Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 29 of 325
Found at i:8790066 original size:25 final size:27
Alignment explanation
Indices: 8790038--8790108 Score: 85
Period size: 25 Copynumber: 2.7 Consensus size: 27
8790028 TAATAAAAAC
*
8790038 AATAATAATAAATATAA-TAA-TAGAA
1 AATAATAATAAAAATAATTAATTAGAA
*
8790063 AATAATAATAAAAATAATTAATTTGAA
1 AATAATAATAAAAATAATTAATTAGAA
8790090 AATAA-AATAGTAAAATAAT
1 AATAATAATA--AAAATAAT
8790109 GAAAAAAAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
25 16 0.40
26 7 0.17
27 9 0.22
28 8 0.20
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (27 bp):
AATAATAATAAAAATAATTAATTAGAA
Found at i:8790069 original size:13 final size:13
Alignment explanation
Indices: 8790038--8790108 Score: 76
Period size: 13 Copynumber: 5.5 Consensus size: 13
8790028 TAATAAAAAC
8790038 AATAATAATA-AA
1 AATAATAATAGAA
*
8790050 TATAATAATAGAA
1 AATAATAATAGAA
8790063 AATAATAATA-AA
1 AATAATAATAGAA
*
8790075 AATAATTAATTTGAA
1 AATAA-TAA-TAGAA
8790090 AATAA-AATAGTAA
1 AATAATAATAG-AA
8790103 AATAAT
1 AATAAT
8790109 GAAAAAAAGA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
12 18 0.37
13 23 0.47
14 1 0.02
15 7 0.14
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (13 bp):
AATAATAATAGAA
Found at i:8791551 original size:44 final size:45
Alignment explanation
Indices: 8791502--8791612 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 45
8791492 TTTGACCTAT
* * *
8791502 TGCAACTTCAAAGG-TATAGGACTT-GTCGCTTTAATCCGCTCCAC
1 TGCAACTTCAAAGGAGATAGGA-TTAGTAGCTCTAATCCGCTCCAC
* * *
8791546 TGCAACTTC-ACGGAGATAGGATTAGTAGCTCTAATCTGCTCCGC
1 TGCAACTTCAAAGGAGATAGGATTAGTAGCTCTAATCCGCTCCAC
* *
8791590 TGCAACTTC-AGGGAGATAAGATT
1 TGCAACTTCAAAGGAGATAGGATT
8791613 GGTGTCTTTA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
43 5 0.09
44 52 0.91
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (45 bp):
TGCAACTTCAAAGGAGATAGGATTAGTAGCTCTAATCCGCTCCAC
Found at i:8791628 original size:44 final size:44
Alignment explanation
Indices: 8791530--8792018 Score: 239
Period size: 44 Copynumber: 10.9 Consensus size: 44
8791520 GGACTTGTCG
* * *
8791530 CTTTAATCCGCTCCACTGCAACTTCACGGAGATAGGATTAGTAG-
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTAGT
* *
8791574 CTCTAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGT-GT
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTAGT
* * * * *
8791618 CTTTAGTCTGCTCCTCTGCAATTTTAGGGAGATAAGACTTGTAAT
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTAGT
* * * * * * * *
8791663 -TTCAACCTACTCTATTGCAACTTCAGAGAGATAAGGTTAGT-GA
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTAGT
* * * *
8791706 CTATATTCTGTTCCACTGCAACTTCAAGGAGATAAGATTCGTCA-T
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GT-AGT
* * * * * *
8791751 CTTTAGTTTGCTCCACTACAATTTCAGGGAGATAAGGCTTGT-GG
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA-GATTGTAGT
* * ** *
8791795 CTTCAATCTGCTCCACTGTAACTTCTTGGAGATAAGATTTGCAATGGT
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTG---TAGT
* * * * * *
8791843 AGATTTGATCCGAC-CTACTGCAACTTCA--GAGGTATAGAATCCGTCA-T
1 --CTTTAATCTG-CTCCACTGCAACTTCAGGGAGATA-AG-AT-TGT-AGT
** * *
8791890 -TTTAATCCACTCTACTGCAACTTCAGGGAGATAGGATTAGCT-GT
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-G-TAGT
* * * * * * *
8791934 CTTTAGTTTACTCCGCTGCAACTTTAGGGAGATAAGATTTTA-A
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAGT
*
8791977 CTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGT
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGT
8792019 GAATTCACTG
Statistics
Matches: 327, Mismatches: 88, Indels: 60
0.69 0.19 0.13
Matches are distributed among these distances:
43 37 0.11
44 184 0.56
45 66 0.20
46 8 0.02
47 3 0.01
48 6 0.02
49 3 0.01
50 19 0.06
51 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (44 bp):
CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAGT
Found at i:8791685 original size:132 final size:133
Alignment explanation
Indices: 8791546--8791792 Score: 331
Period size: 132 Copynumber: 1.9 Consensus size: 133
8791536 TCCGCTCCAC
* * *
8791546 TGCAACTTCACG-GAGAT-AGGATTAGT-AGCTCTAATCTGCTCCGCTGCAACTTCAGGGAGATA
1 TGCAACTTCA-GAGAGATAAGG-TTAGTGA-CTATAATCTGCTCCACTGCAACTTCAAGGAGATA
* * * * *
8791608 AGATTGGT-GTCTTTAGTCTGCTCCTCTGCAATTTTAGGGAGATAAGACTTGTAATTTCAACCTA
63 AGATTCGTCATCTTTAGTCTGCTCCACTACAATTTCAGGGAGATAAGACTTGTAATTTCAACCTA
8791672 CTCTAT
128 CTCTAT
* *
8791678 TGCAACTTCAGAGAGATAAGGTTAGTGACTATATTCTGTTCCACTGCAACTTCAAGGAGATAAGA
1 TGCAACTTCAGAGAGATAAGGTTAGTGACTATAATCTGCTCCACTGCAACTTCAAGGAGATAAGA
* *
8791743 TTCGTCATCTTTAGTTTGCTCCACTACAATTTCAGGGAGATAAGGCTTGT
66 TTCGTCATCTTTAGTCTGCTCCACTACAATTTCAGGGAGATAAGACTTGT
8791793 GGCTTCAATC
Statistics
Matches: 99, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
131 1 0.01
132 56 0.57
133 42 0.42
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.32
Consensus pattern (133 bp):
TGCAACTTCAGAGAGATAAGGTTAGTGACTATAATCTGCTCCACTGCAACTTCAAGGAGATAAGA
TTCGTCATCTTTAGTCTGCTCCACTACAATTTCAGGGAGATAAGACTTGTAATTTCAACCTACTC
TAT
Found at i:8813360 original size:14 final size:16
Alignment explanation
Indices: 8813334--8813372 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
8813324 AAATAAAAAT
8813334 ATAAAATATGACAA-A
1 ATAAAATATGACAATA
8813349 ATAAAA-ATGACAATA
1 ATAAAATATGACAATA
8813364 ATAATAATA
1 ATAA-AATA
8813373 ATAATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.33
15 11 0.52
16 2 0.10
17 1 0.05
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (16 bp):
ATAAAATATGACAATA
Found at i:8813368 original size:3 final size:3
Alignment explanation
Indices: 8813360--8813648 Score: 125
Period size: 3 Copynumber: 96.0 Consensus size: 3
8813350 TAAAAATGAC
* **
8813360 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT CGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * ** *
8813408 AGT AGT AA- AA- AAT ATT AAT GAT GGT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
8813454 AAG ACCAT AAT CAA- AAA AAT GA- AAT AAT AGCAT -GT AAAT AAT AAT
1 AAT A--AT AAT -AAT AAT AAT AAT AAT AAT A--AT AAT -AAT AAT AAT
* * *
8813499 AAT AAC AAT AAT AAT -AT ATT AAT AAT AAT AGT -AT ATAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT -AAT AAT
* * * * * ** *
8813544 GAC AAT AAT AGAA AAT AAT AAA AAT AA- ATAT ACT -AT GTTT AAT AGT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT A-AT AAT AAT -AAT AAT AAT
* *
8813590 AGT AAT AGT AAT AA- AAT AAT AAT AAT GAAT -AT AAT AAT GAA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT -AAT AAT
*
8813634 AAT AAT AAA AAT AAT
1 AAT AAT AAT AAT AAT
8813649 TAATTTGAAA
Statistics
Matches: 218, Mismatches: 44, Indels: 48
0.70 0.14 0.15
Matches are distributed among these distances:
2 19 0.09
3 178 0.82
4 16 0.07
5 5 0.02
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:8813527 original size:17 final size:17
Alignment explanation
Indices: 8813490--8813534 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
8813480 ATAGCATGTA
8813490 AATAATAATA-A-TAAC
1 AATAATAATATATTAAC
*
8813505 AATAATAATATATTAAT
1 AATAATAATATATTAAC
*
8813522 AATAATAGTATAT
1 AATAATAATATAT
8813535 ATAAATAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 10 0.38
16 1 0.04
17 15 0.58
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (17 bp):
AATAATAATATATTAAC
Found at i:8813657 original size:27 final size:25
Alignment explanation
Indices: 8813598--8813676 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 25
8813588 GTAGTAATAG
8813598 TAAT-AAAATAATAATAATGAATATAA-
1 TAATGAAAATAATAATAA--AA-ATAAT
8813624 TAATGAAAATAATAATAAAAATAAT
1 TAATGAAAATAATAATAAAAATAAT
8813649 TAATTTGAAAATAA-AATAGCAAAATAAT
1 TAA--TGAAAATAATAATA--AAAATAAT
8813677 GAAAAATGAC
Statistics
Matches: 47, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
24 4 0.09
25 5 0.11
26 8 0.17
27 22 0.47
28 8 0.17
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.29
Consensus pattern (25 bp):
TAATGAAAATAATAATAAAAATAAT
Found at i:8813948 original size:14 final size:14
Alignment explanation
Indices: 8813929--8813957 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
8813919 TAAATAGCCC
8813929 CTTTATCGAAAACA
1 CTTTATCGAAAACA
8813943 CTTTATCGAAAACA
1 CTTTATCGAAAACA
8813957 C
1 C
8813958 GCGAATCCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (14 bp):
CTTTATCGAAAACA
Found at i:8815001 original size:20 final size:20
Alignment explanation
Indices: 8814954--8815018 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 20
8814944 TTTTATATTT
8814954 TTTTTAAAAATATAAGTTTTAGAA
1 TTTTTAAAAAT-T-A-TTTTA-AA
*
8814978 TTTTTATAAA-TATTTTAAA
1 TTTTTAAAAATTATTTTAAA
*
8814997 TTTTTAAAAATTATTTTGAA
1 TTTTTAAAAATTATTTTAAA
8815017 TT
1 TT
8815019 ATTTTGTCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 11 0.30
20 15 0.41
21 1 0.03
22 1 0.03
24 9 0.24
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTAAA
Found at i:8824626 original size:3 final size:3
Alignment explanation
Indices: 8824618--8824791 Score: 95
Period size: 3 Copynumber: 57.7 Consensus size: 3
8824608 AATGAAAATG
* * * * * *
8824618 ATA ATA ATA ATA ATA GTA ATA ATA AGA ATA TTA ATA TTA GTA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
8824666 ATA ATG ATA ATA GTA ATA GAAA ATA ACA ATA A-A ATA GT- ATA GTA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
8824710 ATA GTA ATA A-A AGTA AAA ATA ATA GTA CTA ATA ATG GTA ATA ATAA
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* *
8824756 ATA GTA ATA ATA ACA ATA ATA CA-A ATA ATAA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA AT-A ATA AT
8824792 CTAAAGTTTG
Statistics
Matches: 125, Mismatches: 37, Indels: 18
0.69 0.21 0.10
Matches are distributed among these distances:
2 6 0.05
3 108 0.86
4 11 0.09
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:8824979 original size:20 final size:20
Alignment explanation
Indices: 8824951--8824992 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
8824941 AAAAGAAAAA
* *
8824951 AATATAATAATAATAGTAAT
1 AATACAATAATAATAATAAT
*
8824971 AATACAATAGTAATAATAAT
1 AATACAATAATAATAATAAT
8824991 AA
1 AA
8824993 AAAGGGAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (20 bp):
AATACAATAATAATAATAAT
Found at i:8824981 original size:14 final size:13
Alignment explanation
Indices: 8824950--8824989 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 13
8824940 AAAAAGAAAA
8824950 AAATA-TAATAAT
1 AAATAGTAATAAT
8824962 -AATAGTAATAAT
1 AAATAGTAATAAT
8824974 ACAATAGTAATAAT
1 A-AATAGTAATAAT
8824988 AA
1 AA
8824990 TAAAAAGGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 4 0.16
12 7 0.28
13 1 0.04
14 13 0.52
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (13 bp):
AAATAGTAATAAT
Found at i:8825032 original size:28 final size:27
Alignment explanation
Indices: 8824999--8825093 Score: 88
Period size: 25 Copynumber: 3.6 Consensus size: 27
8824989 ATAAAAAGGG
8824999 AATAATAATATATTAGATAGTAAAAAAT
1 AATAATAATATATTAG-TAGTAAAAAAT
* *
8825027 AATAATAATA-A-CAGTAATAAAAAAT
1 AATAATAATATATTAGTAGTAAAAAAT
* * *
8825052 GATAATAGTGATATTAGTAGT-AATAAT
1 AATAATAAT-ATATTAGTAGTAAAAAAT
* *
8825079 AATAACAATGTATTA
1 AATAATAATATATTA
8825094 ATAATAGTAT
Statistics
Matches: 53, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
25 17 0.32
26 8 0.15
27 13 0.25
28 15 0.28
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (27 bp):
AATAATAATATATTAGTAGTAAAAAAT
Found at i:8825042 original size:22 final size:24
Alignment explanation
Indices: 8824999--8825059 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 24
8824989 ATAAAAAGGG
*
8824999 AATAATAATATATTAGATAGTAA-AA
1 AATAATAATA-A-TAGACAGTAATAA
8825024 AATAATAATAATA-ACAGTAATAA
1 AATAATAATAATAGACAGTAATAA
*
8825047 AA-AATGATAATAG
1 AATAATAATAATAG
8825060 TGATATTAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 15 0.47
23 6 0.19
24 1 0.03
25 10 0.31
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (24 bp):
AATAATAATAATAGACAGTAATAA
Found at i:8825099 original size:3 final size:3
Alignment explanation
Indices: 8824954--8825083 Score: 56
Period size: 3 Copynumber: 44.3 Consensus size: 3
8824944 AGAAAAAAAT
* * * * *
8824954 ATA ATA ATA ATA GTA ATA AT- ACA ATA GTA ATA ATA ATA AAA AGGGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA
* * * *
8825000 ATA ATA AT- ATA TTA GATA GTA A-A A-A ATA ATA ATA ATA ACA GTA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
8825043 ATA A-A A-A ATG ATA ATA GTG ATA TTA GTA GTA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8825084 CAATGTATTA
Statistics
Matches: 94, Mismatches: 26, Indels: 14
0.70 0.19 0.10
Matches are distributed among these distances:
2 11 0.12
3 79 0.84
4 2 0.02
5 2 0.02
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:8830076 original size:49 final size:47
Alignment explanation
Indices: 8829916--8830135 Score: 220
Period size: 50 Copynumber: 4.6 Consensus size: 47
8829906 TGTGTGTGCT
*
8829916 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATG-T-GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCT-CGATATGATAGTC
* * * *
8829960 AGTATAAGACCATGTCTAGGACATGGCATCGGCACGAATAT-ATGAGAGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTCG-ATATGAT-AG-TC
*
8830009 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTTGATAGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGG-CTCGA-TATGATAGTC
* * * *
8830059 AGTGTAAGACCATGTCTGAGG-CATGGCATCGACTTGAT-GGATGAGCC
1 AGTGTAAGACCATGTCTG-GGACATGGCATCGGCTCGATATGAT-AGTC
8830106 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
8830136 AGTATTATAC
Statistics
Matches: 148, Mismatches: 14, Indels: 25
0.79 0.07 0.13
Matches are distributed among these distances:
44 8 0.05
45 15 0.10
46 17 0.11
47 31 0.21
48 5 0.03
49 29 0.20
50 34 0.23
51 7 0.05
52 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGATATGATAGTC
Found at i:8830126 original size:96 final size:95
Alignment explanation
Indices: 8829916--8830135 Score: 263
Period size: 96 Copynumber: 2.3 Consensus size: 95
8829906 TGTGTGTGCT
8829916 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGTGTCAGTATAAGACCATGTCTAG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGTGTCAGTATAAGACCATGTCTAG
* * *
8829979 GACATGGCATCGGCACGAATATATGAGAGCT
66 GACATGGCATCGACACGAATAGAT-AGAGCC
** *
8830010 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGATTTTGATAGTCAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CTACGA-GATG-T-GTCAGTATAAGACCATGT
** *
8830074 CTGAGG-CATGGCATCGACTTG-ATGGAT-GAGCC
62 CT-AGGACATGGCATCGACACGAATAGATAGAGCC
8830106 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
8830136 AGTATTATAC
Statistics
Matches: 110, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
94 9 0.08
95 14 0.13
96 44 0.40
97 4 0.04
98 5 0.05
99 31 0.28
100 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (95 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGTGTCAGTATAAGACCATGTCTAG
GACATGGCATCGACACGAATAGATAGAGCC
Found at i:8833432 original size:10 final size:10
Alignment explanation
Indices: 8833400--8833458 Score: 75
Period size: 10 Copynumber: 5.9 Consensus size: 10
8833390 TTAAATTCTA
8833400 AAAGATAAAT
1 AAAGATAAAT
*
8833410 ACAA-ATTAAT
1 A-AAGATAAAT
*
8833420 AAAGATAATT
1 AAAGATAAAT
8833430 AAAGATAAAT
1 AAAGATAAAT
*
8833440 AAGGATAAAT
1 AAAGATAAAT
8833450 AAAGATAAA
1 AAAGATAAA
8833459 AGCTAAAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
9 2 0.05
10 37 0.90
11 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:8834735 original size:25 final size:24
Alignment explanation
Indices: 8834707--8834765 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
8834697 AATAGATATA
*
8834707 AAAAAATATGTACATAATATAGTG
1 AAAAAATATGTACATAATATAATG
**
8834731 TAAAAAATACATACATAATATAATG
1 -AAAAAATATGTACATAATATAATG
*
8834756 AAAATATATG
1 AAAAAATATG
8834766 CATAAGATAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 7 0.25
25 21 0.75
ACGTcount: A:0.58, C:0.05, G:0.08, T:0.29
Consensus pattern (24 bp):
AAAAAATATGTACATAATATAATG
Found at i:8834769 original size:22 final size:22
Alignment explanation
Indices: 8834734--8834775 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
8834724 TATAGTGTAA
*
8834734 AAAATACATACATAATATAATG
1 AAAATACATACATAAGATAATG
* *
8834756 AAAATATATGCATAAGATAA
1 AAAATACATACATAAGATAA
8834776 CATGTAGAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.26
Consensus pattern (22 bp):
AAAATACATACATAAGATAATG
Found at i:8834858 original size:25 final size:25
Alignment explanation
Indices: 8834788--8834858 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
8834778 TGTAGAAAAA
*
8834788 AAATATATATAAATAATATAGTATT
1 AAATATATATACATAATATAGTATT
* *
8834813 AAAGATATATACATAAAATAGTA-T
1 AAATATATATACATAATATAGTATT
8834837 -AATATATATACACGTAATATAG
1 AAATATATATACA--TAATATAG
8834859 AATTTAGAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
23 11 0.28
24 1 0.03
25 27 0.69
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (25 bp):
AAATATATATACATAATATAGTATT
Found at i:8834889 original size:20 final size:20
Alignment explanation
Indices: 8834864--8834901 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8834854 TATAGAATTT
*
8834864 AGAATATACCTAATATAAAA
1 AGAATATACATAATATAAAA
*
8834884 AGAATATATATAATATAA
1 AGAATATACATAATATAA
8834902 TATTAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (20 bp):
AGAATATACATAATATAAAA
Found at i:8835227 original size:16 final size:16
Alignment explanation
Indices: 8835189--8835227 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
8835179 AATCTCCAAA
*
8835189 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
8835205 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
8835221 AATAACT
1 AAAAACT
8835228 CTTCTCTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:8835422 original size:30 final size:30
Alignment explanation
Indices: 8835386--8835474 Score: 160
Period size: 30 Copynumber: 3.0 Consensus size: 30
8835376 AGGTACAAGT
*
8835386 GGTGGTGGAGCAAGTGTGGCTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
8835416 GGTGGTGGAGCAACTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
8835446 GGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGT
8835475 TGGCAGTGGC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.20, C:0.08, G:0.48, T:0.24
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:8836257 original size:86 final size:87
Alignment explanation
Indices: 8836131--8836597 Score: 371
Period size: 86 Copynumber: 5.2 Consensus size: 87
8836121 CTCATTTCTT
* * * * *
8836131 GCAATATGAATTGACTCTTT-AAAACTAAACATT-AAAAACAGAAATTGAAAATAGCTCAGCACG
1 GCAATATGAGTTGA-TTTTTGAAAAC-AAA-ATTGAAAAAAAGAAATTGAAAATACCTCAGCATG
*
8836194 TGAGCCAAGGCTCAACTCACTTCTC
63 TGAGCCAAGGCTCAACTCACCTCTC
* * ** * *
8836219 GCAATATGAGTTGA-TTTT-AAAACAAAATTTGTAAAACAGATTTTGAAAATACCTCGGTATGTG
1 GCAATATGAGTTGATTTTTGAAAACAAAA-TTGAAAAAAAGAAATTGAAAATACCTCAGCATGTG
* *
8836282 ACCCGAGGCTCAACTCACCTCTC
65 AGCCAAGGCTCAACTCACCTCTC
* * *
8836305 GTAATATGAGTTGATTTTTGCAAAGCATAAATTGAAAAAAAAAAAAAAAATCAATTGAAAATA-C
1 GCAATATGAGTTGATTTTTG-AAAACA-AAATTG-------AAAAAAAGA--AATTGAAAATACC
* * * **
8836369 TCGGCGTGTGATCTGAGGCTCAACTCACCTCTC
55 TCAGCATGTGAGCCAAGGCTCAACTCACCTCTC
*
8836402 GCAATATGAGTTGATTTTTTGACAAACATAAATTGAAAAAAAAGAAATTGAAAATATCTCAGC--
1 GCAATATGAGTTGA-TTTTTGA-AAACA-AAATTG-AAAAAAAGAAATTGAAAATACCTCAGCAT
* *
8836465 GTG-TCCTGAA-GCTGAACTCACCTCTC
62 GTGAGCC--AAGGCTCAACTCACCTCTC
* *
8836491 GCAATATGAGTTGATTTTTTGGAAAACAAAATTTG--AAAAAGAATTTGAAAATACCTCAGCGTG
1 GCAATATGAGTTGA-TTTTT-GAAAACAAAA-TTGAAAAAAAGAAATTGAAAATACCTCAGCATG
* *
8836554 TGAGTCAAGGCTCAACTCACCACTC
63 TGAGCCAAGGCTCAACTCACCTCTC
*
8836579 GCAATATGAGCTGATTTTT
1 GCAATATGAGTTGATTTTT
8836598 TTTGAAAGAC
Statistics
Matches: 316, Mismatches: 37, Indels: 53
0.78 0.09 0.13
Matches are distributed among these distances:
84 1 0.00
85 5 0.02
86 89 0.28
87 11 0.03
88 48 0.15
89 55 0.17
90 17 0.05
91 5 0.02
92 9 0.03
96 6 0.02
97 44 0.14
98 26 0.08
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (87 bp):
GCAATATGAGTTGATTTTTGAAAACAAAATTGAAAAAAAGAAATTGAAAATACCTCAGCATGTGA
GCCAAGGCTCAACTCACCTCTC
Found at i:8836441 original size:97 final size:96
Alignment explanation
Indices: 8836261--8836598 Score: 313
Period size: 89 Copynumber: 3.7 Consensus size: 96
8836251 AAAACAGATT
** * *
8836261 TTGAAAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTG
1 TTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
8836325 -CAAAGCATAAATTGAAAAAAAAAAAAAAAATCAA
66 ACAAA-CATAAATTG-AAAAAAAAAAAAAAA--AA
*
8836359 TTGAAAATA-CTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
1 TTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
*
8836423 ACAAACATAAATTG-----AAAAAAAAGAAA
66 ACAAACATAAATTGAAAAAAAAAAAAAAAAA
* * * *
8836449 TTGAAAATATCTCAGCGTGT--CCTGAAGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTG
1 TTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-
* *
8836512 GA-AAACA-AAATTTG--------AAAAAGAAT
65 GACAAACATAAA-TTGAAAAAAAAAAAAAAAAA
* * * * *
8836535 TTGAAAATACCTCAGCGTGTGA-GTCAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTT
1 TTGAAAATACCTCGGCGTGTGACCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
8836599 TTGAAAGACA
Statistics
Matches: 214, Mismatches: 18, Indels: 26
0.83 0.07 0.10
Matches are distributed among these distances:
86 27 0.13
87 1 0.00
88 37 0.17
89 47 0.22
90 13 0.06
91 9 0.04
92 9 0.04
97 43 0.20
98 24 0.11
99 4 0.02
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (96 bp):
TTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
ACAAACATAAATTGAAAAAAAAAAAAAAAAA
Found at i:8836599 original size:89 final size:85
Alignment explanation
Indices: 8836357--8836691 Score: 309
Period size: 89 Copynumber: 4.0 Consensus size: 85
8836347 AAAAAAAATC
* *
8836357 AATTGAAAATACTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AATTGAAAATACTCAGCGTGTGATC-AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
8836422 GACAAACATAAATTGAAAAAAAAGA
65 GA-AAACAGAAATTG---AAAAAGA
** * *
8836447 AATTGAAAATATCTCAGCGTGTCCTGAA-GCTGAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AATTGAAAATA-CTCAGCGTGTGATCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
8836511 GGAAAACA-AAATTTGAAAAAGA
65 -GAAAACAGAAA-TTGAAAAAGA
* * *
8836533 ATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTT
1 AATTGAAAATA-CTCAGCGTGTGA-TCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
** *
8836598 T-----TTGAAA--G--ACAGA
64 TGAAAACAGAAATTGAAAAAGA
* * **
8836611 AATTGAAAATACCTCAACGTGT-CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
1 AATTGAAAATA-CTCAGCGTGTGATCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
8836674 GACAAACAAAAATTGAAA
65 GA-AAACAGAAATTGAAA
8836692 TTACCTCAGC
Statistics
Matches: 202, Mismatches: 27, Indels: 37
0.76 0.10 0.14
Matches are distributed among these distances:
75 5 0.02
76 31 0.15
78 24 0.12
80 1 0.00
81 3 0.01
83 4 0.02
85 1 0.00
86 27 0.13
87 3 0.01
88 36 0.18
89 43 0.21
90 14 0.07
91 10 0.05
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.28
Consensus pattern (85 bp):
AATTGAAAATACTCAGCGTGTGATCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
AAAACAGAAATTGAAAAAGA
Found at i:8836746 original size:73 final size:75
Alignment explanation
Indices: 8836522--8837138 Score: 740
Period size: 73 Copynumber: 8.3 Consensus size: 75
8836512 GAAAACAAAA
* * * ** *
8836522 TTTGA-AAA-AGAATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGCAATA
1 TTTGACAAACAGAAATTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCACCTCTCGCAATA
*
8836585 TGAGCTGATTTTT
64 TGAGTTGA-TTTT
8836598 TTTGA-AAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
1 TTTGACAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
8836662 GAGTTGA--TT
65 GAGTTGATTTT
* * * * *
8836671 TTTGACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATG
1 TTTGACAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
8836734 AGTTGATTTT
66 AGTTGATTTT
* *
8836744 TTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATG
1 TTTGACAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
**
8836809 AGCTGCTTTTTTT
66 AG-T--TGATTTT
*
8836822 TTTTA-AAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
1 TTTGACAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
8836886 GAGTTGA--TT
65 GAGTTGATTTT
* * * * *
8836895 TTTGACAAACA-AAATTTGAAATTACCTCAGCGTGTCCTGAGGCTCAATTCACCTATCGCAATAT
1 TTTGACAAACAGAAA-TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
8836959 GAGTTGATTTT
65 GAGTTGATTTT
* **
8836970 TTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTACAATATG
1 TTTGACAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
*
8837035 AGTTGA--GT
66 AGTTGATTTT
* * * * * *
8837043 TTTGACAAACAAAAATTGAAATTACCTTAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATG
1 TTTGACAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
8837108 AGTTGATTTT
66 AGTTGATTTT
* * *
8837118 TTT-AGAAACATAAATTAAAAA
1 TTTGACAAACAGAAATTGAAAA
8837139 AATGAAAATT
Statistics
Matches: 471, Mismatches: 52, Indels: 38
0.84 0.09 0.07
Matches are distributed among these distances:
71 37 0.08
72 4 0.01
73 175 0.37
74 19 0.04
75 100 0.21
76 42 0.09
77 4 0.01
78 90 0.19
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (75 bp):
TTTGACAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTT
Found at i:8836916 original size:224 final size:223
Alignment explanation
Indices: 8836522--8837118 Score: 875
Period size: 224 Copynumber: 2.7 Consensus size: 223
8836512 GAAAACAAAA
* * * ** *
8836522 TTTG-AAAA-AGAATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGCAATA
1 TTTGAAAAACAGAAATTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCACCTCTCGCAATA
*
8836585 TGAGCTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCAC
64 TGAGCTGTTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCAC
* *
8836650 CTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGC-GTCTTGAGGTTC
129 CTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGGTCCTGAGGCTC
8836714 AACTCACCTATCGCAATATGAGTTGATTTT
194 AACTCACCTATCGCAATATGAGTTGATTTT
*
8836744 TTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATG
1 TTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
*
8836809 AGCTGCTTTTTTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCAC
66 AGCTG--TTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCAC
*
8836874 CTCTCGCAATATGAGTTGATTTTTGACAAACAAAATTTGAAATTACCTCAGCGTGTCCTGAGGCT
129 CTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCG-GTCCTGAGGCT
*
8836939 CAATTCACCTATCGCAATATGAGTTGATTTT
193 CAACTCACCTATCGCAATATGAGTTGATTTT
**
8836970 TTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTACAATATG
1 TTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
*** * * * * * *
8837035 A---GTTGAGTTTTGACAA-ACAAAAATTGAAATTACCTTAGCGTGTCCTGAGGCTCAACTCACT
66 AGCTGTTTTTTTTTGA-AAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACC
8837096 TCTCGCAATATGAGTTGATTTTT
130 TCTCGCAATATGAGTTGATTTTT
8837119 TTAGAAACAT
Statistics
Matches: 342, Mismatches: 26, Indels: 15
0.89 0.07 0.04
Matches are distributed among these distances:
221 69 0.20
222 36 0.11
223 5 0.01
224 130 0.38
226 102 0.30
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.31
Consensus pattern (223 bp):
TTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
AGCTGTTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCT
CTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGGTCCTGAGGCTCAA
CTCACCTATCGCAATATGAGTTGATTTT
Found at i:8837033 original size:148 final size:149
Alignment explanation
Indices: 8836522--8837205 Score: 758
Period size: 148 Copynumber: 4.5 Consensus size: 149
8836512 GAAAACAAAA
* * * ** *
8836522 TTTG-AAAA-AGAATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGCAATA
1 TTTGAAAAACAGAAATTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCACCTCTCGCAATA
* *
8836585 TGAGCTGATTTTTTTTGA-AAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA
64 TGAGTTGA--TTTTTTGACAA-ACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCA
8836649 CCTCTCGCAATATGAGTTGA--TT
126 CCTCTCGCAATATGAGTTGATTTT
* * * * * *
8836671 TTTGACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATG
1 TTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
* * *
8836734 AGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTC
66 AGTTGA-TTTTTTGACAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTC
**
8836799 TCGCAATATGAGCTGCTTTTTTT
130 TCGCAATATGAG-T--TGATTTT
* *
8836822 TTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
* * * *
8836887 AGTTGA-TTTTTGACAAACA-AAATTTGAAATTACCTCAGCGTGTCCTGAGGCTCAATTCACCTA
66 AGTTGATTTTTTGACAAACAGAAA-TTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTC
8836950 TCGCAATATGAGTTGATTTT
130 TCGCAATATGAGTTGATTTT
**
8836970 TTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTACAATATG
1 TTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
* * * * * *
8837035 AGTTGA-GTTTTGACAAACAAAAATTGAAATTACCTTAGCGTGTCCTGAGGCTCAACTCACTTCT
66 AGTTGATTTTTTGACAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCT
8837099 CGCAATATGAGTTGATTTT
131 CGCAATATGAGTTGATTTT
* * *
8837118 TTTAGAAACATAAATTAAAAAAATGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCA
1 TTT-G-----------AAAAACA-G-AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA
8837183 CCTCTCGCAATATGAGTTGATTT
52 CCTCTCGCAATATGAGTTGATTT
8837206 GAAAAGCAGA
Statistics
Matches: 460, Mismatches: 48, Indels: 40
0.84 0.09 0.07
Matches are distributed among these distances:
146 67 0.15
147 32 0.07
148 143 0.31
149 12 0.03
150 7 0.02
151 98 0.21
152 1 0.00
153 37 0.08
160 6 0.01
161 1 0.00
162 55 0.12
163 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (149 bp):
TTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTTGACAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTT
Found at i:8837330 original size:13 final size:13
Alignment explanation
Indices: 8837308--8837352 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
8837298 TTGATTTTTG
8837308 AAAAACAGAAATT
1 AAAAACAGAAATT
** *
8837321 AAAAGTAGAATTT
1 AAAAACAGAAATT
8837334 GAAAAACAGAAATT
1 -AAAAACAGAAATT
8837348 AAAAA
1 AAAAA
8837353 TACCTCGGCG
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.67, C:0.04, G:0.11, T:0.18
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:8837385 original size:100 final size:101
Alignment explanation
Indices: 8837129--8837425 Score: 388
Period size: 100 Copynumber: 3.0 Consensus size: 101
8837119 TTAGAAACAT
*
8837129 AAATTAAAAAA-ATGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
1 AAATTAAAAAACA-G-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAA
* * * *
8837193 TATGAGTTGA--TTTGAAAAGCAGAATTTGTAAGGCAA
64 TATGAGTTGATTTTTGAAAAACAGAAATTGAAAAGCAA
*
8837229 AAATTAAAAAACAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATA
1 AAATTAAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
* *
8837294 TGAGTTGATTTTTGAAAAACAGAAATT-AAAAGTAG
66 TGAGTTGATTTTTGAAAAACAGAAATTGAAAAGCAA
* * * * * * *
8837329 AATTTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTTACCTCTCGCAATA
1 AAATTAAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
*
8837394 TGAGTTGATTTTT-AAAAAGCATAAATTGAAAA
66 TGAGTTGATTTTTGAAAAA-CAGAAATTGAAAA
8837426 AACGGAAATT
Statistics
Matches: 175, Mismatches: 17, Indels: 9
0.87 0.08 0.04
Matches are distributed among these distances:
99 62 0.35
100 93 0.53
101 20 0.11
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (101 bp):
AAATTAAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTGAAAAACAGAAATTGAAAAGCAA
Found at i:8845020 original size:20 final size:21
Alignment explanation
Indices: 8844984--8845026 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
8844974 CATCATACTT
8844984 CTCAAAATCAGGCACTTTGAA
1 CTCAAAATCAGGCACTTTGAA
8845005 CTCAAAATCA-GCACTTTGAA
1 CTCAAAATCAGGCACTTTGAA
8845025 CT
1 CT
8845027 TCGGGCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.26
Consensus pattern (21 bp):
CTCAAAATCAGGCACTTTGAA
Found at i:8850160 original size:13 final size:13
Alignment explanation
Indices: 8850142--8850175 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
8850132 ATGCATATGC
8850142 ATATAATAAAAAT
1 ATATAATAAAAAT
*
8850155 ATATAATAATAAT
1 ATATAATAAAAAT
8850168 AT-TAATAA
1 ATATAATAA
8850176 TATGAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
ATATAATAAAAAT
Found at i:8850806 original size:10 final size:10
Alignment explanation
Indices: 8850791--8850834 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
8850781 AAAAGGTCAA
8850791 TTTTTTTATT
1 TTTTTTTATT
8850801 TTTTTTTATT
1 TTTTTTTATT
*
8850811 TTTTTGTATT
1 TTTTTTTATT
* *
8850821 ATATTATTATT
1 -TTTTTTTATT
8850832 TTT
1 TTT
8850835 ATATATTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
10 21 0.75
11 7 0.25
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:8851399 original size:17 final size:17
Alignment explanation
Indices: 8851377--8851410 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8851367 GACGGGTTAT
8851377 TGGGTTGTTTGGTTTAG
1 TGGGTTGTTTGGTTTAG
8851394 TGGGTTGTTTGGTTTAG
1 TGGGTTGTTTGGTTTAG
8851411 GGCCCAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.00, G:0.41, T:0.53
Consensus pattern (17 bp):
TGGGTTGTTTGGTTTAG
Found at i:8855040 original size:23 final size:23
Alignment explanation
Indices: 8855014--8855057 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
8855004 GATTAGAATT
8855014 TTAAAATT-TGAAAAGTAAAAATA
1 TTAAAATTCTGAAAA-TAAAAATA
8855037 TTAAAATTCTGAAAATAAAAA
1 TTAAAATTCTGAAAATAAAAA
8855058 GGACTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (23 bp):
TTAAAATTCTGAAAATAAAAATA
Found at i:8855065 original size:24 final size:24
Alignment explanation
Indices: 8855015--8855069 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
8855005 ATTAGAATTT
* *
8855015 TAAAATT-TGAAAAGTAAAAATAT
1 TAAAATTCTGAAAAGTAAAAAGAC
8855038 TAAAATTCTGAAAA-TAAAAAGGAC
1 TAAAATTCTGAAAAGTAAAAA-GAC
8855062 T-AAATTCT
1 TAAAATTCT
8855070 AAATCTACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 20 0.71
24 8 0.29
ACGTcount: A:0.56, C:0.05, G:0.09, T:0.29
Consensus pattern (24 bp):
TAAAATTCTGAAAAGTAAAAAGAC
Found at i:8855511 original size:20 final size:20
Alignment explanation
Indices: 8855472--8855511 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
8855462 ATGTATTAAT
**
8855472 GTTGAAAAAATATTTTAAAA
1 GTTGAAAAAATATTCAAAAA
*
8855492 GTTGTAAAAATATTCAAAAA
1 GTTGAAAAAATATTCAAAAA
8855512 TAAAAAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.10, T:0.33
Consensus pattern (20 bp):
GTTGAAAAAATATTCAAAAA
Found at i:8856450 original size:3 final size:3
Alignment explanation
Indices: 8856442--8856466 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8856432 TTTTACAGCC
8856442 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
8856467 TTGCTATTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:8857284 original size:22 final size:21
Alignment explanation
Indices: 8857231--8857286 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
8857221 AATAGAGTTA
* * *
8857231 TAAAAAAAGTATGAAAATTTT
1 TAAAAAAATTATTACAATTTT
8857252 TAAAAAAATTATTACAATTTT
1 TAAAAAAATTATTACAATTTT
*
8857273 TATAAAATATTATT
1 TA-AAAAAATTATT
8857287 TGTGTTTGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 20 0.67
22 10 0.33
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (21 bp):
TAAAAAAATTATTACAATTTT
Found at i:8858096 original size:5 final size:6
Alignment explanation
Indices: 8858084--8858109 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
8858074 TTTTAATTTA
8858084 TTCTTT TTCTTT TTCTTT TTCTTT TT
1 TTCTTT TTCTTT TTCTTT TTCTTT TT
8858110 TATGCTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTCTTT
Found at i:8863373 original size:16 final size:17
Alignment explanation
Indices: 8863352--8863384 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8863342 CATATTTAAG
8863352 CACATA-AATTGAAAAC
1 CACATATAATTGAAAAC
*
8863368 CACATATATTTGAAAAC
1 CACATATAATTGAAAAC
8863385 TTTTTCAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.52, C:0.18, G:0.06, T:0.24
Consensus pattern (17 bp):
CACATATAATTGAAAAC
Found at i:8863563 original size:10 final size:10
Alignment explanation
Indices: 8863548--8863573 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
8863538 ATAAATTTTG
8863548 AAATTTTTAT
1 AAATTTTTAT
8863558 AAATTTTTAT
1 AAATTTTTAT
8863568 AAATTT
1 AAATTT
8863574 ATTTATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
AAATTTTTAT
Found at i:8864524 original size:14 final size:13
Alignment explanation
Indices: 8864505--8864534 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
8864495 AATTTGTGTG
8864505 TTTTTTATTTTAAT
1 TTTTTTATTTT-AT
8864519 TTTTTTATTTTAT
1 TTTTTTATTTTAT
8864532 TTT
1 TTT
8864535 ATTTTTCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTATTTTAT
Found at i:8864529 original size:5 final size:5
Alignment explanation
Indices: 8864507--8864539 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
8864497 TTTGTGTGTT
*
8864507 TTTTA TTTTA ATTT- TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
8864540 TCACAAATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 22 0.88
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:8869949 original size:17 final size:19
Alignment explanation
Indices: 8869927--8869964 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
8869917 ATATGTTTAA
8869927 AATTCTA-TTTA-AATAAT
1 AATTCTATTTTACAATAAT
8869944 AATTCTATTTTACAATAAT
1 AATTCTATTTTACAATAAT
8869963 AA
1 AA
8869965 AATTAGCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 4 0.21
19 8 0.42
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTCTATTTTACAATAAT
Found at i:8878216 original size:86 final size:86
Alignment explanation
Indices: 8878121--8878294 Score: 312
Period size: 86 Copynumber: 2.0 Consensus size: 86
8878111 ATTAAAATTG
*
8878121 AATTATTAATTATGCCATAAAATATTCATGTTAAAATTTTATATTAGTATCAATTTCACATTTTA
1 AATTATTAATTATGCCATAAAATATTCATGTTAAAATTTTATATTAGTATAAATTTCACATTTTA
*
8878186 TCTTTAAAATAACTTTTATTA
66 TCTTTAAAATAAATTTTATTA
* *
8878207 AATTATTAATTATGCCATAAAATATTCGTGTTAAAATTTTATATTGGTATAAATTTCACATTTTA
1 AATTATTAATTATGCCATAAAATATTCATGTTAAAATTTTATATTAGTATAAATTTCACATTTTA
8878272 TCTTTAAAATAAATTTTATTA
66 TCTTTAAAATAAATTTTATTA
8878293 AA
1 AA
8878295 AAATCACATT
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.47
Consensus pattern (86 bp):
AATTATTAATTATGCCATAAAATATTCATGTTAAAATTTTATATTAGTATAAATTTCACATTTTA
TCTTTAAAATAAATTTTATTA
Found at i:8882186 original size:18 final size:18
Alignment explanation
Indices: 8882163--8882202 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
8882153 ATGGTAGGCG
8882163 TAAAGTGTAGCCTTTCTT
1 TAAAGTGTAGCCTTTCTT
8882181 TAAAGTGTAGCCTTTCTT
1 TAAAGTGTAGCCTTTCTT
8882199 TAAA
1 TAAA
8882203 ACATTGTGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (18 bp):
TAAAGTGTAGCCTTTCTT
Found at i:8903483 original size:29 final size:29
Alignment explanation
Indices: 8903416--8903508 Score: 96
Period size: 29 Copynumber: 3.2 Consensus size: 29
8903406 GCTGTAAAAA
* * *
8903416 AAAATCCATCTCGTCAAAATAATTTTTTC
1 AAAACCCATCTCGTCAAATTTATTTTTTC
* *
8903445 AAAACGCATCACGTCAAATTTATTTTTTC
1 AAAACCCATCTCGTCAAATTTATTTTTTC
* * * *
8903474 ATATCCCATCTTGTCAAATTTATTTCTTCC
1 AAAACCCATCTCGTCAAATTTATTT-TTTC
8903504 AAAAC
1 AAAAC
8903509 AATATTTACC
Statistics
Matches: 50, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
29 44 0.88
30 6 0.12
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.39
Consensus pattern (29 bp):
AAAACCCATCTCGTCAAATTTATTTTTTC
Found at i:8904636 original size:88 final size:92
Alignment explanation
Indices: 8904469--8904642 Score: 259
Period size: 88 Copynumber: 1.9 Consensus size: 92
8904459 AGCCCTATTT
* *
8904469 TTTTTCAAAAAAAGCAATTAAGTCCCCTCCCTTTTTTTTTGCACTCAATTGGATACTTGAATTTC
1 TTTTTCAAAAAAAGCAATTAAGTCCCCTCACTTTTTTTTTGCACTCAATTGGATACTTGAATTGC
* *
8904534 TAAATGCAT-TAAAAAGACCCTCAAAC
66 AAAATGCATCAAAAAAGACCCTCAAAC
*
8904560 TTTTTCAAAAAAAGCAATTAAGT-CCCT-AC-TTTTTTTTGCACTTAATTGGATACTTGAATTGG
1 TTTTTCAAAAAAAGCAATTAAGTCCCCTCACTTTTTTTTTGCACTCAATTGGATACTTGAATT-G
8904622 CAAAATGCA-CAAAAAAGACCC
65 CAAAATGCATCAAAAAAGACCC
8904643 ATTGACCATT
Statistics
Matches: 76, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
88 30 0.39
89 19 0.25
90 4 0.05
91 23 0.30
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (92 bp):
TTTTTCAAAAAAAGCAATTAAGTCCCCTCACTTTTTTTTTGCACTCAATTGGATACTTGAATTGC
AAAATGCATCAAAAAAGACCCTCAAAC
Found at i:8904684 original size:12 final size:12
Alignment explanation
Indices: 8904667--8904691 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8904657 TTAACAGTTG
8904667 ACTGTTAAAATT
1 ACTGTTAAAATT
8904679 ACTGTTAAAATT
1 ACTGTTAAAATT
8904691 A
1 A
8904692 ACAGCTCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
ACTGTTAAAATT
Found at i:8904841 original size:17 final size:18
Alignment explanation
Indices: 8904819--8904853 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
8904809 AAAGAATATA
*
8904819 AAAATATT-TCAAAATAG
1 AAAATATTATAAAAATAG
8904836 AAAATATTATAAAAATAG
1 AAAATATTATAAAAATAG
8904854 TATGAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.29
Consensus pattern (18 bp):
AAAATATTATAAAAATAG
Found at i:8904897 original size:19 final size:18
Alignment explanation
Indices: 8904768--8904898 Score: 70
Period size: 19 Copynumber: 6.8 Consensus size: 18
8904758 AATTATAAAA
8904768 ATAAAAATCAATAAAA-ATT
1 ATAAAAAT--ATAAAATATT
* *
8904787 ATAAAAATTATTAAATTTT
1 ATAAAAA-TATAAAATATT
8904806 AATAAAGAATATAAAAATATT
1 -ATAAA-AATAT-AAAATATT
* *
8904827 -TCAAAATAGAAAATATT
1 ATAAAAATATAAAATATT
8904844 ATAAAAATAGTATGAAAT-TAT
1 ATAAAAATA-TA--AAATAT-T
* * *
8904865 AAAAAAATTGTAAAATTTT
1 ATAAAAA-TATAAAATATT
8904884 ATAAAAATCATAAAA
1 ATAAAAAT-ATAAAA
8904899 AAAATTATAA
Statistics
Matches: 87, Mismatches: 12, Indels: 26
0.70 0.10 0.21
Matches are distributed among these distances:
17 8 0.09
18 17 0.20
19 29 0.33
20 11 0.13
21 21 0.24
22 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (18 bp):
ATAAAAATATAAAATATT
Found at i:8904910 original size:9 final size:9
Alignment explanation
Indices: 8904755--8904899 Score: 59
Period size: 10 Copynumber: 15.6 Consensus size: 9
8904745 TATGTGGCAA
8904755 AAAAATTAT
1 AAAAATTAT
8904764 -AAAA--AT
1 AAAAATTAT
*
8904770 AAAAATCAAT
1 AAAAAT-TAT
8904780 AAAAATTAT
1 AAAAATTAT
8904789 AAAAATTATT
1 AAAAATTA-T
**
8904799 AAATTTTAAT
1 AAAAATT-AT
8904809 AAAGAA-TAT
1 AAA-AATTAT
*
8904818 AAAAATATTT
1 AAAAAT-TAT
* *
8904828 CAAAA-TAG
1 AAAAATTAT
8904836 AAAATATTAT
1 AAAA-ATTAT
8904846 AAAAA-TAGT
1 AAAAATTA-T
*
8904855 ATGAAATTAT
1 A-AAAATTAT
*
8904865 AAAAAAATTGT
1 --AAAAATTAT
*
8904876 AAAATTTTAT
1 AAAA-ATTAT
*
8904886 AAAAATCAT
1 AAAAATTAT
8904895 AAAAA
1 AAAAA
8904900 AAATTATAAA
Statistics
Matches: 101, Mismatches: 18, Indels: 34
0.66 0.12 0.22
Matches are distributed among these distances:
6 2 0.02
7 4 0.04
8 12 0.12
9 31 0.31
10 42 0.42
11 9 0.09
12 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:8905133 original size:20 final size:19
Alignment explanation
Indices: 8905108--8905200 Score: 77
Period size: 19 Copynumber: 4.9 Consensus size: 19
8905098 TTTAGTAGAT
8905108 AATTTTTATAATTTTTTAC
1 AATTTTTATAATTTTTTAC
8905127 GAA-TTTTA-AATTTCTTTAC
1 -AATTTTTATAATTT-TTTAC
*
8905146 ATTTTTTATAATTTTCTTAC
1 AATTTTTATAATTTT-TTAC
* ** *
8905166 AA-CTTTATAAAATTTTAT
1 AATTTTTATAATTTTTTAC
8905184 AA-TTTTATAAATTTTTT
1 AATTTTTAT-AATTTTTT
8905201 TCTATATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
18 16 0.27
19 31 0.53
20 12 0.20
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.59
Consensus pattern (19 bp):
AATTTTTATAATTTTTTAC
Found at i:8905237 original size:30 final size:29
Alignment explanation
Indices: 8905177--8905245 Score: 106
Period size: 31 Copynumber: 2.4 Consensus size: 29
8905167 ACTTTATAAA
8905177 ATTTTATAATTTTATAAATTTTTTTCTAT
1 ATTTTATAATTTTATAAATTTTTTTCTAT
8905206 ATTTCTATATATTTTATAAATTTTTTT-TAT
1 ATTT-TATA-ATTTTATAAATTTTTTTCTAT
8905236 ATTTT-TAATT
1 ATTTTATAATT
8905246 AAAATTAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
27 3 0.08
28 2 0.05
29 5 0.13
30 11 0.29
31 17 0.45
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (29 bp):
ATTTTATAATTTTATAAATTTTTTTCTAT
Found at i:8921940 original size:14 final size:14
Alignment explanation
Indices: 8921915--8921949 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
8921905 ATATCCAAAC
*
8921915 AATAACAACATAAT
1 AATAATAACATAAT
*
8921929 AGTAATAACATAAT
1 AATAATAACATAAT
8921943 AATAATA
1 AATAATA
8921950 TGGTAGCAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.63, C:0.09, G:0.03, T:0.26
Consensus pattern (14 bp):
AATAATAACATAAT
Found at i:8922005 original size:21 final size:22
Alignment explanation
Indices: 8921968--8922008 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
8921958 AAATAAGGAG
*
8921968 AAAACAACAAGAAAATAGCATT
1 AAAAAAACAAGAAAATAGCATT
8921990 AAAAAAACAA-AAAATAGCA
1 AAAAAAACAAGAAAATAGCA
8922009 ATTTTTTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.71, C:0.12, G:0.07, T:0.10
Consensus pattern (22 bp):
AAAAAAACAAGAAAATAGCATT
Found at i:8926605 original size:20 final size:21
Alignment explanation
Indices: 8926566--8926606 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
8926556 AATAAGGACT
* *
8926566 AAACTGGAAACTTTTTCAAAA
1 AAACTAGAAACTTTTGCAAAA
8926587 AAACTAGAAA-TTTTGCAAAA
1 AAACTAGAAACTTTTGCAAAA
8926607 CAGGGGTCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.51, C:0.12, G:0.10, T:0.27
Consensus pattern (21 bp):
AAACTAGAAACTTTTGCAAAA
Found at i:8927014 original size:15 final size:14
Alignment explanation
Indices: 8926990--8927020 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
8926980 TGCTCGTCCG
8926990 AGCTAAATTATATC
1 AGCTAAATTATATC
8927004 AGCTGAAATTATATC
1 AGCT-AAATTATATC
8927019 AG
1 AG
8927021 GTTACTCGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (14 bp):
AGCTAAATTATATC
Found at i:8937204 original size:33 final size:33
Alignment explanation
Indices: 8937162--8937285 Score: 221
Period size: 33 Copynumber: 3.8 Consensus size: 33
8937152 TTTCTTCTTG
*
8937162 ACATTCCAGCTACTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
8937195 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
* *
8937228 ACATTCCAGCTCCCGCCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
8937261 ACATTCCAGCTCCTGTCCAGCAACC
1 ACATTCCAGCTCCTGTCCAGCAACC
8937286 TGAAACAGAG
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 86 1.00
ACGTcount: A:0.30, C:0.44, G:0.10, T:0.17
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:8938227 original size:54 final size:54
Alignment explanation
Indices: 8938151--8938258 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
8938141 TGCTTTATTA
**
8938151 GTTAAAATATTTCCTTGGTATTGAAGTGTTACACTCTCGGGAAGGAATCTTTAT
1 GTTAAAATATTTCCTTGGTATTGAAGTGGCACACTCTCGGGAAGGAATCTTTAT
8938205 GTTAAAATATTTCCTTGGTATTGAAGTGGCACACTCTCGGGAAGGAATCTTTAT
1 GTTAAAATATTTCCTTGGTATTGAAGTGGCACACTCTCGGGAAGGAATCTTTAT
8938259 AGCTCAGCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (54 bp):
GTTAAAATATTTCCTTGGTATTGAAGTGGCACACTCTCGGGAAGGAATCTTTAT
Found at i:8955416 original size:20 final size:21
Alignment explanation
Indices: 8955337--8955440 Score: 97
Period size: 20 Copynumber: 5.1 Consensus size: 21
8955327 CTTAGTTTCA
8955337 TTATTGTTTTGAATCAATTCT
1 TTATTGTTTTGAATCAATTCT
* * ** *
8955358 TTACT-TTTTAAATCGGTTGT
1 TTATTGTTTTGAATCAATTCT
* *
8955378 ATATTGTTTTG-ATAAATTCT
1 TTATTGTTTTGAATCAATTCT
* *
8955398 TTATTG-TTTGAATCGATTCA
1 TTATTGTTTTGAATCAATTCT
*
8955418 TTATTGTTTTAAATCAATTCT
1 TTATTGTTTTGAATCAATTCT
8955439 TT
1 TT
8955441 TCTGTTTAAC
Statistics
Matches: 61, Mismatches: 19, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
19 4 0.07
20 36 0.59
21 21 0.34
ACGTcount: A:0.25, C:0.09, G:0.11, T:0.56
Consensus pattern (21 bp):
TTATTGTTTTGAATCAATTCT
Found at i:8955455 original size:41 final size:39
Alignment explanation
Indices: 8955333--8955458 Score: 121
Period size: 41 Copynumber: 3.1 Consensus size: 39
8955323 CAATCTTAGT
* * *
8955333 TTCATTATTGTTTTGAATCAATTCTTTACTTTTTAAATCGG
1 TTCATTATTGTTTT-AATCAATTCTTTTCTGTTT-AATCGA
* * *
8955374 TT-GTATATTGTTTTGATAAATTCTTTAT-TGTTTGAATCGA
1 TTCAT-TATTGTTTTAATCAATTCTTT-TCTGTTT-AATCGA
8955414 TTCATTATTGTTTTAAATCAATTCTTTTCTGTTTAACTCGA
1 TTCATTATTGTTTT-AATCAATTCTTTTCTGTTTAA-TCGA
8955455 TTCA
1 TTCA
8955459 AACTCTAACA
Statistics
Matches: 69, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
40 34 0.49
41 35 0.51
ACGTcount: A:0.25, C:0.11, G:0.10, T:0.54
Consensus pattern (39 bp):
TTCATTATTGTTTTAATCAATTCTTTTCTGTTTAATCGA
Found at i:8956107 original size:9 final size:9
Alignment explanation
Indices: 8956093--8956160 Score: 100
Period size: 9 Copynumber: 7.6 Consensus size: 9
8956083 ATAAATATAA
8956093 AATTAACCG
1 AATTAACCG
*
8956102 AATTAATCG
1 AATTAACCG
8956111 AATTAACCG
1 AATTAACCG
*
8956120 AATTATCCG
1 AATTAACCG
* *
8956129 AATTACCCA
1 AATTAACCG
8956138 AATTAACCG
1 AATTAACCG
8956147 AATTAACCG
1 AATTAACCG
8956156 AATTA
1 AATTA
8956161 TTTGTATAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 52 1.00
ACGTcount: A:0.44, C:0.21, G:0.09, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:8958477 original size:29 final size:30
Alignment explanation
Indices: 8958435--8958496 Score: 108
Period size: 29 Copynumber: 2.1 Consensus size: 30
8958425 ACTTAACAAG
8958435 CAAATGCCTCTAAAATAATAA-AAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
8958464 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
8958494 CAA
1 CAA
8958497 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.58, C:0.15, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:8959142 original size:43 final size:43
Alignment explanation
Indices: 8959088--8959210 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 43
8959078 ATCAATGTGA
* * *
8959088 GATTACATGTAAGACTATGTCTGGGACATTGGCATTG-TATTGT
1 GATTACGTGTAAGACTATGTCTGGGACATTGGCATCGTTAAT-T
* *
8959131 GATTACGTGTAAGA-TCGTGTCTGGGACATTGTCATCGTTAATT
1 GATTACGTGTAAGACT-ATGTCTGGGACATTGGCATCGTTAATT
** * *
8959174 GATTACGTGTAAGACCCTATCTGGGACAGTGGCATCG
1 GATTACGTGTAAGACTATGTCTGGGACATTGGCATCG
8959211 ATATGTGATA
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 1 0.01
43 63 0.94
44 3 0.04
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.33
Consensus pattern (43 bp):
GATTACGTGTAAGACTATGTCTGGGACATTGGCATCGTTAATT
Found at i:8960712 original size:18 final size:19
Alignment explanation
Indices: 8960679--8960722 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
8960669 GATTTGAATG
8960679 AATTTATATATGAATGCATA
1 AATTTATATA-GAATGCATA
*
8960699 AATTTATATA-AATGTATA
1 AATTTATATAGAATGCATA
8960717 AATTTA
1 AATTTA
8960723 GCTTCAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 13 0.57
20 10 0.43
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (19 bp):
AATTTATATAGAATGCATA
Found at i:8962137 original size:26 final size:27
Alignment explanation
Indices: 8962105--8962161 Score: 107
Period size: 26 Copynumber: 2.1 Consensus size: 27
8962095 CCCTAATACT
8962105 AAAATTATTCAATATTGACAACAC-TA
1 AAAATTATTCAATATTGACAACACTTA
8962131 AAAATTATTCAATATTGACAACACTTA
1 AAAATTATTCAATATTGACAACACTTA
8962158 AAAA
1 AAAA
8962162 CTTAATAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 24 0.80
27 6 0.20
ACGTcount: A:0.53, C:0.14, G:0.04, T:0.30
Consensus pattern (27 bp):
AAAATTATTCAATATTGACAACACTTA
Found at i:8962171 original size:27 final size:26
Alignment explanation
Indices: 8962105--8962171 Score: 91
Period size: 26 Copynumber: 2.5 Consensus size: 26
8962095 CCCTAATACT
*
8962105 AAAATTATTCAATATTGACAACACTA
1 AAAATTAATCAATATTGACAACACTA
*
8962131 AAAATTATTCAATATTGACAACACTTA
1 AAAATTAATCAATATTGACAACAC-TA
8962158 AAAACTTAAT-AATA
1 AAAA-TTAATCAATA
8962172 GCTAAAATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
26 24 0.63
27 10 0.26
28 4 0.11
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.31
Consensus pattern (26 bp):
AAAATTAATCAATATTGACAACACTA
Found at i:8968575 original size:13 final size:15
Alignment explanation
Indices: 8968539--8968580 Score: 54
Period size: 13 Copynumber: 3.0 Consensus size: 15
8968529 CTATATTTCC
*
8968539 ATTCTATTGAATTTT
1 ATTCTATTAAATTTT
8968554 ATTCT-TT-AATTTT
1 ATTCTATTAAATTTT
8968567 ATT-TATTAAATTTT
1 ATTCTATTAAATTTT
8968581 GTCTCAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 1 0.04
13 11 0.44
14 8 0.32
15 5 0.20
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (15 bp):
ATTCTATTAAATTTT
Found at i:8968906 original size:21 final size:20
Alignment explanation
Indices: 8968876--8968927 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
8968866 GAAATTTTTT
8968876 AAAATATATATTTTTAAAATAA
1 AAAAT-TATATTTTTAAAA-AA
*
8968898 AAAATTATAATTTTTTAAAAA
1 AAAATTAT-ATTTTTAAAAAA
*
8968919 TAAATTATA
1 AAAATTATA
8968928 AAAAATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 1 0.04
21 12 0.44
22 14 0.52
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATTATATTTTTAAAAAA
Found at i:8968928 original size:21 final size:22
Alignment explanation
Indices: 8968875--8968928 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
8968865 TGAAATTTTT
*
8968875 TAAAATATATATTTTTAAAATAA
1 TAAATTATA-ATTTTTAAAATAA
* *
8968898 AAAATTATAATTTTTTAAA-AA
1 TAAATTATAATTTTTAAAATAA
8968919 TAAATTATAA
1 TAAATTATAA
8968929 AAAATAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 11 0.41
22 9 0.33
23 7 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TAAATTATAATTTTTAAAATAA
Found at i:8968940 original size:37 final size:38
Alignment explanation
Indices: 8968854--8968938 Score: 102
Period size: 38 Copynumber: 2.2 Consensus size: 38
8968844 TCCATATTTT
* * **
8968854 AAATAAAAACATGA-AATTTTTTAAAATATATATTTTTA
1 AAATAAAAA-ATTATAATTTTTTAAAATATAAATTTAAA
8968892 AAATAAAAAATTATAATTTTTTAAAA-ATAAATTATAAA
1 AAATAAAAAATTATAATTTTTTAAAATATAAATT-TAAA
8968930 AAATAAAAA
1 AAATAAAAA
8968939 TTCTTTAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
37 9 0.22
38 32 0.78
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (38 bp):
AAATAAAAAATTATAATTTTTTAAAATATAAATTTAAA
Found at i:8969661 original size:15 final size:16
Alignment explanation
Indices: 8969641--8969670 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8969631 TTTAAAGAGT
8969641 TTTTATTT-TTTAAAC
1 TTTTATTTATTTAAAC
8969656 TTTTATTTATTTAAA
1 TTTTATTTATTTAAA
8969671 ATAATATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTATTTATTTAAAC
Found at i:8970710 original size:31 final size:31
Alignment explanation
Indices: 8970675--8970733 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
8970665 CATAATGAAA
8970675 TTTTTTTAATTCAAATTAATATATAATATTT
1 TTTTTTTAATTCAAATTAATATATAATATTT
8970706 TTTTTTTAATTCAAATTAATATATAATA
1 TTTTTTTAATTCAAATTAATATATAATA
8970734 ATAAAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (31 bp):
TTTTTTTAATTCAAATTAATATATAATATTT
Found at i:8970749 original size:29 final size:30
Alignment explanation
Indices: 8970717--8970778 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
8970707 TTTTTTAATT
* *
8970717 CAAATTAATATATAATAATAA-AAAATTAA
1 CAAATGAATATAAAATAATAAGAAAATTAA
** *
8970746 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGAATATAAAATAATAAGAAAATTAA
8970776 CAA
1 CAA
8970779 TAAAATAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.61, C:0.08, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGAATATAAAATAATAAGAAAATTAA
Found at i:8974006 original size:20 final size:20
Alignment explanation
Indices: 8973981--8974020 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8973971 CGTAAAATGA
*
8973981 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
8974001 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
8974021 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:8974010 original size:34 final size:34
Alignment explanation
Indices: 8973967--8974032 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 34
8973957 AGTAAAATGT
*
8973967 TTTTCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCGTAAAATGATTTACTGGAAAATATTTTAC
8974000 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTC-GTAAAATGATTTACTGGAAAATATTTT
8974033 CTGGTGATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.40
35 13 0.43
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.47
Consensus pattern (34 bp):
TTTTCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:8974036 original size:14 final size:15
Alignment explanation
Indices: 8973960--8974036 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
8973950 GATTGCCAGT
* *
8973960 AAAATGTTTTTC-GT
1 AAAATGATTTTCTGG
8973974 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
8973988 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
8974008 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
8974023 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
8974037 TGATTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
13 4 0.08
14 21 0.42
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:8976532 original size:12 final size:12
Alignment explanation
Indices: 8976515--8976562 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
8976505 CAAAACGGGA
8976515 AAGGGAAGGGGT
1 AAGGGAAGGGGT
8976527 AAGGGAAAGGGGT
1 AAGGG-AAGGGGT
* *
8976540 AGGGGAAAGGG-
1 AAGGGAAGGGGT
8976551 AAGGAGAAGGGG
1 AAGG-GAAGGGG
8976563 AGAGGGGAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
11 3 0.10
12 16 0.53
13 11 0.37
ACGTcount: A:0.38, C:0.00, G:0.58, T:0.04
Consensus pattern (12 bp):
AAGGGAAGGGGT
Found at i:8976534 original size:18 final size:18
Alignment explanation
Indices: 8976511--8976568 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
8976501 GCTTCAAAAC
*
8976511 GGGAAAGGGAAGGGGTAA
1 GGGAAAGGGAAGGGGAAA
*
8976529 GGGAAAGGGGTAGGGGAAA
1 GGGAAA-GGGAAGGGGAAA
*
8976548 GGG-AAGGAGAAGGGGAGA
1 GGGAAAGG-GAAGGGGAAA
8976566 GGG
1 GGG
8976569 GAGAAGAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 2 0.06
18 19 0.56
19 13 0.38
ACGTcount: A:0.36, C:0.00, G:0.60, T:0.03
Consensus pattern (18 bp):
GGGAAAGGGAAGGGGAAA
Found at i:8976538 original size:13 final size:13
Alignment explanation
Indices: 8976515--8976550 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
8976505 CAAAACGGGA
8976515 AAGGG-AAGGGGT
1 AAGGGAAAGGGGT
8976527 AAGGGAAAGGGGT
1 AAGGGAAAGGGGT
*
8976540 AGGGGAAAGGG
1 AAGGGAAAGGG
8976551 AAGGAGAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 5 0.23
13 17 0.77
ACGTcount: A:0.36, C:0.00, G:0.58, T:0.06
Consensus pattern (13 bp):
AAGGGAAAGGGGT
Found at i:8983529 original size:73 final size:73
Alignment explanation
Indices: 8983436--8984192 Score: 366
Period size: 80 Copynumber: 10.1 Consensus size: 73
8983426 ATTCATTTTT
* * *
8983436 TTTTTTTTGACAACAG-AATTGAATATACCTCACATGTC-TGAGGCTGAACCTCACTCTCGCATA
1 TTTTTTTTGAAAACAGAAATTGAAAATACCTCACATGTCTTGAGGCTCAA-CTCACTCTCGCATA
8983499 TGAGTTGAA
65 TGAGTTGAA
* * * * *
8983508 TTTTTTTTGAAAACATAAATTGAAAAGCAGATGA-TTAACACGTGCTTGAGGCTCAACTTACTCT
1 TTTTTTTTGAAAACAGAAATTG--AA--A-AT-ACCTCACATGT-CTTGAGGCTCAACTCACTCT
8983572 CGCAGTATGAGTTG-A
59 CGCA-TATGAGTTGAA
* *
8983587 --TTTTTTGAAAGACAAGAAATTGAAAAT-GCTCACATG-CTTGAGGCTCAACTCATTTTCTCGC
1 TTTTTTTTGAAA-AC-AGAAATTGAAAATACCTCACATGTCTTGAGGCTCAACTCA--CTCTCGC
8983648 AATATGAGTTG-A
62 -ATATGAGTTGAA
* * *
8983660 TTTTTTTTG-ACA-AGAAA-TGAAAATTATCCTCAGCGTGTCCTGAGGCTC-ACTCACCTCTCGC
1 TTTTTTTTGAAAACAGAAATTGAAAA-TA-CCTCA-CATGTCTTGAGGCTCAACTCA-CTCTCGC
8983721 ATATGAGTTGAAA
62 ATATGAGTTG-AA
* *
8983734 TTTTTTTGAAAAAGAAAAGCAGAAATTGAAATAATACCTCACGTG-CTTGAGGCTTCAACTCACT
1 TTTTTTT-----TGAAAA-CAGAAATTG-AA-AATACCTCACATGTCTTGAGGC-TCAACTCACT
8983798 CTCGCAATATGAGTTGAA
57 CTCGC-ATATGAGTTGAA
* *
8983816 TTTTTTTTGAAAATTAAGCAGAAAATTGAAATTACACTCA-ACGTGCTTGAGGCTCAAACT-ACT
1 TTTTTTTTG--AA--AA-CAG-AAATTGAAAATAC-CTCACATGT-CTTGAGGCTC-AACTCAC-
*
8983879 TTTCGCAATTATGAGTTG-A
56 TCTCGC-A-TATGAGTTGAA
* * * * **
8983898 --TTTTTTGAAGACATAAATTGGAACAA-A-CTTACATTGTACTTAAGGCTCAACTCTTTCTCGC
1 TTTTTTTTGAAAACAGAAATT-GAA-AATACCTCACA-TGT-CTTGAGGCTCAACTCACTCTCGC
8983959 AATATGAGTTG-A
62 -ATATGAGTTGAA
*
8983971 -TTTTTTTG-AAA-AG-AATTGAAATTACCTCAGCATGTC-TGAGGCTCAACTCACTCTCGCAAT
1 TTTTTTTTGAAAACAGAAATTGAAAATACCTCA-CATGTCTTGAGGCTCAACTCACTCTCGC-AT
8984031 ATGAGGTTTGAA
64 ATGA-G-TTGAA
* * * * *
8984043 -TTTTGTTG-AAATATAAATTAGAGAATTATACATCA-ACGTGCGTTTGAGGCTCAACATC-CTC
1 TTTTTTTTGAAAACAGAAATT-GA-AA--ATACCTCACATGT-C--TTGAGGCTCAAC-TCACTC
8984104 TCGCAATATGAGTTG-A
58 TCGC-ATATGAGTTGAA
* * * * ** *
8984120 ----TTTTGACAACAGAAATT-AAATTACCTCAGCGTGTCATGAGGCTCAACTCTTTCTCGTAAT
1 TTTTTTTTGAAAACAGAAATTGAAAATACCTCA-CATGTCTTGAGGCTCAACTCACTCTCG-CAT
8984180 ATGAGTT-AA
64 ATGAGTTGAA
8984189 TTTT
1 TTTT
8984193 GAAAAATAAA
Statistics
Matches: 541, Mismatches: 61, Indels: 165
0.71 0.08 0.22
Matches are distributed among these distances:
68 2 0.00
69 52 0.10
70 18 0.03
71 35 0.06
72 42 0.08
73 54 0.10
74 52 0.10
75 46 0.09
76 7 0.01
77 15 0.03
78 21 0.04
79 25 0.05
80 57 0.11
81 25 0.05
82 53 0.10
83 31 0.06
84 4 0.01
85 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (73 bp):
TTTTTTTTGAAAACAGAAATTGAAAATACCTCACATGTCTTGAGGCTCAACTCACTCTCGCATAT
GAGTTGAA
Found at i:8983632 original size:71 final size:73
Alignment explanation
Indices: 8983546--8984192 Score: 309
Period size: 69 Copynumber: 8.6 Consensus size: 73
8983536 AGATGATTAA
* *
8983546 CACGTGCTTGAGGCTCAACTTACTCTCGCAGTATGAGTTG-ATTTTTTGAAAGACAAGAAATTG-
1 CACGTGCTTGAGGCTCAACTCACTCTCGCAATATGAGTTGAATTTTTTGAAAGACAAGAAATTGA
*
8983609 AAAATGCT
66 AAAATCCT
* * **
8983617 CACATGCTTGAGGCTCAACTCATTTTCTCGCAATATGAGTTG-ATTTTTT--TTGACAAGAAA-T
1 CACGTGCTTGAGGCTCAACTCA--CTCTCGCAATATGAGTTGAATTTTTTGAAAGACAAGAAATT
8983678 GAAAATTATCCT
64 GAAAA--ATCCT
* *
8983690 CAGCGTGTCCTGAGGCTC-ACTCACCTCTCGC-ATATGAGTTGAAATTTTTTTGAAAAAGAAAAG
1 CA-CGTG-CTTGAGGCTCAACTCA-CTCTCGCAATATGAGTTG-AA-TTTTTTG--AAAG-ACA-
8983753 CAGAAATTGAAATAATACCT
57 -AGAAATTGAAA-AAT-CCT
*
8983773 CACGTGCTTGAGGCTTCAACTCACTCTCGCAATATGAGTTGAATTTTTTTTGAAA-ATTAAGCAG
1 CACGTGCTTGAGGC-TCAACTCACTCTCGCAATATGAGTTGAA--TTTTTTGAAAGA--CA--AG
*
8983837 AAAATTG-AAATTACACT
59 -AAATTGAAAAAT-C-CT
* *
8983854 CAACGTGCTTGAGGCTCAAACT-ACTTTTCGCAATTATGAGTTG-ATTTTTTG-AAGAC-ATAAA
1 C-ACGTGCTTGAGGCTC-AACTCAC-TCTCGCAA-TATGAGTTGAATTTTTTGAAAGACAAGAAA
*
8983915 TTGGAACAAA-CTT
62 TT-GAA-AAATCCT
* * * ** *
8983928 ACATTGTACTTAAGGCTCAACTCTTTCTCGCAATATGAGTTGATTTTTTTG--A-A-AAG-AATT
1 -CA-CGTGCTTGAGGCTCAACTCACTCTCGCAATATGAGTTGAATTTTTTGAAAGACAAGAAATT
*
8983988 G-AAATTACCT
64 GAAAAAT-CCT
* * *
8983998 CAGCATG-TCTGAGGCTCAACTCACTCTCGCAATATGAGGTTTGAATTTTGTTG-AA-A-TATAA
1 CA-CGTGCT-TGAGGCTCAACTCACTCTCGCAATATGA-G-TTGAATTTT-TTGAAAGACAAGAA
* *
8984059 ATTAGAGAATTATACAT
61 ATT-GA-AA-AAT-CCT
*
8984076 CAACGTGCGTTTGAGGCTCAACATC-CTCTCGCAATATGAGTTG-A--TTTTGACA-AC-AGAAA
1 C-ACGTGC--TTGAGGCTCAAC-TCACTCTCGCAATATGAGTTGAATTTTTTGAAAGACAAGAAA
*
8984135 TT--AAATTACCT
62 TTGAAAAAT-CCT
* ** *
8984146 CAGCGTGTCATGAGGCTCAACTCTTTCTCGTAATATGAGTT-AATTTT
1 CA-CGTG-CTTGAGGCTCAACTCACTCTCGCAATATGAGTTGAATTTT
8984193 GAAAAATAAA
Statistics
Matches: 457, Mismatches: 53, Indels: 132
0.71 0.08 0.21
Matches are distributed among these distances:
68 5 0.01
69 57 0.12
70 15 0.03
71 49 0.11
72 15 0.03
73 48 0.11
74 41 0.09
75 41 0.09
76 1 0.00
77 5 0.01
78 11 0.02
79 6 0.01
80 39 0.09
81 28 0.06
82 53 0.12
83 42 0.09
84 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (73 bp):
CACGTGCTTGAGGCTCAACTCACTCTCGCAATATGAGTTGAATTTTTTGAAAGACAAGAAATTGA
AAAATCCT
Found at i:8983860 original size:82 final size:81
Alignment explanation
Indices: 8983700--8983903 Score: 242
Period size: 82 Copynumber: 2.5 Consensus size: 81
8983690 CAGCGTGTCC
*
8983700 TGAGGCTC-ACTCACCTCTCGC-ATATGAGTTGAAATTTTTTTGAAAAAGAAAAGCAGAAATTGA
1 TGAGGCTCAACTCA-CTCTCGCAATATGAGTTGAATTTTTTTTGAAAAAGAAAAGCAGAAATTGA
8983763 AATAATACCTCACGTGCT
65 AAT-ATACCTCACGTGCT
**
8983781 TGAGGCTTCAACTCACTCTCGCAATATGAGTTGAATTTTTTTTG-AAAA-TTAAGCAGAAAATTG
1 TGAGGC-TCAACTCACTCTCGCAATATGAGTTGAATTTTTTTTGAAAAAGAAAAGCAG-AAATTG
8983844 AAAT-TACACTCAACGTGCT
64 AAATATAC-CTC-ACGTGCT
*
8983863 TGAGGCTCAAACT-ACTTTTCGCAATTATGAGTTG-ATTTTTT
1 TGAGGCTC-AACTCAC-TCTCGCAA-TATGAGTTGAATTTTTT
8983904 GAAGACATAA
Statistics
Matches: 110, Mismatches: 4, Indels: 17
0.84 0.03 0.13
Matches are distributed among these distances:
80 3 0.03
81 19 0.17
82 54 0.49
83 34 0.31
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (81 bp):
TGAGGCTCAACTCACTCTCGCAATATGAGTTGAATTTTTTTTGAAAAAGAAAAGCAGAAATTGAA
ATATACCTCACGTGCT
Found at i:8984555 original size:78 final size:74
Alignment explanation
Indices: 8984384--8984576 Score: 229
Period size: 78 Copynumber: 2.6 Consensus size: 74
8984374 TACTCTAGCG
* *
8984384 TGTCTTGAGGCTCAACTCATTCT-TCGC-ATA-GAGTTGATTTTTTTTGAAAAAAAAATTGAAAA
1 TGTCTTGAGG-TCAACTCATTTTCTCGCAATATGAGTTGAATTTTTTTGAAAAAAAAATTGAAAA
8984446 TACTACAACA
65 TACTACAACA
*
8984456 TGTCTTGAGG-C-ACTCA--TTCTCGCAATATGAGTTGAATTTTTTTGAAAGACAAAATTGAAAA
1 TGTCTTGAGGTCAACTCATTTTCTCGCAATATGAGTTGAATTTTTTTGAAA-AAAAAATTGAAAA
* **
8984517 TACTGGCTCAGGA
65 TACT---ACAACA
*
8984530 TGTCTTGAGGTCAACTCATTTTCTCGCAATATGAGTTGAGTTTTTTT
1 TGTCTTGAGGTCAACTCATTTTCTCGCAATATGAGTTGAATTTTTTT
8984577 TTGACAAAGA
Statistics
Matches: 103, Mismatches: 7, Indels: 16
0.82 0.06 0.13
Matches are distributed among these distances:
67 1 0.01
68 4 0.04
69 8 0.08
70 19 0.18
71 16 0.16
72 10 0.10
74 13 0.13
75 1 0.01
76 5 0.05
78 26 0.25
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.37
Consensus pattern (74 bp):
TGTCTTGAGGTCAACTCATTTTCTCGCAATATGAGTTGAATTTTTTTGAAAAAAAAATTGAAAAT
ACTACAACA
Found at i:8984610 original size:76 final size:73
Alignment explanation
Indices: 8984373--8984623 Score: 204
Period size: 76 Copynumber: 3.4 Consensus size: 73
8984363 GAAAGTTGAA
*
8984373 ATACTCTAGCGTGTCTTGAGGCTCAACTCATTCT-TCGC-ATA-GAGTTGA-TTTTTTTTGAAAA
1 ATACTC-AGCGTGTCTTGAGGCTCAACTCATTTTCTCGCAATATGAGTTGATTTTTTTTTG---A
*
8984434 AAAAATTGAAA-
62 CAAAATTGAAAT
* * **
8984445 ATACTACAACATGTCTTGAGG--C-ACTCA--TTCTCGCAATATGAGTTGAATTTTTTTGAAAGA
1 ATACT-CAGCGTGTCTTGAGGCTCAACTCATTTTCTCGCAATATGAGTTG-ATTTTTTT--TTGA
8984505 CAAAATTGAAAAT
62 CAAAATTG-AAAT
*
8984518 ACTGGCTCAG-GATGTCTTGAGG-TCAACTCATTTTCTCGCAATATGAGTTGAGTTTTTTTTTGA
1 A-T-ACTCAGCG-TGTCTTGAGGCTCAACTCATTTTCTCGCAATATGAGTTGA-TTTTTTTTTGA
8984581 CAAAGATTGATAGAT
62 CAAA-ATTGA-A-AT
8984596 ATACTCAGCGTGTC-TGAGGCTCAACTCA
1 ATACTCAGCGTGTCTTGAGGCTCAACTCA
8984624 CCTCGCAGAT
Statistics
Matches: 144, Mismatches: 12, Indels: 42
0.73 0.06 0.21
Matches are distributed among these distances:
67 1 0.01
68 4 0.03
69 8 0.06
70 7 0.05
71 9 0.06
72 26 0.18
73 2 0.01
74 14 0.10
75 8 0.06
76 29 0.20
77 8 0.06
78 28 0.19
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (73 bp):
ATACTCAGCGTGTCTTGAGGCTCAACTCATTTTCTCGCAATATGAGTTGATTTTTTTTTGACAAA
ATTGAAAT
Found at i:8985066 original size:144 final size:139
Alignment explanation
Indices: 8984899--8985429 Score: 531
Period size: 144 Copynumber: 3.7 Consensus size: 139
8984889 GTGAAACGCG
8984899 GGCTCAATCTCA-CCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACC
1 GGCTCAA-CTCAGCCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACC
*
8984963 CAAACTCTTCGCATAT-TGAGTTGATTCTTGAACAAACGATAAATTGAAACAGAAATTGAAATTA
65 C--ACTC-TCGCATATATGAGTTGATTCTTGAACAAACG-TAAATTGAAAC-GAAATTGAAAATA
8985027 CTCAGCGTGA-CTGA
125 CTCAGCGTGACCTGA
* *
8985041 GGCTCAACTTCACGCCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAGGGTTTAA-
1 GGCTCAAC-TCA-GCCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAAC
* * *
8985105 CCACTTTCGGCA-ATTATTGGGGAAAGTTTATTCGTTGAA-TAACGTTAAATTGAAACG-AATTG
64 CCACTCTC-GCATA-TA-T---G--AGTTGATTC-TTGAACAAACG-TAAATTGAAACGAAATTG
8985167 AAAATAC-CTAGC-TGGACTCTGA
119 AAAATACTC-AGCGT-GAC-CTGA
*
8985189 -GCTCAACTCAGCCTCTGCGCAA-ATGAGCTGAATTTTTGAAAAAGCTAGAACTTAAAATAGGTT
1 GGCTCAACTCAGCCTCT-CGCAATATGAGCTG-A-TTTTGAAAAAG-TAGAAATT-AAA-AGGTT
*
8985252 C-ACCCACTCTCGCA-AGTATGAGTTGATTCTTGAAC-AACGTACATTTGTAAAAACGGAAATTG
60 CAACCCACTCTCGCATA-TATGAGTTGATTCTTGAACAAACGTA-AATTG---AAAC-GAAATTG
8985314 AAAATACTCAGCGTGACCTGA
119 AAAATACTCAGCGTGACCTGA
*
8985335 GGCTCAACTCA-CCTCTCGCAATATGAGCTGATTTTGAAAAAGGTAGAAATTAAAA-GTT-AAAC
1 GGCTCAACTCAGCCTCTCGCAATATGAGCTGATTTTGAAAAA-GTAGAAATTAAAAGGTTCAACC
8985397 CACGTCTCGCAT-TATGAGTTGATTTCTTGAACA
65 CAC-TCTCGCATATATGAGTTGA-TTCTTGAACA
8985430 TAGAATTGAA
Statistics
Matches: 332, Mismatches: 16, Indels: 81
0.77 0.04 0.19
Matches are distributed among these distances:
140 3 0.01
141 28 0.08
142 40 0.12
143 14 0.04
144 65 0.20
145 28 0.08
146 44 0.13
147 47 0.14
148 37 0.11
149 15 0.05
150 11 0.03
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (139 bp):
GGCTCAACTCAGCCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCC
ACTCTCGCATATATGAGTTGATTCTTGAACAAACGTAAATTGAAACGAAATTGAAAATACTCAGC
GTGACCTGA
Found at i:8985479 original size:141 final size:147
Alignment explanation
Indices: 8984856--8985485 Score: 418
Period size: 144 Copynumber: 4.3 Consensus size: 147
8984846 GATTTTTTTT
*
8984856 TTTG-AAAGACAGAAATTGAAAATACCTCAGCATGTGAAACGC-G-GGCTCAATCTCA-CCTCT-
1 TTTGTAAAAACAGAAATTGAAAATA-CTCAGC--GTG--AC-CTGAGGCTCAA-CTCAGCCTCTG
*
8984916 CGCAATATGAGCTG-A-TTTTGAAAAAG-TAGAAATT-AAA-AGGTTCAACCCAAACTCTTCGC-
59 CGCAA-ATGAGCTGAATTTTTGAAAAAGCTAGAAATTAAAATAGGTT-AAACC--ACTC-TCGCA
8984975 A-TATTGAGTTGATTCTTGAACAAACGATA-A
119 AGTA-TGAGTTGATTCTTGAAC-AACG-TACA
* *
8985005 ATTG---AAACAGAAATTGAAATTACTCAGCGTGA-CTGAGGCTCAACTTCACGCCTCT-CGCAA
1 TTTGTAAAAACAGAAATTGAAAATACTCAGCGTGACCTGAGGCTCAAC-TCA-GCCTCTGCGCAA
* * * *
8985065 TATGAGCTG-A-TTTTGAAAAAG-TAGAAATT-AAA-GGGTTTAACCACTTTCGGCAATTATTGG
64 -ATGAGCTGAATTTTTGAAAAAGCTAGAAATTAAAATAGGTTAAACCACTCTC-GCAAGTA-T--
* *
8985125 GGAAAGTTTATTCGTTGAATAACGTTA-A
124 -G--AGTTGATTC-TTGAACAACG-TACA
*
8985153 ATTG---AAAC-G-AATTGAAAATAC-CTAGC-TGGACTCTGA-GCTCAACTCAGCCTCTGCGCA
1 TTTGTAAAAACAGAAATTGAAAATACTC-AGCGT-GAC-CTGAGGCTCAACTCAGCCTCTGCGCA
* * *
8985210 AATGAGCTGAATTTTTGAAAAAGCTAGAACTTAAAATAGGTTCACCCACTCTCGCAAGTATGAGT
63 AATGAGCTGAATTTTTGAAAAAGCTAGAAATTAAAATAGGTTAAACCACTCTCGCAAGTATGAGT
8985275 TGATTCTTGAACAACGTACA
128 TGATTCTTGAACAACGTACA
*
8985295 TTTGTAAAAACGGAAATTGAAAATACTCAGCGTGACCTGAGGCTCAACTCA-CCTCT-CGCAATA
1 TTTGTAAAAACAGAAATTGAAAATACTCAGCGTGACCTGAGGCTCAACTCAGCCTCTGCGCAA-A
* *
8985358 TGAGCTG-A-TTTTGAAAAAGGTAGAAATT-AAA-A-GTTAAACCACGTCTCGC-ATTATGAGTT
65 TGAGCTGAATTTTTGAAAAAGCTAGAAATTAAAATAGGTTAAACCAC-TCTCGCAAGTATGAGTT
8985417 GATTTCTTGAACATA-G-A-A
129 GA-TTCTTGAACA-ACGTACA
*
8985435 -TTG-AACAACAG-AATTG-AAATACCCTTCAGCAGTGACCTTGAGGCTCAACTC
1 TTTGTAAAAACAGAAATTGAAAATA--C-TCAGC-GTGACC-TGAGGCTCAACTC
8985486 CCTATCGATT
Statistics
Matches: 412, Mismatches: 27, Indels: 92
0.78 0.05 0.17
Matches are distributed among these distances:
136 5 0.01
137 5 0.01
138 7 0.02
139 8 0.02
140 10 0.02
141 42 0.10
142 43 0.10
143 19 0.05
144 67 0.16
145 27 0.07
146 50 0.12
147 63 0.15
148 37 0.09
149 17 0.04
150 12 0.03
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (147 bp):
TTTGTAAAAACAGAAATTGAAAATACTCAGCGTGACCTGAGGCTCAACTCAGCCTCTGCGCAAAT
GAGCTGAATTTTTGAAAAAGCTAGAAATTAAAATAGGTTAAACCACTCTCGCAAGTATGAGTTGA
TTCTTGAACAACGTACA
Found at i:8997171 original size:11 final size:11
Alignment explanation
Indices: 8997144--8997186 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
8997134 AATGGCATTA
*
8997144 AAAATATATAC
1 AAAATATATAT
*
8997155 ATAATATATAT
1 AAAATATATAT
*
8997166 AAAATACATAT
1 AAAATATATAT
*
8997177 AATATATATA
1 AAAATATATA
8997187 CGTATTAGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAATATATAT
Found at i:8997725 original size:11 final size:12
Alignment explanation
Indices: 8997709--8997743 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
8997699 AAGAAAAAAA
8997709 AAGAGAG-AGGG
1 AAGAGAGAAGGG
8997720 AAGAGAGAAGGG
1 AAGAGAGAAGGG
8997732 -AGAGAGAAGGG
1 AAGAGAGAAGGG
8997743 A
1 A
8997744 GGGGGGAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (12 bp):
AAGAGAGAAGGG
Found at i:8997883 original size:10 final size:10
Alignment explanation
Indices: 8997841--8997890 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
8997831 TCGGAAAAGG
8997841 TATTTTTTTA
1 TATTTTTTTA
*
8997851 TATTTGTTTTG
1 TATTT-TTTTA
*
8997862 TA--TTTATA
1 TATTTTTTTA
*
8997870 TATTTTATTA
1 TATTTTTTTA
8997880 TATTTTTTTA
1 TATTTTTTTA
8997890 T
1 T
8997891 TATGATGTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
8 5 0.16
9 1 0.03
10 19 0.61
11 6 0.19
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (10 bp):
TATTTTTTTA
Found at i:8999365 original size:72 final size:72
Alignment explanation
Indices: 8999149--8999865 Score: 627
Period size: 72 Copynumber: 9.5 Consensus size: 72
8999139 GTGATCTGAA
* *
8999149 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAGACGGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACCTCAGC
*
8999214 ATGTAAACCGAG
64 GTGT---CCGAG
* *
8999226 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAACG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
*
8999291 TGTCTTGAG
65 TGTC-CGAG
** * * *
8999300 GCTCAACTCATTTCTCGTAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCGT
8999364 GTCCCGAG
66 GT-CCGAG
* *
8999372 GCTCAACTCACCTCTCGCAATATGAGTTTATTTTTTTGAAAGACAGAAATTAAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAAATACCTCAGC
*
8999437 ATGTGAACCGAG
64 --GTG-TCCGAG
* * * *
8999449 TCTCAACTCACCTTTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAACG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
*
8999514 TGTCTTGAG
65 TGTC-CGAG
* ** * *
8999523 GCTCAACTTATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAAGTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCGT
8999587 GTCCCGAG
66 GT-CCGAG
* * * * **
8999595 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAGCATAAATTGAAAAAACATTA-AT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA-CAGAAATTGAAAATACCTCAGCG
*
8999658 TGAAAATACCTTAGCG
65 TG----T-CC---GAG
* * * *
8999674 TGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAATAGAATTTGAA
1 -G-CTC-A-ACTC-----ACCTCTCGCAATATGAGTTGA-TTTTTTG---AAAACAGAAATTGAA
* *
8999739 AATATCTCAGCATGTCCTGAG
53 AATACCTCAGCGTGTCC-GAG
* * *
8999760 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACAAAAATTGAAATTATCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAACAGAAATTGAAAATACCTCAGCG
* *
8999824 TCT-TGAG
65 TGTCCGAG
* * *
8999831 GCTCAACTCACTTTTCGAAATATGAGTTGATTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
8999866 GTTTGAAACA
Statistics
Matches: 527, Mismatches: 78, Indels: 75
0.77 0.11 0.11
Matches are distributed among these distances:
71 30 0.06
72 141 0.27
73 42 0.08
74 67 0.13
75 27 0.05
76 48 0.09
77 105 0.20
79 2 0.00
80 1 0.00
81 2 0.00
82 4 0.01
83 4 0.01
84 2 0.00
85 1 0.00
86 2 0.00
88 23 0.04
89 1 0.00
90 6 0.01
92 13 0.02
93 6 0.01
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (72 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCGT
GTCCGAG
Found at i:8999430 original size:223 final size:224
Alignment explanation
Indices: 8999149--8999886 Score: 954
Period size: 223 Copynumber: 3.3 Consensus size: 224
8999139 GTGATCTGAA
* *
8999149 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-TTT-AAAGACGGAAATTGAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTATTTGAAAGACAGAAATTAAAAATACCTCA
8999212 GCATGTAAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTG
66 GCATGT-AACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTG
*
8999277 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTGAATTTTGAAAACA
130 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA
8999342 GAAATTGAAATTACCTCAGCGTGTCCCGAG
195 GAAATTGAAATTACCTCAGCGTGTCCCGAG
*
8999372 GCTCAACTCACCTCTCGCAATATGAGTTTA-TTTT-TTTGAAAGACAGAAATTAAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTATTTGAAAGACAGAAATTAAAAATACCTCA
* *
8999435 GCATGTGAACCGAGTCTCAACTCACCTTTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTG
66 GCATGT-AACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTG
*
8999500 AAAATACCTCAACGTGTCTTGAGGCTCAACTTATTTCTCGCAATATGAGTTGAATTTTGAAAACA
130 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA
*
8999565 GAAATTGAAAGTACCTCAGCGTGTCCCGAG
195 GAAATTGAAATTACCTCAGCGTGTCCCGAG
* ** *
8999595 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCATAAATTGAAAAAACATTAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-------AT---TTG-AAAGACAGAAATTA
* * * *
8999660 AAAATACCTTAGCGTGT-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATA
55 AAAATACCTCAGCATGTAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTG---
* * * * * * **
8999724 AAAATAGAATTTGAAAATATCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
117 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
* * * **
8999789 ATTTTTGACAAACAAAAATTGAAATTATCTCAGC--GTCTTGAG
182 AATTTTGA-AAACAGAAATTGAAATTACCTCAGCGTGTCCCGAG
* * * * *
8999831 GCTCAACTCACTTTTCGAAATATGAGTTGATTTTTGTTTG-AA-ACATAAATTAAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTATTTGAAAGACAGAAATTAAAAA
8999887 AATAAAAATT
Statistics
Matches: 456, Mismatches: 41, Indels: 36
0.86 0.08 0.07
Matches are distributed among these distances:
222 7 0.02
223 247 0.54
224 6 0.01
226 3 0.01
229 1 0.00
232 1 0.00
234 40 0.09
235 3 0.01
236 63 0.14
237 63 0.14
238 22 0.05
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (224 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTATTTGAAAGACAGAAATTAAAAATACCTCA
GCATGTAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGA
AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAG
AAATTGAAATTACCTCAGCGTGTCCCGAG
Found at i:8999773 original size:77 final size:74
Alignment explanation
Indices: 8999655--8999865 Score: 268
Period size: 77 Copynumber: 2.8 Consensus size: 74
8999645 AAAAAACATT
* * *
8999655 AATTGAAAATACCTTAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAAATATCTCAGC-TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
*
8999720 GATAAA-AATA
65 GACAAACAA-A
8999730 GAATTTGAAAATATCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
1 -AA-TTGAAAATATCTCAGC-TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
8999793 TTGACAAACAAA
63 TTGACAAACAAA
* * * * *
8999805 AATTGAAATTATCTCAGC-GTCTTGAGGCTCAACTCACTTTTCGAAATATGAGTTGATTTTT
1 AATTGAAAATATCTCAGCTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
8999866 GTTTGAAACA
Statistics
Matches: 121, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
71 34 0.28
73 18 0.15
74 2 0.02
75 11 0.09
76 4 0.03
77 52 0.43
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.33
Consensus pattern (74 bp):
AATTGAAAATATCTCAGCTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
ACAAACAAA
Found at i:8999810 original size:165 final size:160
Alignment explanation
Indices: 8999495--8999812 Score: 440
Period size: 165 Copynumber: 2.0 Consensus size: 160
8999485 TGAAAACAGA
** * **
8999495 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTTATTTCTCGCAATATGAGTTGAATTTTGA
1 AATTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGA
* *
8999560 AAACAGAAATTGAAAGTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
66 AAACAGAAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
8999625 TTTTTGAAAAGCATAAATTGAAAAAACATT
131 TTTTTGAAAAGCAAAAATTGAAAAAACATT
* * *
8999655 AATTGAAAATACCTTAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTT
* * * *
8999720 GATAAAAATAGAATTTGAAAATATCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
64 G---AAAACAGAAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
8999785 GTTGATTTTTGACAAA-CAAAAATTGAAA
126 GTTGATTTTTGA-AAAGCAAAAATTGAAA
8999813 TTATCTCAGC
Statistics
Matches: 137, Mismatches: 15, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
160 51 0.37
162 5 0.04
165 78 0.57
166 3 0.02
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (160 bp):
AATTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGA
AAACAGAAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTGAAAAGCAAAAATTGAAAAAACATT
Found at i:8999906 original size:238 final size:233
Alignment explanation
Indices: 8999418--8999953 Score: 680
Period size: 238 Copynumber: 2.3 Consensus size: 233
8999408 TGAAAGACAG
* ** * * *
8999418 AAATTAAAAATACCTCAGCATGTGAACCGAGTCTCAACTCACCTTTCGCAATATAAGTTGATTTT
1 AAATTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * * **
8999483 TTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTTATTTCTCGCAATATGA
64 TTTGAAAACAGAAATTGAAAATACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* *
8999548 GTTGAATTTTGAAAACAGAAATTGAAAGTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
129 GTTGAATTTTGAAAACAAAAATTGAAAGTACCTCAGCG-GTCCCGAGGCTCAACTCACCTCTCGA
* *
8999613 AATATGAGTTGATTTTTGAAAAGCATAAATTGAAAAAACAT
193 AATATGAGTTGATTTTTGAAAAGCATAAATTAAAAAAACAA
* *
8999654 TAATTGAAAATACCTTAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* * * *
8999719 TGATAAAAATAGAATTTGAAAATATCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATG
66 TG---AAAACAGAAATTGAAAATACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGCAATATG
* * * ** * *
8999784 AGTTGATTTTTGACAAACAAAAATTGAAATTATCTCAGC-GTCTTGAGGCTCAACTCACTTTTCG
128 AGTTGAATTTTGA-AAACAAAAATTGAAAGTACCTCAGCGGTCCCGAGGCTCAACTCACCTCTCG
* *
8999848 AAATATGAGTTGATTTTTGTTTGAAA-CATAAATTAAAAAAATAA
192 AAATATGAGTTGATTTTTG---AAAAGCATAAATTAAAAAAACAA
**
8999892 AAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
8999954 GAAAAGCAGA
Statistics
Matches: 259, Mismatches: 34, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
234 43 0.17
236 55 0.21
237 63 0.24
238 95 0.37
239 3 0.01
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (233 bp):
AAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGAAAACAGAAATTGAAAATACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGAATTTTGAAAACAAAAATTGAAAGTACCTCAGCGGTCCCGAGGCTCAACTCACCTCTCGAAAT
ATGAGTTGATTTTTGAAAAGCATAAATTAAAAAAACAA
Found at i:9000099 original size:13 final size:13
Alignment explanation
Indices: 9000056--9000100 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
9000046 TTGATTTTTG
9000056 AAAAACAGAAATT
1 AAAAACAGAAATT
* *
9000069 AAAAGCCGAAATT
1 AAAAACAGAAATT
*
9000082 GAAAAACATAAATT
1 -AAAAACAGAAATT
9000096 AAAAA
1 AAAAA
9000101 TACCTCGGCG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
13 16 0.62
14 10 0.38
ACGTcount: A:0.67, C:0.09, G:0.09, T:0.16
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:9000116 original size:100 final size:101
Alignment explanation
Indices: 8999892--9000172 Score: 397
Period size: 100 Copynumber: 2.8 Consensus size: 101
8999882 AAAAAAATAA
* **
8999892 AAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTG
1 AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* * *
8999955 AAAAGCAGAATTTGTAAGGCAAAAATTGAAAAACAG
66 AAAAGCAGAAATTGAAAAGCAAAAATTGAAAAACAG
*
8999991 AAATTGAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* ** *
9000056 AAAAACAGAAATT-AAAAGCCGAAATTGAAAAACAT
66 AAAAGCAGAAATTGAAAAGCAAAAATTGAAAAACAG
* * * *
9000091 AAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCTCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
9000156 AAAAGCATAAATTGAAA
66 AAAAGCAGAAATTGAAA
9000173 TTACCTGAGC
Statistics
Matches: 161, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
99 55 0.34
100 88 0.55
101 18 0.11
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (101 bp):
AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAAGCAGAAATTGAAAAGCAAAAATTGAAAAACAG
Found at i:9000178 original size:73 final size:74
Alignment explanation
Indices: 9000080--9000247 Score: 250
Period size: 73 Copynumber: 2.3 Consensus size: 74
9000070 AAAGCCGAAA
* * * *
9000080 TTGAAAAACATAAATTAAAAATACCTCG-GCGTGCCCCGAGGCTCAGCTCACCTCTCTCAATATG
1 TTGAAAAGCATAAATTGAAAATACCT-GAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATG
9000144 AGTTGA-TTT
65 AGTTGATTTT
* * *
9000153 TTGAAAAGCATAAATTGAAATTACCTGAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTGAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
9000218 GTTGATTTT
66 GTTGATTTT
9000227 TTGAAAAGCATAAATTGAAAA
1 TTGAAAAGCATAAATTGAAAA
9000248 AACGGAAATT
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
72 1 0.01
73 61 0.72
74 23 0.27
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (74 bp):
TTGAAAAGCATAAATTGAAAATACCTGAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTT
Found at i:9012726 original size:11 final size:11
Alignment explanation
Indices: 9012699--9012741 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
9012689 ATGGCATTAA
*
9012699 AAAATATATAC
1 AAAATATATAT
*
9012710 ATAATATATAT
1 AAAATATATAT
*
9012721 AAAATACATAT
1 AAAATATATAT
*
9012732 AATATATATA
1 AAAATATATA
9012742 CGTATTAGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAATATATAT
Found at i:9013247 original size:11 final size:12
Alignment explanation
Indices: 9013231--9013266 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
9013221 AGAAAAAAAC
9013231 GAAGAGAG-AGG
1 GAAGAGAGAAGG
9013242 GAAGAGAGAAGG
1 GAAGAGAGAAGG
9013254 G-AGAGAGAAGG
1 GAAGAGAGAAGG
9013265 GA
1 GA
9013267 GGGGAAGGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:9013267 original size:11 final size:11
Alignment explanation
Indices: 9013233--9013276 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
9013223 AAAAAAACGA
9013233 AGAGAG-AGGG
1 AGAGAGAAGGG
9013243 AAGAGAGAAGGG
1 -AGAGAGAAGGG
9013255 AGAGAGAAGGG
1 AGAGAGAAGGG
*
9013266 AG-GGGAAGGG
1 AGAGAGAAGGG
9013276 A
1 A
9013277 ATCCGGCCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
10 8 0.26
11 19 0.61
12 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (11 bp):
AGAGAGAAGGG
Found at i:9013772 original size:18 final size:18
Alignment explanation
Indices: 9013749--9013799 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
9013739 CAAAAATCTT
9013749 GGTTTTTTTGGGGGGTTA
1 GGTTTTTTTGGGGGGTTA
**
9013767 GGTTTTTTTTTGGGGTTA
1 GGTTTTTTTGGGGGGTTA
9013785 GGTTTTTTTGGGGGG
1 GGTTTTTTTGGGGGG
9013800 CTTAATGGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.04, C:0.00, G:0.43, T:0.53
Consensus pattern (18 bp):
GGTTTTTTTGGGGGGTTA
Found at i:9015727 original size:22 final size:22
Alignment explanation
Indices: 9015702--9015776 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
9015692 TATGAAATAG
*
9015702 ATATAAAAAAAATATGTACATA
1 ATATAAAAAAAATATATACATA
* *
9015724 ATATAGTGTAAAAAATACATACATA
1 ATATA---AAAAAAATATATACATA
** *
9015749 ATATAATTAAAATATTTACATA
1 ATATAAAAAAAATATATACATA
*
9015771 AGATAA
1 ATATAA
9015777 CATGTAGAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
22 22 0.54
25 19 0.46
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (22 bp):
ATATAAAAAAAATATATACATA
Found at i:9015840 original size:23 final size:25
Alignment explanation
Indices: 9015713--9015920 Score: 96
Period size: 23 Copynumber: 8.6 Consensus size: 25
9015703 TATAAAAAAA
* * * *
9015713 ATATGTACATAATATAGTGTAAAAA
1 ATATATACATAATATAGTATTAAAG
*
9015738 ATACATACATAATATA--ATTAAA-
1 ATATATACATAATATAGTATTAAAG
* * ** *
9015760 ATATTTACATAAGATAACATGTAGAAAAA
1 ATATATACAT-A-AT-ATA-GTATTAAAG
* *
9015789 AAATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
9015814 ATATATACATAAAATAGTA-T-AAT
1 ATATATACATAATATAGTATTAAAG
* * *
9015837 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
9015861 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
9015883 AATATATATATAATATAATATTAAA-
1 -ATATATACATAATATAGTATTAAAG
*
9015908 AAATATA-ATAATA
1 ATATATACATAATA
9015921 ACAAAAGAAA
Statistics
Matches: 137, Mismatches: 33, Indels: 28
0.69 0.17 0.14
Matches are distributed among these distances:
21 1 0.01
22 10 0.07
23 43 0.31
24 24 0.18
25 39 0.28
26 6 0.04
27 2 0.01
28 5 0.04
29 7 0.05
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.33
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:9016247 original size:16 final size:16
Alignment explanation
Indices: 9016209--9016247 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9016199 AAAAAAAAAA
*
9016209 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
9016225 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
9016241 AATAACT
1 AAAAACT
9016248 CTTTTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:9016442 original size:30 final size:30
Alignment explanation
Indices: 9016405--9016500 Score: 174
Period size: 30 Copynumber: 3.2 Consensus size: 30
9016395 TAGGTACAAG
*
9016405 TGGTGGTGGAGCAAGTGTGGCTAATGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
9016435 AGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
9016465 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
9016495 TGGTGG
1 TGGTGG
9016501 GCTAGGATTT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.18, C:0.06, G:0.50, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:9016463 original size:18 final size:18
Alignment explanation
Indices: 9016440--9016493 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
9016430 GGAGTAGGTG
9016440 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
9016458 GT-G-G--AGT-TGG-TG
1 GTGGAGCAAGTGTGGCTA
9016470 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
9016488 GTGGAG
1 GTGGAG
9016494 TTGGTGGGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 3 0.11
13 4 0.14
14 4 0.14
16 4 0.14
17 4 0.14
18 9 0.32
ACGTcount: A:0.19, C:0.07, G:0.50, T:0.24
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:9019731 original size:84 final size:84
Alignment explanation
Indices: 9019596--9020421 Score: 1014
Period size: 84 Copynumber: 9.8 Consensus size: 84
9019586 TACAGATCTT
* * * ** * * *
9019596 ATCT-CCCTAAGCAGTAGGGGAGTAGATTAAAGACAATGAACCTTAACCCCCTAAACAGTAGGGT
1 ATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGT
* *
9019660 AATAGGTTAGAAAATACAG
66 AACAGGCTAGAAAATACAG
** *
9019679 ATCTCCTTTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAAACCCCTAAGCAGTAGGGT
1 ATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGT
*
9019744 AACAGGCTGGAAAATACAG
66 AACAGGCTAGAAAATACAG
** * * *
9019763 ATCTCCCCTAAACAGTAGCAGATCAGATCAAAGACAGTGAGCCTTAACCCCTTAAGCAGTAGGGT
1 ATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGT
9019828 AACAGGCTAGAAAATACAG
66 AACAGGCTAGAAAATACAG
* * * * *
9019847 ATCTCCCCTAAACAGTAGTCGAGAAGATCGAAGACAGTGAGCGTTAAACCCTTAAGCAGTAGGGT
1 ATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGT
*
9019912 AACAGGCTGGAAAATACAG
66 AACAGGCTAGAAAATACAG
9019931 ATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGT
1 ATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGT
*
9019996 AACAGGCTAGAAAATACAT
66 AACAGGCTAGAAAATACAG
* *
9020015 ATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCTTGAGCAGTAGGGT
1 ATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGT
9020080 AACAGGCT-GAAAAATACAG
66 AACAGGCTAG-AAAATACAG
* **
9020099 ATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGATAGCAAGCCTTAACCCCCTAAGCAGTAGGGT
1 ATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGT
*
9020164 AATAGGCT-GAAAAATACAG
66 AACAGGCTAG-AAAATACAG
* * * * ** * *
9020183 ATCTCCCCTAAATAGTAGTGGAGTAGATTGAAGTCAGCAAGCTTTAACCCCCTAAGCAGTAGAGT
1 ATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGT
9020248 AACAGGCTA-AAAATTACAG
66 AACAGGCTAGAAAA-TACAG
* * * *
9020267 ATCTTATATCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGTGAGCCTTAACCCCCTAAGCAGTA
1 ATC---T-CCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTA
* * *
9020332 GGGTAGCAGGCT-GAAGATTATAG
62 GGGTAACAGGCTAGAA-AATACAG
* * * * * * **
9020355 ATCTTATCTCCCTAAGCAGTAGTGGAACAGATAGGAGACGGTGAGCCTTATCCTTCTAAGCAGTA
1 ATC---TC-CCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTA
9020420 GG
62 GG
9020422 AAAATATGCT
Statistics
Matches: 654, Mismatches: 78, Indels: 17
0.87 0.10 0.02
Matches are distributed among these distances:
83 9 0.01
84 523 0.80
87 1 0.00
88 120 0.18
89 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (84 bp):
ATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGT
AACAGGCTAGAAAATACAG
Found at i:9019985 original size:44 final size:44
Alignment explanation
Indices: 9019935--9020065 Score: 132
Period size: 44 Copynumber: 3.1 Consensus size: 44
9019925 ATACAGATCT
9019935 CCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAAC
1 CCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAAC
* * * * * *
9019979 CCCCTAAGCAGTAG-GGTAACAGGCTAGAA-A-A-T-A--CATATC
1 CCCCTAAACAGTAGTGG-AGCA-GATCGAAGACAGTGAGCCTTAAC
9020018 TCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAAC
1 -CCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAAC
9020063 CCC
1 CCC
9020066 TTGAGCAGTA
Statistics
Matches: 65, Mismatches: 12, Indels: 20
0.67 0.12 0.21
Matches are distributed among these distances:
39 9 0.14
40 17 0.26
41 4 0.06
42 2 0.03
43 4 0.06
44 20 0.31
45 9 0.14
ACGTcount: A:0.34, C:0.26, G:0.23, T:0.17
Consensus pattern (44 bp):
CCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAAC
Found at i:9020368 original size:44 final size:44
Alignment explanation
Indices: 9020232--9020376 Score: 116
Period size: 44 Copynumber: 3.3 Consensus size: 44
9020222 AGCTTTAACC
* * * * * *
9020232 CCCTAAGCAGTAGAGTAACAGGCTAAAAATTACAGATCTTATAT
1 CCCTAAGCAGTAGGGTAGCAGGCTGAAGATTATAGATCTTATCT
** *** * * *
9020276 CCCTAAGCAGTAGTGG-AGCA-AATCGAAGACGGT-GAGCCTTAACC
1 CCCTAAGCAGTAG-GGTAGCAGGCT-GAAGATTATAGA-TCTTATCT
9020320 CCCTAAGCAGTAGGGTAGCAGGCTGAAGATTATAGATCTTATCT
1 CCCTAAGCAGTAGGGTAGCAGGCTGAAGATTATAGATCTTATCT
9020364 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
9020377 TGGAACAGAT
Statistics
Matches: 73, Mismatches: 22, Indels: 12
0.68 0.21 0.11
Matches are distributed among these distances:
43 5 0.07
44 64 0.88
45 4 0.05
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGTAGCAGGCTGAAGATTATAGATCTTATCT
Found at i:9020405 original size:44 final size:43
Alignment explanation
Indices: 9020269--9020420 Score: 121
Period size: 44 Copynumber: 3.5 Consensus size: 43
9020259 AATTACAGAT
* *
9020269 CTTATATCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGTGAGC
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGAT-GAAGACGGTGAGC
* * * *** *
9020313 CTTAACCCCCTAAGCAGTAG-GGTAGCAGGCTGAAGATTAT-AGAT
1 CTTATCTCCCTAAGCAGTAGTGG-AGCA-GATGAAGACGGTGAG-C
* *
9020357 CTTATCTCCCTAAGCAGTAGTGGAACAGATAGGAGACGGTGAGC
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGAT-GAAGACGGTGAGC
*
9020401 CTTATC-CTTCTAAGCAGTAG
1 CTTATCTC-CCTAAGCAGTAG
9020421 GAAAATATGC
Statistics
Matches: 82, Mismatches: 19, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
43 7 0.09
44 70 0.85
45 5 0.06
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (43 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATGAAGACGGTGAGC
Found at i:9020943 original size:5 final size:5
Alignment explanation
Indices: 9020908--9020957 Score: 57
Period size: 5 Copynumber: 9.6 Consensus size: 5
9020898 AAATAGGAAG
*
9020908 ATTTG ATTTT GATTTT GATTTT -TTATT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT -ATTTT -ATTTT ATT-TT ATTTT ATTTT ATTTT ATTTT
9020955 ATT
1 ATT
9020958 ATTAAATTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
4 2 0.05
5 26 0.63
6 13 0.32
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (5 bp):
ATTTT
Found at i:9021588 original size:12 final size:12
Alignment explanation
Indices: 9021573--9021615 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
9021563 TCAACTATTA
9021573 TTATATTTCTATTT
1 TTATATTTCTA--T
9021587 ATTATATTTCTAT
1 -TTATATTTCTAT
*
9021600 TTATATTACTAT
1 TTATATTTCTAT
9021612 TTAT
1 TTAT
9021616 TGACATTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 15 0.56
13 1 0.04
15 11 0.41
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (12 bp):
TTATATTTCTAT
Found at i:9021588 original size:15 final size:15
Alignment explanation
Indices: 9021556--9021603 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
9021546 ATTAATCTAT
*
9021556 TTATATTTCAACTATTA
1 TTATATTTCTA-T-TTA
9021573 TTATATTTCTATTTA
1 TTATATTTCTATTTA
9021588 TTATATTTCTATTTA
1 TTATATTTCTATTTA
9021603 T
1 T
9021604 ATTACTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 19 0.63
16 1 0.03
17 10 0.33
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATATTTCTATTTA
Done.