAAAACAATATTTTTTTT
* * * * * *
44638937 ACTTTTTTCGTATACTGGTGCCAGCCATTGACAGACCAAAAATAAAAAAAAAAATTGGAAACAGG
121 ACTTTTTTCGTATAATGATGCCAACCATAGACAGA-CAAAAAT--AAAAAAAAATTGCAAAAAGG
*
44639002 TGGAGCTGGCCATTGGCAGGCCACCACCA
183 TGGAGCCGGCCATTGGCAGGCCACCA-CA
*
44639031 AATTTTTTTT-TCTTTTTTCGTATACTGGTGCCGACCATTGACACGAAAAAAGTAAAAAAAAA-T
1 AATTTTTTTTCTCTTTTTTCGTATATTGGTGCCGACCATTGACA-GAAAAAAGTAAAAAAAAATT
* * *
44639094 TGGAAAAAAGGTGGTGCTGGCCATTGGCAGGCCACCACCAAAACAATTTTTTTTTTACTTTTTTC
65 TGGAAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCAACAAAACAATATTTTTTTTACTTTTTTC
* * * * ***
44639159 GTATACTGATGCCAACCATTGACAGACTAAAAATAAAAAAAAATTGGAAACAGGTGGAGCCAATC
130 GTATAATGATGCCAACCATAGACAGAC-AAAAATAAAAAAAAATTGCAAAAAGGTGGAGCCGGCC
44639224 ATTGGCAGGCCACCACAAAA
194 ATTGGCAGGCCACCAC---A
* * * *
44639244 AACATTTTTTTCCCTTTTTTCGTATATTGGTGCCGGCCATTGACAGACCAAAAGT-AAAAAAAAT
1 AA-TTTTTTTTCTCTTTTTTCGTATATTGGTGCCGACCATTGACAGA-AAAAAGTAAAAAAAAAT
* *
44639308 TTGGGAAAAAGGTGATGCCGGCCATTGGCAGGCCACCAACAAAACAA-ATTTTTTTTACTTTTTT
64 TTGGAAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCAACAAAACAATATTTTTTTTACTTTTTT
* * * ******* *
44639372 CGTTTCAAT-A-G-CAAGCACTAGTATACGA-AAAAAGTAATTTTTTTTTGCAAAAAGGTGGTGC
129 CGTAT-AATGATGCCAACCA-TAG-ACA-GACAAAAA-TAAAAAAAAATTGCAAAAAGGTGGAGC
44639433 CGGCCATTGGCAGGCCACCATCA
189 CGGCCATTGGCAGGCCACCA-CA
* *
44639456 AATTTTTTTTTCTACTTTTTTCGTATATTGGTTCCTACCATTGACATGAAAAAAGTAAAAAAAAA
1 AA-TTTTTTTTCT-CTTTTTTCGTATATTGGTGCCGACCATTGACA-GAAAAAAGTAAAAAAAAA
* * *
44639521 TTT-GAAAAAAGGTGGTGCCGACCATTAGCAGGCTACCA
63 TTTGGAAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCA
44639559 CTAATTTTTT
Statistics
Matches: 450, Mismatches: 55, Indels: 50
0.81 0.10 0.09
Matches are distributed among these distances:
208 4 0.01
209 31 0.07
210 7 0.02
211 42 0.09
212 18 0.04
213 127 0.28
214 87 0.19
215 85 0.19
216 38 0.08
217 11 0.02
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (210 bp):
AATTTTTTTTCTCTTTTTTCGTATATTGGTGCCGACCATTGACAGAAAAAAGTAAAAAAAAATTT
GGAAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCAACAAAACAATATTTTTTTTACTTTTTTCG
TATAATGATGCCAACCATAGACAGACAAAAATAAAAAAAAATTGCAAAAAGGTGGAGCCGGCCAT
TGGCAGGCCACCACA
Found at i:44641117 original size:12 final size:13
Alignment explanation
Indices: 44641094--44641122 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
44641084 GGGCTATAAC
44641094 TATTGCATTTATT
1 TATTGCATTTATT
44641107 TATTG-ATTTATT
1 TATTGCATTTATT
44641119 TATT
1 TATT
44641123 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.24, C:0.03, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:44644470 original size:54 final size:54
Alignment explanation
Indices: 44644406--44644513 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
44644396 GGTTTTCGCC
* *
44644406 AAATTTATGGTGTTGACTATGATGAAACCTTTTCTTCTGTAGCTATGTTTAAAT
1 AAATTTATGGTGTTGACTATGATGAAACATTTTCTCCTGTAGCTATGTTTAAAT
44644460 AAATTTATGGTGTTGACTATGATGAAACATTTTCTCCTGTAGCTATGTTTAAAT
1 AAATTTATGGTGTTGACTATGATGAAACATTTTCTCCTGTAGCTATGTTTAAAT
44644514 CCATTAGGAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.44
Consensus pattern (54 bp):
AAATTTATGGTGTTGACTATGATGAAACATTTTCTCCTGTAGCTATGTTTAAAT
Found at i:44644505 original size:26 final size:26
Alignment explanation
Indices: 44644422--44644506 Score: 62
Period size: 27 Copynumber: 3.2 Consensus size: 26
44644412 ATGGTGTTGA
* *
44644422 CTATGATGAAACCTTTTCTTCTGTAG
1 CTATGATGAAACATTTTCTCCTGTAG
* * * * * ** *
44644448 CTATGTTTAAATAAATTTATGGTGTTG
1 CTATGATGAAA-CATTTTCTCCTGTAG
44644475 ACTATGATGAAACATTTTCTCCTGTAG
1 -CTATGATGAAACATTTTCTCCTGTAG
44644502 CTATG
1 CTATG
44644507 TTTAAATCCA
Statistics
Matches: 40, Mismatches: 17, Indels: 4
0.66 0.28 0.07
Matches are distributed among these distances:
26 14 0.35
27 17 0.43
28 9 0.22
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.42
Consensus pattern (26 bp):
CTATGATGAAACATTTTCTCCTGTAG
Found at i:44647156 original size:3 final size:3
Alignment explanation
Indices: 44647148--44647172 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
44647138 TTAAAATATG
44647148 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
44647173 ATTGTGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:44647340 original size:22 final size:24
Alignment explanation
Indices: 44647297--44647343 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
44647287 ATATTTGTGA
44647297 ATAAAATATTATTATATGATTATT
1 ATAAAATATTATTATATGATTATT
* *
44647321 ATAATATATTGTTAT-T-ATTATT
1 ATAAAATATTATTATATGATTATT
44647343 A
1 A
44647344 ACTAATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.33
23 1 0.05
24 13 0.62
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (24 bp):
ATAAAATATTATTATATGATTATT
Found at i:44647376 original size:8 final size:8
Alignment explanation
Indices: 44647363--44647399 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
44647353 TAAAAGGAAT
44647363 AGAATAAA
1 AGAATAAA
44647371 AGAATAAA
1 AGAATAAA
*
44647379 AGAAACAAA
1 AG-AATAAA
44647388 AGAATAAA
1 AGAATAAA
44647396 AGAA
1 AGAA
44647400 ACAGAGACCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
8 19 0.73
9 7 0.27
ACGTcount: A:0.76, C:0.03, G:0.14, T:0.08
Consensus pattern (8 bp):
AGAATAAA
Found at i:44647390 original size:17 final size:17
Alignment explanation
Indices: 44647368--44647402 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
44647358 GGAATAGAAT
44647368 AAAAGAATAAAAGAAAC
1 AAAAGAATAAAAGAAAC
44647385 AAAAGAATAAAAGAAAC
1 AAAAGAATAAAAGAAAC
44647402 A
1 A
44647403 GAGACCATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.77, C:0.06, G:0.11, T:0.06
Consensus pattern (17 bp):
AAAAGAATAAAAGAAAC
Found at i:44650013 original size:31 final size:31
Alignment explanation
Indices: 44649927--44650013 Score: 120
Period size: 31 Copynumber: 2.8 Consensus size: 31
44649917 GAGGTAAGTT
*
44649927 TGTTAGGATAGTAAACACAAAACAGACAATC
1 TGTTAGGATAGTAAACACAAAATAGACAATC
* *
44649958 CGTTAGGATAGTAAACACATAATAGACAATC
1 TGTTAGGATAGTAAACACAAAATAGACAATC
* * *
44649989 TGTTAGGACAATAAACACAGAATAG
1 TGTTAGGATAGTAAACACAAAATAG
44650014 TCAGTTCATC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.21
Consensus pattern (31 bp):
TGTTAGGATAGTAAACACAAAATAGACAATC
Found at i:44651994 original size:15 final size:16
Alignment explanation
Indices: 44651982--44652015 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
44651972 CCCGTCCCGT
44651982 CCAGTCCCATCCCATC
1 CCAGTCCCATCCCATC
44651998 CCA-TCCCATCCCATC
1 CCAGTCCCATCCCATC
44652013 CCA
1 CCA
44652016 TCCATAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.83
16 3 0.17
ACGTcount: A:0.21, C:0.59, G:0.03, T:0.18
Consensus pattern (16 bp):
CCAGTCCCATCCCATC
Found at i:44652015 original size:5 final size:5
Alignment explanation
Indices: 44651986--44652018 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
44651976 TCCCGTCCAG
44651986 TCCCA TCCCA TCCCA TCCCA TCCCA TCCCA TCC
1 TCCCA TCCCA TCCCA TCCCA TCCCA TCCCA TCC
44652019 ATAAACAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.61, G:0.00, T:0.21
Consensus pattern (5 bp):
TCCCA
Found at i:44676600 original size:98 final size:98
Alignment explanation
Indices: 44676426--44676622 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
44676416 GTACAATAAA
*
44676426 ACTTTAAAAAAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAAAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
44676491 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
*
44676524 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAAAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
44676589 CCTTTAAAATCCCAAACTCAGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
44676622 A
1 A
44676623 TTATTTTTAA
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAAAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
Found at i:44677315 original size:23 final size:24
Alignment explanation
Indices: 44677287--44677339 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 24
44677277 ATATACATAT
*
44677287 AAATAT-GAAAATATTCTTTAAAA
1 AAATATAGAAAATATTCGTTAAAA
44677310 AAATATAGGAAAATATTCGTTAAAA
1 AAATATA-GAAAATATTCGTTAAAA
44677335 AAATA
1 AAATA
44677340 CATGTACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 6 0.22
25 21 0.78
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (24 bp):
AAATATAGAAAATATTCGTTAAAA
Found at i:44678130 original size:19 final size:19
Alignment explanation
Indices: 44678106--44678218 Score: 163
Period size: 19 Copynumber: 5.8 Consensus size: 19
44678096 AATCATATAT
44678106 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
44678125 TCTAAGATTATATATCATC
1 TCTAAGATTGCATATCATA
44678144 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
44678163 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
**
44678184 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
44678203 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
44678219 CTCAAAAATT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
19 65 0.79
21 17 0.21
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:44678193 original size:40 final size:40
Alignment explanation
Indices: 44678106--44678217 Score: 183
Period size: 40 Copynumber: 2.9 Consensus size: 40
44678096 AATCATATAT
*
44678106 TCTAAGATTGCATATCATATCTAAGATT--ATATATCATC
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
44678144 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
**
44678184 TCTTGGATTGCATATCATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
44678218 CCTCAAAAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 28 0.41
40 41 0.59
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:44678798 original size:15 final size:15
Alignment explanation
Indices: 44678778--44678817 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
44678768 AAAAACTAAT
44678778 GAAAATTGAAGCAAA
1 GAAAATTGAAGCAAA
* *
44678793 GAAAATGGATGCAAA
1 GAAAATTGAAGCAAA
*
44678808 GAAATTTGAA
1 GAAAATTGAA
44678818 TAAGAAGAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.23, T:0.17
Consensus pattern (15 bp):
GAAAATTGAAGCAAA
Found at i:44691782 original size:21 final size:20
Alignment explanation
Indices: 44691737--44691807 Score: 101
Period size: 19 Copynumber: 3.6 Consensus size: 20
44691727 ATCTTCAAGG
*
44691737 ATATCCAATCTTAGATATG-
1 ATATGCAATCTTAGATATGA
44691756 ATATGCAATCTTAGATATGA
1 ATATGCAATCTTAGATATGA
*
44691776 TATATGCAATCTTGGATAT-A
1 -ATATGCAATCTTAGATATGA
44691796 ATATGCAATCTT
1 ATATGCAATCTT
44691808 GAAAGATATG
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
19 30 0.62
20 1 0.02
21 17 0.35
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.38
Consensus pattern (20 bp):
ATATGCAATCTTAGATATGA
Found at i:44700663 original size:88 final size:88
Alignment explanation
Indices: 44700478--44701152 Score: 888
Period size: 88 Copynumber: 7.7 Consensus size: 88
44700468 GTTTACAGTA
* * * * *
44700478 GAGCAGGTTGAAAATAACAGATTTTGCCTTCCTGTA-CTGACGGTGAAGCAGATCGAAGATA-TA
1 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATC-GACAGTGAAGCAGATCGAAGATACCA
* * *
44700541 GCCTTGCCTCTCTAGATTGTAGTG
65 GCCTTGCCTCCCTGGGTTGTAGTG
* * *
44700565 GAGCAGGTTGAAGATAGTAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCAG
1 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAG
*
44700630 CCTTGCCTCCCTGGGTTGTAGTT
66 CCTTGCCTCCCTGGGTTGTAGTG
*
44700653 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAG
1 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAG
* *
44700718 CCTTGCCTTCCTGAGTTGTAGTG
66 CCTTGCCTCCCTGGGTTGTAGTG
* * * *
44700741 GAGCAGGTTGAAAATAGTAGATCTTGCATTCCTGTATCAACAGTGAAGCAGATCGAAGATACCAG
1 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAG
44700806 CCTTGCCTCCCTGGGTTGTAGTG
66 CCTTGCCTCCCTGGGTTGTAGTG
* * * * ** * *
44700829 GAGCAGGTTAAAGATAGTAGATCTTGCATTCTTACATCGACAGCGAAACAGATCGAAGATACCAG
1 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAG
44700894 CCTTGCCTCCCTGGGTTGTAGTG
66 CCTTGCCTCCCTGGGTTGTAGTG
* *
44700917 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCAAAGATACCAG
1 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAG
*
44700982 CCTTGCCTCCCTGGGTCGTAGTG
66 CCTTGCCTCCCTGGGTTGTAGTG
* * * *
44701005 GAGCAGGTTGAAGATAGCAAATCTTGCCTTACTGTATCGACAATGAAGCAGATCAAAGATACCAG
1 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAG
* *
44701070 TCTTGCCTCCCTGGGTTGTCGTG
66 CCTTGCCTCCCTGGGTTGTAGTG
* * * * * * * * * * * *
44701093 AAGTAGATCGAAAAAAGCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCAAAGATA
1 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATA
44701153 GCAGATCTTG
Statistics
Matches: 520, Mismatches: 66, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
87 69 0.13
88 451 0.87
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (88 bp):
GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAG
CCTTGCCTCCCTGGGTTGTAGTG
Found at i:44701118 original size:44 final size:44
Alignment explanation
Indices: 44701085--44701388 Score: 278
Period size: 44 Copynumber: 6.9 Consensus size: 44
44701075 CCTCCCTGGG
44701085 TTGTCGTGAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATGTA
1 TTGTCGTGAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATGTA
* *
44701129 TTGGCGTGAAGTAGATC-AAAGATAGCAGATCTTGTCTTCATGTA
1 TTGTCGTGAAGTAGATCGAAA-AAAGCAGATCTTGTCTTCATGTA
* ***
44701173 TTGGT-GTGAAGTAGATCGAAGATAA-CAGATCTTGTCTTCCCATA
1 TT-GTCGTGAAGTAGATCGAA-AAAAGCAGATCTTGTCTTCATGTA
* * * * *
44701217 CTGGTGGCGAAGTAGATC-AAAGAAAGCAGATCTTGTCTCCATATA
1 -TTGTCGTGAAGTAGATCGAAA-AAAGCAGATCTTGTCTTCATGTA
* * * * * * *
44701262 TTGGCGTGAAGTAGATC-AAATATGATAGATATTGTTTTTATGTA
1 TTGTCGTGAAGTAGATCGAAAAAAG-CAGATCTTGTCTTCATGTA
* * * *
44701306 TTGGCGTGAAGTAGATC-AAATATAGCAAATCTTGTTTTCATGTA
1 TTGTCGTGAAGTAGATCGAAA-AAAGCAGATCTTGTCTTCATGTA
* * *
44701350 TTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTC
1 TTGTCGTGAAGTAGATCGAAAAAAGCAGATCTTGTCTTC
44701389 CCATAGTGGT
Statistics
Matches: 213, Mismatches: 36, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
43 6 0.03
44 171 0.80
45 35 0.16
46 1 0.00
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.33
Consensus pattern (44 bp):
TTGTCGTGAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATGTA
Found at i:44701162 original size:88 final size:87
Alignment explanation
Indices: 44700878--44701388 Score: 283
Period size: 88 Copynumber: 5.8 Consensus size: 87
44700868 ACAGCGAAAC
* * * * * * * * * * *
44700878 AGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
1 AGATCAAAGATACCAGTCTTGCCTCCATGGATTGTCGTGAAGTAGATCGAAAAAAGCAGATCTTG
* * ** * *
44700943 CCTTCCTGTACCGACAGTGAAGC
66 TCTTCATGTATTGGC-GTGAAGT
* * * * * * * * * * * *
44700966 AGATCAAAGATACCAGCCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAAATCTTG
1 AGATCAAAGATACCAGTCTTGCCTCCATGGATTGTCGTGAAGTAGATCGAAAAAAGCAGATCTTG
* * * * *
44701031 CCTT-ACTGTATCGACAATGAAGC
66 TCTTCA-TGTATTGGC-GTGAAGT
* *
44701054 AGATCAAAGATACCAGTCTTGCCTCCCTGGGTTGTCGTGAAGTAGATCGAAAAAAGCAGATCTTG
1 AGATCAAAGATACCAGTCTTGCCTCCATGGATTGTCGTGAAGTAGATCGAAAAAAGCAGATCTTG
44701119 TCTTCATGTATTGGCGTGAAGT
66 TCTTCATGTATTGGCGTGAAGT
* * * * *
44701141 AGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGT-GTGAAGTAGATCGAAGATAA-CAGATC
1 AGATCAAAGATACCAG-TCTTGCCTCCATGGATT-GTCGTGAAGTAGATCGAA-AAAAGCAGATC
*** * * *
44701204 TTGTCTTCCCATACTGGTGGCGAAGT
63 TTGTCTTCATGTATTGG-CGTGAAGT
* * * ** * * * * *
44701230 AGATCAAAGAAAGCAGATCTTGTCTCCATATATTGGCGTGAAGTAGATC-AAATATGATAGATAT
1 AGATCAAAGATACCAG-TCTTGCCTCCATGGATTGTCGTGAAGTAGATCGAAAAAAG-CAGATCT
* *
44701294 TGTTTTTATGTATTGGCGTGAAGT
64 TGTCTTCATGTATTGGCGTGAAGT
* * * ** * * * * *
44701318 AGATCAAATATAGCAAATCTTGTTTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTT
1 AGATCAAAGATA-CCAGTCTTGCCTCCATGGATTGTCGTGAAGTAGATCGAAAAAAGCAGATCTT
44701383 GTCTTC
65 GTCTTC
44701389 CCATAGTGGT
Statistics
Matches: 347, Mismatches: 65, Indels: 22
0.80 0.15 0.05
Matches are distributed among these distances:
87 23 0.07
88 250 0.72
89 74 0.21
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (87 bp):
AGATCAAAGATACCAGTCTTGCCTCCATGGATTGTCGTGAAGTAGATCGAAAAAAGCAGATCTTG
TCTTCATGTATTGGCGTGAAGT
Found at i:44701307 original size:177 final size:177
Alignment explanation
Indices: 44701089--44701419 Score: 511
Period size: 177 Copynumber: 1.9 Consensus size: 177
44701079 CCTGGGTTGT
*
44701089 CGTGAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAG
1 CGTGAAGTAGATCGAAAAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAG
* *
44701154 CAGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCCATACT
66 CAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCCATACT
* *
44701219 GGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTCCATATATTGG
131 GGTAGCAAAGTAGATCAAAGAAAGCAGATCTTGTCTCCATATATTGG
* * * * * *
44701266 CGTGAAGTAGATC-AAATATGATAGATATTGTTTTTATGTATTGGCGTGAAGTAGATCAAATATA
1 CGTGAAGTAGATCGAAAAAAG-CAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATA
* * *
44701330 GCAAATCTTGTTTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATAG
65 GCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCCATAC
*
44701395 TGGTAGCAAAGTAGATCGAAGAAAG
130 TGGTAGCAAAGTAGATCAAAGAAAG
44701420 TAGGTATTGG
Statistics
Matches: 138, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
176 5 0.04
177 133 0.96
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (177 bp):
CGTGAAGTAGATCGAAAAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAG
CAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCCATACT
GGTAGCAAAGTAGATCAAAGAAAGCAGATCTTGTCTCCATATATTGG
Found at i:44701411 original size:133 final size:133
Alignment explanation
Indices: 44701087--44701389 Score: 369
Period size: 133 Copynumber: 2.3 Consensus size: 133
44701077 TCCCTGGGTT
* * *
44701087 GTCGTGAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAT
1 GTCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCAAAGAT
* * * * *
44701152 AGCAGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCCATA
66 AGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAAATCTTGTCTTCACATA
44701217 CTG
131 CTG
* * * *
44701220 GTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTC-TCCATATATTGGCGTGAAGTAGATCAAATA
1 GTCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCC-TATATTGGCGTGAAGTAGATCAAAGA
* * * * * * **
44701284 T-GATAGATATTGTTTTTATGTATTGGCGTGAAGTAGATCAAATATAGCAAATCTTGTTTTCATG
65 TAG-CAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAAATCTTGTCTTCACA
*
44701348 TATTG
129 TACTG
*
44701353 G-CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCC
1 GTCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCC
44701390 CATAGTGGTA
Statistics
Matches: 142, Mismatches: 25, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
132 31 0.22
133 111 0.78
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.32
Consensus pattern (133 bp):
GTCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCAAAGAT
AGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAAATCTTGTCTTCACATA
CTG
Found at i:44701483 original size:118 final size:119
Alignment explanation
Indices: 44701303--44701532 Score: 320
Period size: 118 Copynumber: 1.9 Consensus size: 119
44701293 TTGTTTTTAT
* ** * * * *
44701303 GTATTGGCGTGAAGTAGATCAAATATAGCAAATCTTGTTTTCATGTATTGGCGTGAAGTAGATCG
1 GTATTGGCG-GAAGTAGATCAAAGATAGCAAATCTTGTCCTCATGTATCGGCATGAAATAGATCA
* *
44701368 AAGATAGCAGATCTTGTCTTCCCATAGTGGTAGCAAAGTAGATCGAAGAAAGTAG
65 AAGATAGCAGATCTTGTCTTCCCACACTGGTAGCAAAGTAGATCGAAGAAAGTAG
*
44701423 GTATTGGC-GAAGTAGATCGAAAGA-AGCAGATCTTGTCCTCATGTATCGGCATGAAATAGATCA
1 GTATTGGCGGAAGTAGATC-AAAGATAGCAAATCTTGTCCTCATGTATCGGCATGAAATAGATCA
* *
44701486 AAGGTAGCAGATCTTGTCTTCCCACACTGGTGGCAAAGTAGATCGAA
65 AAGATAGCAGATCTTGTCTTCCCACACTGGTAGCAAAGTAGATCGAA
44701533 AATACAAGTC
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
118 85 0.88
119 4 0.04
120 8 0.08
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (119 bp):
GTATTGGCGGAAGTAGATCAAAGATAGCAAATCTTGTCCTCATGTATCGGCATGAAATAGATCAA
AGATAGCAGATCTTGTCTTCCCACACTGGTAGCAAAGTAGATCGAAGAAAGTAG
Found at i:44701905 original size:21 final size:21
Alignment explanation
Indices: 44701880--44701957 Score: 72
Period size: 21 Copynumber: 3.7 Consensus size: 21
44701870 ATCTTCAAGG
44701880 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
* *
44701901 ATATGCAATTTTGGATATG--
1 ATATGCAATCTTAGATATGAT
44701920 ATATGCAATCTTGAAAGATATGAT
1 ATATGCAATCTT---AGATATGAT
* *
44701944 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
44701958 GATTTAATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
19 11 0.24
20 3 0.07
21 17 0.37
22 6 0.13
23 9 0.20
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.40
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:44705204 original size:15 final size:15
Alignment explanation
Indices: 44705186--44705215 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44705176 CTAAATGAAC
*
44705186 AAATAAAAAATAACT
1 AAATAAAAAAAAACT
44705201 AAATAAAAAAAAACT
1 AAATAAAAAAAAACT
44705216 TGATACTAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.17
Consensus pattern (15 bp):
AAATAAAAAAAAACT
Found at i:44705742 original size:55 final size:55
Alignment explanation
Indices: 44705681--44705788 Score: 180
Period size: 55 Copynumber: 2.0 Consensus size: 55
44705671 TCCTAAAATT
* *
44705681 CAATTTAGATTCTAATATAAAATCCTAAATTCTAAAATATAATCTTTTTTAAAGA
1 CAATTTAGATTCTAATAAAAAATCCTAAAGTCTAAAATATAATCTTTTTTAAAGA
* *
44705736 CAATTTAGATTCTAATAAAAAATCCTAAAGTCTAAAATCTATTCTTTTTTAAA
1 CAATTTAGATTCTAATAAAAAATCCTAAAGTCTAAAATATAATCTTTTTTAAA
44705789 AGAAAAGCTA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (55 bp):
CAATTTAGATTCTAATAAAAAATCCTAAAGTCTAAAATATAATCTTTTTTAAAGA
Found at i:44711617 original size:13 final size:13
Alignment explanation
Indices: 44711601--44711625 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44711591 AAGCTACTAT
44711601 AAAATCTTAAATA
1 AAAATCTTAAATA
44711614 AAAATCTTAAAT
1 AAAATCTTAAAT
44711626 TCTAAAATTT
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:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATCTTAAATA
Found at i:44711784 original size:41 final size:41
Alignment explanation
Indices: 44711680--44711832 Score: 98
Period size: 41 Copynumber: 4.0 Consensus size: 41
44711670 TTTATATTCT
* **
44711680 AATATAAAATCCTAAAGTATAA--AATCTATTCTAATATAAA
1 AATATAAAATCCTAAAATATAATTAA-AAATTCTAATATAAA
** * *
44711720 AATATAAAATCCTAGCATCTAATTAAAAATTCTACTATAAA
1 AATATAAAATCCTAAAATATAATTAAAAATTCTAATATAAA
* * *
44711761 AATCTTAAATTCT-AAA-AT-A-T---AATTCTAATAT--A
1 AATATAAAATCCTAAAATATAATTAAAAATTCTAATATAAA
*
44711793 AATATAAAATCCTAAAATCTAACTT--AAATTCTAATATAAA
1 AATATAAAATCCTAAAATATAA-TTAAAAATTCTAATATAAA
44711833 TGTCCTAAAG
Statistics
Matches: 85, Mismatches: 18, Indels: 20
0.69 0.15 0.16
Matches are distributed among these distances:
32 11 0.13
33 3 0.04
34 11 0.13
35 1 0.01
37 2 0.02
38 12 0.14
39 1 0.01
40 20 0.24
41 22 0.26
42 2 0.02
ACGTcount: A:0.53, C:0.12, G:0.01, T:0.34
Consensus pattern (41 bp):
AATATAAAATCCTAAAATATAATTAAAAATTCTAATATAAA
Found at i:44711908 original size:145 final size:143
Alignment explanation
Indices: 44711614--44712220 Score: 676
Period size: 145 Copynumber: 4.3 Consensus size: 143
44711604 ATCTTAAATA
* * *
44711614 AAAATCTTAAATTCTAAAATTTAATTCTAATATAAATATAAATTCCTAAAAGTC-AATTTATATT
1 AAAATCTTAAATTCTAAAATTTAATTCTAATATAAATATAAAATCCTAAAA-TCTAACTTAAATT
* * *
44711678 CTAATATAAAATCCTAAAGTATAAAATCTATTCTAATATAAAAATATAAAATCCTAGCATCTAAT
65 CTAATATAAAATCCTAAAGTCTAGAATCTATTCTAATATAAAAATATGAAATCCTAGCATCTAAT
44711743 TAAAAATTCTACTAT
130 TAAAAA-TCTACTAT
*
44711758 AAAAATCTTAAATTCTAAAATATAATTCTAATATAAATATAAAATCCTAAAATCTAACTTAAATT
1 -AAAATCTTAAATTCTAAAATTTAATTCTAATATAAATATAAAATCCTAAAATCTAACTTAAATT
* * * *
44711823 CTAATATAAATGTCCTAAAGTCTAGAATATATTCTAATATAAAAAAAATGAAACCCTAGCATCTA
65 CTAATATAAA-ATCCTAAAGTCTAGAATCTATTCTAATAT-AAAAATATGAAATCCTAGCATCTA
*
44711888 ATTTAAAATCTACTAT
128 ATTAAAAATCTACTAT
* * *
44711904 AAAATCTTAAATTCTAAAATTTAATT-TAATATAAATAAAAAATTCTAAAATCTAGCTTAAATTC
1 AAAATCTTAAATTCTAAAATTTAATTCTAATATAAATATAAAATCCTAAAATCTAACTTAAATTC
* * * **
44711968 TAATATAAAAATCCTAAGGTCTAGATTCTATTCTAATATACAAATATGAAATCCTATAATCTAAT
66 TAATAT-AAAATCCTAAAGTCTAGAATCTATTCTAATATAAAAATATGAAATCCTAGCATCTAAT
44712033 TAAAAAATCTACTAT
130 T-AAAAATCTACTAT
* * *
44712048 AAACTCTTAAATTC--CAA---AA-TCT-A-AT---TCT--AA---TAAAATCTAACTTAAATT-
1 AAAATCTTAAATTCTAAAATTTAATTCTAATATAAATATAAAATCCTAAAATCTAACTTAAATTC
* * * * * * *
44712096 TCAATATAAAACTCCGAAAATCTACAATCTATTCTTATATAAAAATATGAAATCCTAGAATCCAT
66 T-AATATAAAA-TCCTAAAGTCTAGAATCTATTCTAATATAAAAATATGAAATCCTAGCATCTAA
* *
44712161 TTAAAAGAAACTACTAC
129 TT-AAA-AATCTACTAT
*
44712178 AAAATCTTAAATTCTAAAAATCTAATTCTAATATAAATATAAA
1 AAAATCTTAAATTCT-AAAATTTAATTCTAATATAAATATAAA
44712221 TATAAAATCC
Statistics
Matches: 393, Mismatches: 46, Indels: 47
0.81 0.09 0.10
Matches are distributed among these distances:
128 5 0.01
129 71 0.18
130 21 0.05
132 2 0.01
133 2 0.01
134 1 0.00
136 2 0.01
137 5 0.01
138 3 0.01
139 5 0.01
142 4 0.01
143 22 0.06
144 94 0.24
145 95 0.24
146 33 0.08
147 28 0.07
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.35
Consensus pattern (143 bp):
AAAATCTTAAATTCTAAAATTTAATTCTAATATAAATATAAAATCCTAAAATCTAACTTAAATTC
TAATATAAAATCCTAAAGTCTAGAATCTATTCTAATATAAAAATATGAAATCCTAGCATCTAATT
AAAAATCTACTAT
Found at i:44711970 original size:144 final size:143
Alignment explanation
Indices: 44711614--44712216 Score: 652
Period size: 144 Copynumber: 4.3 Consensus size: 143
44711604 ATCTTAAATA
* * *
44711614 AAAATCTTAAATTCTAAAATTTAATTCTAATATAAAT-ATAAATTCCTAAAAGTC-AATTTATAT
1 AAAATCTTAAATTCTAAAATTTAATTCTAATATAAATAAAAAATT-CTAAAA-TCTAACTTAAAT
* * *
44711677 TCTAATATAAAATCCTAAAGTATAAAATCTATTCTAATATAAAAATATAAAATCCTAGCATCTAA
64 TCTAATATAAAATCCTAAAGTCTAGAATCTATTCTAATATAAAAATATGAAATCCTAGCATCTAA
44711742 TTAAAAATTCTACTAT
129 TTAAAAA-TCTACTAT
* * *
44711758 AAAAATCTTAAATTCTAAAATATAATTCTAATATAAATATAAAATCCTAAAATCTAACTTAAATT
1 -AAAATCTTAAATTCTAAAATTTAATTCTAATATAAATAAAAAATTCTAAAATCTAACTTAAATT
* * * *
44711823 CTAATATAAATGTCCTAAAGTCTAGAATATATTCTAATATAAAAAAAATGAAACCCTAGCATCTA
65 CTAATATAAA-ATCCTAAAGTCTAGAATCTATTCTAATAT-AAAAATATGAAATCCTAGCATCTA
*
44711888 ATTTAAAATCTACTAT
128 ATTAAAAATCTACTAT
*
44711904 AAAATCTTAAATTCTAAAATTTAATT-TAATATAAATAAAAAATTCTAAAATCTAGCTTAAATTC
1 AAAATCTTAAATTCTAAAATTTAATTCTAATATAAATAAAAAATTCTAAAATCTAACTTAAATTC
* * * **
44711968 TAATATAAAAATCCTAAGGTCTAGATTCTATTCTAATATACAAATATGAAATCCTATAATCTAAT
66 TAATAT-AAAATCCTAAAGTCTAGAATCTATTCTAATATAAAAATATGAAATCCTAGCATCTAAT
44712033 TAAAAAATCTACTAT
130 T-AAAAATCTACTAT
* * *
44712048 AAACTCTTAAATTC--CAA---AA-TCTAAT-T--CT----AA---TAAAATCTAACTTAAATT-
1 AAAATCTTAAATTCTAAAATTTAATTCTAATATAAATAAAAAATTCTAAAATCTAACTTAAATTC
* * * * * * *
44712096 TCAATATAAAACTCCGAAAATCTACAATCTATTCTTATATAAAAATATGAAATCCTAGAATCCAT
66 T-AATATAAAA-TCCTAAAGTCTAGAATCTATTCTAATATAAAAATATGAAATCCTAGCATCTAA
* *
44712161 TTAAAAGAAACTACTAC
129 TT-AAA-AATCTACTAT
*
44712178 AAAATCTTAAATTCTAAAAATCTAATTCTAATATAAATA
1 AAAATCTTAAATTCT-AAAATTTAATTCTAATATAAATA
44712217 TAAATATAAA
Statistics
Matches: 390, Mismatches: 47, Indels: 46
0.81 0.10 0.10
Matches are distributed among these distances:
128 5 0.01
129 71 0.18
130 21 0.05
132 2 0.01
133 2 0.01
136 3 0.01
137 6 0.02
138 3 0.01
139 6 0.02
140 1 0.00
142 2 0.01
143 22 0.06
144 93 0.24
145 88 0.23
146 37 0.09
147 28 0.07
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.35
Consensus pattern (143 bp):
AAAATCTTAAATTCTAAAATTTAATTCTAATATAAATAAAAAATTCTAAAATCTAACTTAAATTC
TAATATAAAATCCTAAAGTCTAGAATCTATTCTAATATAAAAATATGAAATCCTAGCATCTAATT
AAAAATCTACTAT
Found at i:44711991 original size:33 final size:33
Alignment explanation
Indices: 44711937--44712012 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 33
44711927 ATTTAATATA
* *
44711937 AATA-AAAAATTCTAAAATCTAGCTTAAATTCT
1 AATATAAAAATCCTAAAATCTAGATTAAATTCT
** **
44711969 AATATAAAAATCCTAAGGTCTAGATTCTATTCT
1 AATATAAAAATCCTAAAATCTAGATTAAATTCT
*
44712002 AATATACAAAT
1 AATATAAAAAT
44712013 ATGAAATCCT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
32 4 0.11
33 32 0.89
ACGTcount: A:0.47, C:0.13, G:0.05, T:0.34
Consensus pattern (33 bp):
AATATAAAAATCCTAAAATCTAGATTAAATTCT
Found at i:44712095 original size:129 final size:131
Alignment explanation
Indices: 44711949--44712215 Score: 351
Period size: 129 Copynumber: 2.0 Consensus size: 131
44711939 TAAAAAATTC
* * ** * * *
44711949 TAAAATCTAGCTTAAA-TTCTAATATAAAAATCCTAAGGTCTAGATTCTATTCTAATATACAAAT
1 TAAAATCTAACTTAAATTTC-AATATAAAAATCCGAAAATCTACAATCTATTCTAATATAAAAAT
* * * * * *
44712013 ATGAAATCCTATAATCTAATTAAAA-AATCTACTATAAACTCTTAAATTC-CAAAATCTAATTCT
65 ATGAAATCCTAGAATCCAATTAAAAGAAACTACTACAAAATCTTAAATTCTAAAAATCTAATTCT
44712076 AA
130 AA
* *
44712078 TAAAATCTAACTTAAATTTCAATATAAAACTCCGAAAATCTACAATCTATTCTTATATAAAAATA
1 TAAAATCTAACTTAAATTTCAATATAAAAATCCGAAAATCTACAATCTATTCTAATATAAAAATA
*
44712143 TGAAATCCTAGAATCCATTTAAAAGAAACTACTACAAAATCTTAAATTCTAAAAATCTAATTCTA
66 TGAAATCCTAGAATCCAATTAAAAGAAACTACTACAAAATCTTAAATTCTAAAAATCTAATTCTA
44712208 A
131 A
44712209 TATAAAT
1 TA-AAAT
44712216 ATAAATATAA
Statistics
Matches: 118, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
129 73 0.62
130 24 0.20
131 17 0.14
132 4 0.03
ACGTcount: A:0.48, C:0.15, G:0.03, T:0.34
Consensus pattern (131 bp):
TAAAATCTAACTTAAATTTCAATATAAAAATCCGAAAATCTACAATCTATTCTAATATAAAAATA
TGAAATCCTAGAATCCAATTAAAAGAAACTACTACAAAATCTTAAATTCTAAAAATCTAATTCTA
A
Found at i:44715129 original size:26 final size:26
Alignment explanation
Indices: 44715091--44715142 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
44715081 AACATGGGAC
* *
44715091 ATAAGAAATTAACATTGGAATATAAA
1 ATAAGAAACTAACATTAGAATATAAA
44715117 ATAAGAAACTAACATTAGAATATAAA
1 ATAAGAAACTAACATTAGAATATAAA
44715143 CCAAATCACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.60, C:0.06, G:0.10, T:0.25
Consensus pattern (26 bp):
ATAAGAAACTAACATTAGAATATAAA
Found at i:44716147 original size:15 final size:15
Alignment explanation
Indices: 44716127--44716159 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
44716117 TGTAACATTT
44716127 ATTAAAAA-AAATATA
1 ATTAAAAATAAATA-A
44716142 ATTAAAAATAAATAA
1 ATTAAAAATAAATAA
44716157 ATT
1 ATT
44716160 TACAACAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATTAAAAATAAATAA
Found at i:44730971 original size:14 final size:15
Alignment explanation
Indices: 44730952--44730981 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
44730942 AAGATTAGTT
44730952 TGTAATTAT-TTTTA
1 TGTAATTATATTTTA
44730966 TGTAATTATATTTTA
1 TGTAATTATATTTTA
44730981 T
1 T
44730982 TTTACATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (15 bp):
TGTAATTATATTTTA
Found at i:44736044 original size:17 final size:16
Alignment explanation
Indices: 44736011--44736044 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
44736001 TGCAAGAATA
*
44736011 ACTTAGTCATGATTTT
1 ACTTAGTCAAGATTTT
44736027 ACTTAGTCAAGCATTTT
1 ACTTAGTCAAG-ATTTT
44736044 A
1 A
44736045 TCGAGGCCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (16 bp):
ACTTAGTCAAGATTTT
Found at i:44743199 original size:30 final size:30
Alignment explanation
Indices: 44743142--44743203 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
44743132 GCTTTTTGAA
* * *
44743142 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGAACCAAATTTTT
* *
44743172 AATATTTACAAAAATAGTAACCAAATTTTT
1 AATATTTACAAAAAGAGGAACCAAATTTTT
44743202 AA
1 AA
44743204 AAATAATTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGAACCAAATTTTT
Found at i:44745279 original size:19 final size:19
Alignment explanation
Indices: 44745257--44745294 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
44745247 TCAATCATCC
44745257 CTCATCTCATCA-TCTCTCA
1 CTCAT-TCATCATTCTCTCA
44745276 CTCATTCATCATTCTCTCA
1 CTCATTCATCATTCTCTCA
44745295 ACTCTTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.21, C:0.39, G:0.00, T:0.39
Consensus pattern (19 bp):
CTCATTCATCATTCTCTCA
Found at i:44757119 original size:13 final size:13
Alignment explanation
Indices: 44757101--44757125 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44757091 TGCACATGGT
44757101 CATGTGGTCCACC
1 CATGTGGTCCACC
44757114 CATGTGGTCCAC
1 CATGTGGTCCAC
44757126 ATGCCCATGT
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:0.16, C:0.36, G:0.24, T:0.24
Consensus pattern (13 bp):
CATGTGGTCCACC
Found at i:44761726 original size:39 final size:39
Alignment explanation
Indices: 44761662--44761799 Score: 136
Period size: 39 Copynumber: 3.5 Consensus size: 39
44761652 ATTCAATTTT
* * *
44761662 AAGCATATATC-CTATTACACATATAATCACCTAACACTC
1 AAGCATATATCAC-AATACTCATATAATCACATAACACTC
* * * *
44761701 AAGCATATATCACAATACTCGTATAATAACATAACATTT
1 AAGCATATATCACAATACTCATATAATCACATAACACTC
* * *
44761740 AAGCATATATCACAGTACTCATATAATCATATAACA-TAT
1 AAGCATATATCACAATACTCATATAATCACATAACACT-C
* *
44761779 AAGCATAAATCAGAATACTCA
1 AAGCATATATCACAATACTCA
44761800 AAAACATGTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
38 1 0.01
39 81 0.98
40 1 0.01
ACGTcount: A:0.46, C:0.21, G:0.05, T:0.28
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACACTC
Found at i:44764860 original size:28 final size:28
Alignment explanation
Indices: 44764817--44764871 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
44764807 GGGCATGTCA
*
44764817 AGTACTTTTTAACGGTGTTACAGTATCT
1 AGTACTTTGTAACGGTGTTACAGTATCT
* *
44764845 AGTACTTTGTATCGGTGTTATAGTATC
1 AGTACTTTGTAACGGTGTTACAGTATC
44764872 AGGAACTCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.44
Consensus pattern (28 bp):
AGTACTTTGTAACGGTGTTACAGTATCT
Found at i:44774591 original size:18 final size:18
Alignment explanation
Indices: 44774549--44774614 Score: 62
Period size: 18 Copynumber: 3.5 Consensus size: 18
44774539 TTGTCTCAGA
*
44774549 TCAAAAAATAATTAAAAT
1 TCAAAAAATATTTAAAAT
*
44774567 TCTAAAAATATTTCAAAAT
1 TCAAAAAATATTT-AAAAT
*
44774586 T-AAAAAATATATAAGAATT
1 TCAAAAAATATTTAA-AA-T
44774605 TCATAAAAAT
1 TCA-AAAAAT
44774615 TCAAAAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
17 2 0.05
18 22 0.56
19 8 0.21
20 1 0.03
21 6 0.15
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.32
Consensus pattern (18 bp):
TCAAAAAATATTTAAAAT
Found at i:44777256 original size:24 final size:24
Alignment explanation
Indices: 44777227--44777296 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 24
44777217 TATATGAATA
44777227 ATAGCAGTTCGCATATATATATAT
1 ATAGCAGTTCGCATATATATATAT
* *
44777251 ATAGCACTTCGCATATGTATATTTAT
1 ATAGCAGTTCGCATA--TATATATAT
* * *
44777277 ACATCAGTTCGCATTTATAT
1 ATAGCAGTTCGCATATATAT
44777297 GGTTAACAGT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
24 19 0.50
26 19 0.50
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (24 bp):
ATAGCAGTTCGCATATATATATAT
Found at i:44779341 original size:17 final size:16
Alignment explanation
Indices: 44779321--44779354 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
44779311 GACTTTTATT
44779321 ATCAAGTATATATAGAA
1 ATCAAGTA-ATATAGAA
*
44779338 ATCATGTAATATAGAA
1 ATCAAGTAATATAGAA
44779354 A
1 A
44779355 GTATGGTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.29
Consensus pattern (16 bp):
ATCAAGTAATATAGAA
Found at i:44784480 original size:23 final size:22
Alignment explanation
Indices: 44784450--44784523 Score: 112
Period size: 23 Copynumber: 3.2 Consensus size: 22
44784440 GTGTAACACC
*
44784450 CTAACCCGTATCCGATGCTGGAA
1 CTAACCCGTATCTGATG-TGGAA
44784473 CTAACCCGTATCTGATGTCGGAA
1 CTAACCCGTATCTGATGT-GGAA
44784496 CTAACCCGTATCTGATGTTGGAA
1 CTAACCCGTATCTGATG-TGGAA
44784519 CTAAC
1 CTAAC
44784524 AATGTCAAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
22 1 0.02
23 46 0.96
24 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (22 bp):
CTAACCCGTATCTGATGTGGAA
Found at i:44790101 original size:51 final size:52
Alignment explanation
Indices: 44790032--44790258 Score: 155
Period size: 51 Copynumber: 4.5 Consensus size: 52
44790022 TGTGGCATGG
* * *
44790032 ACTATGTGTAGGCCACTATGTGAAAGTGAAAGTGAT-GGTCACGTGTGTAGT
1 ACTATGTGCAGGCTACTATGTGAAAGTGAAAGTGATAGGTCACATGTGTAGT
* ***
44790083 ACTATGTGCAGGCTACTATGTGTACCAG-AA-TGATAGGTCACATGTGTAGT
1 ACTATGTGCAGGCTACTATGTGAAAGTGAAAGTGATAGGTCACATGTGTAGT
* * ** * * * * *
44790133 ACTATGTGTAGGCTACTATGCGTACCG-GATAGCT--TCGATCTCGTGTGTAGT
1 ACTATGTGCAGGCTACTATGTG-AAAGTGAAAG-TGATAGGTCACATGTGTAGT
* * * * * *
44790184 ACTATGTGAAAGCTACTACGTG-TATTGGATAGTGAT-GGTCACATGTGTAGT
1 ACTATGTGCAGGCTACTATGTGAAAGT-GAAAGTGATAGGTCACATGTGTAGT
* *
44790235 GCTATGTGCAGGCTACTAAGTGAA
1 ACTATGTGCAGGCTACTATGTGAA
44790259 CCGATATCAT
Statistics
Matches: 134, Mismatches: 32, Indels: 19
0.72 0.17 0.10
Matches are distributed among these distances:
49 4 0.03
50 38 0.28
51 90 0.67
52 1 0.01
53 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (52 bp):
ACTATGTGCAGGCTACTATGTGAAAGTGAAAGTGATAGGTCACATGTGTAGT
Found at i:44790134 original size:50 final size:48
Alignment explanation
Indices: 44790064--44790262 Score: 182
Period size: 51 Copynumber: 4.0 Consensus size: 48
44790054 AAAGTGAAAG
*
44790064 TGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGAA
1 TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACC-GAA
* * *
44790113 TGATAGGTCACATGTGTAGTACTATGTGTAGGCTACTATGCGTACCGGA
1 TGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAA
* * * * * * * **
44790162 TAGCTTCGATCTCGTGTGTAGTACTATGTGAAAGCTACTACGTGTATTGGATA
1 T-G-AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTA-CCGA-A
* * *
44790215 GTGATGGTCACATGTGTAGTGCTATGTGCAGGCTACTAAGTGAACCGA
1 -TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGA
44790263 TATCATTAAT
Statistics
Matches: 117, Mismatches: 27, Indels: 11
0.75 0.17 0.07
Matches are distributed among these distances:
49 7 0.06
50 41 0.35
51 64 0.55
52 2 0.02
53 2 0.02
54 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (48 bp):
TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAA
Found at i:44795120 original size:10 final size:10
Alignment explanation
Indices: 44795105--44795132 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
44795095 CTTTAATTAT
44795105 AAAAAGATAA
1 AAAAAGATAA
44795115 AAAAAGATAA
1 AAAAAGATAA
44795125 AAAAAGAT
1 AAAAAGAT
44795133 TATCATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (10 bp):
AAAAAGATAA
Found at i:44800959 original size:17 final size:18
Alignment explanation
Indices: 44800934--44800967 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
44800924 GAAGCTTTAG
*
44800934 TTATTCTTTAAA-AAGCC
1 TTATGCTTTAAACAAGCC
44800951 TTATGCTTTAAACAAGC
1 TTATGCTTTAAACAAGC
44800968 AACCAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (18 bp):
TTATGCTTTAAACAAGCC
Found at i:44808370 original size:41 final size:40
Alignment explanation
Indices: 44808325--44808403 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 40
44808315 TCAGTGCCTG
* * *
44808325 TTATTTAACATCATTATTTAGTTTCGCACACTTAATGCTCA
1 TTATTCAACATCATCATTTA-ATTCGCACACTTAATGCTCA
* *
44808366 TTATTCAACCTCATCATTTAATTCGCACACTTAGTGCT
1 TTATTCAACATCATCATTTAATTCGCACACTTAATGCT
44808404 AATCATATAG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
40 16 0.48
41 17 0.52
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.42
Consensus pattern (40 bp):
TTATTCAACATCATCATTTAATTCGCACACTTAATGCTCA
Found at i:44809283 original size:20 final size:20
Alignment explanation
Indices: 44809260--44809297 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
44809250 TTGTTTTATT
44809260 TTATTATCATTATACTAACA
1 TTATTATCATTATACTAACA
* *
44809280 TTATTATTATTTTACTAA
1 TTATTATCATTATACTAA
44809298 GTTAACCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATTATCATTATACTAACA
Found at i:44823892 original size:29 final size:27
Alignment explanation
Indices: 44823874--44823943 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
44823864 ATATTAAGTC
44823874 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
44823901 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
44823929 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
44823944 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:44823937 original size:28 final size:28
Alignment explanation
Indices: 44823874--44823971 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
44823864 ATATTAAGTC
*
44823874 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
44823901 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
44823929 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
44823958 CGCACACTTAGTGC
1 CGCACACTTAGTGC
44823972 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:44828236 original size:24 final size:24
Alignment explanation
Indices: 44828147--44828254 Score: 99
Period size: 24 Copynumber: 4.5 Consensus size: 24
44828137 CCTCGGGGTA
* * *
44828147 AAATGATTGATTTGCCTTTGATGT
1 AAATGACTGATTTGTCTGTGATGT
* * *
44828171 AAATGAATGATTTGTCCGAGATGT
1 AAATGACTGATTTGTCTGTGATGT
* * * *
44828195 AAATGACTAATTTTTCTGTTATTT
1 AAATGACTGATTTGTCTGTGATGT
*
44828219 AAATGACTGATTTGTCTGTGATTT
1 AAATGACTGATTTGTCTGTGATGT
**
44828243 GTATGACTGATT
1 AAATGACTGATT
44828255 CTGTGTATGG
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 67 1.00
ACGTcount: A:0.28, C:0.08, G:0.19, T:0.44
Consensus pattern (24 bp):
AAATGACTGATTTGTCTGTGATGT
Done.