Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold40
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: 3440810
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 28138 characters in sequence are not A, C, G, or T
File 3 of 24
Found at i:333794 original size:16 final size:16
Alignment explanation
Indices: 333773--333805 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
333763 TTTCCACTTT
333773 CATCTGTCTGTATAAC
1 CATCTGTCTGTATAAC
333789 CATCTGTCTGTATAAC
1 CATCTGTCTGTATAAC
333805 C
1 C
333806 TATGGCTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.36
Consensus pattern (16 bp):
CATCTGTCTGTATAAC
Found at i:334757 original size:21 final size:20
Alignment explanation
Indices: 334708--334761 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
334698 GTTTACCAAG
334708 TTTT-AACTATTAACAAAAT
1 TTTTAAACTATTAACAAAAT
**
334727 TTAAAAACTATTAACAAAATT
1 TTTTAAACTATTAACAAAA-T
334748 TTTTAAACTATTAA
1 TTTTAAACTATTAA
334762 ATAAATGTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 2 0.07
20 14 0.48
21 13 0.45
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTTAAACTATTAACAAAAT
Found at i:337276 original size:19 final size:22
Alignment explanation
Indices: 337233--337283 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 22
337223 TTATTTAAAG
337233 TAATTATAAAGTATATAAATAT
1 TAATTATAAAGTATATAAATAT
*
337255 TAATT-TAAAG-ATA-AAATTT
1 TAATTATAAAGTATATAAATAT
*
337274 TAATAATAAA
1 TAATTATAAA
337284 ATGAAGAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 9 0.35
20 7 0.27
21 5 0.19
22 5 0.19
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (22 bp):
TAATTATAAAGTATATAAATAT
Found at i:339092 original size:18 final size:17
Alignment explanation
Indices: 339064--339098 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
339054 AATACTTTTT
339064 TTAAAATTAAAAAAATA
1 TTAAAATTAAAAAAATA
339081 TTAAAGATTAAAAAAATA
1 TTAAA-ATTAAAAAAATA
339099 GAATACCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
TTAAAATTAAAAAAATA
Found at i:345195 original size:20 final size:20
Alignment explanation
Indices: 345170--345215 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
345160 AAGAATTGAA
*
345170 GAGGGATACAAGAGAGGGAT
1 GAGGGATACAAGAGAGGGAG
* **
345190 GAGGGATGCTTGAGAGGGAG
1 GAGGGATACAAGAGAGGGAG
345210 GAGGGA
1 GAGGGA
345216 GCCTCTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.52, T:0.11
Consensus pattern (20 bp):
GAGGGATACAAGAGAGGGAG
Found at i:346064 original size:13 final size:13
Alignment explanation
Indices: 346046--346071 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
346036 TTACCTAGTT
346046 AAAATGAGATTTA
1 AAAATGAGATTTA
346059 AAAATGAGATTTA
1 AAAATGAGATTTA
346072 TTCTCATGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (13 bp):
AAAATGAGATTTA
Found at i:349282 original size:22 final size:22
Alignment explanation
Indices: 349252--349300 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
349242 TTAGGTGATG
*
349252 TGTTTGGTGAGAATGTTAGGTA
1 TGTTAGGTGAGAATGTTAGGTA
*
349274 TGTTAGGTGAGAATGTTAGGTG
1 TGTTAGGTGAGAATGTTAGGTA
349296 TGTTA
1 TGTTA
349301 ACATGTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.41
Consensus pattern (22 bp):
TGTTAGGTGAGAATGTTAGGTA
Found at i:353210 original size:56 final size:55
Alignment explanation
Indices: 353150--353336 Score: 129
Period size: 56 Copynumber: 3.4 Consensus size: 55
353140 ATTTGATTCA
353150 TTTAAATTTAAATAAAATAATAAAAATACATATTTAAATAGAAAAGTTTTATTAAT
1 TTTAAATTTAAATAAAATAATAAAAATACATATTTAAATAGAAAA-TTTTATTAAT
** * * *** *
353206 TTTAAATCAAAATTAGAT--T-AAAAT-CATGTGATCTGTTTCTA-AACA-TTTATTAA-
1 TTTAAATTTAAATAAAATAATAAAAATACA--T-AT-T-TAAATAGAAAATTTTATTAAT
* * * *
353259 TTTATATTTAAATAAATTAATAAAATTATATATTTAAATAGAAAAATTTTATTAAT
1 TTTAAATTTAAATAAAATAATAAAAATACATATTTAAATAG-AAAATTTTATTAAT
*
353315 TTTAAA-TTAAAGTAAATTAATA
1 TTTAAATTTAAA-TAAAATAATA
353337 TCATGCAACT
Statistics
Matches: 96, Mismatches: 21, Indels: 28
0.66 0.14 0.19
Matches are distributed among these distances:
52 5 0.05
53 18 0.19
54 15 0.16
55 17 0.18
56 37 0.39
57 4 0.04
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.42
Consensus pattern (55 bp):
TTTAAATTTAAATAAAATAATAAAAATACATATTTAAATAGAAAATTTTATTAAT
Found at i:353280 original size:109 final size:109
Alignment explanation
Indices: 353140--353431 Score: 354
Period size: 109 Copynumber: 2.7 Consensus size: 109
353130 ATTTTAAAAT
* * * *
353140 ATTTGATTCATTTAAATTTAAATAAAATAATAAAAATACATATTTAAATAGAAAAGTTTTATTAA
1 ATTT-ATTAATTTAAATTTAAATAAATTAATAAAATTACATATTTAAATAGAAAAATTTTATTAA
* * ** *
353205 TTTTAAATCAAAATTAGATTAAAATCATGTGA-TCTGTTTCTAAAC
65 TTTTAAAT-AAAAGTAAATTAAAATCATGCAACTCTATTTCTAAAC
* *
353250 ATTTATTAATTTATATTTAAATAAATTAATAAAATTATATATTTAAATAGAAAAATTTTATTAAT
1 ATTTATTAATTTAAATTTAAATAAATTAATAAAATTACATATTTAAATAGAAAAATTTTATTAAT
* * * *
353315 TTTAAATTAAAGTAAATTAATATCATGCAACTCTATTTTTAAAT
66 TTTAAATAAAAGTAAATTAAAATCATGCAACTCTATTTCTAAAC
* * * **
353359 AATTATTAATTTAAATTTAAATACATTGATAAAATTACATATTTAAATA-AAATTTTTTTATTAA
1 ATTTATTAATTTAAATTTAAATAAATTAATAAAATTACATATTTAAATAGAAA-AATTTTATTAA
353423 TTTTTAAAT
65 -TTTTAAAT
353432 TTTATAATGA
Statistics
Matches: 157, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
108 20 0.13
109 125 0.80
110 12 0.08
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (109 bp):
ATTTATTAATTTAAATTTAAATAAATTAATAAAATTACATATTTAAATAGAAAAATTTTATTAAT
TTTAAATAAAAGTAAATTAAAATCATGCAACTCTATTTCTAAAC
Found at i:356181 original size:3 final size:3
Alignment explanation
Indices: 356173--356208 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
356163 TAGATTTGTA
356173 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
356209 TTACAGATGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:358699 original size:18 final size:18
Alignment explanation
Indices: 358635--358738 Score: 66
Period size: 18 Copynumber: 5.4 Consensus size: 18
358625 AATTATTAAA
* *
358635 TTAAATTTAAAAATTTAT
1 TTAAATTAAAAAATATAT
358653 TTAATATTTAAAAAATAAAATAT
1 TTAA-A-TTAAAAAAT---ATAT
*
358676 TAAAATTAAAAAATATAT
1 TTAAATTAAAAAATATAT
*
358694 TTAAA-TAAAAAATTAAAT
1 TTAAATTAAAAAA-TATAT
**
358712 TTATTTTAAAATAATTATAT
1 TTAAATTAAAA-AA-TATAT
*
358732 TTTAATT
1 TTAAATT
358739 TTAATATTTA
Statistics
Matches: 67, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
17 7 0.10
18 19 0.28
19 6 0.09
20 19 0.28
21 9 0.13
22 1 0.01
23 6 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAAATTAAAAAATATAT
Found at i:358744 original size:20 final size:20
Alignment explanation
Indices: 358721--358777 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
358711 TTTATTTTAA
358721 AATAATTATATTTTAATTTT-
1 AATAATTA-ATTTTAATTTTG
* *
358741 AATATTTAAAATTTAATTTTG
1 AATAATT-AATTTTAATTTTG
358762 ATATAATTAATTTTAA
1 A-ATAATTAATTTTAA
358778 AAATAATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
20 16 0.53
21 9 0.30
22 5 0.17
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
AATAATTAATTTTAATTTTG
Found at i:358785 original size:41 final size:41
Alignment explanation
Indices: 358708--358785 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 41
358698 ATAAAAAATT
***
358708 AAATTTATTTTAAAATAATTATATTTTAATTTTAATATTTA
1 AAATTTATTTTAAAATAATTATATTTTAAAAATAATATTTA
* *
358749 AAATTTAATTTTGATATAATTA-ATTTTAAAAATAATA
1 AAATTT-ATTTTAAAATAATTATATTTTAAAAATAATA
358786 ATGTATCGCC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 18 0.58
42 13 0.42
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (41 bp):
AAATTTATTTTAAAATAATTATATTTTAAAAATAATATTTA
Found at i:359643 original size:8 final size:8
Alignment explanation
Indices: 359587--359678 Score: 55
Period size: 9 Copynumber: 10.6 Consensus size: 8
359577 AATTTTTTAA
359587 ATTTATAT
1 ATTTATAT
359595 ATTTTATTAT
1 A-TTTA-TAT
359605 ATTATAATTAT
1 ATT-T-A-TAT
*
359616 ATTTAAAAT
1 ATTT-ATAT
359625 ATTTA-AT
1 ATTTATAT
359632 ATTTATAT
1 ATTTATAT
359640 ATTTTAATAT
1 A-TTT-ATAT
*
359650 ATTAATA-
1 ATTTATAT
359657 ATTTATAT
1 ATTTATAT
359665 AATATTATAT
1 -AT-TTATAT
359675 -TTTA
1 ATTTA
359679 ATTATTATTT
Statistics
Matches: 71, Mismatches: 3, Indels: 21
0.75 0.03 0.22
Matches are distributed among these distances:
7 16 0.23
8 9 0.13
9 19 0.27
10 19 0.27
11 8 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
ATTTATAT
Found at i:359644 original size:45 final size:46
Alignment explanation
Indices: 359571--359664 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 46
359561 GTCTACCTTC
* * *
359571 TATTTAAATTTTTTAAATTTATATATTTTATTATATT-ATAA-TTA
1 TATTTAAAATATTTAAATTTATATATTTTAATATATTAATAATTTA
359615 TATTTAAAATATTTAATATTTATATATTTTAATATATTAATAATTTA
1 TATTTAAAATATTTAA-ATTTATATATTTTAATATATTAATAATTTA
359662 TAT
1 TAT
359665 AATATTATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
44 14 0.32
45 20 0.45
46 4 0.09
47 6 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (46 bp):
TATTTAAAATATTTAAATTTATATATTTTAATATATTAATAATTTA
Found at i:359674 original size:25 final size:24
Alignment explanation
Indices: 359586--359680 Score: 81
Period size: 25 Copynumber: 4.0 Consensus size: 24
359576 AAATTTTTTA
*
359586 AATTTATATATTTTATTATATT-AT
1 AATTTATATATATTA-TATATTAAT
* **
359610 AA-TTATATTTAAAATAT-TTAAT
1 AATTTATATATATTATATATTAAT
*
359632 -ATTTATATATTTTAATATATTAAT
1 AATTTATATATATT-ATATATTAAT
*
359656 AATTTATATAATATTATATTTTAAT
1 AATTTATAT-ATATTATATATTAAT
359681 TATTATTTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 11
0.72 0.13 0.14
Matches are distributed among these distances:
21 3 0.05
22 12 0.22
23 12 0.22
24 7 0.13
25 17 0.31
26 4 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
AATTTATATATATTATATATTAAT
Found at i:359961 original size:11 final size:12
Alignment explanation
Indices: 359945--359974 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
359935 CTCTTTATTT
359945 TTTTAAAA-AAA
1 TTTTAAAATAAA
359956 TTTTAAAATAAA
1 TTTTAAAATAAA
359968 TTTTAAA
1 TTTTAAA
359975 TTTAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TTTTAAAATAAA
Found at i:359987 original size:17 final size:17
Alignment explanation
Indices: 359965--360041 Score: 56
Period size: 17 Copynumber: 4.6 Consensus size: 17
359955 ATTTTAAAAT
359965 AAATTTTAAATTTA-ATA
1 AAATTTT-AATTTATATA
359982 AAATTTTAATTTATATA
1 AAATTTTAATTTATATA
* *
359999 ACTATTTTTAA--AATATA
1 A--AATTTTAATTTATATA
* *
360016 AAA--TTAATATATTTA
1 AAATTTTAATTTATATA
360031 AAATTTTAATT
1 AAATTTTAATT
360042 CCAATGTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
13 4 0.09
15 8 0.17
16 6 0.13
17 22 0.47
19 7 0.15
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATTTTAATTTATATA
Found at i:360428 original size:2 final size:2
Alignment explanation
Indices: 360421--360450 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
360411 TTCTAGACAC
360421 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
360451 GGAAGGAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:362071 original size:1 final size:1
Alignment explanation
Indices: 362065--362156 Score: 184
Period size: 1 Copynumber: 92.0 Consensus size: 1
362055 CAGAAAATTG
362065 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
362130 CCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCC
362157 AAAAAAAAAC
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 91 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:366484 original size:12 final size:12
Alignment explanation
Indices: 366467--366493 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
366457 GCACATGCAC
366467 GCCCGCCCGCCT
1 GCCCGCCCGCCT
366479 GCCCGCCCGCCT
1 GCCCGCCCGCCT
366491 GCC
1 GCC
366494 TTTTGTGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.67, G:0.26, T:0.07
Consensus pattern (12 bp):
GCCCGCCCGCCT
Found at i:372716 original size:166 final size:166
Alignment explanation
Indices: 372400--372741 Score: 447
Period size: 166 Copynumber: 2.1 Consensus size: 166
372390 TTTTACCATG
* *
372400 TAGGGATTATATAGCAAATTTTAATTTTTAGTGGTAAAAACATCATTTTAGTCATTTTTAAAGAT
1 TAGGGATTAAATAGCAAATTTTAATTTTTAGAGGTAAAAACATCATTTTAGTCATTTTTAAAGAT
* * * ** * *
372465 TTTTATTATTCTTATGGCCTTCCATAGGGATATAAAAATTTTCAAGACTCTTCATGTTTTCTTAG
66 TTCTATTATTCTTATGGCCTTCCATAGAGATATAAAAATTTTCAAGACTCTTCATATCCTCTCAA
** *
372530 TTTTTCATCGGGTACGAAATGAAATTTTTAAAAGTT
131 TTTTTCATCACGTACGAAATGAAATTTTCAAAAGTT
* * *
372566 TAGGGATTAAATAGTAAATTTTAGTTTTTAGAGGTAAAATCATCATTTTAGTCATTTTTAAAGAT
1 TAGGGATTAAATAGCAAATTTTAATTTTTAGAGGTAAAAACATCATTTTAGTCATTTTTAAAGAT
* * * *
372631 TTCTATTATT-TCTATGGCCTTCCGTA-AGAGTATAAAATTTTTTAAGACTTTTCATATCCTCTC
66 TTCTATTATTCT-TATGGCCTTCCATAGAGA-TATAAAAATTTTCAAGACTCTTCATATCCTCTC
*
372694 AA-TTTTCTATCACGTGCGAAATGAAATTTTCAAAAGTT
129 AATTTTTC-ATCACGTACGAAATGAAATTTTCAAAAGTT
*
372732 TAGGGCTTAA
1 TAGGGATTAA
372742 TTGAAATTTT
Statistics
Matches: 152, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
165 8 0.05
166 144 0.95
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (166 bp):
TAGGGATTAAATAGCAAATTTTAATTTTTAGAGGTAAAAACATCATTTTAGTCATTTTTAAAGAT
TTCTATTATTCTTATGGCCTTCCATAGAGATATAAAAATTTTCAAGACTCTTCATATCCTCTCAA
TTTTTCATCACGTACGAAATGAAATTTTCAAAAGTT
Found at i:373234 original size:152 final size:151
Alignment explanation
Indices: 372835--373293 Score: 399
Period size: 152 Copynumber: 3.0 Consensus size: 151
372825 TTTTTTAGGG
* * * *
372835 TTACTAGGAAACTTTCATGTTGAAGGTATATCCTAGGGATATTTTCGTAA-TTTTTTAGAACTGA
1 TTACCAGGATACTTTCATGTTGAAGGTATA-CCTAAGG-TATTTTCGTAATTTTTTTAGAACTAA
* * * * *
372899 ATCTTAGGTTGTAATTGGGATGCTTTTACGCCAAAGGTGTGCATTTAGAATAGGTTCATCCCATT
64 ATCCTAGGTTGTAACTAGGATGCTTTTATGCTAAAGGTGTGCATTTAGAATAGGTTCAT-CCATT
* * *
372964 TATGATCATTTTAAGTCTTTTAGGA
128 TATAAT-ATTTTAAGTCCTTTAGCA
* ** * * * **
372989 TTATC-GGTATACTTTCATGTCCAAGATATACCTTAGAGGTATTTTGGTAATTTTTTTAAAAAGA
1 TTACCAGG-ATACTTTCATGTTGAAGGTATACC-TA-AGGTATTTTCGTAATTTTTTTAGAACTA
* * ** * * * * *
373053 AAACCTAGGTAGTTGCTAGG-T-CATTTTTATGCTAAGGGTATACATTTAGGATAGGTTCATCCT
63 AATCCTAGGTTGTAACTAGGATGC--TTTTATGCTAAAGGTGTGCATTTAGAATAGGTTCATCCA
*
373116 TTTATAAT-TTTTCATGTCCTTTAGCA
126 TTTATAATATTTT-AAGTCCTTTAGCA
* * *
373142 TTACCAGGATACTTTCATGTTGAAGGTATACCTATAGGCATTTTCGTAATTTTTTTAGAACTTAG
1 TTACCAGGATACTTTCATGTTGAAGGTATACCTA-AGGTATTTTCGTAATTTTTTTAGAACTAAA
* * * *
373207 TCCTAGGTTGTCACCAGGATGCTTTTATG-TCAACGGTGTGCATTTAGAATAGGTTCATCATATT
65 TCCTAGGTTGTAACTAGGATGCTTTTATGCT-AAAGGTGTGCATTTAGAATAGGTTCATC-CATT
*
373271 TATGATCATTTTAAAGTCCTTTA
128 TATAAT-ATTTT-AAGTCCTTTA
373294 AGGTTATCGA
Statistics
Matches: 235, Mismatches: 56, Indels: 27
0.74 0.18 0.08
Matches are distributed among these distances:
151 1 0.00
152 73 0.31
153 48 0.20
154 46 0.20
155 67 0.29
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (151 bp):
TTACCAGGATACTTTCATGTTGAAGGTATACCTAAGGTATTTTCGTAATTTTTTTAGAACTAAAT
CCTAGGTTGTAACTAGGATGCTTTTATGCTAAAGGTGTGCATTTAGAATAGGTTCATCCATTTAT
AATATTTTAAGTCCTTTAGCA
Found at i:383239 original size:27 final size:27
Alignment explanation
Indices: 383139--383649 Score: 706
Period size: 27 Copynumber: 18.7 Consensus size: 27
383129 TTTCTTTTCA
*
383139 AAGTCCATAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
383166 AAAGTCCACAACTCCGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
* *
383194 AAAGTCCACAGCTCTGTGGCATCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
*
383222 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
383249 AAAGTCCACAACTCCGTGGCA-CCTTTTT
1 -AAGTCCACAACTCCGTGGCATCC-TTTT
*
383277 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * *
383304 AAGTCCACAACTCTGCGACA-CTCTTTT
1 AAGTCCACAACTCCGTGGCATC-CTTTT
* *
383331 AAGTCCACCACTCCGTAGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
383358 AAGTCCACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * *
383385 AAGTCCACAACTCCGTGGTACCCTTTA
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
383412 AAGTCCACAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
383439 AAAGTCCACAACTCCGTGGCA-CCTTTTT
1 -AAGTCCACAACTCCGTGGCATCC-TTTT
383467 AAGTCCACAACTCCGTGGCA-CCTTTTT
1 AAGTCCACAACTCCGTGGCATCC-TTTT
* * *
383494 AAGTCCACAACTCCGTAGCATTCATTTA
1 AAGTCCACAACTCCGTGGCA-TCCTTTT
* *
383522 AAGTCCACCACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
**
383549 AAGTCCACAACTCTATGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
383576 AAGTCCACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
383603 AAGTCCACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
383630 AAGTCCACAACTCCGTGGCA
1 AAGTCCACAACTCCGTGGCA
383650 GCACCCTTTC
Statistics
Matches: 435, Mismatches: 39, Indels: 19
0.88 0.08 0.04
Matches are distributed among these distances:
26 1 0.00
27 312 0.72
28 121 0.28
29 1 0.00
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.28
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCATCCTTTT
Found at i:383599 original size:245 final size:246
Alignment explanation
Indices: 383139--383649 Score: 814
Period size: 245 Copynumber: 2.1 Consensus size: 246
383129 TTTCTTTTCA
* *
383139 AAGTCCATAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACA
1 AAGTCCACAACTCCGTGGCATCCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACA
* * *
383204 GCTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGC
66 ACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTAGC
* * *
383269 ACCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGCGACACTCTTTTAAG
131 ACCATTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTACGACACTCTTTTAAG
*
383334 TCCACCACTCCGTAGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT
196 TCCACAACTCCGTAGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT
* *
383385 AAGTCCACAACTCCGTGGTA-CCCTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACA
1 AAGTCCACAACTCCGTGGCATCCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACA
*
383449 ACTCCGTGGCA-CCTTTTTAAGTCCACAACTCCGTGGCA-CCTTTTTAAGTCCACAACTCCGTAG
66 ACTCCGTGGCATCC-TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTAG
* * * *
383512 CATTCATTTAAAGTCCACCACTCCGTGGCACCCTTTTAAGTCCACAACTCTATGGCA-TCCTTTT
130 CA-CCATTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTACGACACT-CTTTT
*
383576 AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT
193 AAGTCCACAACTCCGTAGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT
383630 AAGTCCACAACTCCGTGGCA
1 AAGTCCACAACTCCGTGGCA
383650 GCACCCTTTC
Statistics
Matches: 244, Mismatches: 18, Indels: 7
0.91 0.07 0.03
Matches are distributed among these distances:
244 28 0.11
245 198 0.81
246 18 0.07
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.28
Consensus pattern (246 bp):
AAGTCCACAACTCCGTGGCATCCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACA
ACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTAGC
ACCATTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTACGACACTCTTTTAAG
TCCACAACTCCGTAGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT
Found at i:383697 original size:58 final size:55
Alignment explanation
Indices: 383416--383755 Score: 166
Period size: 54 Copynumber: 6.1 Consensus size: 55
383406 CCTTTAAAGT
* * * * * * * * * * *
383416 CCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCTTTTTAAGT
1 CCACAACTCAGTGGCAGCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAGC
* * ** * * * * * *
383471 CCACAACTCCGTGGCA-CCTTTTTAAGTCCACAACTCCGTAGCATTCATTTAAAGT
1 CCACAACTCAGTGGCAGCATTTCAAAGCCCACAAGTCAGTGGCA-TCATTTCAAGC
* * * * * * * * * *
383526 CCACCACTCCGTGGCACCCTTT-TAAGTCCACAACTCTA-TGGCATCCTTTTAAGT
1 CCACAACTCAGTGGCAGCATTTCAAAGCCCACAAGTC-AGTGGCATCATTTCAAGC
* * * * * * * * * *
383580 CCACAACTCCGTGGCATCCTTT-TAAGTCCACAACTCCGTGGCATCCTTTTAAGT
1 CCACAACTCAGTGGCAGCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAGC
* *
383634 CCACAACTCCGTGGCAGCACCCTTTCAAAGCCCACAAGTTAGTGGCATCATTTCAAGC
1 CCACAACTCAGTGGCAGCA---TTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAGC
* * *
383692 CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAATGGCAACTCATTTCAAAGC
1 CCACAACTCAGTGGCAGCATTTCAAAGCCCACAAGTCAGTGGC-A-TCATTTC-AAGC
383750 CCACAA
1 CCACAA
383756 AAGTCGGTGG
Statistics
Matches: 245, Mismatches: 29, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
54 101 0.41
55 78 0.32
56 6 0.02
57 10 0.04
58 50 0.20
ACGTcount: A:0.27, C:0.33, G:0.14, T:0.26
Consensus pattern (55 bp):
CCACAACTCAGTGGCAGCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAGC
Found at i:383767 original size:32 final size:31
Alignment explanation
Indices: 383656--383876 Score: 233
Period size: 32 Copynumber: 7.3 Consensus size: 31
383646 GGCAGCACCC
**
383656 TTTCAAAGCCCAC-AAGTTAGTGGC-A-TCA
1 TTTCAAAGCCCACAAAGTCGGTGGCAACTCA
*
383684 TTTC-AAGCCCAC-AAGTCAGTGGC-A-TCA
1 TTTCAAAGCCCACAAAGTCGGTGGCAACTCA
**
383711 TTTCAAAGCCCAC-AAGTCAATGGCAACTCA
1 TTTCAAAGCCCACAAAGTCGGTGGCAACTCA
383741 TTTCAAAGCCCACAAAAGTCGGTGGCAACTCA
1 TTTCAAAGCCCAC-AAAGTCGGTGGCAACTCA
*
383773 TTTGAAAGCCCACAAAAGTCGGTGGCAACTCA
1 TTTCAAAGCCCAC-AAAGTCGGTGGCAACTCA
* * *
383805 TTTGAAAGCCCACACAAGTGGGTGGCAACCCA
1 TTTCAAAGCCCACA-AAGTCGGTGGCAACTCA
* * * *
383837 TTTCAAAACCCATACAAGTTGGTGGCAACCCA
1 TTTCAAAGCCCACA-AAGTCGGTGGCAACTCA
383869 TTTCAAAG
1 TTTCAAAG
383877 TGTCGCAACG
Statistics
Matches: 175, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
27 26 0.15
28 22 0.13
29 1 0.01
30 16 0.09
31 1 0.01
32 109 0.62
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (31 bp):
TTTCAAAGCCCACAAAGTCGGTGGCAACTCA
Found at i:387950 original size:33 final size:33
Alignment explanation
Indices: 387913--387985 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 33
387903 TCGACTTGCA
*
387913 TGGGCTTTTAAAAAAAGGTGCCACTAACTTATG
1 TGGGCTTTTAAAAAAAGGTGCCACCAACTTATG
* * * * *
387946 TGGGC-TTTGAAAAGAGTTGCCACCGACTTGTG
1 TGGGCTTTTAAAAAAAGGTGCCACCAACTTATG
387978 TGGGCTTT
1 TGGGCTTT
387986 GAAAGGATGC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
32 26 0.79
33 7 0.21
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (33 bp):
TGGGCTTTTAAAAAAAGGTGCCACCAACTTATG
Found at i:387980 original size:32 final size:31
Alignment explanation
Indices: 387939--388618 Score: 626
Period size: 32 Copynumber: 22.5 Consensus size: 31
387929 GGTGCCACTA
*
387939 ACTTATGTGGGCTTTGAAAAGAGTTGCCACCG
1 ACTT-TGTGGGCTTTGAAATGAGTTGCCACCG
* * **
387971 ACTTGTGTGGGCTTTGAAA-G-GATGCCGCTA
1 ACTT-TGTGGGCTTTGAAATGAGTTGCCACCG
**
388001 AC-TTGTGGGCTTTGAAAATGA--TGCCATTG
1 ACTTTGTGGGCTTTG-AAATGAGTTGCCACCG
*
388030 AC-TTGTGGGCTTTGAAATGA--TGCCACTG
1 ACTTTGTGGGCTTTGAAATGAGTTGCCACCG
* *
388058 AC-TTGTGGGCTTT-AAAAG-GATGCCACCG
1 ACTTTGTGGGCTTTGAAATGAGTTGCCACCG
*
388086 AC-TTGTGGGCTTTGAAATGGGTTGCCACCG
1 ACTTTGTGGGCTTTGAAATGAGTTGCCACCG
* *
388116 AC-TTGTGAGCTTTGAAATGGGTTGCCACCG
1 ACTTTGTGGGCTTTGAAATGAGTTGCCACCG
*
388146 ACTTGTGTGGACTTTGAAAT-AGGTTGCCACCG
1 ACTT-TGTGGGCTTTGAAATGA-GTTGCCACCG
* *
388178 ACTTGTGTGGGCTTTCAAATGAGTTACCACCG
1 ACTT-TGTGGGCTTTGAAATGAGTTGCCACCG
*
388210 ACTTATGTGGGCTTTGAAATGAGTTACCACCG
1 ACTT-TGTGGGCTTTGAAATGAGTTGCCACCG
*
388242 A-TTTGTGGGCTTTGAAATGA--TGCCACTG
1 ACTTTGTGGGCTTTGAAATGAGTTGCCACCG
* * *
388270 AC-TTGTGGGCTTT-AAAAG-GATGCCACTG
1 ACTTTGTGGGCTTTGAAATGAGTTGCCACCG
* * *
388298 AC-TTGTAGGCTTTGAAATGGGTTGCCACTG
1 ACTTTGTGGGCTTTGAAATGAGTTGCCACCG
* * *
388328 ACTTGTGTGGACTTTGAAATGGGTTACCACCG
1 ACTT-TGTGGGCTTTGAAATGAGTTGCCACCG
* *
388360 ACTTGTGTGGGCTTTCAAATGAGTTGCCACCA
1 ACTT-TGTGGGCTTTGAAATGAGTTGCCACCG
*
388392 ACTTGTGTGGGCTTTGAAATAAGTTGCCACCG
1 ACTT-TGTGGGCTTTGAAATGAGTTGCCACCG
* **
388424 AC-TTATGGGCTTTGAAATGA--TGCCACTA
1 ACTTTGTGGGCTTTGAAATGAGTTGCCACCG
* * *
388452 AC-TTGTGGGCTTT-AAAAG-GATGCCACTG
1 ACTTTGTGGGCTTTGAAATGAGTTGCCACCG
* *
388480 AC-TTGTGGGTTTTGAAATGGGTTGCCACCG
1 ACTTTGTGGGCTTTGAAATGAGTTGCCACCG
* * *
388510 ACTTGTGTGGACTTTGAAATGGGTTGCCACCA
1 ACTT-TGTGGGCTTTGAAATGAGTTGCCACCG
* * *
388542 ACTTGTGCGGGCTTTCAAATGAGTTGCCACTG
1 ACTT-TGTGGGCTTTGAAATGAGTTGCCACCG
* *
388574 ACTTGTGTGGGCTTTTAAATGAGTTGCCACTG
1 ACTT-TGTGGGCTTTGAAATGAGTTGCCACCG
388606 AC-TTGTGGGCTTT
1 ACTTTGTGGGCTTT
388619 AAAAGGGTGC
Statistics
Matches: 562, Mismatches: 62, Indels: 50
0.83 0.09 0.07
Matches are distributed among these distances:
27 12 0.02
28 132 0.23
29 35 0.06
30 112 0.20
31 8 0.01
32 262 0.47
33 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (31 bp):
ACTTTGTGGGCTTTGAAATGAGTTGCCACCG
Found at i:388314 original size:182 final size:182
Alignment explanation
Indices: 387925--388671 Score: 924
Period size: 182 Copynumber: 4.1 Consensus size: 182
387915 GGCTTTTAAA
* * * *
387925 AAAAGG-TGCCACTAACTTATGTGGGCTTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTG-A
1 AAAAGGATGCCACTGAC-T-TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGACTTTGAA
* * * * **
387988 A-AGGATGCCGCTAAC-T-TGTGGGCTTTGAAAATGA--TGCCATTGAC-T-TGTGGGCTTTGAA
64 ATAGGTTGCCACCAACTTGTGTGGGCTTT-CAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAA
* * * *
388046 ATGA--TGCCACTGACTTGTGGGCTTTAAAAGGATGCCACCGACTTGTGGGCTTT
128 ATGAGTTGCCACCGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTT
* * * *
388099 GAAATGGGTTGCCACCGACTTGTGAGCTTTGAAATGGGTTGCCACCGACTTGTGTGGACTTTGAA
1 -AAA-AGGATGCCACTGACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGACTTTGAA
* * *
388164 ATAGGTTGCCACCGACTTGTGTGGGCTTTCAAATGAGTTACCACCGACTTATGTGGGCTTTGAAA
64 ATAGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAA
* *
388229 TGAGTTACCACCGATTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTT
129 TGAGTTGCCACCGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTT
* *
388283 AAAAGGATGCCACTGACTTGTAGGCTTTGAAATGGGTTGCCACTGACTTGTGTGGACTTTGAAAT
1 AAAAGGATGCCACTGACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGACTTTGAAAT
* * * * *
388348 GGGTTACCACCGACTTGTGTGGGCTTTCAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATA
66 AGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATG
* *
388413 AGTTGCCACCGACTTATGGGCTTTGAAATGATGCCACTAACTTGTGGGCTTT
131 AGTTGCCACCGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTT
*
388465 AAAAGGATGCCACTGACTTGTGGGTTTTGAAATGGGTTGCCACCGACTTGTGTGGACTTTGAAAT
1 AAAAGGATGCCACTGACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGACTTTGAAAT
* * * *
388530 GGGTTGCCACCAACTTGTGCGGGCTTTCAAATGAGTTGCCACTGACTTGTGTGGGCTTTTAAATG
66 AGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATG
* * * * * **
388595 AGTTGCCACTGACTTGTGGGCTTTAAAAGGGTGCTGCCACGGAGTTGTGAAC-TT
131 AGTTGCCACCGACTTGTGGGCTTTGAAA---TGATGCCACTGACTTGTGGGCTTT
* *
388649 AAAAGGATGCCACAGAGTTGTGG
1 AAAAGGATGCCACTGACTTGTGG
388672 ACTTAAAAGG
Statistics
Matches: 499, Mismatches: 58, Indels: 21
0.86 0.10 0.04
Matches are distributed among these distances:
175 42 0.08
176 5 0.01
177 18 0.04
178 7 0.01
179 10 0.02
180 7 0.01
181 1 0.00
182 325 0.65
183 3 0.01
184 66 0.13
185 15 0.03
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.31
Consensus pattern (182 bp):
AAAAGGATGCCACTGACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGACTTTGAAAT
AGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATG
AGTTGCCACCGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTT
Found at i:388321 original size:150 final size:150
Alignment explanation
Indices: 387931--388618 Score: 682
Period size: 150 Copynumber: 4.5 Consensus size: 150
387921 TAAAAAAAGG
* * * *
387931 TGCCACTAACTTATGTGGGCTTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTGAAAGGATGC
1 TGCCACCAACTTGTGTGGGCTTTGAAATGA--TGCCACCGAC-T-TGTGGGCTTTAAAAGGATGC
* * * * * * *
387996 CGCTAACTTGTGGGCTTTGAAA-ATGATGCCATTGACTTGTGGGCTTTGAAATGA--TGCCACTG
62 CACTGACTTGTGGGCTTTGAAATAGGTTGCCACTGACTTGTGGGCTTTGAAATGAGTTACCACCG
* *
388058 AC-T-TGTGGGCTTT-AAAAG-GA
127 ACTTGTGTGGGCTTTGAAATGAGT
* * * * *
388078 TGCCACCGAC-T-TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGAGCTTTGAAATGGGTTGC
1 TGCCACCAACTTGTGTGGGCTTTGAAAT--GATGCCACCGACTTGTGGGCTTT-AAA-AGGATGC
* * *
388141 CACCGACTTGTGTGGACTTTGAAATAGGTTGCCACCGACTTGTGTGGGCTTTCAAATGAGTTACC
62 CACTGACTTGTG-GG-CTTTGAAATAGGTTGCCACTGAC-T-TGTGGGCTTTGAAATGAGTTACC
*
388206 ACCGACTTATGTGGGCTTTGAAATGAGT
123 ACCGACTTGTGTGGGCTTTGAAATGAGT
* * *
388234 TACCACCGA-TT-TGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTAAAAGGATGCCACT
1 TGCCACCAACTTGTGTGGGCTTTGAAATGATGCCACCGACTTGTGGGCTTTAAAAGGATGCCACT
* * *
388297 GACTTGTAGGCTTTGAAATGGGTTGCCACTGACTTGTGTGGACTTTGAAATGGGTTACCACCGAC
66 GACTTGTGGGCTTTGAAATAGGTTGCCACTGACTTGTG-GG-CTTTGAAATGAGTTACCACCGAC
*
388362 TTGTGTGGGCTTTCAAATGAGT
129 TTGTGTGGGCTTTGAAATGAGT
* * * *
388384 TGCCACCAACTTGTGTGGGCTTTGAAATAAGTTGCCACCGACTTATGGGCTTTGAAATGATGCCA
1 TGCCACCAACTTGTGTGGGCTTTGAAAT--GATGCCACCGACTTGTGGGCTTTAAAAGGATGCCA
* * * * *
388449 CTAACTTGTGGGCTTT-AAA-AGGATGCCACTGACTTGTGGGTTTTGAAATGGGTTGCCACCGAC
64 CTGACTTGTGGGCTTTGAAATAGGTTGCCACTGACTTGTGGGCTTTGAAATGAGTTACCACCGAC
* *
388512 TTGTGTGGACTTTGAAATGGGT
129 TTGTGTGGGCTTTGAAATGAGT
* * * * *
388534 TGCCACCAACTTGTGCGGGCTTTCAAATGAGTTGCCACTGACTTGTGTGGGCTTTTAAATGAGTT
1 TGCCACCAACTTGTGTGGGCTTTGAAATGA--TGCCACCGAC-T-TGTGGGC-TTTAAAAG-GAT
388599 GCCACTGACTTGTGGGCTTT
60 GCCACTGACTTGTGGGCTTT
388619 AAAAGGGTGC
Statistics
Matches: 453, Mismatches: 60, Indels: 49
0.81 0.11 0.09
Matches are distributed among these distances:
143 9 0.02
144 3 0.01
145 38 0.08
146 3 0.01
147 17 0.04
148 15 0.03
149 4 0.01
150 160 0.35
151 7 0.02
152 61 0.13
153 12 0.03
154 95 0.21
155 4 0.01
156 25 0.06
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.32
Consensus pattern (150 bp):
TGCCACCAACTTGTGTGGGCTTTGAAATGATGCCACCGACTTGTGGGCTTTAAAAGGATGCCACT
GACTTGTGGGCTTTGAAATAGGTTGCCACTGACTTGTGGGCTTTGAAATGAGTTACCACCGACTT
GTGTGGGCTTTGAAATGAGT
Found at i:388666 original size:27 final size:27
Alignment explanation
Indices: 388629--388971 Score: 431
Period size: 27 Copynumber: 12.6 Consensus size: 27
388619 AAAAGGGTGC
*
388629 TGCCACGGAGTTGTGAACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
388656 TGCCACAGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
388683 TGCCACAGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
388710 TGCCACGGAGTGGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* *
388737 TGCCACGGAGTGGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
388764 TGCCACGGAGTGGTGGACTTTAAAA-GA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
* * * *
388791 GTGCCACGAAGCTGTAGACTTAAAAGGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGA
*
388819 TGCCACGGAGTTGTAGACTTAAAAAGG-
1 TGCCACGGAGTTGTGGACTT-AAAAGGA
* * *
388846 TACCACGTAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
*
388874 TGCCACGGAGTTGTCGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* *
388901 TGCCATGAAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* *
388928 TTCCACGGAGTTGTGGACTTTAAAA-AA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
*
388955 TGCCACAGAGTTGTGGA
1 TGCCACGGAGTTGTGGA
388972 GTCAACCTTT
Statistics
Matches: 280, Mismatches: 29, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
27 230 0.82
28 50 0.18
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:388823 original size:82 final size:81
Alignment explanation
Indices: 388629--388965 Score: 414
Period size: 82 Copynumber: 4.1 Consensus size: 81
388619 AAAAGGGTGC
* *
388629 TGCCACGGAGTTGT-GAACTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGATGCCACAGAG
1 TGCCACGGAG-TGTAG-ACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAG
388693 TTGTGGAC-TTAAAAG-G
64 TTGTGGACTTTAAAAGAG
* * *
388709 ATGCCACGGAGTGGTGGACTTAAAAGGATGCCACGGAGTGGTGGACTTAAAAGGGTGCCACGGAG
1 -TGCCACGGAGT-GTAGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAG
*
388774 TGGTGGACTTTAAAAGAG
64 TTGTGGACTTTAAAAGAG
* * * * *
388792 TGCCACGAAGCTGTAGACTTAAAAGGGTGCCACGGAGTTGTAGACTTAAAAAGG-TACCACGTAG
1 TGCCACGGAG-TGTAGACTTAAAAGGATGCCACGGAGTTGTGGACTT-AAAAGGATGCCACGGAG
*
388856 TTGTGGACTTTAAAAGGG
64 TTGTGGACTTTAAAAGAG
* * * *
388874 TGCCACGGAGTTGTCGACTTAAAAGGATGCCATGAAGTTGTGGACTTAAAAGGATTCCACGGAGT
1 TGCCACGGAG-TGTAGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGT
*
388939 TGTGGACTTTAAAA-AA
65 TGTGGACTTTAAAAGAG
*
388955 TGCCACAGAGT
1 TGCCACGGAGT
388966 TGTGGAGTCA
Statistics
Matches: 223, Mismatches: 26, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
80 2 0.01
81 78 0.35
82 135 0.61
83 8 0.04
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (81 bp):
TGCCACGGAGTGTAGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTT
GTGGACTTTAAAAGAG
Found at i:391342 original size:713 final size:713
Alignment explanation
Indices: 389977--391400 Score: 2758
Period size: 713 Copynumber: 2.0 Consensus size: 713
389967 AAAAAGTTAT
389977 TTTCATTGATAATACTTGATAAAGGTGCCCATTGCACAAGATCTCTACATGCCATTGGGCAAAGG
1 TTTCATTGATAATACTTGATAAAGGTGCCCATTGCACAAGATCTCTACATGCCATTGGGCAAAGG
390042 CAAGTAAGTTGTCTTGAAATTTACACAAAATAAGCAAGAAAAGTGCAAGGATTTCCAGCGTGACT
66 CAAGTAAGTTGTCTTGAAATTTACACAAAATAAGCAAGAAAAGTGCAAGGATTTCCAGCGTGACT
390107 CCATCGTCAAAAGTTAACTCTAATGGATGGGGATAGATCCCTTTGCTCAAGATTGATGGTTTGCT
131 CCATCGTCAAAAGTTAACTCTAATGGATGGGGATAGATCCCTTTGCTCAAGATTGATGGTTTGCT
* * *
390172 AGCTCAGTATGGCTCGGTAAGGGGTTCATAGCAACATTTGGCCCTTGGCTTGCCCTAAACTGGAG
196 AGCTCAGTATGGCTCGGTAAGCGGTTCACAGCAACATTTGGCCCTTGGCTTGCCCTAAACTGCAG
390237 AACCTTTGAATCCAAAAGGCCCTGTACCCTTTGTTTGAAAGGAAAGCAATTCTCAATGTCATGTC
261 AACCTTTGAATCCAAAAGGCCCTGTACCCTTTGTTTGAAAGGAAAGCAATTCTCAATGTCATGTC
*
390302 CCGCTACCCCGGCATGGTAATCACAATGGGCATTGGGGTTATACCAGTGAGGATATGGAGGTTTC
326 CCGCTACCCCGGCATGGTAATCACAATGGGCATTGGGGTTATACCAGTGAGGATATGGAGGCTTC
390367 CTCTCTAGGACATACTCTGGGGCTACTAGATGACTTTGGAGCAAAGTTTGGTAAAGCTCCTTGTA
391 CTCTCTAGGACATACTCTGGGGCTACTAGATGACTTTGGAGCAAAGTTTGGTAAAGCTCCTTGTA
* *
390432 TGTCGTAAGGATAAGGTCGAACTGCTGCCTTCGCTGATTTGCACCTGATTTGTTTAGTGCATTAT
456 TGTCGCAAGGATAAGGTCGAACTGCTGCCTTCGCTGATTTGCACCTGAATTGTTTAGTGCATTAT
390497 TGGCATTAGGGTTGGTGTTTAGGTTAGCCCGAGGTTGATTATTTCGTGGTGGTCGTGGTGGGATA
521 TGGCATTAGGGTTGGTGTTTAGGTTAGCCCGAGGTTGATTATTTCGTGGTGGTCGTGGTGGGATA
390562 GCAAGAGATGGGCCATAGGTTGCAGCATACACTGGCTGAGAGGGTATTATGACTAAGCTTGGGTA
586 GCAAGAGATGGGCCATAGGTTGCAGCATACACTGGCTGAGAGGGTATTATGACTAAGCTTGGGTA
390627 AAGTGCATTCGGGTAGTAGGGACCAGGTGCTTGATGCTGTCCCGGTTGTGCTTGATTGGCACA
651 AAGTGCATTCGGGTAGTAGGGACCAGGTGCTTGATGCTGTCCCGGTTGTGCTTGATTGGCACA
390690 TTTCATTGATAATACTTGATAAAGGTGCCCATTGCACAAGATCTCTACATGCCATTGGGCAAAGG
1 TTTCATTGATAATACTTGATAAAGGTGCCCATTGCACAAGATCTCTACATGCCATTGGGCAAAGG
390755 CAAGTAAGTTGTCTTGAAATTTACACAAAATAAGCAAGAAAAGTGCAAGGATTTCCAGCGTGACT
66 CAAGTAAGTTGTCTTGAAATTTACACAAAATAAGCAAGAAAAGTGCAAGGATTTCCAGCGTGACT
*
390820 CCGTCGTCAAAAGTTAACTCTAATGGATGGGGATAGATCCCTTTGCTCAAGATTGATGGTTTGCT
131 CCATCGTCAAAAGTTAACTCTAATGGATGGGGATAGATCCCTTTGCTCAAGATTGATGGTTTGCT
390885 AGCTCAGTATGGCTCGGTAAGCGGTTCACAGCAACATTTGGCCCTTGGCTTGCCCTAAACTGCAG
196 AGCTCAGTATGGCTCGGTAAGCGGTTCACAGCAACATTTGGCCCTTGGCTTGCCCTAAACTGCAG
390950 AACCTTTGAATCCAAAAGGCCCTGTACCCTTTGTTTGAAAGGAAAGCAATTCTCAATGTCATGTC
261 AACCTTTGAATCCAAAAGGCCCTGTACCCTTTGTTTGAAAGGAAAGCAATTCTCAATGTCATGTC
*
391015 CCGCTACCCCGGTATGGTAATCACAATGGGCATTGGGGTTATACCAGTGAGGATATGGAGGCTTC
326 CCGCTACCCCGGCATGGTAATCACAATGGGCATTGGGGTTATACCAGTGAGGATATGGAGGCTTC
391080 CTCTCTAGGACATACTCTGGGGCTACTAGATGACTTTGGAGCAAAGTTTGGTAAAGCTCCTTGTA
391 CTCTCTAGGACATACTCTGGGGCTACTAGATGACTTTGGAGCAAAGTTTGGTAAAGCTCCTTGTA
391145 TGTCGCAAGGATAAGGTCGAACTGCTGCCTTCGCTGATTTGCACCTGAATTGTTTAGTGCATTAT
456 TGTCGCAAGGATAAGGTCGAACTGCTGCCTTCGCTGATTTGCACCTGAATTGTTTAGTGCATTAT
391210 TGGCATTAGGGTTGGTGTTTAGGTTAGCCCGAGGTTGATTATTTCGTGGTGGTCGTGGTGGGATA
521 TGGCATTAGGGTTGGTGTTTAGGTTAGCCCGAGGTTGATTATTTCGTGGTGGTCGTGGTGGGATA
* *
391275 GCAAGAGATGGGCCATAGGTTGCGGCATACACTGGCTGAGAGGGTATTATGACTAGGCTTGGGTA
586 GCAAGAGATGGGCCATAGGTTGCAGCATACACTGGCTGAGAGGGTATTATGACTAAGCTTGGGTA
391340 AAGTGCATTCGGGTAGTAGGGACCAGGTGCTTGATGCTGTCCCGGTTGTGCTTGATTGGCA
651 AAGTGCATTCGGGTAGTAGGGACCAGGTGCTTGATGCTGTCCCGGTTGTGCTTGATTGGCA
391401 TAGCTAATGG
Statistics
Matches: 701, Mismatches: 10, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
713 701 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (713 bp):
TTTCATTGATAATACTTGATAAAGGTGCCCATTGCACAAGATCTCTACATGCCATTGGGCAAAGG
CAAGTAAGTTGTCTTGAAATTTACACAAAATAAGCAAGAAAAGTGCAAGGATTTCCAGCGTGACT
CCATCGTCAAAAGTTAACTCTAATGGATGGGGATAGATCCCTTTGCTCAAGATTGATGGTTTGCT
AGCTCAGTATGGCTCGGTAAGCGGTTCACAGCAACATTTGGCCCTTGGCTTGCCCTAAACTGCAG
AACCTTTGAATCCAAAAGGCCCTGTACCCTTTGTTTGAAAGGAAAGCAATTCTCAATGTCATGTC
CCGCTACCCCGGCATGGTAATCACAATGGGCATTGGGGTTATACCAGTGAGGATATGGAGGCTTC
CTCTCTAGGACATACTCTGGGGCTACTAGATGACTTTGGAGCAAAGTTTGGTAAAGCTCCTTGTA
TGTCGCAAGGATAAGGTCGAACTGCTGCCTTCGCTGATTTGCACCTGAATTGTTTAGTGCATTAT
TGGCATTAGGGTTGGTGTTTAGGTTAGCCCGAGGTTGATTATTTCGTGGTGGTCGTGGTGGGATA
GCAAGAGATGGGCCATAGGTTGCAGCATACACTGGCTGAGAGGGTATTATGACTAAGCTTGGGTA
AAGTGCATTCGGGTAGTAGGGACCAGGTGCTTGATGCTGTCCCGGTTGTGCTTGATTGGCACA
Found at i:396275 original size:22 final size:20
Alignment explanation
Indices: 396236--396276 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
396226 TGAGATGCTG
*
396236 AACATATTAAAAAAGCATGA
1 AACATATAAAAAAAGCATGA
396256 AACATAATAAAAAAATGCATG
1 AACAT-ATAAAAAAA-GCATG
396277 GTCAAAGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 8 0.44
22 5 0.28
ACGTcount: A:0.61, C:0.10, G:0.10, T:0.20
Consensus pattern (20 bp):
AACATATAAAAAAAGCATGA
Found at i:397756 original size:28 final size:28
Alignment explanation
Indices: 397716--398316 Score: 456
Period size: 28 Copynumber: 20.4 Consensus size: 28
397706 GGTGTCTACA
*
397716 CAAAGCCCACAAGTCAGTGGCATCATTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTT
* **
397744 CAAAGCCCACAAGTCGGTGGCAACTTATTT
1 CAAAGCCCACAAGTCAGTGGC-A-TCCTTT
* *
397774 CAAAGCCTACACAAGTCGGTGGCAATTCATTT
1 CAAAGCC--CACAAGTCAGTGGC-A-TCCTTT
* * * *
397806 GAAAGCCCACACAAGTTAGTAGCAACCCATTT
1 CAAAG-CC-CACAAGTCAGTGGC-ATCC-TTT
* *
397838 CAAAGCCCACACAAGTCGGTGGCAACCCATTT
1 CAAAG-CC-CACAAGTCAGTGGC-ATCC-TTT
** * *
397870 CAAAGCTTAAAAGTCTGTGGCATCCTTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTT
* * * *
397898 TAAAGCCCACAAATCTGTGGCACCCTTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTT
* * *
397926 TAAAACCCACAAGTCAGTGGCACCCTTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTT
* *
397954 TAAAACCCACAAGTCAGTAGG-ATACCCTTT
1 CAAAGCCCACAAGTCAGT-GGCAT--CCTTT
* *
397984 CAAAGCCCATAAGTCAGTGGCACCCTTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTT
*
398012 CAAAGCCCA-AAGTCAATGGCATACCCTTT
1 CAAAGCCCACAAGTCAGTGGCAT--CCTTT
* *
398041 CAAAGCCCATAAGTCAGCGGCA-CCTTTT
1 CAAAGCCCACAAGTCAGTGGCATCC-TTT
* *
398069 CAAAGCCCACAAGAT-AGTGGTATCTTTT
1 CAAAGCCCACAAG-TCAGTGGCATCCTTT
*
398097 TAAAGCCCACAAGTCAGTGGCATCCTTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTT
* *
398125 CAAAAGCCCACAAGTTAGTGGCATCTTTTT
1 C-AAAGCCCACAAGTCAGTGGCATC-CTTT
*
398155 CAAAGCTCACAAGTCAGTGGCATCCTTTT
1 CAAAGCCCACAAGTCAGTGGCATCC-TTT
398184 CAAAGCCCACAAG-CTAGTGGCATCCTTT
1 CAAAGCCCACAAGTC-AGTGGCATCCTTT
* *
398212 CAAAGCCCACACAAGTCGGTGGCAACTCTTTTTT
1 CAAAG-CC-CACAAGTCAGTGGC-A-TC--CTTT
* *
398246 CAAAGCCTACAAGTCAGTGGCACCCTTT
1 CAAAGCCCACAAGTCAGTGGCATCCTTT
* * * *
398274 TAAAGCTCAAACAAGTCGGTGGCAACTCTTTT
1 CAAAGC-C-CACAAGTCAGTGGC-A-TCCTTT
398306 CAAAGCCCACA
1 CAAAGCCCACA
398317 TAAATTAGTG
Statistics
Matches: 477, Mismatches: 64, Indels: 62
0.79 0.11 0.10
Matches are distributed among these distances:
27 14 0.03
28 166 0.35
29 95 0.20
30 85 0.18
31 7 0.01
32 98 0.21
33 4 0.01
34 8 0.02
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (28 bp):
CAAAGCCCACAAGTCAGTGGCATCCTTT
Found at i:397875 original size:96 final size:90
Alignment explanation
Indices: 397739--397908 Score: 232
Period size: 96 Copynumber: 1.8 Consensus size: 90
397729 TCAGTGGCAT
**
397739 CATTTCAAAGCCCACAAGTCGGTGGCAACTTATTTCAAAGCCTACACAAGTCGGTGGCAATTCAT
1 CATTTCAAAGCCCACAAGTCGGTGGCAACCCATTTCAAAGCCTA-A-AAGTCGGTGGC-A-TCAT
397804 TTGAAAGCCCACACAAGTTAGTAGCAACC
62 TTGAAAGCCCACACAAGTTAGTAGCAACC
* * *
397833 CATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCTTAAAAGTCTGTGGCATCCTTT
1 CATTTCAAAG-CC-CACAAGTCGGTGGCAACCCATTTCAAAGCCTAAAAGTCGGTGGCATCATTT
*
397898 TAAAGCCCACA
64 GAAAGCCCACA
397909 AATCTGTGGC
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
92 15 0.22
93 1 0.01
94 20 0.29
95 3 0.04
96 29 0.43
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (90 bp):
CATTTCAAAGCCCACAAGTCGGTGGCAACCCATTTCAAAGCCTAAAAGTCGGTGGCATCATTTGA
AAGCCCACACAAGTTAGTAGCAACC
Found at i:398258 original size:62 final size:56
Alignment explanation
Indices: 397716--398316 Score: 380
Period size: 58 Copynumber: 10.2 Consensus size: 56
397706 GGTGTCTACA
* * *
397716 CAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCC-CACAAGTCGGTGGCAACTTATTT
1 CAAAGCCCACAAGT-AGTGGCATCCTTTCAAAGCCACACAAGTCAGTGGCATC-T-TTT
* * * * * * *
397774 CAAAGCCTACACAAGTCGGTGGCAATTCATTTGAAAGCCCACACAAGTTAGTAGCAACCCATTT
1 CAAAGCC--CACAAGT-AGTGGC-A-TCCTTTCAAAG-CCACACAAGTCAGTGGC-A-TCTTTT
* * * *
397838 CAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCTTA-A-AAGTCTGTGGCATCCTTTT
1 CAAAG-CC-CACAAGT-AGTGGC-ATCC-TTTCAAAGC-CACACAAGTCAGTGGCAT-CTTTT
* * * * * *
397899 -AAAGCCCACAAATCTGTGGCACCCTTTTAAAACC-CACAAGTCAGTGGCACCCTTTT
1 CAAAGCCCACAAGT-AGTGGCATCCTTTCAAAGCCACACAAGTCAGTGGCA-TCTTTT
* * * *
397955 -AAAACCCACAAGTCAGTAGG-ATACCCTTTCAAAGCC-CATAAGTCAGTGGCACCCTTT
1 CAAAGCCCACAAGT-AGT-GGCAT--CCTTTCAAAGCCACACAAGTCAGTGGCATCTTTT
* * * *
398012 CAAAGCCCA-AAGTCAATGGCATACCCTTTCAAAGCC-CATAAGTCAGCGGCACCTTTT
1 CAAAGCCCACAAGT-AGTGGCAT--CCTTTCAAAGCCACACAAGTCAGTGGCATCTTTT
* * * *
398069 CAAAGCCCACAAGATAGTGGTATCTTTTTAAAGCC-CACAAGTCAGTGGCATCCTTT
1 CAAAGCCCACAAG-TAGTGGCATCCTTTCAAAGCCACACAAGTCAGTGGCATCTTTT
* *
398125 CAAAAGCCCACAAGTTAGTGGCATCTTTTTCAAAG-CTCACAAGTCAGTGGCATCCTTTT
1 C-AAAGCCCACAAG-TAGTGGCATC-CTTTCAAAGCCACACAAGTCAGTGGCAT-CTTTT
*
398184 CAAAGCCCACAAGCTAGTGGCATCCTTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTTT
1 CAAAGCCCACAAG-TAGTGGCATCCTTTCAAAG-CCACACAAGTCAGTGGC-A-TC--TTTT
* * * * *
398246 CAAAGCCTACAAGTCAGTGGCACCCTTTTAAAGCTCAAACAAGTCGGTGGCAACTCTTTT
1 CAAAGCCCACAAGT-AGTGGCATCCTTTCAAAGC-CACACAAGTCAGTGGC-A-TCTTTT
398306 CAAAGCCCACA
1 CAAAGCCCACA
398317 TAAATTAGTG
Statistics
Matches: 453, Mismatches: 56, Indels: 66
0.79 0.10 0.11
Matches are distributed among these distances:
55 1 0.00
56 68 0.15
57 92 0.20
58 105 0.23
59 22 0.05
60 33 0.07
61 9 0.02
62 70 0.15
63 5 0.01
64 44 0.10
65 3 0.01
66 1 0.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (56 bp):
CAAAGCCCACAAGTAGTGGCATCCTTTCAAAGCCACACAAGTCAGTGGCATCTTTT
Found at i:400231 original size:29 final size:29
Alignment explanation
Indices: 400177--400233 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
400167 AAATTTATGA
*
400177 TTTTTCAAAAAAAAAATGATCTTTGTTTG
1 TTTTTCAAAAAAAAAATGATCCTTGTTTG
* *
400206 TTTTTTAAAAAAAAATTG-TGCCTTGTTT
1 TTTTTCAAAAAAAAAATGAT-CCTTGTTT
400234 TTGTGTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 1 0.04
29 23 0.96
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.47
Consensus pattern (29 bp):
TTTTTCAAAAAAAAAATGATCCTTGTTTG
Found at i:403413 original size:13 final size:13
Alignment explanation
Indices: 403395--403435 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
403385 AGGTGTACCT
**
403395 TTTTTTAAATTTA
1 TTTTTTAAAAATA
403408 TTTTTTAAAAATA
1 TTTTTTAAAAATA
403421 TTTTTTAAAAA-A
1 TTTTTTAAAAATA
403433 TTT
1 TTT
403436 AATCTTTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 4 0.15
13 22 0.85
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TTTTTTAAAAATA
Found at i:404439 original size:22 final size:22
Alignment explanation
Indices: 404413--404455 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
404403 TTATTTTTCA
404413 ATTTGTTTAATAAATTTAATTC
1 ATTTGTTTAATAAATTTAATTC
*
404435 ATTTGTTTAATAACTTTAATT
1 ATTTGTTTAATAAATTTAATT
404456 TATTCAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.56
Consensus pattern (22 bp):
ATTTGTTTAATAAATTTAATTC
Found at i:411547 original size:29 final size:29
Alignment explanation
Indices: 411494--411549 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
411484 TATTCAACTT
*
411494 AATTTAATTTTCAACTCATATGTTAAAAA
1 AATTTAATTTTCAACTCATAAGTTAAAAA
411523 AATTATAATTGTTCAAC-C-TAAGTTAAA
1 AATT-TAATT-TTCAACTCATAAGTTAAA
411550 CTTTATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 12 0.50
30 6 0.25
31 6 0.25
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (29 bp):
AATTTAATTTTCAACTCATAAGTTAAAAA
Found at i:412657 original size:14 final size:15
Alignment explanation
Indices: 412638--412670 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
412628 ATCAATTATA
412638 ATAAAAT-ATTAATG
1 ATAAAATAATTAATG
*
412652 ATAAAATAATTAATT
1 ATAAAATAATTAATG
412667 ATAA
1 ATAA
412671 TAAAATATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (15 bp):
ATAAAATAATTAATG
Found at i:412661 original size:32 final size:32
Alignment explanation
Indices: 412625--412688 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
412615 TAATATTATT
412625 ATAATCAATTATAATAAAATATTAATGATAAA
1 ATAATCAATTATAATAAAATATTAATGATAAA
* *
412657 ATAATTAATTATAATAAAATATTGATGATAAA
1 ATAATCAATTATAATAAAATATTAATGATAAA
412689 TGTCGATGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.36
Consensus pattern (32 bp):
ATAATCAATTATAATAAAATATTAATGATAAA
Found at i:412675 original size:18 final size:18
Alignment explanation
Indices: 412625--412677 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
412615 TAATATTATT
*
412625 ATAATCAATTATAATAAA
1 ATAATTAATTATAATAAA
*
412643 AT-ATT-A--ATGATAAA
1 ATAATTAATTATAATAAA
412657 ATAATTAATTATAATAAA
1 ATAATTAATTATAATAAA
412675 ATA
1 ATA
412678 TTGATGATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
14 9 0.32
15 3 0.11
16 2 0.07
17 2 0.07
18 12 0.43
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
ATAATTAATTATAATAAA
Found at i:412922 original size:19 final size:21
Alignment explanation
Indices: 412900--412948 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
412890 TATTATTAAA
412900 ATATTAAAATAT-TAT-TTTT
1 ATATTAAAATATATATATTTT
* *
412919 ATATTAATATTTATATATTTT
1 ATATTAAAATATATATATTTT
412940 ATTATTAAA
1 A-TATTAAA
412949 TTTACATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 10 0.42
20 3 0.12
21 5 0.21
22 6 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATTAAAATATATATATTTT
Found at i:417434 original size:11 final size:11
Alignment explanation
Indices: 417414--417467 Score: 58
Period size: 11 Copynumber: 4.9 Consensus size: 11
417404 GTGATTGTAA
*
417414 TAAAAAATAAT
1 TAAAATATAAT
417425 TAAAATATAA-
1 TAAAATATAAT
417435 TAAAA-ATAAT
1 TAAAATATAAT
*
417445 TTAAATATAAT
1 TAAAATATAAT
417456 ATAAATATATAA
1 -TAAA-ATATAA
417468 ATATTTTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
9 4 0.11
10 9 0.25
11 14 0.39
12 3 0.08
13 6 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TAAAATATAAT
Found at i:417441 original size:20 final size:20
Alignment explanation
Indices: 417411--417462 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
417401 ACCGTGATTG
417411 TAATAAAAAATAATTAAAATA
1 TAAT-AAAAATAATTAAAATA
*
417432 TAATAAAAATAATTTAAATA
1 TAATAAAAATAATTAAAATA
*
417452 TAATATAAATA
1 TAATAAAAATA
417463 TATAAATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 25 0.86
21 4 0.14
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TAATAAAAATAATTAAAATA
Found at i:417478 original size:28 final size:27
Alignment explanation
Indices: 417428--417491 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
417418 AAATAATTAA
417428 AATATAATA-A-AAATAATTTAAATAT
1 AATATAATATATAAATAATTTAAATAT
* *
417453 AATATAAATATATAAATATTTTAAATTT
1 AATAT-AATATATAAATAATTTAAATAT
*
417481 TATATAATATA
1 AATATAATATA
417492 AATTATTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 5 0.15
26 4 0.12
27 7 0.21
28 17 0.52
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
AATATAATATATAAATAATTTAAATAT
Found at i:417523 original size:33 final size:33
Alignment explanation
Indices: 417449--417524 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
417439 AATAATTTAA
* * *
417449 ATATAATATAAATATATAAATATTTTAAATTTT
1 ATATAATATAAATATATAAATATATCAAATTGT
* *
417482 ATATAATATAAAT-TATTAATATATCATATTGT
1 ATATAATATAAATATATAAATATATCAAATTGT
417514 ATATAAATATA
1 ATAT-AATATA
417525 TAAAATTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 18 0.49
33 19 0.51
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (33 bp):
ATATAATATAAATATATAAATATATCAAATTGT
Found at i:418395 original size:11 final size:10
Alignment explanation
Indices: 418380--418413 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
418370 AATTTATATC
418380 AATTTGATTT
1 AATTTGATTT
418390 AGATTTGATTT
1 A-ATTTGATTT
418401 AATTTGAATTT
1 AATTTG-ATTT
418412 AA
1 AA
418414 ATAATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.27
11 16 0.73
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (10 bp):
AATTTGATTT
Found at i:419073 original size:69 final size:70
Alignment explanation
Indices: 418946--419081 Score: 256
Period size: 69 Copynumber: 2.0 Consensus size: 70
418936 TCAGAGATAT
418946 ATATATATATATATTGTATTTTTTATGTAAAACTTTTAAAATAACAAATTGTTTTCATTTTATAA
1 ATATATATATATATTGTATTTTTTATGTAAAACTTTTAAAATAACAAATTGTTTTCATTTTATAA
419011 GTTTA
66 GTTTA
*
419016 ATATATATATATATTGTATTTTTTATGT-AAATTTTTAAAATAACAAATTGTTTTCATTTTATAA
1 ATATATATATATATTGTATTTTTTATGTAAAACTTTTAAAATAACAAATTGTTTTCATTTTATAA
419080 GT
66 GT
419082 CATAAAAAAT
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
69 37 0.57
70 28 0.43
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (70 bp):
ATATATATATATATTGTATTTTTTATGTAAAACTTTTAAAATAACAAATTGTTTTCATTTTATAA
GTTTA
Found at i:420708 original size:15 final size:14
Alignment explanation
Indices: 420668--420708 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
420658 AAGTAATTTT
*
420668 TATTATATACATAA
1 TATTATATATATAA
420682 TATATATATATATAA
1 TAT-TATATATATAA
420697 TATTATAGTATA
1 TATTATA-TATA
420709 AACAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (14 bp):
TATTATATATATAA
Found at i:420759 original size:22 final size:22
Alignment explanation
Indices: 420734--420775 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
420724 TAAATTATTT
420734 AAAAT-TTAAACTTAATAAAAGA
1 AAAATATTAAA-TTAATAAAAGA
*
420756 AAAATATTAAATTACTAAAA
1 AAAATATTAAATTAATAAAA
420776 CTTAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAATATTAAATTAATAAAAGA
Found at i:422909 original size:46 final size:46
Alignment explanation
Indices: 422836--422930 Score: 127
Period size: 46 Copynumber: 2.1 Consensus size: 46
422826 ATTACTGTTT
* * *
422836 ATAGCCACATCTAAACCGAGCTATTATAACAATAATATTGCATTAA
1 ATAGCCACATCTAAACCGAGCCATTATAACAATAACATTACATTAA
* * * *
422882 ATAGTCACATCTAAACCGAGCCGTTATAATAATAACATTATATTAA
1 ATAGCCACATCTAAACCGAGCCATTATAACAATAACATTACATTAA
422928 ATA
1 ATA
422931 AAATAGTTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.29
Consensus pattern (46 bp):
ATAGCCACATCTAAACCGAGCCATTATAACAATAACATTACATTAA
Found at i:423321 original size:18 final size:18
Alignment explanation
Indices: 423300--423334 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
423290 AAAAAATATC
423300 AATATAATATTAAAAATA
1 AATATAATATTAAAAATA
* *
423318 AATATCATTTTAAAAAT
1 AATATAATATTAAAAAT
423335 TTTTTAAAGA
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:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
AATATAATATTAAAAATA
Found at i:424108 original size:29 final size:28
Alignment explanation
Indices: 424066--424196 Score: 135
Period size: 29 Copynumber: 4.6 Consensus size: 28
424056 AAAATTTATT
*
424066 ATTT-TATTAGATAAATTTTTATATTTA
1 ATTTATATTAAATAAATTTTTATATTTA
*
424093 GA-TTATATTCAAATAAATTTTTAATTTTTA
1 -ATTTATATT-AAATAAATTTTT-ATATTTA
*
424123 ATTTATACTTAAAT-AATCTTTAATATTTA
1 ATTTATA-TTAAATAAAT-TTTTATATTTA
*
424152 ATTTGTATTGAAATAAATTTTTA-ATTTA
1 ATTTATATT-AAATAAATTTTTATATTTA
424180 ATTTATATATAAATAAA
1 ATTTATAT-TAAATAAA
424197 CCCTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 18
0.78 0.06 0.16
Matches are distributed among these distances:
27 2 0.02
28 26 0.30
29 36 0.41
30 21 0.24
31 2 0.02
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (28 bp):
ATTTATATTAAATAAATTTTTATATTTA
Found at i:424149 original size:59 final size:57
Alignment explanation
Indices: 424086--424195 Score: 152
Period size: 59 Copynumber: 1.9 Consensus size: 57
424076 ATAAATTTTT
424086 ATATTTAGA-TTATATTCAAATAAATTTTTAATTTTTAATTTATACT-TAAATAATCTTTA
1 ATATTTA-ATTTATATTCAAATAAATTTTTAA--TTTAATTTATA-TATAAATAATCTTTA
* *
424145 ATATTTAATTTGTATTGAAATAAATTTTTAATTTAATTTATATATAAATAA
1 ATATTTAATTTATATTCAAATAAATTTTTAATTTAATTTATATATAAATAA
424196 ACCCTTAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
56 1 0.02
57 18 0.38
58 1 0.02
59 27 0.57
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.52
Consensus pattern (57 bp):
ATATTTAATTTATATTCAAATAAATTTTTAATTTAATTTATATATAAATAATCTTTA
Found at i:424997 original size:20 final size:18
Alignment explanation
Indices: 424956--425003 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
424946 TATAATACTT
*
424956 TAAATAATATAATATGAA
1 TAAATAATATAATATAAA
424974 -AAATAATATTAATATAACA
1 TAAATAATA-TAATATAA-A
424993 TAAAT-ATATAA
1 TAAATAATATAA
425004 ATTATCAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 8 0.31
18 10 0.38
19 4 0.15
20 4 0.15
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
TAAATAATATAATATAAA
Found at i:425007 original size:23 final size:22
Alignment explanation
Indices: 424956--425007 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
424946 TATAATACTT
*
424956 TAAA-TAATATAATATGAAAAA
1 TAAATTAATATAACATGAAAAA
424977 TAATATTAATATAACAT-AAATATA
1 TAA-ATTAATATAACATGAAA-A-A
425001 TAAATTA
1 TAAATTA
425008 TCAAATATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 3 0.12
22 4 0.15
23 15 0.58
24 4 0.15
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (22 bp):
TAAATTAATATAACATGAAAAA
Found at i:425013 original size:16 final size:18
Alignment explanation
Indices: 424994--425028 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
424984 AATATAACAT
424994 AAATA-TATAA-ATTATC
1 AAATATTATAATATTATC
425010 AAATATTATAATATTATC
1 AAATATTATAATATTATC
425028 A
1 A
425029 CGTATAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 5 0.29
18 7 0.41
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATATTATAATATTATC
Found at i:425682 original size:2 final size:2
Alignment explanation
Indices: 425640--425671 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
425630 ATTTTGTGTG
*
425640 TA TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
425672 ATTACATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:426820 original size:2 final size:2
Alignment explanation
Indices: 426813--426846 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
426803 AATAATCATC
426813 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
426847 GCTCTAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:427295 original size:25 final size:23
Alignment explanation
Indices: 427265--427322 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 23
427255 GGCAATTTCA
*
427265 TTAATTT-ATTACATAAATATTAATT
1 TTAATTTAATT-CA-AAAAATTAA-T
427290 TTAATTTAATTCAAAAAATTAAT
1 TTAATTTAATTCAAAAAATTAAT
427313 TTAA-TTAATT
1 TTAATTTAATT
427323 TAAATTTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
22 6 0.19
23 5 0.16
24 8 0.26
25 9 0.29
26 3 0.10
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (23 bp):
TTAATTTAATTCAAAAAATTAAT
Found at i:428537 original size:28 final size:31
Alignment explanation
Indices: 428476--428539 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
428466 ATAAAAAATT
* *
428476 TTAAAAATAATATTTATTTTTATATATTAAA
1 TTAAAAATAATATTTATTCTCATATATTAAA
428507 TTAAAAATAATATTTATTCTCAATATAATTAAA
1 TTAAAAATAATATTTATTCTC-ATAT-ATTAAA
428540 CTGAAGATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 19 0.66
32 4 0.14
33 6 0.21
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (31 bp):
TTAAAAATAATATTTATTCTCATATATTAAA
Found at i:429079 original size:2 final size:2
Alignment explanation
Indices: 429035--429060 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
429025 TGCCACCCAA
429035 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
429061 TGATTGGTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:429184 original size:23 final size:24
Alignment explanation
Indices: 429125--429188 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 24
429115 AATAACGTAA
429125 AATTATTAATT-TTATATATTTTTAT
1 AATT-TTAATTATT-TATATTTTTAT
429150 AATTTTATATTATTTATATTTATT-T
1 AATTTTA-ATTATTTATATTT-TTAT
429175 AA-TTTAATTATTTA
1 AATTTTAATTATTTA
429189 ATTATATATT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
23 8 0.22
24 7 0.19
25 17 0.47
26 4 0.11
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (24 bp):
AATTTTAATTATTTATATTTTTAT
Found at i:429622 original size:3 final size:3
Alignment explanation
Indices: 429614--429694 Score: 117
Period size: 3 Copynumber: 27.0 Consensus size: 3
429604 ATATTGTATA
* * *
429614 TAT TAT TAT CAA TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
429662 TAT TAT TAT TAC TAC TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
429695 AATATAAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:430228 original size:40 final size:40
Alignment explanation
Indices: 430173--430254 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
430163 GTTTAAAACT
* **
430173 CCATTTGCCCTTTCAATTGGGTCGAAGGGGTGGATTGGAC
1 CCATTGGCCCTTTCAATTGGGTCGAAGGAATGGATTGGAC
430213 CCATTGGCCCTTTCAATTGGGTCGAAGGAATGGATTGGAC
1 CCATTGGCCCTTTCAATTGGGTCGAAGGAATGGATTGGAC
430253 CC
1 CC
430255 TAGTGAAACG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (40 bp):
CCATTGGCCCTTTCAATTGGGTCGAAGGAATGGATTGGAC
Found at i:430388 original size:29 final size:29
Alignment explanation
Indices: 430317--430401 Score: 95
Period size: 29 Copynumber: 2.9 Consensus size: 29
430307 TTATTTTATA
*
430317 TTAATAATTTATTTTTAATATAAATAT-AAT
1 TTAATAA-TTA-TTTTATTATAAATATAAAT
430347 TTCAAT-ATATATTTTATTATAAATATAAAT
1 TT-AATAAT-TATTTTATTATAAATATAAAT
*
430377 TTAATAATTA-TTTATTATATATATA
1 TTAATAATTATTTTATTATAAATATA
430402 CACACGTTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
28 14 0.29
29 20 0.41
30 12 0.24
31 3 0.06
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (29 bp):
TTAATAATTATTTTATTATAAATATAAAT
Found at i:431132 original size:2 final size:2
Alignment explanation
Indices: 431125--431160 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
431115 TAGTCTAGTA
431125 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
431161 TAATGTGGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:438088 original size:73 final size:73
Alignment explanation
Indices: 437952--438548 Score: 326
Period size: 73 Copynumber: 8.4 Consensus size: 73
437942 ACACTTTTAC
* * ** * * * *
437952 AAATAAA-AATACC-T-AAAATTTAAATTTATATAACCAGA-CCATAAAACAAATTTAAAATTTT
1 AAATAAATAATACCTTAAAAATTTAAACTCATATAATAATATCCAAAAAATAAATTTAAAATTCT
438013 ACAAATAA
66 ACAAATAA
* ** * *
438021 AAAT-AATCATATTTTACAAAATTTAAACTCATATAATAATATCCAAAAAATAAATTTAAACTTT
1 AAATAAATAATACCTTA-AAAATTTAAACTCATATAATAATATCCAAAAAATAAATTTAAAATTC
438085 TACAAATAA
65 TACAAATAA
* * * ** * * * *
438094 AAATAAA-AATACTTTAAAATTTTAAATTTGTATAATCAA-A-CTAGAAAACAAATTTAAAATAC
1 AAATAAATAATACCTTAAAAATTTAAACTCATATAAT-AATATCCAAAAAATAAATTTAAAATTC
*
438156 TAAAAATAA
65 TACAAATAA
* * * * * * * * * *
438165 AAATCAATCATATCTTAAAAATTTAAAGTTATATAATTATA-CTTAAAAAACAAATTTAAACTTT
1 AAATAAATAATACCTTAAAAATTTAAACTCATATAATAATATC-CAAAAAATAAATTTAAAATTC
*
438229 TACAAGTAA
65 TACAAATAA
* * * * *
438238 AAAAAAAAAATACCTTAAAAAAATTAAACTCTTATAATCAA-ATCGC--AAAATAAATTTAAAGT
1 AAATAAATAATACCTT-AAAAATTTAAACTCATATAAT-AATATC-CAAAAAATAAATTTAAAAT
*
438300 TCTAGAAAT--
63 TCTACAAATAA
* * * *** * * *
438309 -AA-AAATAA-A--TTAAAAATTTATACTTATATAATTATAT---TTGAA-AAATTTGAACTTCG
1 AAATAAATAATACCTTAAAAATTTAAACTCATATAATAATATCCAAAAAATAAATTTAAAATTCT
*
438365 ACAAATAG
66 ACAAATAA
* * * * * * ** * * *
438373 AAATAAATTACAGCTTATAAAATATAAAATCATATAATCATATTGAAAAACTAAATTTAAATTTT
1 AAATAAATAATACCTTA-AAAATTTAAACTCATATAATAATATCCAAAAAATAAATTTAAAATTC
*
438438 TATAAATAA
65 TACAAATAA
* ** *
438447 AGATAAATAATATATTAAAAATTTAAATTCATATAATCAA-A-CCAAAAAATAAATTTAAAATTC
1 AAATAAATAATACCTTAAAAATTTAAACTCATATAAT-AATATCCAAAAAATAAATTTAAAATTC
438510 TACAAATAA
65 TACAAATAA
* *
438519 AAATAAATTATACCTTACAAAATTTGAACT
1 AAATAAATAATACCTTA-AAAATTTAAACT
438549 TCTACAAATA
Statistics
Matches: 396, Mismatches: 103, Indels: 54
0.72 0.19 0.10
Matches are distributed among these distances:
62 16 0.04
63 2 0.01
64 1 0.00
65 21 0.05
66 7 0.02
67 1 0.00
68 3 0.01
69 15 0.04
70 23 0.06
71 31 0.08
72 99 0.25
73 126 0.32
74 49 0.12
75 2 0.01
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.32
Consensus pattern (73 bp):
AAATAAATAATACCTTAAAAATTTAAACTCATATAATAATATCCAAAAAATAAATTTAAAATTCT
ACAAATAA
Found at i:438163 original size:144 final size:141
Alignment explanation
Indices: 437878--438525 Score: 419
Period size: 144 Copynumber: 4.6 Consensus size: 141
437868 CTAATCTTAC
* * * *
437878 AAATAAAAATAAATTAT-TCTTTAAAAACATTTTAACTCTTATAATCA-ATCTAAAAAATAAATT
1 AAATAAAAATAAATCATAT-TTT-AAAA-ATTTAAACTCATATAATAATATCTAAAAAATAAATT
* * * * * *
437941 TACACTTTTAC-----AAATAAAAATAC-CTAAAATTTAAATTTATATAACCAGACCATAAAACA
63 TAAACTTTTACAATAAAAATAAAAATACTTTAAAATTTAAATTT-TATAATCAAACTAGAAAACA
* *
438000 AATTTAAAATTTTAC
127 AATTTAAAATTCTAA
*
438015 AAATAAAAAT-AATCATATTTTACAAAATTTAAACTCATATAATAATATCCAAAAAATAAATTTA
1 AAATAAAAATAAATCATATTTTA-AAAATTTAAACTCATATAATAATATCTAAAAAATAAATTTA
438079 AACTTTTACAAATAAAAATAAAAATACTTTAAAATTTTAAATTTGTATAATCAAACTAGAAAACA
65 AACTTTTAC-AATAAAAATAAAAATACTTTAAAA-TTTAAATTT-TATAATCAAACTAGAAAACA
*
438144 AATTTAAAATACTAA
127 AATTTAAAATTCTAA
* * * * * *
438159 AAATAAAAATCAATCATATCTTAAAAATTTAAAGTTATATAATTATA-CTTAAAAAACAAATTTA
1 AAATAAAAATAAATCATATTTTAAAAATTTAAACTCATATAATAATATC-TAAAAAATAAATTTA
* * * * *
438223 AACTTTTACAAGTAAAAAAAAAAAATACCTTAAAAAAATTAAACTCTTATAATCAAA-TCGCAAA
65 AACTTTTACAA-T-AAAAATAAAAATA-CTT-TAAAATTTAAA-TTTTATAATCAAACTAG-AAA
* * *
438287 ATAAATTTAAAGTTCTAG
124 ACAAATTTAAAATTCTAA
* * * ** *
438305 AAATAAAAAT--A--A-A--TTAAAAATTTATACTTATATAATTATAT-T--TGAA-AAATTTGA
1 AAATAAAAATAAATCATATTTTAAAAATTTAAACTCATATAATAATATCTAAAAAATAAATTTAA
** * * * * ** * *
438359 ACTTCGACAAATAGAAATAAATTACAGCTTATAAAATATAAAATCATATAATCATA-TTGAAAAA
66 ACTTTTAC-AATAAAAATAAA-AATA-CTT-TAAAAT-TTAAATTTTATAATCAAACTAG-AAAA
* * *
438423 CTAAATTTAAATTTTTAT
125 C-AAATTTAAAATTCTAA
* * * * *
438441 AAATAAAGATAAATAATATATTAAAAATTTAAATTCATATAATCAA-A-CCAAAAAATAAATTTA
1 AAATAAAAATAAATCATATTTTAAAAATTTAAACTCATATAAT-AATATCTAAAAAATAAATTTA
* *
438504 AAATTCTACAAATAAAAATAAA
65 AACTTTTAC-AATAAAAATAAA
438526 TTATACCTTA
Statistics
Matches: 410, Mismatches: 65, Indels: 63
0.76 0.12 0.12
Matches are distributed among these distances:
134 7 0.02
135 58 0.14
136 66 0.16
137 11 0.03
138 2 0.00
139 25 0.06
140 1 0.00
141 2 0.00
142 13 0.03
143 29 0.07
144 93 0.23
145 27 0.07
146 70 0.17
147 6 0.01
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (141 bp):
AAATAAAAATAAATCATATTTTAAAAATTTAAACTCATATAATAATATCTAAAAAATAAATTTAA
ACTTTTACAATAAAAATAAAAATACTTTAAAATTTAAATTTTATAATCAAACTAGAAAACAAATT
TAAAATTCTAA
Found at i:438525 original size:72 final size:73
Alignment explanation
Indices: 438391--438526 Score: 175
Period size: 72 Copynumber: 1.9 Consensus size: 73
438381 TACAGCTTAT
*** * * * * *
438391 AAAATATAAAATCATATAATCATATTGAAAAACTAAATTTAAATTTTTATAAATAAAGATAAATA
1 AAAATATAAAATCATATAATCATAACCAAAAAATAAATTTAAAATTCTACAAATAAAAATAAATA
438456 ATATATTA
66 ATATATTA
* *
438464 AAAATTTAAATTCATATAATCA-AACCAAAAAATAAATTTAAAATTCTACAAATAAAAATAAAT
1 AAAATATAAAATCATATAATCATAACCAAAAAATAAATTTAAAATTCTACAAATAAAAATAAAT
438527 TATACCTTAC
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
72 33 0.62
73 20 0.38
ACGTcount: A:0.60, C:0.07, G:0.01, T:0.32
Consensus pattern (73 bp):
AAAATATAAAATCATATAATCATAACCAAAAAATAAATTTAAAATTCTACAAATAAAAATAAATA
ATATATTA
Found at i:438543 original size:41 final size:39
Alignment explanation
Indices: 438497--438586 Score: 126
Period size: 41 Copynumber: 2.2 Consensus size: 39
438487 ACCAAAAAAT
*
438497 AAATTTAAAATTCTACAAATAAAAATAAATTATACCTTACA
1 AAATTTAAAATTCTACAAATAAAAATAAA-AATACCTTA-A
* *
438538 AAATTTGAACTTCTACAAATAAAAATAAAAATACCTTAA
1 AAATTTAAAATTCTACAAATAAAAATAAAAATACCTTAA
438577 AATATTTAAA
1 AA-ATTTAAA
438587 TGTGTGTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
39 3 0.07
40 14 0.32
41 27 0.61
ACGTcount: A:0.57, C:0.11, G:0.01, T:0.31
Consensus pattern (39 bp):
AAATTTAAAATTCTACAAATAAAAATAAAAATACCTTAA
Found at i:438585 original size:113 final size:113
Alignment explanation
Indices: 438425--438662 Score: 266
Period size: 113 Copynumber: 2.1 Consensus size: 113
438415 TTGAAAAACT
* * * * *
438425 AAATTTAAATTTTTATAAATAAAGATAAATAATATATTAAAAATTTAAAT-TCATATAATCAAAC
1 AAATTTAAACTTCTACAAATAAAAATAAATAATACATTAAAAATTTAAATGT-ATATAATCAAAC
* * *
438489 CAAAAAATAAATTTAAA-ATTCTACAAATAAAAATAAATTATACCTTACA
65 CAAAAAACAAATTTAAAGATT-TACAAATAAAAATAAATCATACCTTAAA
* * * * *
438538 AAATTTGAACTTCTACAAATAAAAATAAA-AATACCTTAAAATATTTAAATGTGTGTAATCAAAT
1 AAATTTAAACTTCTACAAATAAAAATAAATAATACATTAAAA-ATTTAAATGTATATAATCAAAC
* * * * *
438602 CAGAAAACAAATTTAAAGGTTTAGAAGTAAAAATAAATCATATCTTAAA
65 CAAAAAACAAATTTAAAGATTTACAAATAAAAATAAATCATACCTTAAA
438651 AAATTTAAACTT
1 AAATTTAAACTT
438663 ATATAATTAT
Statistics
Matches: 103, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
112 10 0.10
113 90 0.87
114 3 0.03
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.32
Consensus pattern (113 bp):
AAATTTAAACTTCTACAAATAAAAATAAATAATACATTAAAAATTTAAATGTATATAATCAAACC
AAAAAACAAATTTAAAGATTTACAAATAAAAATAAATCATACCTTAAA
Found at i:438753 original size:72 final size:71
Alignment explanation
Indices: 438538--438977 Score: 371
Period size: 72 Copynumber: 6.1 Consensus size: 71
438528 ATACCTTACA
* * * * * *
438538 AAATTTGAACTTCTACAAATAAAAATAAA-AATACCTTAAAATATTTAAA-TGTGTGTAATCAAA
1 AAATTTAAACTTATACAAAT-AAAATAAATAATACATTAAAA-ATTTAAACT-TGTATAATTATA
* * *
438601 TCAGAAAAC
63 CCAAAAAAT
* * * * *
438610 AAATTTAAAGGTT-TAGAAGTAAAAATAAATCATATC-TTAAAAAATTTAAACTTATATAATTAT
1 AAATTTAAA-CTTATACAAAT-AAAATAAATAATA-CATT-AAAAATTTAAACTTGTATAATTAT
438673 ACTCAAAAAAT
62 AC-CAAAAAAT
* * *
438684 AAGTTTAAACTTATACGAATAGAAATAAATTATATC-TT-AAAATTTAAACTTGTATAATTATAC
1 AAATTTAAACTTATACAAATA-AAATAAATAATA-CATTAAAAATTTAAACTTGTATAATTATAC
438747 CAAAAAAT
64 CAAAAAAT
* * *
438755 AAATTTAAACTTCTACAAATAAATATAAATAATACTTTAAAAATTTAAACTTGTATAATTAAACC
1 AAATTTAAACTTATACAAATAAA-ATAAATAATACATTAAAAATTTAAACTTGTATAATTATACC
438820 AAAAAAT
65 AAAAAAT
* * * *
438827 AAATTTAAAATTTTACAAATAAAAATAAATGATACATT-AAAATTTAAA-TTCGTATAATCACT-
1 AAATTTAAACTTATACAAAT-AAAATAAATAATACATTAAAAATTTAAACTT-GTATAATTA-TA
*
438889 CCTAAAAAAG
63 CC-AAAAAAT
* * * ** *
438899 AAATTTAAACTTCTA-AAAGTTAAAATAAATAATACCTCAAAAATTTAAACTCATATAATTA-AA
1 AAATTTAAACTTATACAAA--TAAAATAAATAATACATTAAAAATTTAAACTTGTATAATTATAC
438962 CAAAAAAT
64 CAAAAAAT
438970 AAATTTAA
1 AAATTTAA
438978 TATCTTAAGA
Statistics
Matches: 307, Mismatches: 41, Indels: 41
0.79 0.11 0.11
Matches are distributed among these distances:
70 5 0.02
71 74 0.24
72 142 0.46
73 46 0.15
74 40 0.13
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.32
Consensus pattern (71 bp):
AAATTTAAACTTATACAAATAAAATAAATAATACATTAAAAATTTAAACTTGTATAATTATACCA
AAAAAT
Found at i:438764 original size:32 final size:32
Alignment explanation
Indices: 438723--438835 Score: 93
Period size: 32 Copynumber: 3.3 Consensus size: 32
438713 TTATATCTTA
438723 AAATTTAAACTTGTATAATTATACCAAAAAAT
1 AAATTTAAACTTGTATAATTATACCAAAAAAT
* * * *
438755 AAATTTAAACTTCTACAAATAAATA-TAAATAATACTTT
1 AAATTTAAACTTGTA-TAAT-TATACCAAA-AA-A---T
*
438793 AAAAATTTAAACTTGTATAATTAAACCAAAAAAT
1 --AAATTTAAACTTGTATAATTATACCAAAAAAT
438827 AAATTTAAA
1 AAATTTAAA
438836 ATTTTACAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 20
0.68 0.10 0.22
Matches are distributed among these distances:
32 23 0.37
33 6 0.10
34 6 0.10
35 1 0.02
37 1 0.02
38 5 0.08
39 6 0.10
40 14 0.23
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.34
Consensus pattern (32 bp):
AAATTTAAACTTGTATAATTATACCAAAAAAT
Found at i:438852 original size:217 final size:214
Alignment explanation
Indices: 438538--438977 Score: 498
Period size: 217 Copynumber: 2.0 Consensus size: 214
438528 ATACCTTACA
* * *
438538 AAATTTGAACTTCTACAAATAAAAATAAAAATACCTTAAAATATTTAAATGTGTGTAATCAAATC
1 AAATTTAAACTTCTACAAATAAAAATAAAAATACCTTAAAATATTTAAATGTGTATAATCAAACC
* * * *
438603 AGAAAACAAATTTAAAGGTTTAGAAGTAAAAATAAATCATATC-TTAAAAAATTTAAACTT-ATA
66 AAAAAACAAATTTAAAAGTTTACAAATAAAAATAAATCATA-CATT--AAAATTTAAA-TTCATA
* * * * * * *
438666 TAATTA-TACTCAAAAAATAAGTTTAAACTTATACGAA-TAGAAATAAATTATATCT-TAAAATT
127 TAATCACTACT-AAAAAAGAAATTTAAACTTATA-AAAGTA-AAATAAATAATACCTCAAAAATT
** *
438728 TAAACTTGTATAATTATACCAAAAAAT
189 TAAACTCATATAATTA-AACAAAAAAT
* * *
438755 AAATTTAAACTTCTACAAATAAATATAAATAATACTTTAAAA-ATTTAAACT-TGTATAATTAAA
1 AAATTTAAACTTCTACAAATAAAAATAAA-AATACCTTAAAATATTTAAA-TGTGTATAATCAAA
* * * *
438818 CCAAAAAATAAATTTAAAATTTTACAAATAAAAATAAATGATACATTAAAATTTAAATTCGTATA
64 CCAAAAAACAAATTTAAAAGTTTACAAATAAAAATAAATCATACATTAAAATTTAAATTCATATA
* *
438883 ATCACTCCTAAAAAAGAAATTTAAACTTCTAAAAGTTAAAATAAATAATACCTCAAAAATTTAAA
129 ATCACTACTAAAAAAGAAATTTAAACTTATAAAAG-TAAAATAAATAATACCTCAAAAATTTAAA
438948 CTCATATAATTAAACAAAAAAT
193 CTCATATAATTAAACAAAAAAT
438970 AAATTTAA
1 AAATTTAA
438978 TATCTTAAGA
Statistics
Matches: 189, Mismatches: 26, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
214 4 0.02
215 66 0.35
216 26 0.14
217 81 0.43
218 12 0.06
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.32
Consensus pattern (214 bp):
AAATTTAAACTTCTACAAATAAAAATAAAAATACCTTAAAATATTTAAATGTGTATAATCAAACC
AAAAAACAAATTTAAAAGTTTACAAATAAAAATAAATCATACATTAAAATTTAAATTCATATAAT
CACTACTAAAAAAGAAATTTAAACTTATAAAAGTAAAATAAATAATACCTCAAAAATTTAAACTC
ATATAATTAAACAAAAAAT
Found at i:438927 original size:144 final size:144
Alignment explanation
Indices: 438551--438977 Score: 453
Period size: 144 Copynumber: 3.0 Consensus size: 144
438541 TTTGAACTTC
* * * * * * *
438551 TACAAATAAAAATAAA-AATACCTTAAAATATTTAAA-TGTGTGTAATCAAATCAGAAAACAAAT
1 TACAAATAAAAATAAATGATATCTT-AAA-ATTTAAACT-TGTATAATCATACCAAAAAAGAAAT
* * * * *
438614 TTAAAGGTT-TA-GAAGTAAAAATAAATCATATCTTAAAAAATTTAAACTTATATAATTATACTC
63 TTAAA-CTTCTACAAAGTTAAAATAAATAATA-CTTAAAAAATTTAAACTTATATAATTAAAC-C
* *
438677 AAAAAATAAGTTTAAACTTA
125 AAAAAATAAATTTAAAATTA
* * * * *
438697 TACGAATAGAAATAAATTATATCTTAAAATTTAAACTTGTATAATTATACCAAAAAATAAATTTA
1 TACAAATAAAAATAAATGATATCTTAAAATTTAAACTTGTATAATCATACCAAAAAAGAAATTTA
* *
438762 AACTTCTACAAA--TAAATATAAATAATACTTTAAAAATTTAAACTTGTATAATTAAACCAAAAA
66 AACTTCTACAAAGTTAAA-ATAAATAATACTTAAAAAATTTAAACTTATATAATTAAACCAAAAA
*
438825 ATAAATTTAAAATTT
130 ATAAATTTAAAATTA
438840 TACAAATAAAAATAAATGATA-CATTAAAATTTAAA-TTCGTATAATCACT-CCTAAAAAAGAAA
1 TACAAATAAAAATAAATGATATC-TTAAAATTTAAACTT-GTATAATCA-TACC-AAAAAAGAAA
* * *
438902 TTTAAACTTCTA-AAAGTTAAAATAAATAATACCTCAAAAATTTAAACTCATATAATTAAA-CAA
62 TTTAAACTTCTACAAAGTTAAAATAAATAATACTTAAAAAATTTAAACTTATATAATTAAACCAA
438965 AAAATAAATTTAA
127 AAAATAAATTTAA
438978 TATCTTAAGA
Statistics
Matches: 241, Mismatches: 29, Indels: 25
0.82 0.10 0.08
Matches are distributed among these distances:
142 3 0.01
143 77 0.32
144 89 0.37
145 46 0.19
146 20 0.08
147 6 0.02
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (144 bp):
TACAAATAAAAATAAATGATATCTTAAAATTTAAACTTGTATAATCATACCAAAAAAGAAATTTA
AACTTCTACAAAGTTAAAATAAATAATACTTAAAAAATTTAAACTTATATAATTAAACCAAAAAA
TAAATTTAAAATTA
Found at i:439236 original size:264 final size:263
Alignment explanation
Indices: 438736--439210 Score: 635
Period size: 264 Copynumber: 1.8 Consensus size: 263
438726 TTTAAACTTG
*
438736 TATAATTATACCAAAAAATAAATTTAAACTTCTACAAATAAATATAAATAATACTTTAAAAATTT
1 TATAATTATACCAAAAAATAAATTTAAAATTCTACAAATAAATATAAATAATACTTTAAAAATTT
** *
438801 AAACTTGTATAATTAAACCAAAAAATAAATTTAAAATTTTACAAATAAAAATAAATGATACATTA
66 AAACTCATATAATCAAACCAAAAAATAAATTTAAAATTTTACAAATAAAAATAAATGATACATTA
*
438866 AAATTTAAATTCGTATAATCACTCCTAAAAAAGAAATTTAAACTTCTAAAAGTTAAAATAAATAA
131 AAATTTAAATTCGTATAATCACT-CTAAAAAAGAAATTTAAACTTCTAAAAGTAAAAATAAATAA
* * *
438931 TACCTCAAAAATTTAAACTCATATAATTAAACAAAAAATAAATTTAATATCTTAAGAAATCGAAA
195 TAACTCAAAAATTTAAACTCATATAATAAAAAAAAAAATAAATTTAATATCTTAAGAAATCGAAA
438996 CTCA
260 CTCA
*
439000 TATAATTATACTCAAAAAATAAATTTAAAATTCTACACAA-AAA-ATAAATAATAAC-TTAAATA
1 TATAATTATAC-CAAAAAATAAATTTAAAATTCTACA-AATAAATATAAATAAT-ACTTTAAAAA
* * * *
439062 TTTAAACTCATATAATCAAACCAAAAAATAAATTTAAACTTTTACAACTAAAAATAAATTATACT
63 TTTAAACTCATATAATCAAACCAAAAAATAAATTTAAAATTTTACAAATAAAAATAAATGATACA
* * *** *
439127 TTAAAAAATTTTAACTT-GTATAATTA-T-TGTTAAA-AAATTTAAACTTTTACAAA-TAAAAAT
128 TT--AAAA-TTTAAATTCGTATAATCACTCTAAAAAAGAAATTTAAACTTCTA-AAAGTAAAAAT
*
439187 AAATAATAACT-AAATATTTAAACT
189 AAATAATAACTCAAAAATTTAAACT
439211 TGTCTAATCA
Statistics
Matches: 186, Mismatches: 18, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
261 12 0.06
262 30 0.16
263 7 0.04
264 86 0.46
265 30 0.16
266 14 0.08
267 7 0.04
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (263 bp):
TATAATTATACCAAAAAATAAATTTAAAATTCTACAAATAAATATAAATAATACTTTAAAAATTT
AAACTCATATAATCAAACCAAAAAATAAATTTAAAATTTTACAAATAAAAATAAATGATACATTA
AAATTTAAATTCGTATAATCACTCTAAAAAAGAAATTTAAACTTCTAAAAGTAAAAATAAATAAT
AACTCAAAAATTTAAACTCATATAATAAAAAAAAAAATAAATTTAATATCTTAAGAAATCGAAAC
TCA
Found at i:439259 original size:137 final size:138
Alignment explanation
Indices: 439020--439286 Score: 362
Period size: 141 Copynumber: 1.9 Consensus size: 138
439010 CTCAAAAAAT
*
439020 AAATTTAAAATTCTACACAAAAAATAAATAATAACTTAAATATTTAAACTCATATAATCAAACCA
1 AAATTTAAAATTCTACAAAAAAAATAAATAATAACTTAAATATTTAAACTCATATAATCAAA-CA
* * * * *
439085 AAAAATAAATTTAAACTTTTACAACTAAAAATAAATTATACTTTAAAAAATTTTAACTTGTATAA
65 AAAAATAAA-TTAAAATTTTACAAATAAAAATAAATTATACCTT-AAAAATTTAAACTCGTATAA
439150 TTATTGTTAAA
128 TTATTGTTAAA
* * ** *
439161 AAATTTAAACTTTTACAAATAAAAATAAATAATAAC-TAAATATTTAAACTTGTCTAATCAAA-A
1 AAATTTAAAATTCTACAAA-AAAAATAAATAATAACTTAAATATTTAAACTCATATAATCAAACA
439224 AAATAA-AAA-TAAAATTTTACAAATAAAAATAAATTATACCTTAAAAATTTAAACTCGTATAAT
65 AAA-AATAAATTAAAATTTTACAAATAAAAATAAATTATACCTTAAAAATTTAAACTCGTATAAT
439287 CATACCAAAA
Statistics
Matches: 113, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
136 19 0.17
137 30 0.27
139 7 0.06
140 2 0.02
141 39 0.35
142 16 0.14
ACGTcount: A:0.55, C:0.09, G:0.01, T:0.34
Consensus pattern (138 bp):
AAATTTAAAATTCTACAAAAAAAATAAATAATAACTTAAATATTTAAACTCATATAATCAAACAA
AAAATAAATTAAAATTTTACAAATAAAAATAAATTATACCTTAAAAATTTAAACTCGTATAATTA
TTGTTAAA
Found at i:439508 original size:26 final size:26
Alignment explanation
Indices: 439449--439498 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
439439 ATCTTAAAAT
*
439449 AAAATAAATTTAAACTTTTACTAATA
1 AAAATAAATTTAAACTTGTACTAATA
439475 AAAATAAATTTAAACTTGTA-TAAT
1 AAAATAAATTTAAACTTGTACTAAT
439499 CATATTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (26 bp):
AAAATAAATTTAAACTTGTACTAATA
Found at i:441393 original size:26 final size:27
Alignment explanation
Indices: 441364--441414 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
441354 TTTCTTGATT
441364 GAAA-AACGGGGTTGGAGTATCCCCTC
1 GAAAGAACGGGGTTGGAGTATCCCCTC
*
441390 GAAAGAATGGGGTTGGAGTATCCCC
1 GAAAGAACGGGGTTGGAGTATCCCC
441415 GATGATGACA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.27, C:0.20, G:0.33, T:0.20
Consensus pattern (27 bp):
GAAAGAACGGGGTTGGAGTATCCCCTC
Found at i:443368 original size:11 final size:11
Alignment explanation
Indices: 443352--443385 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
443342 GGTGTTTTGG
443352 GATTCACATTA
1 GATTCACATTA
443363 GATTCACATTA
1 GATTCACATTA
443374 GATTCACATTA
1 GATTCACATTA
443385 G
1 G
443386 CCAAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (11 bp):
GATTCACATTA
Found at i:443647 original size:20 final size:19
Alignment explanation
Indices: 443618--443693 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 19
443608 AAAAAGATAT
443618 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
443637 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
* * *
443658 CATGTATCGATATATCGAAA
1 AATGTATCGATACATTG-AA
443678 AATGTATCGATACATT
1 AATGTATCGATACATT
443694 TGGGTAAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:444377 original size:28 final size:28
Alignment explanation
Indices: 444306--445465 Score: 1171
Period size: 28 Copynumber: 40.6 Consensus size: 28
444296 CACTGACACG
* *
444306 TGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
444334 TGCGTGGGCTTTGAAAGGATGCCACTGACT
1 T--GTGGGCTTTGAAAGGATGCCACTGACT
444364 TGTGGGCTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* *
444392 CGTGGGCTTTGAAA-GAGTGTCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
444420 CGTGGGCTTTGAAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG--AAAGGATGCCACTGACT
*
444449 CGTGGGCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* * *
444477 TGCGTGGGCTTTAAAAGGGTGCCACTAACT
1 T--GTGGGCTTTGAAAGGATGCCACTGACT
* *
444507 TGCGTGGGCTTTAAAAAGATGCCACTGACT
1 T--GTGGGCTTTGAAAGGATGCCACTGACT
444537 TGTGGGCTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
444565 CGTGGGCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
444593 CGTGGGC-TTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
444620 CGTGGGCTTTAAAAGGAGTGCCACTGACTT
1 TGTGGGCTTTGAAAGGA-TGCCACTGAC-T
*
444650 GTGTGGGCTTTGAAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
** * *
444679 TGTGGGCTTT-AAAAAAGTGCCACTAAAT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* * *
444707 TGTGGGCTTCGTAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
444735 TGTGTGCTTCGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
444763 TGTGGGCTCTAAAAGGAGTGCCACTGACTT
1 TGTGGGCTTTGAAAGGA-TGCCACTGAC-T
* *
444793 GTGTGGGCTTTGAAAGGGTGTCACTGACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
*
444822 TGTGGGCTTTGAAA-GAGTGCCACTGAAT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* * *
444850 TGTGGGCTTCGCAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
444878 TGTGGGCTTCGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
444906 TGTGGGCTTTGAAAAGAGTGCCACTGAAT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* * * * *
444935 TATGGACTTCGCAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
444963 TGTGGGCTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
**
444991 CATGGGCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
*
445019 TGCGTGGGCTTTAAAAGGAGTGCCACTGACTT
1 T--GTGGGCTTTGAAAGGA-TGCCACTGAC-T
*
445051 GTGTGGGCTTTGAAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
445080 TGTGGGCTTT-AAAAGAGTGCCACTAAAT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* * *
445108 TGTGGGCTTCGCAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
445136 TGTGGGCTTCGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
445164 TGTGGGCTCTAAAAAGAGTGCCACTGACTT
1 TGTGGGCTTTGAAAGGA-TGCCACTGAC-T
*
445194 GTGTGGGCTTTGAAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
*
445223 TGTGGGCTTTGAAAAGG-TGCCACTAACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
445251 TGCGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
445279 TGTGGGTTTTGAAA-GAGTGCCATTGAAT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* * *
445307 TGTGGGCTTCGCAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
445335 TGTGGGCTTTGAAATGG-CGCCACTGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * *
445363 TGTGGGCTTTAAAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
** *
445392 TGTGGGCTTTGAAAAAAGTGCCACTGTCT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
445421 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
445450 TGTGGGCTTTGAAAGG
1 TGTGGGCTTTGAAAGG
445466 GATGAATATT
Statistics
Matches: 964, Mismatches: 122, Indels: 91
0.82 0.10 0.08
Matches are distributed among these distances:
26 5 0.01
27 41 0.04
28 541 0.56
29 181 0.19
30 128 0.13
31 66 0.07
32 1 0.00
33 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:444483 original size:143 final size:140
Alignment explanation
Indices: 444287--445463 Score: 1351
Period size: 143 Copynumber: 8.2 Consensus size: 140
444277 GGCTTCGAAA
* *
444287 AAAAGTTGCCACTGACACGTGTGGGCTTT-AAAAGGGTGCCACTGACTTGCGTGGGCTTTGAAAG
1 AAAAGGTGCCACTG--ACTTGTGGGCTTTGAAAA-GGTGCCACTGACTT--GTGGGCTTTGAAAG
* *
444351 GATGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAGAGTGTCACT
61 GATGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACT
*
444416 GACTCGTGGGCTTTG
126 GACTTGTGGGCTTTG
* * *
444431 AAAAAGGTGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACTGACTTGCGTGGGCTTTAAAAGGG
1 -AAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTT--GTGGGCTTTGAAAGGA
* *
444496 TGCCACTAACTTGCGTGGGCTTT-AAAAAGATGCCACTGACTTGTGGGCTTTGAAAGAGTGCCAC
63 TGCCACTGACTT--GTGGGCTTTGAAAGAG-TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCAC
*
444560 TGACTCGTGGGCTTTG
125 TGACTTGTGGGCTTTG
* * * *
444576 AAAAGGTGCCACTGACTCGTGGGC-TTGAAAGGGTGCCACTGACTCGTGGGCTTTAAAAGGAGTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGA-TG
* * * *
444640 CCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAAAGTGCCACTAA
65 CCACTGAC-T-TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGA
* *
444705 ATTGTGGGCTTCG
128 CTTGTGGGCTTTG
* * * * * * *
444718 TAAGGGTGCCACTGACTTGTGTGCTTCGAAAGGGTGCCACTGACTTGTGGGCTCTAAAAGGAGTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGA-TG
* *
444783 CCACTGACTTGTGTGGGCTTTGAAAGGGTGTCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGA
65 CCACTGAC-T-TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGA
* *
444848 ATTGTGGGCTTCG
128 CTTGTGGGCTTTG
* * * * * *
444861 CAAGGGTGCCACTGACTTGTGGGCTTCGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGA-TG
* * * * * *
444926 CCACTGAATTATGGACTTCGCAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACT
65 CCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACT
**
444991 CATGGGCTTTG
130 TGTGGGCTTTG
445002 AAAAGGTGCCACTGACTTGCGTGGGCTTT-AAAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAA
1 AAAAGGTGCCACTGACTT--GTGGGCTTTGAAAA-G-GTGCCACTGAC-T-TGTGGGCTTTGAAA
* * * * * * *
445066 GGGTGCCACTGACTTGTGGGCTTTAAAAGAGTGCCACTAAATTGTGGGCTTCGCAAGGGTGCCAC
60 GGATGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCAC
*
445131 TGACTTGTGGGCTTCG
125 TGACTTGTGGGCTTTG
* * * *
445147 AAAGGGTGCCACTGACTTGTGGGCTCTAAAAAGAGTGCCACTGACTTGTGTGGGCTTTGAAAGGG
1 AAAAGGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGAC-T-TGTGGGCTTTGAAAGGA
* * *
445212 TGCCACTGACTTGTGGGCTTTGAAA-AGGTGCCACTAACTTGCGGGCTTTGAAAGGGTGCCACTG
63 TGCCACTGACTTGTGGGCTTTGAAAGA-GTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTG
*
445276 ACTTGTGGGTTTTG
127 ACTTGTGGGCTTTG
* * * * * *
445290 -AAAGAGTGCCATTGAATTGTGGGCTTCGCAAGGGTGCCACTGACTTGTGGGCTTTGAAATGG-C
1 AAAAG-GTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAA-GGAT
* * *
445353 GCCACTGACTTGTGGGCTTTAAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAAAGTGCCACTG
64 GCCACTGACTTGTGGGCTTT-GAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTG
*
445418 TCTTGTGGGCTTTG
127 ACTTGTGGGCTTTG
*
445432 AAAGGAGTGCCACTGACTTGTGGGCTTTGAAA
1 AAAAG-GTGCCACTGACTTGTGGGCTTTGAAA
445464 GGGATGAATA
Statistics
Matches: 908, Mismatches: 101, Indels: 48
0.86 0.10 0.05
Matches are distributed among these distances:
140 34 0.04
141 115 0.13
142 126 0.14
143 419 0.46
144 48 0.05
145 151 0.17
146 15 0.02
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (140 bp):
AAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGATGC
CACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTT
GTGGGCTTTG
Found at i:446720 original size:9 final size:9
Alignment explanation
Indices: 446697--446738 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
446687 TTTTTTGCTA
446697 TTTTTTCTTG
1 TTTTTT-TTG
*
446707 GTTTTTTTG
1 TTTTTTTTG
446716 TTTTTTTTG
1 TTTTTTTTG
*
446725 TTTTGTTT-
1 TTTTTTTTG
446733 TTTTTT
1 TTTTTT
446739 GGTGTAAAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 5 0.18
9 18 0.64
10 5 0.18
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:446739 original size:15 final size:14
Alignment explanation
Indices: 446711--446737 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
446701 TTCTTGGTTT
446711 TTTTGTTTTTTTTG
1 TTTTGTTTTTTTTG
446725 TTTTGTTTTTTTT
1 TTTTGTTTTTTTT
446738 TGGTGTAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (14 bp):
TTTTGTTTTTTTTG
Found at i:458416 original size:26 final size:27
Alignment explanation
Indices: 458387--458437 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
458377 TTTCTTGATT
458387 GAAA-AACGGGGTTGGAGTATCCCCTC
1 GAAAGAACGGGGTTGGAGTATCCCCTC
*
458413 GAAAGAATGGGGTTGGAGTATCCCC
1 GAAAGAACGGGGTTGGAGTATCCCC
458438 GATGATGACA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.27, C:0.20, G:0.33, T:0.20
Consensus pattern (27 bp):
GAAAGAACGGGGTTGGAGTATCCCCTC
Found at i:460759 original size:20 final size:19
Alignment explanation
Indices: 460730--460801 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 19
460720 AAAAAGATAT
460730 AATGTATCGATATATTGAA
1 AATGTATCGATATATTGAA
* * *
460749 GAATATATCGATACATTCATA
1 -AATGTATCGATATATTGA-A
* *
460770 CATGTATCGATATATCGAAA
1 AATGTATCGATATATTG-AA
460790 AATGTATCGATA
1 AATGTATCGATA
460802 CATTTGGGTA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
20 39 0.95
21 2 0.05
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (19 bp):
AATGTATCGATATATTGAA
Found at i:463020 original size:18 final size:19
Alignment explanation
Indices: 462999--463035 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
462989 AAATTACATG
462999 TTATATAAATA-TTAAAAT
1 TTATATAAATATTTAAAAT
*
463017 TTATATTAATATTTAAAAT
1 TTATATAAATATTTAAAAT
463036 CAAATTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTATATAAATATTTAAAAT
Found at i:464476 original size:13 final size:14
Alignment explanation
Indices: 464454--464486 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
464444 ATGAAAATAA
464454 TTTTTA-CTTT-AT
1 TTTTTATCTTTAAT
464466 TTTTTATCTTTAAT
1 TTTTTATCTTTAAT
464480 TTTTTAT
1 TTTTTAT
464487 AAGAATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 4 0.21
14 9 0.47
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTATCTTTAAT
Found at i:467050 original size:11 final size:11
Alignment explanation
Indices: 467035--467073 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
467025 CAAAAAAATC
*
467035 AAAAAGGAAAC
1 AAAAAGGAAAA
467046 AAAAA-GAAAA
1 AAAAAGGAAAA
*
467056 AAAAAAGAAAA
1 AAAAAGGAAAA
467067 AAAAAGG
1 AAAAAGG
467074 GACGAAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAGGAAAA
Found at i:467770 original size:17 final size:16
Alignment explanation
Indices: 467731--467789 Score: 52
Period size: 17 Copynumber: 3.8 Consensus size: 16
467721 AAAGTTAGAT
467731 AAAAAAGA--AAGAAA
1 AAAAAAGATGAAGAAA
*
467745 GAAAGAAGATGAAGAAGA
1 -AAAAAAGATGAAGAA-A
**
467763 AAAAAAGAAAAAGAAA
1 AAAAAAGATGAAGAAA
467779 AAAAAA-ATGAA
1 AAAAAAGATGAA
467790 ATGGAATGGC
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
15 10 0.29
16 7 0.20
17 17 0.49
18 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (16 bp):
AAAAAAGATGAAGAAA
Found at i:468152 original size:2 final size:2
Alignment explanation
Indices: 468145--468169 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
468135 TTATTTTATT
468145 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
468170 TTTGAAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:474237 original size:14 final size:16
Alignment explanation
Indices: 474206--474252 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
474196 AAAAAAAGTC
474206 AAAA-GCAAAAGCACAA
1 AAAATGCAAAAGCA-AA
474222 AAAATG-AAAAG-AAA
1 AAAATGCAAAAGCAAA
*
474236 AAAGTGCAAAAGCAAA
1 AAAATGCAAAAGCAAA
474252 A
1 A
474253 TAAAAAAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 7 0.26
15 6 0.22
16 13 0.48
17 1 0.04
ACGTcount: A:0.70, C:0.11, G:0.15, T:0.04
Consensus pattern (16 bp):
AAAATGCAAAAGCAAA
Found at i:474274 original size:37 final size:36
Alignment explanation
Indices: 474197--474274 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 36
474187 CAAAATGACA
* *
474197 AAAAAAGTCAAAAGCAAAAGCACAAAAAATGAAAAG
1 AAAAAAGTCAAAAGCAAAAGCACAAAAAAGGAAAAC
*
474233 AAAAAAGTGCAAAAGCAAAA-TA-AAAAAAGGGAACAAC
1 AAAAAAGT-CAAAAGCAAAAGCACAAAAAA-GGAA-AAC
474270 AAAAA
1 AAAAA
474275 TAAAAAATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
35 6 0.17
36 12 0.33
37 18 0.50
ACGTcount: A:0.71, C:0.10, G:0.14, T:0.05
Consensus pattern (36 bp):
AAAAAAGTCAAAAGCAAAAGCACAAAAAAGGAAAAC
Found at i:475666 original size:27 final size:27
Alignment explanation
Indices: 475567--476246 Score: 876
Period size: 28 Copynumber: 24.6 Consensus size: 27
475557 ACTGTGACCT
*
475567 CTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
475594 CTTTTGGAGTCCACAACTCTGTGGCATC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
**
475622 CTTTTAAAGTCCACAACTCCGTGGCATT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
475650 CTTTTAAGTCCACAACTCCGTGGCA-C
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
475676 CTTTTAAAGTCCACAACTCCATGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
475704 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
475731 CTTTTAAAGTCCACAACTCCACGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
475759 CTTTTAAAGTCCACAACTTCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* * *
475787 CTTTTTATGTCCACAACTCGGTGGAACC
1 C-TTTTAAGTCCACAACTCCGTGGCACC
*
475815 CTTTTAAAGTCCACAACTCCGTGTCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
475843 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
475871 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
475898 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
475925 CTTTTAAGTCCACAACTCCATGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
475952 CTTTTAAATCCACAACTCCATGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
** *
475980 CTTTTAAGTCCATGACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
476007 CTTTTAAAATCCACAACTTCGTGGCGCACC
1 CTTTT-AAGTCCACAACTCCGT-G-GCACC
476037 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
476065 CTTTTTAAGTCCACAACTCCGTGGTACC
1 C-TTTTAAGTCCACAACTCCGTGGCACC
* *
476093 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
476121 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* ** * *
476148 TTTTTAAAGTCCACAACTCTATGACACT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
476176 CTTTTAAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* * *
476204 CTTTTAAGTTCATAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
476231 CTTTTTAAGTCCACAA
1 C-TTTTAAGTCCACAA
476247 GGCGGTGGCA
Statistics
Matches: 581, Mismatches: 58, Indels: 27
0.87 0.09 0.04
Matches are distributed among these distances:
26 5 0.01
27 225 0.39
28 316 0.54
29 10 0.02
30 25 0.04
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:476332 original size:28 final size:28
Alignment explanation
Indices: 476266--476937 Score: 544
Period size: 32 Copynumber: 22.4 Consensus size: 28
476256 ATTCCCTTCT
* *
476266 AAAGCCCACAAGTTAGTGGCACCCTTTTC
1 AAAGCCCACAAGTCAGTGGCA-CCATTTC
* * * *
476295 AAAGCTCACAAGTTAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCATTTC
* *
476323 AAAGCCCACAAGTCAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCATTTC
**
476351 AAAGTCCACACAAGTTGGTGGCATCC-TTTC
1 AAAG-CC-CACAAGTCAGTGGCA-CCATTTC
476381 AAAGCCCACAAGTCAGTGGCATCC-TTTC
1 AAAGCCCACAAGTCAGTGGCA-CCATTTC
*
476409 AAAGCCCACAAATCAGTGGCACCATTTC
1 AAAGCCCACAAGTCAGTGGCACCATTTC
476437 AAAGCCCACAAGTCAGTGGCACCATTTC
1 AAAGCCCACAAGTCAGTGGCACCATTTC
* *
476465 AAAGCCCACACAAGTCGGTGGTAACCCATTTC
1 AAAG-CC-CACAAGTCAGTGG-CA-CCATTTC
*
476497 AAAGCCCACACAAGTCGGTGGCAACCCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-A-CCATTTC
**
476529 AAAGCCCACACAAGTTGGTGGCATCC-TTTC
1 AAAG-CC-CACAAGTCAGTGGCA-CCATTTC
476559 AAAGCCCACAAGTCAGTGGCATCC-TTTC
1 AAAGCCCACAAGTCAGTGGCA-CCATTTC
*
476587 AAAGCCCACAAGTCAATGGCACCATTTC
1 AAAGCCCACAAGTCAGTGGCACCATTTC
*
476615 AAAGCCCACAAGTCAGTGGCATCATTTC
1 AAAGCCCACAAGTCAGTGGCACCATTTC
**
476643 AAAGCCACACAAGTTGGTGGCACCATTTC
1 AAAGCC-CACAAGTCAGTGGCACCATTTC
* *
476672 GAAGCCCACACAAGTCGGTGGCAACCCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-A-CCATTTC
* *
476704 AAAGCCCACACAAGTCGGTGGCAACCCTTTTC
1 AAAG-CC-CACAAGTCAGTGGC-A-CCATTTC
*
476736 AAAGCCCACACAAGTCGGTGGCAACCCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-A-CCATTTC
* *
476768 AAAGCCCACACAAGTCGGTGGCAACCCTTTTC
1 AAAG-CC-CACAAGTCAGTGGC-A-CCATTTC
*
476800 AAAGCCCACACAAGTCGGTGGCAACCCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-A-CCATTTC
* * *
476832 AATGCCCACACAAGTCGGTGGTAACCCATTTC
1 AAAG-CC-CACAAGTCAGTGG-CA-CCATTTC
*
476864 AAAGCCCACACGAGTC-GATTGCAATCCATTTC
1 AAAGCCCACA--AGTCAG-TGGC-A-CCATTTC
* *
476896 AAAGCCCACACGAGTCGGTGGCAATCCTTTTC
1 AAAGCCCACA--AGTCAGTGGC-A-CCATTTC
476928 AAAGCCCACA
1 AAAGCCCACA
476938 CAAGTTGATG
Statistics
Matches: 584, Mismatches: 39, Indels: 37
0.88 0.06 0.06
Matches are distributed among these distances:
27 4 0.01
28 187 0.32
29 50 0.09
30 61 0.10
31 9 0.02
32 272 0.47
33 1 0.00
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.20
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCACCATTTC
Found at i:476499 original size:32 final size:31
Alignment explanation
Indices: 476347--476994 Score: 624
Period size: 32 Copynumber: 21.2 Consensus size: 31
476337 AGTGGCATCT
* * * *
476347 TTTCAAAGTCCACACAAGTTGGTGGCATCC-
1 TTTCAAAGCCCACACAAGTCGGTGGAACCCA
* * *
476377 TTTCAAAG-CC-CACAAGTCAGTGGCATCC-
1 TTTCAAAGCCCACACAAGTCGGTGGAACCCA
* *
476405 TTTCAAAGCCCACA-AA-TCAGTGGCA-CCA
1 TTTCAAAGCCCACACAAGTCGGTGGAACCCA
* *
476433 TTTCAAAG-CC-CACAAGTCAGTGGCA-CCA
1 TTTCAAAGCCCACACAAGTCGGTGGAACCCA
476461 TTTCAAAGCCCACACAAGTCGGTGGTAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGG-AACCCA
476493 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGG-AACCCA
* * *
476525 TTTCAAAGCCCACACAAGTTGGTGGCATCC-
1 TTTCAAAGCCCACACAAGTCGGTGGAACCCA
* * *
476555 TTTCAAAG-CC-CACAAGTCAGTGGCATCC-
1 TTTCAAAGCCCACACAAGTCGGTGGAACCCA
** *
476583 TTTCAAAG-CC-CACAAGTCAATGGCA-CCA
1 TTTCAAAGCCCACACAAGTCGGTGGAACCCA
* * *
476611 TTTCAAAG-CC-CACAAGTCAGTGGCA-TCA
1 TTTCAAAGCCCACACAAGTCGGTGGAACCCA
* *
476639 TTTCAAAG-CCACACAAGTTGGTGGCA-CCA
1 TTTCAAAGCCCACACAAGTCGGTGGAACCCA
*
476668 TTTCGAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGG-AACCCA
*
476700 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
1 TTTCAAAGCCCACACAAGTCGGTGG-AACCCA
476732 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGG-AACCCA
*
476764 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
1 TTTCAAAGCCCACACAAGTCGGTGG-AACCCA
476796 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGG-AACCCA
*
476828 TTTCAATGCCCACACAAGTCGGTGGTAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGG-AACCCA
* * * *
476860 TTTCAAAGCCCACACGAGTCGATTGCAATCCA
1 TTTCAAAGCCCACACAAGTCG-GTGGAACCCA
* * *
476892 TTTCAAAGCCCACACGAGTCGGTGGCAATCCT
1 TTTCAAAGCCCACACAAGTCGGTGG-AACCCA
* *
476924 TTTCAAAGCCCACACAAGTTGATGGGAACCTC-
1 TTTCAAAGCCCACACAAGTCGGT-GGAACC-CA
* ** *
476956 TTTCAAAAGTCCACAC-TTTCGGTGGCAACCCT
1 TTTC-AAAGCCCACACAAGTCGGTGG-AACCCA
476988 TTTCAAA
1 TTTCAAA
476995 TCACCATTTT
Statistics
Matches: 554, Mismatches: 43, Indels: 41
0.87 0.07 0.06
Matches are distributed among these distances:
26 2 0.00
27 8 0.01
28 137 0.25
29 32 0.06
30 45 0.08
31 13 0.02
32 302 0.55
33 15 0.03
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.20
Consensus pattern (31 bp):
TTTCAAAGCCCACACAAGTCGGTGGAACCCA
Found at i:476778 original size:96 final size:95
Alignment explanation
Indices: 476319--476994 Score: 743
Period size: 96 Copynumber: 7.4 Consensus size: 95
476309 AGTGGCATCT
* * * * *
476319 TTTCAAAG-CC-CACAAGTCAGTGGC-A-TCTTTTCAAAGTCCACACAAGTTGGTGGCATCC-TT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCATCCATT
* *
476379 TCAAAG-CC-CACAAGTCAGTGGC-ATCC-
66 TCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
476405 TTTCAAAGCCCACA-AA-TCAGTGGC-A-CCATTTCAAAG-CC-CACAAGTCAGTGGCA-CCATT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCATCCATT
*
476463 TCAAAGCCCACACAAGTCGGTGGTAACCCA
66 TCAAAGCCCACACAAGTCGGTGGCAACCCA
*
476493 TTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTTGGTGGCATCC-TT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCATCCATT
* *
476557 TCAAAG-CC-CACAAGTCAGTGGC-ATCC-
66 TCAAAGCCCACACAAGTCGGTGGCAACCCA
** *
476583 TTTCAAAG-CC-CACAAGTCAATGGC-A-CCATTTCAAAG-CC-CACAAGTCAGTGGCAT-CATT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCATCCATT
*
476641 TCAAAG-CCACACAAGTTGGTGGC-A-CCA
66 TCAAAGCCCACACAAGTCGGTGGCAACCCA
* * *
476668 TTTCGAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCTT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGC-ATCCAT
476733 TTCAAAGCCCACACAAGTCGGTGGCAACCCA
65 TTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
476764 TTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTTCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGC-ATCCAT
* *
476829 TTCAATGCCCACACAAGTCGGTGGTAACCCA
65 TTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * * * * *
476860 TTTCAAAGCCCACACGAGTCGATTGCAATCCATTTCAAAGCCCACACGAGTCGGTGGCAATCCTT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGC-ATCCAT
* * *
476925 TTCAAAGCCCACACAAGTTGATGGGAACCTC-
65 TTCAAAGCCCACACAAGTCGGTGGCAACC-CA
* ** *
476956 TTTCAAAAGTCCACAC-TTTCGGTGGCAACCCTTTTCAAA
1 TTTC-AAAGCCCACACAAGTCGGTGGCAACCCATTTCAAA
476995 TCACCATTTT
Statistics
Matches: 510, Mismatches: 50, Indels: 50
0.84 0.08 0.08
Matches are distributed among these distances:
83 3 0.01
84 47 0.09
85 26 0.05
86 51 0.10
87 20 0.04
88 29 0.06
89 15 0.03
90 17 0.03
91 17 0.03
92 24 0.05
93 13 0.03
94 37 0.07
95 3 0.01
96 197 0.39
97 11 0.02
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (95 bp):
TTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCATCCATT
TCAAAGCCCACACAAGTCGGTGGCAACCCA
Found at i:477541 original size:11 final size:10
Alignment explanation
Indices: 477526--477573 Score: 69
Period size: 10 Copynumber: 4.6 Consensus size: 10
477516 ACAACAAATC
477526 AAAAAGAAAA
1 AAAAAGAAAA
477536 CAAAAAGCAAAA
1 -AAAAAG-AAAA
*
477548 AAAAAAAAAA
1 AAAAAGAAAA
477558 AAAAAGAAAA
1 AAAAAGAAAA
477568 AAAAAG
1 AAAAAG
477574 GGAGGAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
10 19 0.56
11 11 0.32
12 4 0.12
ACGTcount: A:0.88, C:0.04, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:478260 original size:24 final size:23
Alignment explanation
Indices: 478233--478282 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
478223 AAAAAAAGTT
*
478233 AGAT-AAGAAAGAAAGAAAGAAAGA
1 AGATGAAG-AAGAAAAAAAGAAA-A
478257 AGATGAAGAAGAAAAAAAGAAAA
1 AGATGAAGAAGAAAAAAAGAAAA
478280 AGA
1 AGA
478283 AAAAAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 17 0.71
25 3 0.12
ACGTcount: A:0.72, C:0.00, G:0.24, T:0.04
Consensus pattern (23 bp):
AGATGAAGAAGAAAAAAAGAAAA
Found at i:478276 original size:17 final size:16
Alignment explanation
Indices: 478245--478296 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
478235 ATAAGAAAGA
*
478245 AAGAAAGAAAGAAGATG
1 AAGAAA-AAAAAAGATG
**
478262 AAGAAGAAAAAAAGAAA
1 AAGAA-AAAAAAAGATG
*
478279 AAGAAAAAAAAATATG
1 AAGAAAAAAAAAGATG
478295 AA
1 AA
478297 ATGGAATGGC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 10 0.36
17 17 0.61
18 1 0.04
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (16 bp):
AAGAAAAAAAAAGATG
Found at i:484040 original size:50 final size:50
Alignment explanation
Indices: 483950--484205 Score: 350
Period size: 50 Copynumber: 5.1 Consensus size: 50
483940 ACAAAGTGAT
* * *
483950 TTGAATATTCTTCACAAACCTTTGACAATCGAGAGCGGTGGTCGTAATTG
1 TTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGTCGTAATTG
* * * * * *
484000 TTAACTATTCTTCATCAACCTTTTACAATCAAGAGAGGTGGCCATAATTG
1 TTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGTCGTAATTG
* **
484050 TTGACTATTCTTCACCAATCTTTGACAATCGAGAGAGGTGACCGTAATTG
1 TTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGTCGTAATTG
**
484100 TTGGTTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGTCGTAATTG
1 TTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGTCGTAATTG
* ** *
484150 TTGACTATTCTTCACCAACTTTTGACAATAAAGAGAGGTGGTTGTAATTG
1 TTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGTCGTAATTG
484200 TTGACT
1 TTGACT
484206 CTAAGTAATT
Statistics
Matches: 179, Mismatches: 27, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 179 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (50 bp):
TTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGTCGTAATTG
Found at i:486344 original size:18 final size:18
Alignment explanation
Indices: 486321--486358 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
486311 ATCGGATAAC
486321 ATAAATTGAATAATAAAA
1 ATAAATTGAATAATAAAA
486339 ATAAATTGAATAATAAAA
1 ATAAATTGAATAATAAAA
486357 AT
1 AT
486359 GAAAACGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (18 bp):
ATAAATTGAATAATAAAA
Found at i:486374 original size:20 final size:18
Alignment explanation
Indices: 486328--486374 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
486318 AACATAAATT
**
486328 GAATAATAAAAATAAATT
1 GAATAATAAAAATAAAAC
486346 GAATAATAAAAATGAAAAC
1 GAATAATAAAAAT-AAAAC
486365 GAAGTAATAA
1 GAA-TAATAA
486375 CTGAGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 13 0.52
19 6 0.24
20 6 0.24
ACGTcount: A:0.66, C:0.02, G:0.11, T:0.21
Consensus pattern (18 bp):
GAATAATAAAAATAAAAC
Found at i:493390 original size:27 final size:27
Alignment explanation
Indices: 493335--493400 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
493325 TACAATAAAA
*
493335 AATTATAATAAATATTCTTTGTATCTAT
1 AATTATAAT-AATATTCTTTATATCTAT
* *
493363 AATTATAATAATATTTTTTATATTTAT
1 AATTATAATAATATTCTTTATATCTAT
493390 AATTATAATAA
1 AATTATAATAA
493401 ATATGACGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
27 26 0.74
28 9 0.26
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (27 bp):
AATTATAATAATATTCTTTATATCTAT
Found at i:494304 original size:22 final size:21
Alignment explanation
Indices: 494282--494322 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
494272 TAATGTTTCT
* *
494282 TTTGGTTGCTTATAAATTGTC
1 TTTGCTTGCTTAGAAATTGTC
*
494303 TTTGCTTTCTTAGAAATTGT
1 TTTGCTTGCTTAGAAATTGT
494323 TCACTTTAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.10, G:0.17, T:0.54
Consensus pattern (21 bp):
TTTGCTTGCTTAGAAATTGTC
Found at i:496014 original size:22 final size:22
Alignment explanation
Indices: 495944--496015 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
495934 TTTAATATAT
*
495944 ATTTATTATATTATTAAAATATTAA
1 ATTTA-TATATT-TTTAAA-ATTAA
* *
495969 A-ATAT-TATTTTT-ATATTAA
1 ATTTATATATTTTTAAAATTAA
495988 TATTTATATATTTTTAAAATTAA
1 -ATTTATATATTTTTAAAATTAA
496011 ATTTA
1 ATTTA
496016 AAATAAAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
19 5 0.13
20 2 0.05
21 5 0.13
22 16 0.42
23 7 0.18
24 2 0.05
25 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTTATATATTTTTAAAATTAA
Found at i:496472 original size:6 final size:6
Alignment explanation
Indices: 496461--496490 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
496451 TTTTAAAGTA
496461 AAATAT AAATAT AAATAT -AATAT AAATAT A
1 AAATAT AAATAT AAATAT AAATAT AAATAT A
496491 TTAATTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAATAT
Found at i:496484 original size:11 final size:11
Alignment explanation
Indices: 496461--496490 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
496451 TTTTAAAGTA
496461 AAATATAAATAT
1 AAATAT-AATAT
496473 AAATATAATAT
1 AAATATAATAT
496484 AAATATA
1 AAATATA
496491 TTAATTTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATATAATAT
Found at i:496626 original size:12 final size:12
Alignment explanation
Indices: 496609--496634 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
496599 TAAAATATAA
496609 ATGTAATAACTC
1 ATGTAATAACTC
496621 ATGTAATAACTC
1 ATGTAATAACTC
496633 AT
1 AT
496635 AATTTGAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (12 bp):
ATGTAATAACTC
Found at i:501109 original size:13 final size:13
Alignment explanation
Indices: 501091--501115 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
501081 CATAAAGTGT
501091 TGTATCGATACAA
1 TGTATCGATACAA
501104 TGTATCGATACA
1 TGTATCGATACA
501116 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:501127 original size:33 final size:33
Alignment explanation
Indices: 501071--501137 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
501061 TTCAACGATT
*
501071 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCAATACAA
*** *
501104 TGTATCGATACATATTTTTTTGTATCAATACAA
1 TGTATCGATACATAAAGTGTTGTATCAATACAA
501137 T
1 T
501138 TCAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCAATACAA
Found at i:501196 original size:13 final size:13
Alignment explanation
Indices: 501178--501202 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
501168 ATCACTTAAA
501178 TGTATCGATACAT
1 TGTATCGATACAT
501191 TGTATCGATACA
1 TGTATCGATACA
501203 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:501267 original size:52 final size:52
Alignment explanation
Indices: 501211--501339 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
501201 CACTGATCTT
*
501211 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
501263 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
501315 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
501340 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:516117 original size:17 final size:17
Alignment explanation
Indices: 516103--516138 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
516093 AAGGAAGATG
*
516103 AAGAAGAAAAAAAGAAA
1 AAGAAAAAAAAAAGAAA
516120 AAGAAAAAAAAAAGAAA
1 AAGAAAAAAAAAAGAAA
516137 AA
1 AA
516139 ATATGAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAAAAGAAA
Done.