Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 19 of 113
Found at i:6465878 original size:13 final size:13
Alignment explanation
Indices: 6465860--6465887 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6465850 ATTGTCTCGG
6465860 TTTTTTTTTTTCT
1 TTTTTTTTTTTCT
6465873 TTTTTTTTTTTCT
1 TTTTTTTTTTTCT
6465886 TT
1 TT
6465888 CTGATCCAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (13 bp):
TTTTTTTTTTTCT
Found at i:6473564 original size:21 final size:23
Alignment explanation
Indices: 6473536--6473591 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
6473526 GAAACTAATG
6473536 ATATTTTTTAATAAAATATTCTA-
1 ATATTTTTTAATAAAATATT-TAT
* *
6473559 AT-TTTTATAA-AAATTATTTAT
1 ATATTTTTTAATAAAATATTTAT
6473580 ATATTTTTTAAT
1 ATATTTTTTAAT
6473592 TTAAACACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
20 2 0.07
21 9 0.33
22 14 0.52
23 2 0.07
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
ATATTTTTTAATAAAATATTTAT
Found at i:6485288 original size:31 final size:31
Alignment explanation
Indices: 6485246--6485305 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
6485236 AAATATACTC
* * *
6485246 ATTAATGAAATAGTATCATTTGATTTATTTT
1 ATTAATAAAATAATATCATTTAATTTATTTT
6485277 ATTAATAAAATAATATCATTTAATTTATT
1 ATTAATAAAATAATATCATTTAATTTATT
6485306 GACAGTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (31 bp):
ATTAATAAAATAATATCATTTAATTTATTTT
Found at i:6487602 original size:21 final size:22
Alignment explanation
Indices: 6487577--6487621 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
6487567 TAACTCTCCA
6487577 TTTTCTCTCTAT-TTTT-TTGGT
1 TTTTCT-TCTATCTTTTCTTGGT
*
6487598 TTTTCTTCTTTCTTTTCTTGGT
1 TTTTCTTCTATCTTTTCTTGGT
6487620 TT
1 TT
6487622 GTAAGACAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 10 0.48
22 7 0.33
ACGTcount: A:0.02, C:0.16, G:0.09, T:0.73
Consensus pattern (22 bp):
TTTTCTTCTATCTTTTCTTGGT
Found at i:6504049 original size:2 final size:2
Alignment explanation
Indices: 6504042--6504068 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6504032 TTCTTCTAAG
6504042 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6504069 ATTGAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6509057 original size:97 final size:98
Alignment explanation
Indices: 6508886--6509067 Score: 271
Period size: 97 Copynumber: 1.9 Consensus size: 98
6508876 TGAGAATCAG
*
6508886 TGTTTCCCTCTTGTTCTTTGATCTCTGAAAATGGTGAAATTGTCAATTAGACTTAAGTATAAATT
1 TGTTTCCCTCTTGTTCTTTGATCTATGAAAATGGTGAAATTGTCAATTAGACTTAAGTATAAATT
* *
6508951 TGCATTGCACATGTTCAGTTTATTGAGATTCTA
66 TGAATTGCACATGCTCAGTTTATTGAGATTCTA
* *
6508984 TGTTTCCCTCCTT-TTCTTTTATCTATGAAAATGGTG-AATTGTCAATT-GCACTTAAGTATACA
1 TGTTTCCCT-CTTGTTCTTTGATCTATGAAAATGGTGAAATTGTCAATTAG-ACTTAAGTATAAA
*
6509046 TTTGAATTGCACGTGCTCAGTT
64 TTTGAATTGCACATGCTCAGTT
6509068 AAGTGATATC
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
96 1 0.01
97 42 0.55
98 30 0.39
99 3 0.04
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (98 bp):
TGTTTCCCTCTTGTTCTTTGATCTATGAAAATGGTGAAATTGTCAATTAGACTTAAGTATAAATT
TGAATTGCACATGCTCAGTTTATTGAGATTCTA
Found at i:6513982 original size:29 final size:29
Alignment explanation
Indices: 6513926--6513983 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
6513916 TAAATAAGCA
* *
6513926 CTTTAATTATATTTAAATAAATTTTTAAT
1 CTTTAATTATATTTAAATAAACTCTTAAT
*
6513955 CTTTAATTGTATTTAAATAAACTCTTAAT
1 CTTTAATTATATTTAAATAAACTCTTAAT
6513984 ATAAATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.52
Consensus pattern (29 bp):
CTTTAATTATATTTAAATAAACTCTTAAT
Found at i:6543101 original size:24 final size:23
Alignment explanation
Indices: 6543074--6543119 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
6543064 ATATTTAAAT
6543074 TTAACATTTGTAATAT-TTTTATAG
1 TTAA-ATTT-TAATATATTTTATAG
*
6543098 TTAAATTTTAATCTATTTTATA
1 TTAAATTTTAATATATTTTATA
6543120 AAAAGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 11 0.55
24 4 0.20
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (23 bp):
TTAAATTTTAATATATTTTATAG
Found at i:6552439 original size:13 final size:13
Alignment explanation
Indices: 6552421--6552447 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6552411 GAGCAGTTTT
6552421 CAGAGCTGAAAAA
1 CAGAGCTGAAAAA
6552434 CAGAGCTGAAAAA
1 CAGAGCTGAAAAA
6552447 C
1 C
6552448 TTGCGGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.19, G:0.22, T:0.07
Consensus pattern (13 bp):
CAGAGCTGAAAAA
Found at i:6566001 original size:3 final size:3
Alignment explanation
Indices: 6565993--6566027 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
6565983 ATAAGCTTAT
6565993 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
6566028 TATTATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:6575866 original size:11 final size:11
Alignment explanation
Indices: 6575850--6575874 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6575840 ATCATAGTTG
6575850 CCTTCAATTTC
1 CCTTCAATTTC
6575861 CCTTCAATTTC
1 CCTTCAATTTC
6575872 CCT
1 CCT
6575875 CTTCGTTACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.40, G:0.00, T:0.44
Consensus pattern (11 bp):
CCTTCAATTTC
Found at i:6582273 original size:25 final size:25
Alignment explanation
Indices: 6582245--6582294 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
6582235 TAACATATCC
6582245 CTGTTTTTGATTTCCTACTATCTGT
1 CTGTTTTTGATTTCCTACTATCTGT
6582270 CTGTTTTTGATTTCCTACTATCTGT
1 CTGTTTTTGATTTCCTACTATCTGT
6582295 TTTGCAGCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.12, C:0.20, G:0.12, T:0.56
Consensus pattern (25 bp):
CTGTTTTTGATTTCCTACTATCTGT
Found at i:6587663 original size:21 final size:20
Alignment explanation
Indices: 6587621--6587663 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
6587611 AGATGGTTAA
* *
6587621 AAATTAAATTTTAATAACTT
1 AAATTAAATATTAAAAACTT
*
6587641 AAATTAAAATATTAAAAATTT
1 AAATT-AAATATTAAAAACTT
6587662 AA
1 AA
6587664 TAGTATTGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
AAATTAAATATTAAAAACTT
Found at i:6588437 original size:15 final size:16
Alignment explanation
Indices: 6588408--6588440 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6588398 AAAAGTAAGG
*
6588408 AAAATTAAATGTTTAA
1 AAAAATAAATGTTTAA
6588424 AAAAATAAAT-TTTAA
1 AAAAATAAATGTTTAA
6588439 AA
1 AA
6588441 CATTCAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (16 bp):
AAAAATAAATGTTTAA
Found at i:6593732 original size:21 final size:21
Alignment explanation
Indices: 6593703--6593749 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
6593693 GGAGAGAAGG
*
6593703 AGAAAACCAAAGACTTGACAA
1 AGAAGACCAAAGACTTGACAA
6593724 AGAAGACCAAAGACTTGACAA
1 AGAAGACCAAAGACTTGACAA
6593745 A-AAGA
1 AGAAGA
6593750 GAGACACCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.57, C:0.17, G:0.17, T:0.09
Consensus pattern (21 bp):
AGAAGACCAAAGACTTGACAA
Found at i:6595791 original size:19 final size:20
Alignment explanation
Indices: 6595767--6595804 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
6595757 TTTTATTATC
6595767 ATTTTTAGTAATTT-TAATA
1 ATTTTTAGTAATTTATAATA
6595786 ATTTTTAGTAATTTATAAT
1 ATTTTTAGTAATTTATAAT
6595805 TAAAAGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (20 bp):
ATTTTTAGTAATTTATAATA
Found at i:6595836 original size:18 final size:17
Alignment explanation
Indices: 6595813--6595855 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
6595803 ATTAAAAGTT
* *
6595813 TTATTTGATAAATTATTA
1 TTATTTAATAAATT-TAA
6595831 TTATTTTAATAAATTTAA
1 TTA-TTTAATAAATTTAA
6595849 TTATTTA
1 TTATTTA
6595856 TTAACTTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 4 0.18
18 8 0.36
19 10 0.45
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
TTATTTAATAAATTTAA
Found at i:6596431 original size:13 final size:12
Alignment explanation
Indices: 6596412--6596455 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
6596402 TTTTTAAAAT
6596412 TAATTAAATTAA
1 TAATTAAATTAA
*
6596424 TCAATTAAATCAA
1 T-AATTAAATTAA
*
6596437 TTAATTTAATTAA
1 -TAATTAAATTAA
6596450 TAATTA
1 TAATTA
6596456 TCAAAACCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 6 0.23
13 19 0.73
14 1 0.04
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (12 bp):
TAATTAAATTAA
Found at i:6603735 original size:12 final size:12
Alignment explanation
Indices: 6603718--6603742 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6603708 ATATTTAACC
6603718 TGTTGTATTCGT
1 TGTTGTATTCGT
6603730 TGTTGTATTCGT
1 TGTTGTATTCGT
6603742 T
1 T
6603743 ATGGCCATTA
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:0.08, C:0.08, G:0.24, T:0.60
Consensus pattern (12 bp):
TGTTGTATTCGT
Found at i:6604249 original size:27 final size:30
Alignment explanation
Indices: 6604219--6604289 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 30
6604209 TTCAATTTGA
6604219 TATTATATTAAATTTTATT-TTT-T-TAAT
1 TATTATATTAAATTTTATTATTTATATAAT
6604246 TATT-T-TTAAATTTT-TTATTTATATAAT
1 TATTATATTAAATTTTATTATTTATATAAT
*
6604273 TA-TATATTTATATTTTA
1 TATTATA-TTAAATTTTA
6604290 AAAAATAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
24 2 0.06
25 12 0.33
26 3 0.08
27 11 0.31
29 8 0.22
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (30 bp):
TATTATATTAAATTTTATTATTTATATAAT
Found at i:6604315 original size:23 final size:22
Alignment explanation
Indices: 6604274--6604335 Score: 90
Period size: 21 Copynumber: 2.7 Consensus size: 22
6604264 TTATATAATT
6604274 ATATATTTATATTTTAAAAAATA
1 ATAT-TTTATATTTTAAAAAATA
6604297 ATATTTTATATTTT-AAAAATA
1 ATATTTTATATTTTAAAAAATA
6604318 ATATTTTATTAATTTTAA
1 ATATTTTA-T-ATTTTAA
6604336 GTCATATCGG
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
21 15 0.42
22 11 0.31
23 9 0.25
24 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATATTTTATATTTTAAAAAATA
Found at i:6607109 original size:3 final size:3
Alignment explanation
Indices: 6607094--6607165 Score: 117
Period size: 3 Copynumber: 23.7 Consensus size: 3
6607084 AATGTGATCG
*
6607094 TTA TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
6607142 TTA TTA TTA TGA TTA TTA TGTA TT
1 TTA TTA TTA TTA TTA TTA T-TA TT
6607166 TGTACAAGTC
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
3 61 0.95
4 3 0.05
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6614010 original size:13 final size:13
Alignment explanation
Indices: 6613992--6614016 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6613982 CTAAAAGAAG
6613992 ATGACTCATCACC
1 ATGACTCATCACC
6614005 ATGACTCATCAC
1 ATGACTCATCAC
6614017 TTATTTGACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.36, G:0.08, T:0.24
Consensus pattern (13 bp):
ATGACTCATCACC
Found at i:6614117 original size:21 final size:21
Alignment explanation
Indices: 6614077--6614136 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
6614067 GTCTAAAGGT
* **
6614077 AGACTAGACATAAATGTGATTT
1 AGACTTGACATAAAT-TGATGA
6614099 A-ACTTGACATAAAATTGATGA
1 AGACTTGACAT-AAATTGATGA
6614120 AGACTTGACATTAAATT
1 AGACTTGACA-TAAATT
6614137 ATCTTGATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
21 13 0.41
22 18 0.56
23 1 0.03
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.32
Consensus pattern (21 bp):
AGACTTGACATAAATTGATGA
Found at i:6621572 original size:13 final size:13
Alignment explanation
Indices: 6621550--6621592 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
6621540 TTTGATATAT
6621550 TTTTTAAATAAATA
1 TTTTT-AATAAATA
6621564 TTTTTAATAAA-A
1 TTTTTAATAAATA
*
6621576 TTTTTGATAAAATA
1 TTTTTAAT-AAATA
6621590 TTT
1 TTT
6621593 ATTATTGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 8 0.31
13 9 0.35
14 9 0.35
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (13 bp):
TTTTTAATAAATA
Found at i:6621580 original size:12 final size:12
Alignment explanation
Indices: 6621550--6621593 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
6621540 TTTGATATAT
6621550 TTTTTAAATAAATA
1 TTTTT-AATAAA-A
6621564 TTTTTAATAAAA
1 TTTTTAATAAAA
*
6621576 TTTTTGATAAAA
1 TTTTTAATAAAA
*
6621588 TATTTA
1 TTTTTA
6621594 TTATTGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 16 0.59
13 6 0.22
14 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (12 bp):
TTTTTAATAAAA
Found at i:6622365 original size:42 final size:42
Alignment explanation
Indices: 6622308--6622412 Score: 120
Period size: 42 Copynumber: 2.5 Consensus size: 42
6622298 TATGATGATA
* * *
6622308 TAAATTATTAAAATATAAATATGACATGAATTATAAAATATATT
1 TAAATT-TT-AAATATAAACACGACACGAATTATAAAATATATT
* * *
6622352 TAAATTTTAAATATGAACACGATACGAATTATAAAATATGTT
1 TAAATTTTAAATATAAACACGACACGAATTATAAAATATATT
* *
6622394 TAAATCTTAAATATGAACA
1 TAAATTTTAAATATAAACA
6622413 TAATACATTT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 46 0.85
43 2 0.04
44 6 0.11
ACGTcount: A:0.51, C:0.06, G:0.07, T:0.36
Consensus pattern (42 bp):
TAAATTTTAAATATAAACACGACACGAATTATAAAATATATT
Found at i:6622572 original size:29 final size:28
Alignment explanation
Indices: 6622480--6622590 Score: 82
Period size: 29 Copynumber: 3.9 Consensus size: 28
6622470 AATTCGTTTA
* * *
6622480 AATATGACATGAATAAACATAAATAATATG
1 AATAT-ACA-GAATAAATATGATTAATATG
* * * *
6622510 AATATATAAAAATAAATATGATTAACA-C
1 AATATA-CAGAATAAATATGATTAATATG
6622538 AGATATACACGAATAAATATGATTAATATG
1 A-ATATACA-GAATAAATATGATTAATATG
* *
6622568 AATATATATAA-AAATATGATTAA
1 AATATACAGAATAAATATGATTAA
6622591 AATAATAAAC
Statistics
Matches: 64, Mismatches: 13, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
27 12 0.19
28 4 0.06
29 41 0.64
30 7 0.11
ACGTcount: A:0.57, C:0.05, G:0.08, T:0.30
Consensus pattern (28 bp):
AATATACAGAATAAATATGATTAATATG
Found at i:6622594 original size:29 final size:30
Alignment explanation
Indices: 6622504--6622594 Score: 84
Period size: 29 Copynumber: 3.1 Consensus size: 30
6622494 AAACATAAAT
6622504 AATATGAATATATAAAAATAAATATGATTAA
1 AATATGAATATAT-AAAATAAATATGATTAA
* * * *
6622535 CACA-G-ATATACACGAATAAATATGATT--
1 AATATGAATATATA-AAATAAATATGATTAA
*
6622562 AATATGAATATATATAA-AAATATGATTAA
1 AATATGAATATATAAAATAAATATGATTAA
6622591 AATA
1 AATA
6622595 ATAAACAATT
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
27 12 0.26
28 4 0.09
29 28 0.60
30 1 0.02
31 2 0.04
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (30 bp):
AATATGAATATATAAAATAAATATGATTAA
Found at i:6622671 original size:26 final size:26
Alignment explanation
Indices: 6622638--6622687 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
6622628 TTAATAAATT
* *
6622638 TGACATATTAATAATATAAAAAATAC
1 TGACATATTAAAAAAATAAAAAATAC
6622664 TGACATATTAAAAAAATAAAAAAT
1 TGACATATTAAAAAAATAAAAAAT
6622688 TTAATACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (26 bp):
TGACATATTAAAAAAATAAAAAATAC
Found at i:6622702 original size:11 final size:11
Alignment explanation
Indices: 6622686--6622724 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
6622676 AAAATAAAAA
6622686 ATTTAATACT-T
1 ATTTAATA-TAT
*
6622697 ATTTAATATGT
1 ATTTAATATAT
6622708 ATTTAATATAT
1 ATTTAATATAT
6622719 ATTTAA
1 ATTTAA
6622725 ATTTTAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 1 0.04
11 25 0.96
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (11 bp):
ATTTAATATAT
Found at i:6623028 original size:18 final size:18
Alignment explanation
Indices: 6623007--6623041 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6622997 TAAATATAAA
*
6623007 AAATATGTTAAACGTATT
1 AAATATATTAAACGTATT
*
6623025 AAATATATTAAATGTAT
1 AAATATATTAAACGTAT
6623042 ATTCGTATGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.40
Consensus pattern (18 bp):
AAATATATTAAACGTATT
Found at i:6630979 original size:26 final size:26
Alignment explanation
Indices: 6630943--6630994 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
6630933 TTTTCTTTTC
6630943 TCCATCATCCATCATTTGAAAGGCTA
1 TCCATCATCCATCATTTGAAAGGCTA
*
6630969 TCCATCATCCATCATTTGAATGGCTA
1 TCCATCATCCATCATTTGAAAGGCTA
6630995 ACTCTGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.33
Consensus pattern (26 bp):
TCCATCATCCATCATTTGAAAGGCTA
Found at i:6636839 original size:5 final size:5
Alignment explanation
Indices: 6636831--6636855 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6636821 TTAATGCAAA
6636831 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
6636856 TAAGTTAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:6636917 original size:21 final size:20
Alignment explanation
Indices: 6636891--6636929 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
6636881 AGAAAAAAAT
*
6636891 ATTTTTTTTTTTAGTTTTGAG
1 ATTTTTTGTTTT-GTTTTGAG
6636912 ATTTTTTGTTTTGTTTTG
1 ATTTTTTGTTTTGTTTTG
6636930 TTTTGTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.00, G:0.15, T:0.74
Consensus pattern (20 bp):
ATTTTTTGTTTTGTTTTGAG
Found at i:6638182 original size:19 final size:19
Alignment explanation
Indices: 6638145--6638181 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6638135 ATTTTTATTA
*
6638145 ATTTTTTATTTAATATTTT
1 ATTTTTAATTTAATATTTT
6638164 ATTTTTAATTTAA-ATTTT
1 ATTTTTAATTTAATATTTT
6638182 TGAAGAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTTTAATTTAATATTTT
Found at i:6638760 original size:21 final size:22
Alignment explanation
Indices: 6638736--6638780 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
6638726 AAATATTAAG
*
6638736 AATAATA-ATTAAAATTTAAAA
1 AATAATATATAAAAATTTAAAA
6638757 AATAATATATAAAAATTTAAAA
1 AATAATATATAAAAATTTAAAA
6638779 AA
1 AA
6638781 AAAAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
AATAATATATAAAAATTTAAAA
Found at i:6642560 original size:2 final size:2
Alignment explanation
Indices: 6642553--6642587 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6642543 CAAGATCATT
6642553 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6642588 TCTAATTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6651680 original size:2 final size:2
Alignment explanation
Indices: 6651673--6651697 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6651663 TGCGTGCGTG
6651673 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6651698 GCATATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6663741 original size:2 final size:2
Alignment explanation
Indices: 6663734--6663759 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6663724 GTTTTCCATA
6663734 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6663760 CCAAAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6667954 original size:115 final size:116
Alignment explanation
Indices: 6667826--6668045 Score: 397
Period size: 116 Copynumber: 1.9 Consensus size: 116
6667816 ATTTTGTAGT
* * *
6667826 TCATATATAAATTAAATTTGATTT-AAAATTTATTTATTAATAAACTTTATTTTTATTTGATTTT
1 TCATATATAAATTAAATTCGATTTAAAAATTTATTTATTAATAAACTTCATTTTTATTTAATTTT
6667890 AATTGTGAATTTAAAAAAATTTAATCCTCTTAAACTCAACAAACTGAGCCA
66 AATTGTGAATTTAAAAAAATTTAATCCTCTTAAACTCAACAAACTGAGCCA
*
6667941 TCATATCTAAATTAAATTCGATTTAAAAATTTATTTATTAATAAACTTCATTTTTATTTAATTTT
1 TCATATATAAATTAAATTCGATTTAAAAATTTATTTATTAATAAACTTCATTTTTATTTAATTTT
6668006 AATTGTGAATTTAAAAAAATTTAATCCTCTTAAACTCAAC
66 AATTGTGAATTTAAAAAAATTTAATCCTCTTAAACTCAAC
6668046 TGGGCCATAA
Statistics
Matches: 100, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
115 22 0.22
116 78 0.78
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (116 bp):
TCATATATAAATTAAATTCGATTTAAAAATTTATTTATTAATAAACTTCATTTTTATTTAATTTT
AATTGTGAATTTAAAAAAATTTAATCCTCTTAAACTCAACAAACTGAGCCA
Found at i:6684661 original size:17 final size:16
Alignment explanation
Indices: 6684639--6684673 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
6684629 AGAAAAGGTC
6684639 AATCCTTATTTATTCAA
1 AATCCTTATTTATT-AA
6684656 AATCCTTATTTATTAA
1 AATCCTTATTTATTAA
6684672 AA
1 AA
6684674 GAAAAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.46
Consensus pattern (16 bp):
AATCCTTATTTATTAA
Found at i:6688050 original size:34 final size:34
Alignment explanation
Indices: 6687961--6688084 Score: 117
Period size: 34 Copynumber: 3.6 Consensus size: 34
6687951 TTTTACTTCT
* * *
6687961 AAGTTTTTGAATTTACAAATTCGAAAGCTTTTAA
1 AAGTTTTTAAATTTACAAATTTGAAATCTTTTAA
* * *
6687995 AAGGTTTTT-GATTTATAAATTTGAAATCTCTTAA
1 AA-GTTTTTAAATTTACAAATTTGAAATCTTTTAA
* *
6688029 AATTTTTTAAATTTACAAATTTAAAAAT-TTTTAA
1 AAGTTTTTAAATTTACAAATTT-GAAATCTTTTAA
* * *
6688063 AAGTTTTCAGATTTACATATTT
1 AAGTTTTTAAATTTACAAATTT
6688085 AAAAATTTAA
Statistics
Matches: 73, Mismatches: 14, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
33 5 0.07
34 58 0.79
35 10 0.14
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (34 bp):
AAGTTTTTAAATTTACAAATTTGAAATCTTTTAA
Found at i:6688076 original size:68 final size:66
Alignment explanation
Indices: 6687964--6688103 Score: 156
Period size: 68 Copynumber: 2.1 Consensus size: 66
6687954 TACTTCTAAG
* * * * * **
6687964 TTTTTGAATTTACAAATTCGAAAGCTTTTAAAAGGTTTTTGATTTATAAATTTGAAATCTCTTAA
1 TTTTTAAATTTACAAATTCAAAAACTTTTAAAAGGTTTTAGATTTACAAATTT-AAAAAT-TTAA
6688029 AAT
64 AAT
* * *
6688032 TTTTTAAATTTACAAATTTAAAAATTTTTAAAA-GTTTTCAGATTTACATATTTAAAAATTTAAA
1 TTTTTAAATTTACAAATTCAAAAACTTTTAAAAGGTTTT-AGATTTACAAATTTAAAAATTTAAA
6688096 AT
65 AT
6688098 TTTTTA
1 TTTTTA
6688104 TACGATATTT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
66 13 0.21
67 9 0.15
68 39 0.64
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (66 bp):
TTTTTAAATTTACAAATTCAAAAACTTTTAAAAGGTTTTAGATTTACAAATTTAAAAATTTAAAA
T
Found at i:6688085 original size:34 final size:34
Alignment explanation
Indices: 6688025--6688092 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
6688015 TTGAAATCTC
* *
6688025 TTAAAATTTTTTAAATTTACAAATTTAAAAATTT
1 TTAAAAGTTTTCAAATTTACAAATTTAAAAATTT
* *
6688059 TTAAAAGTTTTCAGATTTACATATTTAAAAATTT
1 TTAAAAGTTTTCAAATTTACAAATTTAAAAATTT
6688093 AAAATTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (34 bp):
TTAAAAGTTTTCAAATTTACAAATTTAAAAATTT
Found at i:6688270 original size:86 final size:82
Alignment explanation
Indices: 6688171--6688330 Score: 241
Period size: 83 Copynumber: 1.9 Consensus size: 82
6688161 TATTAGATAC
*
6688171 GAAAATTTGATAAATTATATTACTTATTGTATATGCA-TTTTAGTTAAATTATATAACTTATTGG
1 GAAAATTTGATAAATTATA-T-CTTATTATAT-TGCATTTTTAG-TAAATTATATAACTTATT-G
6688235 AAATATATATCTAATTTATAAT
61 AAATATATATCTAATTTATAAT
* *
6688257 GAAATTTTGATAAATTATATCTTATTATATTGCATTTTTAGTAAATTATATAATTTATTGAAATA
1 GAAAATTTGATAAATTATATCTTATTATATTGCATTTTTAGTAAATTATATAACTTATTGAAATA
6688322 TATATCTAA
66 TATATCTAA
6688331 AAGTTCTAAA
Statistics
Matches: 70, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
82 15 0.21
83 21 0.30
84 15 0.21
85 1 0.01
86 18 0.26
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.47
Consensus pattern (82 bp):
GAAAATTTGATAAATTATATCTTATTATATTGCATTTTTAGTAAATTATATAACTTATTGAAATA
TATATCTAATTTATAAT
Found at i:6693733 original size:2 final size:2
Alignment explanation
Indices: 6693721--6693751 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6693711 TTCTGTCATC
*
6693721 CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
6693752 ACACATGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:6694469 original size:32 final size:33
Alignment explanation
Indices: 6694433--6694498 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
6694423 TAATGAAAAA
* *
6694433 TATAAAATTTTCCTGTATTTATTTTTAA-AATT
1 TATAAAATTTTCCTATATTTAATTTTAATAATT
**
6694465 TATAAAATTTTTGTATATTTAATTTTAATAATT
1 TATAAAATTTTCCTATATTTAATTTTAATAATT
6694498 T
1 T
6694499 TTTAATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 24 0.83
33 5 0.17
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (33 bp):
TATAAAATTTTCCTATATTTAATTTTAATAATT
Found at i:6700198 original size:2 final size:2
Alignment explanation
Indices: 6700191--6700224 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6700181 ATTCGAATCC
6700191 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6700225 ATTTATCCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:6702906 original size:14 final size:14
Alignment explanation
Indices: 6702887--6702914 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6702877 TAACTTTTAT
6702887 CAAGAAAAGAATCA
1 CAAGAAAAGAATCA
6702901 CAAGAAAAGAATCA
1 CAAGAAAAGAATCA
6702915 ATAATCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.14, G:0.14, T:0.07
Consensus pattern (14 bp):
CAAGAAAAGAATCA
Found at i:6713534 original size:16 final size:16
Alignment explanation
Indices: 6713515--6713638 Score: 89
Period size: 16 Copynumber: 7.9 Consensus size: 16
6713505 ATAGGTTTCT
6713515 AAAACTCCTAAAATCC
1 AAAACTCCTAAAATCC
*
6713531 AAAA-TCCTAAAATCT
1 AAAACTCCTAAAATCC
* * *
6713546 GAAACTCATAAAAATCT
1 AAAACTCCT-AAAATCC
*
6713563 AAAATCCCCT-AAATCC
1 AAAA-CTCCTAAAATCC
* *
6713579 -AAACCCCTAAAATTC
1 AAAACTCCTAAAATCC
* *
6713594 GAAACCCCTAAAATCC
1 AAAACTCCTAAAATCC
*
6713610 -AAAC-CCCAAAATCC
1 AAAACTCCTAAAATCC
6713624 AAAA-TCCCTAAAATC
1 AAAACT-CCTAAAATC
6713639 TAAATCCTTA
Statistics
Matches: 89, Mismatches: 11, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
14 14 0.16
15 28 0.31
16 34 0.38
17 10 0.11
18 3 0.03
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.19
Consensus pattern (16 bp):
AAAACTCCTAAAATCC
Found at i:6713536 original size:7 final size:8
Alignment explanation
Indices: 6713513--6713651 Score: 55
Period size: 8 Copynumber: 17.9 Consensus size: 8
6713503 CCATAGGTTT
6713513 CTAAAACTC
1 CTAAAA-TC
6713522 CTAAAATC
1 CTAAAATC
6713530 C-AAAATC
1 CTAAAATC
6713537 CTAAAAT-
1 CTAAAATC
*
6713544 CTGAAACTC
1 CT-AAAATC
*
6713553 ATAAAAAT-
1 CT-AAAATC
6713561 CTAAAATCCC
1 CTAAAAT--C
6713571 CT-AAATC
1 CTAAAATC
**
6713578 C-AAACCC
1 CTAAAATC
*
6713585 CTAAAATT
1 CTAAAATC
* **
6713593 CGAAACCC
1 CTAAAATC
6713601 CTAAAATC
1 CTAAAATC
*
6713609 C--AAACC
1 CTAAAATC
*
6713615 CCAAAATC
1 CTAAAATC
6713623 C-AAAATCC
1 CTAAAAT-C
6713631 CTAAAAT-
1 CTAAAATC
6713638 CT-AAATC
1 CTAAAATC
*
6713645 CTTAAAT
1 CTAAAAT
6713652 TAAAACCCCA
Statistics
Matches: 97, Mismatches: 19, Indels: 29
0.67 0.13 0.20
Matches are distributed among these distances:
6 9 0.09
7 29 0.30
8 37 0.38
9 20 0.21
10 2 0.02
ACGTcount: A:0.48, C:0.29, G:0.01, T:0.21
Consensus pattern (8 bp):
CTAAAATC
Found at i:6713551 original size:31 final size:31
Alignment explanation
Indices: 6713516--6713651 Score: 127
Period size: 30 Copynumber: 4.4 Consensus size: 31
6713506 TAGGTTTCTA
*
6713516 AAACTCCTAAAATCCAAAAT-CCTAAAATCTG
1 AAACTCCTAAAATCCAAAATCCCTAAAATC-C
* *
6713547 AAACTCATAAAAATCTAAAATCCCCT-AAATCC
1 AAACTCCT-AAAATCCAAAAT-CCCTAAAATCC
* * * *
6713579 AAACCCCTAAAATTCGAAACCCCTAAAATCC
1 AAACTCCTAAAATCCAAAATCCCTAAAATCC
* *
6713610 AAAC-CCCAAAATCCAAAATCCCTAAAATCT
1 AAACTCCTAAAATCCAAAATCCCTAAAATCC
*
6713640 AAA-TCCTTAAAT
1 AAACTCCTAAAAT
6713652 TAAAACCCCA
Statistics
Matches: 84, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
30 34 0.40
31 25 0.30
32 17 0.20
33 5 0.06
34 3 0.04
ACGTcount: A:0.49, C:0.29, G:0.01, T:0.21
Consensus pattern (31 bp):
AAACTCCTAAAATCCAAAATCCCTAAAATCC
Found at i:6713587 original size:14 final size:15
Alignment explanation
Indices: 6713516--6713638 Score: 97
Period size: 15 Copynumber: 7.9 Consensus size: 15
6713506 TAGGTTTCTA
*
6713516 AAACTCCTAAAATCC
1 AAACCCCTAAAATCC
** *
6713531 AAAATCCTAAAATCTG
1 AAACCCCTAAAATC-C
* * *
6713547 AAACTCATAAAAATCTA
1 AAACCCCT-AAAATC-C
6713564 AAATCCCCT-AAATCC
1 AAA-CCCCTAAAATCC
*
6713579 AAACCCCTAAAATTCG
1 AAACCCCTAAAA-TCC
6713595 AAACCCCTAAAATCC
1 AAACCCCTAAAATCC
6713610 AAACCCC-AAAATCC
1 AAACCCCTAAAATCC
*
6713624 AAAATCCCTAAAATC
1 -AAACCCCTAAAATC
6713639 TAAATCCTTA
Statistics
Matches: 90, Mismatches: 11, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
14 12 0.13
15 34 0.38
16 31 0.34
17 10 0.11
18 3 0.03
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.19
Consensus pattern (15 bp):
AAACCCCTAAAATCC
Found at i:6713602 original size:30 final size:29
Alignment explanation
Indices: 6713556--6713635 Score: 97
Period size: 31 Copynumber: 2.7 Consensus size: 29
6713546 GAAACTCATA
*
6713556 AAAATCTAAAATCCCCTAAATCCAAACCCC
1 AAAATCCAAAA-CCCCTAAATCCAAACCCC
* *
6713586 TAAAATTCGAAACCCCTAAAATCCAAACCCC
1 -AAAATCCAAAACCCCT-AAATCCAAACCCC
*
6713617 AAAATCCAAAATCCCTAAA
1 AAAATCCAAAACCCCTAAA
6713636 ATCTAAATCC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
29 3 0.07
30 18 0.43
31 21 0.50
ACGTcount: A:0.49, C:0.34, G:0.01, T:0.16
Consensus pattern (29 bp):
AAAATCCAAAACCCCTAAATCCAAACCCC
Found at i:6726574 original size:30 final size:29
Alignment explanation
Indices: 6726492--6726578 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
6726482 GTAAATATTA
* * *
6726492 AAAATTTATTTAAATATAAATTAAA-AGTT
1 AAAATTTATTTGAATGTAAATTAAAGA-TC
*
6726521 AATAATTTATTTGGATG-AAATTAAAGATC
1 AA-AATTTATTTGAATGTAAATTAAAGATC
6726550 AAAAGTTTATTTGAATGTAAATTAAAGAT
1 AAAA-TTTATTTGAATGTAAATTAAAGAT
6726579 TAATGATTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
28 2 0.04
29 24 0.49
30 23 0.47
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.39
Consensus pattern (29 bp):
AAAATTTATTTGAATGTAAATTAAAGATC
Found at i:6726589 original size:30 final size:30
Alignment explanation
Indices: 6726458--6726591 Score: 121
Period size: 30 Copynumber: 4.5 Consensus size: 30
6726448 ATTAATTTAT
* * ** * *
6726458 ATTAAGAATTTATTTAAATACAAAGTAAAT
1 ATTAATAATTTATTTGAATGTAAATTAAAG
* * *
6726488 ATTAAAAATTTATTTAAATATAAATTAAA-
1 ATTAATAATTTATTTGAATGTAAATTAAAG
*
6726517 AGTTAATAATTTATTTGGATG-AAATTAAAG
1 A-TTAATAATTTATTTGAATGTAAATTAAAG
*
6726547 ATCAA-AAGTTTATTTGAATGTAAATTAAAG
1 ATTAATAA-TTTATTTGAATGTAAATTAAAG
*
6726577 ATTAATGATTTATTT
1 ATTAATAATTTATTT
6726592 ATATACAATA
Statistics
Matches: 88, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
28 2 0.02
29 23 0.26
30 62 0.70
31 1 0.01
ACGTcount: A:0.49, C:0.01, G:0.09, T:0.41
Consensus pattern (30 bp):
ATTAATAATTTATTTGAATGTAAATTAAAG
Found at i:6727036 original size:18 final size:18
Alignment explanation
Indices: 6727015--6727061 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
6727005 TAATTCATAA
6727015 ATTTAATTAAATTTT-TAT
1 ATTTAATTAAATTTTAT-T
* *
6727033 ATTTAAATATATTTTATT
1 ATTTAATTAAATTTTATT
6727051 ATTTTAATTAA
1 A-TTTAATTAA
6727062 TAAAATATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTAATTAAATTTTATT
Found at i:6727239 original size:7 final size:6
Alignment explanation
Indices: 6727215--6727261 Score: 51
Period size: 6 Copynumber: 7.3 Consensus size: 6
6727205 AAATTCGATC
6727215 AAATTT AAATCATT AAATCTT AAATTTT AAATTT -AATTT AAATTT AA
1 AAATTT AAAT--TT AAAT-TT AAA-TTT AAATTT AAATTT AAATTT AA
6727262 TAATATATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
5 5 0.14
6 14 0.39
7 10 0.28
8 7 0.19
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (6 bp):
AAATTT
Found at i:6734751 original size:16 final size:16
Alignment explanation
Indices: 6734730--6734763 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
6734720 GTTTAAATTT
6734730 TCAACGAAACTCTTTG
1 TCAACGAAACTCTTTG
6734746 TCAACGAAACTCTTTG
1 TCAACGAAACTCTTTG
6734762 TC
1 TC
6734764 CTGAACTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (16 bp):
TCAACGAAACTCTTTG
Found at i:6736333 original size:30 final size:30
Alignment explanation
Indices: 6736297--6736355 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
6736287 CCTAGAGATT
*
6736297 ATCACATAAAATTTTTTATTATATTAAAAC
1 ATCACATAAAATTTTTTAATATATTAAAAC
* *
6736327 ATCACATTAATTTTTTTAATATATTAAAA
1 ATCACATAAAATTTTTTAATATATTAAAA
6736356 TAGTACCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (30 bp):
ATCACATAAAATTTTTTAATATATTAAAAC
Found at i:6737806 original size:23 final size:23
Alignment explanation
Indices: 6737775--6737820 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
6737765 GTGATATTTA
6737775 TTTAAAATATTTTA-AGAAAAATT
1 TTTAAAATATTTTATA-AAAAATT
*
6737798 TTTATAATATTTTATAAAAAATT
1 TTTAAAATATTTTATAAAAAATT
6737821 ATTACTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TTTAAAATATTTTATAAAAAATT
Found at i:6738160 original size:16 final size:16
Alignment explanation
Indices: 6738139--6738170 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6738129 TATAGTTATG
6738139 TGGCCGTAACCTAATA
1 TGGCCGTAACCTAATA
*
6738155 TGGCCGTAATCTAATA
1 TGGCCGTAACCTAATA
6738171 AATTTAGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (16 bp):
TGGCCGTAACCTAATA
Found at i:6742767 original size:106 final size:106
Alignment explanation
Indices: 6742555--6742757 Score: 379
Period size: 106 Copynumber: 1.9 Consensus size: 106
6742545 TCTTCAAACG
* * *
6742555 GTTTTTAATTTGGATTTGTATAACTCAAGATATGATCAAATTAGTGAGTGGAGTGCAAAATAGGA
1 GTTTGTAATTTGGATTTGTATAACTCAAGATATGATCAAATTAGTGAGTAGAGTGCAAAACAGGA
6742620 GATAACCATCTAGATTTGACAGTATTGATCCCTTCAGGGAA
66 GATAACCATCTAGATTTGACAGTATTGATCCCTTCAGGGAA
6742661 GTTTGTAATTTGGATTTGTATAACTCAAGATATGATCAAATTAGTGAGTAGAGTGCAAAACAGGA
1 GTTTGTAATTTGGATTTGTATAACTCAAGATATGATCAAATTAGTGAGTAGAGTGCAAAACAGGA
6742726 GATAACCATCTAGATTTGACAGTATTGATCCC
66 GATAACCATCTAGATTTGACAGTATTGATCCC
6742758 CTTGGGGAAG
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 94 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (106 bp):
GTTTGTAATTTGGATTTGTATAACTCAAGATATGATCAAATTAGTGAGTAGAGTGCAAAACAGGA
GATAACCATCTAGATTTGACAGTATTGATCCCTTCAGGGAA
Found at i:6743275 original size:13 final size:13
Alignment explanation
Indices: 6743257--6743283 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6743247 GTAGAGAGTG
6743257 TAAGGTTTCTATC
1 TAAGGTTTCTATC
6743270 TAAGGTTTCTATC
1 TAAGGTTTCTATC
6743283 T
1 T
6743284 TAAGACTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.48
Consensus pattern (13 bp):
TAAGGTTTCTATC
Found at i:6743948 original size:15 final size:15
Alignment explanation
Indices: 6743928--6743957 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6743918 GCTATGCGGA
*
6743928 TTTTTCCTTCTTTTT
1 TTTTTCCTACTTTTT
6743943 TTTTTCCTACTTTTT
1 TTTTTCCTACTTTTT
6743958 GTACTGACGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTCCTACTTTTT
Found at i:6753128 original size:15 final size:16
Alignment explanation
Indices: 6753102--6753134 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6753092 TTTATTAGTT
*
6753102 TTTAATTTTTTAT-TA
1 TTTAATTATTTATATA
6753117 TTTAATTATTTATATA
1 TTTAATTATTTATATA
6753133 TT
1 TT
6753135 ATTTTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTAATTATTTATATA
Found at i:6753236 original size:18 final size:19
Alignment explanation
Indices: 6753197--6753237 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
6753187 AATTTTATTT
*
6753197 TATAAAAACTTAAAATATA
1 TATAAAAACTTAAAATAAA
6753216 TATAAAAA-TTAAGAA-AAA
1 TATAAAAACTTAA-AATAAA
6753234 TATA
1 TATA
6753238 TAATTCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
TATAAAAACTTAAAATAAA
Found at i:6766783 original size:43 final size:42
Alignment explanation
Indices: 6766698--6766797 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
6766688 TTCAAAGTCA
* *
6766698 TGGTGCCTCTATTTAGATGAGCAATTTATTTTTTTGAAGTTG
1 TGGTGCCTCTATTTAGATAAGCAATTTATTATTTTGAAGTTG
*
6766740 TGGTGTCTCTATTTAGATAAGC-ATTT-TTATTTTGCAAAAGTTG
1 TGGTGCCTCTATTTAGATAAGCAATTTATTATTTTG---AAGTTG
6766783 TGGTGCCTCTATTTA
1 TGGTGCCTCTATTTA
6766798 AAGGAGCATT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
40 7 0.14
41 4 0.08
42 20 0.39
43 20 0.39
ACGTcount: A:0.22, C:0.11, G:0.20, T:0.47
Consensus pattern (42 bp):
TGGTGCCTCTATTTAGATAAGCAATTTATTATTTTGAAGTTG
Found at i:6766806 original size:43 final size:42
Alignment explanation
Indices: 6766679--6766824 Score: 158
Period size: 43 Copynumber: 3.5 Consensus size: 42
6766669 ATATATATTA
* **
6766679 ATTTATGTTTT-CAAAGTCATGGTGCCTCTATTTAGATGAGC
1 ATTTATTTTTTGCAAAGTTGTGGTGCCTCTATTTAGATGAGC
* *
6766720 AATTTATTTTTTTG--AAGTTGTGGTGTCTCTATTTAGATAAGC
1 -ATTTA-TTTTTTGCAAAGTTGTGGTGCCTCTATTTAGATGAGC
* *
6766762 ATTT-TTATTTTGCAAAAGTTGTGGTGCCTCTATTTAAAGGAGC
1 ATTTATT-TTTTGC-AAAGTTGTGGTGCCTCTATTTAGATGAGC
6766805 ATTTATTTTTT-CAAAGTTGT
1 ATTTATTTTTTGCAAAGTTGT
6766825 TGAGCCTATG
Statistics
Matches: 88, Mismatches: 9, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
39 2 0.02
40 5 0.06
41 12 0.14
42 30 0.34
43 37 0.42
44 2 0.02
ACGTcount: A:0.25, C:0.10, G:0.18, T:0.47
Consensus pattern (42 bp):
ATTTATTTTTTGCAAAGTTGTGGTGCCTCTATTTAGATGAGC
Found at i:6766882 original size:16 final size:17
Alignment explanation
Indices: 6766856--6766888 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6766846 TTTGTTTAAA
6766856 AAAAAAGAAAAAAAATG
1 AAAAAAGAAAAAAAATG
*
6766873 AAAAAA-AAAAAGAATG
1 AAAAAAGAAAAAAAATG
6766889 TGTTGGGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (17 bp):
AAAAAAGAAAAAAAATG
Found at i:6767403 original size:22 final size:23
Alignment explanation
Indices: 6767375--6767433 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 23
6767365 AGCAATTTAA
6767375 GAAATTTT-AAGATTTTTTTTT-T
1 GAAATTTTGAAG-TTTTTTTTTCT
6767397 GAAATTTTGGAAGTTTTTTTTTCT
1 GAAATTTT-GAAGTTTTTTTTTCT
6767421 GAAAATTTCTGAA
1 G-AAATTT-TGAA
6767434 AAAATTTCAG
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
22 8 0.25
23 9 0.28
24 5 0.16
25 9 0.28
26 1 0.03
ACGTcount: A:0.29, C:0.03, G:0.14, T:0.54
Consensus pattern (23 bp):
GAAATTTTGAAGTTTTTTTTTCT
Found at i:6767880 original size:11 final size:11
Alignment explanation
Indices: 6767852--6767928 Score: 70
Period size: 11 Copynumber: 6.8 Consensus size: 11
6767842 CGAGCCGTTT
6767852 TATTTTTTTA-
1 TATTTTTTTAG
*
6767862 TATATTTTTAGG
1 TATTTTTTTA-G
6767874 TATTTTTTTAG
1 TATTTTTTTAG
6767885 TATTTTGTTTA-
1 TATTTT-TTTAG
6767896 T-TTATTTTTATG
1 TATT-TTTTTA-G
*
6767908 TGTTTTTTTTAG
1 T-ATTTTTTTAG
6767920 TATTTTTTT
1 TATTTTTTT
6767929 CATTATTAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
10 15 0.27
11 17 0.30
12 16 0.29
13 6 0.11
14 2 0.04
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (11 bp):
TATTTTTTTAG
Found at i:6767925 original size:12 final size:12
Alignment explanation
Indices: 6767854--6767928 Score: 61
Period size: 12 Copynumber: 6.5 Consensus size: 12
6767844 AGCCGTTTTA
6767854 TTTTTTTA-TA-
1 TTTTTTTAGTAT
*
6767864 TATTTTTAGGTA-
1 TTTTTTTA-GTAT
6767876 TTTTTTTAGTAT
1 TTTTTTTAGTAT
*
6767888 TTTGTTTA-T-T
1 TTTTTTTAGTAT
* *
6767898 TATTTTTATGTGT
1 TTTTTTTA-GTAT
6767911 TTTTTTTAGTAT
1 TTTTTTTAGTAT
6767923 TTTTTT
1 TTTTTT
6767929 CATTATTAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
10 14 0.27
11 4 0.08
12 26 0.50
13 8 0.15
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.75
Consensus pattern (12 bp):
TTTTTTTAGTAT
Found at i:6767935 original size:34 final size:32
Alignment explanation
Indices: 6767852--6767935 Score: 107
Period size: 34 Copynumber: 2.5 Consensus size: 32
6767842 CGAGCCGTTT
6767852 TATTTTTTTATATATTTTTAGGTATTTTTTTAG
1 TATTTTTTTAT-TATTTTTAGGTATTTTTTTAG
6767885 TATTTTGTTTATTTATTTTTATGTGT-TTTTTTTAG
1 TATTTT-TTTA-TTATTTTTA-G-GTATTTTTTTAG
6767920 TATTTTTTTCATTATT
1 TATTTTTTT-ATTATT
6767936 AAATTTAGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
33 6 0.13
34 20 0.43
35 18 0.39
36 2 0.04
ACGTcount: A:0.18, C:0.01, G:0.08, T:0.73
Consensus pattern (32 bp):
TATTTTTTTATTATTTTTAGGTATTTTTTTAG
Found at i:6768074 original size:22 final size:20
Alignment explanation
Indices: 6768049--6768088 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
6768039 ATTTTATCTA
6768049 AATTTATCATAAATTGTGGAAT
1 AATTTA-CATAAATT-TGGAAT
*
6768071 AATTTAGATAAATTTGGA
1 AATTTACATAAATTTGGA
6768089 GAATAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 7 0.41
22 6 0.35
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (20 bp):
AATTTACATAAATTTGGAAT
Found at i:6768094 original size:128 final size:128
Alignment explanation
Indices: 6767948--6768210 Score: 449
Period size: 128 Copynumber: 2.1 Consensus size: 128
6767938 ATTTAGAAAA
*
6767948 AAATAAATTTGGAGAATAAATAATAATTATCCAATGATAAAATTTATA-AATATTTTAAAT-AGT
1 AAATAAATTTGGAGAATAAATAATAATTATCCAATGATAAAATTTATAGAA-ATTTCAAATGA-T
*
6768011 AAATTTTTATAAAATTCTTAGGTAAGAAATTTTATCTAAATTTATCATAAATTGTGGAATAATTT
64 AAATTTTTATAAAATTCTTAGGTAAGAAATTTTATCTAAATTTATCACAAATTGTGGAATAATTT
* *
6768076 AGATAAATTTGGAGAATAAATAATAATTATCCAATGATGAAATTTATAGAAATTTCAAATGATAA
1 AAATAAATTTGGAGAATAAATAATAATTATCCAATGATAAAATTTATAGAAATTTCAAATGATAA
*
6768141 ATTTTTATAAAATTCTTAGGTAAGAAATTTTATTTAAATTTATCACAAATTGTGGAATAATTT
66 ATTTTTATAAAATTCTTAGGTAAGAAATTTTATCTAAATTTATCACAAATTGTGGAATAATTT
6768204 AAATAAA
1 AAATAAA
6768211 GTTTCAATAA
Statistics
Matches: 127, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
128 124 0.98
129 3 0.02
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.39
Consensus pattern (128 bp):
AAATAAATTTGGAGAATAAATAATAATTATCCAATGATAAAATTTATAGAAATTTCAAATGATAA
ATTTTTATAAAATTCTTAGGTAAGAAATTTTATCTAAATTTATCACAAATTGTGGAATAATTT
Found at i:6768680 original size:52 final size:52
Alignment explanation
Indices: 6768610--6768708 Score: 128
Period size: 52 Copynumber: 1.9 Consensus size: 52
6768600 TTATTTTCTT
* * * * *
6768610 AAAAAAAGAATTTCTAAA-TAAGTCGAAATGGTGAAAATTTTAGAAATTTTGA
1 AAAAAAAAAATTTATAAATTAACTC-AAATGGTAAAAAGTTTAGAAATTTTGA
*
6768662 AAAAAAAAAATTTATAAATTGACTCAAATGGTAAAAAGTTTAGAAAT
1 AAAAAAAAAATTTATAAATTAACTCAAATGGTAAAAAGTTTAGAAAT
6768709 AAGAAAAAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
52 36 0.90
53 4 0.10
ACGTcount: A:0.54, C:0.04, G:0.13, T:0.29
Consensus pattern (52 bp):
AAAAAAAAAATTTATAAATTAACTCAAATGGTAAAAAGTTTAGAAATTTTGA
Found at i:6772720 original size:25 final size:26
Alignment explanation
Indices: 6772692--6772741 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
6772682 TATATATTTG
*
6772692 ATTTTTT-ATAAATACATATTAATAT
1 ATTTTTTAATAAAAACATATTAATAT
*
6772717 ATTTTTTCAATAAAAATATATTAAT
1 ATTTTTT-AATAAAAACATATTAAT
6772742 TTTAATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
27 14 0.67
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (26 bp):
ATTTTTTAATAAAAACATATTAATAT
Found at i:6776590 original size:25 final size:28
Alignment explanation
Indices: 6776562--6776624 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 28
6776552 TAAAATTTAT
*
6776562 ATTTATAAATAATA-AATT-TTAT-AAA
1 ATTTATAAATAATATAATTATAATAAAA
6776587 ATTT-TAAAT-ATATAATTATAATAAAA
1 ATTTATAAATAATATAATTATAATAAAA
*
6776613 AATTATAAATAA
1 ATTTATAAATAA
6776625 AAACTGCATA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
23 3 0.10
24 9 0.29
25 7 0.23
26 6 0.19
27 5 0.16
28 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (28 bp):
ATTTATAAATAATATAATTATAATAAAA
Found at i:6776625 original size:14 final size:14
Alignment explanation
Indices: 6776584--6776627 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
6776574 TAAATTTTAT
* *
6776584 AAAATTTTAAATAT
1 AAAATTATAAATAA
*
6776598 ATAATTAT-AATAA
1 AAAATTATAAATAA
6776611 AAAATTATAAATAA
1 AAAATTATAAATAA
6776625 AAA
1 AAA
6776628 CTGCATAACA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AAAATTATAAATAA
Found at i:6777333 original size:2 final size:2
Alignment explanation
Indices: 6777326--6777351 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6777316 CTACCTGATC
6777326 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6777352 TAAGGAGCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6777701 original size:37 final size:37
Alignment explanation
Indices: 6777633--6777704 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
6777623 ATTTATTAAT
* ***
6777633 TTTTATATAATTTTATTTGTTTAAATAAAAATAATTA
1 TTTTATATAAATTTATTTAAATAAATAAAAATAATTA
* *
6777670 TTTTATATAAATTTATTTAAATATATTAAAATAAT
1 TTTTATATAAATTTATTTAAATAAATAAAAATAAT
6777705 ATAAAAATAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (37 bp):
TTTTATATAAATTTATTTAAATAAATAAAAATAATTA
Found at i:6792980 original size:26 final size:26
Alignment explanation
Indices: 6792918--6792986 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
6792908 TTTTAAAAAT
*
6792918 TTTAAAATTAAAGAATATTATTTTTA
1 TTTAAAATTTAAGAATATTATTTTTA
** * *
6792944 TTTAATTTTTAATAATTTTATTTTT-
1 TTTAAAATTTAAGAATATTATTTTTA
6792969 TATTAAAATTTAA-AATAT
1 T-TTAAAATTTAAGAATAT
6792987 AGATAACTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
25 5 0.15
26 29 0.85
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (26 bp):
TTTAAAATTTAAGAATATTATTTTTA
Found at i:6806841 original size:23 final size:23
Alignment explanation
Indices: 6806806--6806853 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
6806796 AAAATTAAAG
* *
6806806 ATAGATAGTTAAGTCTGTTCAAA
1 ATAGAAAGATAAGTCTGTTCAAA
6806829 ATAGAAAGATAAGTCTGTTCAAA
1 ATAGAAAGATAAGTCTGTTCAAA
6806852 AT
1 AT
6806854 GAACAGTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (23 bp):
ATAGAAAGATAAGTCTGTTCAAA
Found at i:6809806 original size:18 final size:19
Alignment explanation
Indices: 6809773--6809808 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6809763 TTTTATAATG
*
6809773 TTTAATTGATTATTTATTT
1 TTTAATTGAATATTTATTT
6809792 TTTAATT-AATATTTATT
1 TTTAATTGAATATTTATT
6809809 ATAAAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTAATTGAATATTTATTT
Found at i:6813139 original size:20 final size:21
Alignment explanation
Indices: 6813102--6813154 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
6813092 ATTCGAAATT
6813102 AATA-AAAATATTATTTTTTA
1 AATATAAAATATTATTTTTTA
6813122 AATATAAAATATTATTTTTTA
1 AATATAAAATATTATTTTTTA
6813143 AATAT-AAATATT
1 AATATAAAATATT
6813155 TAAAAATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 11 0.34
21 21 0.66
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATAAAATATTATTTTTTA
Found at i:6813163 original size:30 final size:30
Alignment explanation
Indices: 6813127--6813187 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
6813117 TTTTAAATAT
* * *
6813127 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATTATTATATAAATATAAATAATTA
6813157 AAAATATTATTATATAAATATAAATAATTA
1 AAAATATTATTATATAAATATAAATAATTA
6813187 A
1 A
6813188 TTAATTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
AAAATATTATTATATAAATATAAATAATTA
Found at i:6813531 original size:47 final size:49
Alignment explanation
Indices: 6813458--6813550 Score: 129
Period size: 48 Copynumber: 1.9 Consensus size: 49
6813448 TATTTAAATA
* * *
6813458 AAAATATAAATTAATATTATTTAATTATT-TA-TATAATTAAAAATATGT
1 AAAATATAAATTAATATAATTAAATTATTAAATTATAA-TAAAAATATGT
6813506 AAAATATAAA-TAATATAATTAAATTATTAAATTATAATAAAAATA
1 AAAATATAAATTAATATAATTAAATTATTAAATTATAATAAAAATA
6813551 AAATTTTGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
47 16 0.40
48 19 0.47
49 5 0.12
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (49 bp):
AAAATATAAATTAATATAATTAAATTATTAAATTATAATAAAAATATGT
Found at i:6813545 original size:27 final size:27
Alignment explanation
Indices: 6813455--6813545 Score: 78
Period size: 27 Copynumber: 3.3 Consensus size: 27
6813445 TTATATTTAA
* *
6813455 ATAAAAATATAAATTAATATTATTTAATT
1 ATAATAATAT-AATTAA-ATTATTAAATT
* * *
6813484 AT--TTATATAATTAAAAATATGTAAAAT
1 ATAATAATATAATT-AAATTAT-TAAATT
6813511 ATAAATAATATAATTAAATTATTAAATT
1 AT-AATAATATAATTAAATTATTAAATT
6813539 ATAATAA
1 ATAATAA
6813546 AAATAAAATT
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
26 8 0.16
27 17 0.35
28 7 0.14
29 8 0.16
30 9 0.18
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (27 bp):
ATAATAATATAATTAAATTATTAAATT
Found at i:6813582 original size:18 final size:19
Alignment explanation
Indices: 6813561--6813596 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6813551 AAATTTTGAA
*
6813561 TTAAAAT-TTTGATAAATT
1 TTAAAATATATGATAAATT
6813579 TTAAAATATATGATAAAT
1 TTAAAATATATGATAAAT
6813597 AATATTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (19 bp):
TTAAAATATATGATAAATT
Found at i:6813628 original size:12 final size:12
Alignment explanation
Indices: 6813580--6813637 Score: 50
Period size: 12 Copynumber: 5.1 Consensus size: 12
6813570 TGATAAATTT
* *
6813580 TAAAATATATGA
1 TAAAAAATATTA
*
6813592 TAAATAATATTA
1 TAAAAAATATTA
*
6813604 -AAAAAA-A-TC
1 TAAAAAATATTA
6813613 TAAAAAATATTA
1 TAAAAAATATTA
*
6813625 TAAATAATATTA
1 TAAAAAATATTA
6813637 T
1 T
6813638 TCTAAAATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
9 1 0.03
10 7 0.19
11 6 0.17
12 22 0.61
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (12 bp):
TAAAAAATATTA
Found at i:6816473 original size:24 final size:23
Alignment explanation
Indices: 6816441--6816489 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
6816431 TTTATATTTT
* * *
6816441 AAAATTTATTTGTTTGTTTTGTA
1 AAAATTTATATATTTATTTTGTA
6816464 AAAATATTATATATTTATTTTGTA
1 AAAAT-TTATATATTTATTTTGTA
6816488 AA
1 AA
6816490 TTATTAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (23 bp):
AAAATTTATATATTTATTTTGTA
Found at i:6816505 original size:23 final size:24
Alignment explanation
Indices: 6816457--6816502 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
6816447 TATTTGTTTG
6816457 TTTTGTAAAAATATTATATATTTA
1 TTTTGTAAAAATATTATATATTTA
*
6816481 TTTTGT-AAATTATTAATATATT
1 TTTTGTAAAAATATT-ATATATT
6816503 ATTATATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (24 bp):
TTTTGTAAAAATATTATATATTTA
Found at i:6821508 original size:4 final size:4
Alignment explanation
Indices: 6821499--6821523 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
6821489 GTAGTAGTAT
6821499 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
6821524 GTGCTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:6822315 original size:18 final size:18
Alignment explanation
Indices: 6822293--6822333 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
6822283 TAAAATTTTA
6822293 AAATTTATTATAATTAAT
1 AAATTTATTATAATTAAT
* * *
6822311 TAATTTTTTATATTTAAT
1 AAATTTATTATAATTAAT
6822329 AAATT
1 AAATT
6822334 CTTAAATAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AAATTTATTATAATTAAT
Found at i:6828059 original size:3 final size:3
Alignment explanation
Indices: 6828051--6828085 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
6828041 TATATTTTTG
6828051 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
6828086 GTCACCATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:6830480 original size:18 final size:18
Alignment explanation
Indices: 6830457--6830491 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6830447 CTGGTGACGT
6830457 GACTCAAAATATCAATTG
1 GACTCAAAATATCAATTG
*
6830475 GACTCAAAATATGAATT
1 GACTCAAAATATCAATT
6830492 TCTAAATCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (18 bp):
GACTCAAAATATCAATTG
Found at i:6834908 original size:2 final size:2
Alignment explanation
Indices: 6834851--6834890 Score: 55
Period size: 2 Copynumber: 20.0 Consensus size: 2
6834841 AGGCATTTCT
*
6834851 TA TA TCA TA TA TA TA GA TA TA TA TA TA TA TA TA -A TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6834891 AATCCTACTC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 31 0.91
3 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:6841454 original size:24 final size:24
Alignment explanation
Indices: 6841401--6841454 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
6841391 TAAATCAATT
6841401 AATT-AACAAAATAAATAATCCTA
1 AATTAAACAAAATAAATAATCCTA
*
6841424 AACTAAACAAAACT-AA-AATCCTAA
1 AATTAAACAAAA-TAAATAATCCT-A
6841448 AATTAAA
1 AATTAAA
6841455 TTGAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 9 0.35
24 16 0.62
25 1 0.04
ACGTcount: A:0.63, C:0.15, G:0.00, T:0.22
Consensus pattern (24 bp):
AATTAAACAAAATAAATAATCCTA
Found at i:6842367 original size:22 final size:21
Alignment explanation
Indices: 6842342--6842389 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
6842332 GGTTTTAAAG
*
6842342 ATTATACCCAGATGTCTTATAA
1 ATTATACCCAGA-GGCTTATAA
**
6842364 ATTATACCTGGAGGCTTATAA
1 ATTATACCCAGAGGCTTATAA
6842385 ATTAT
1 ATTAT
6842390 GTTTGGAAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (21 bp):
ATTATACCCAGAGGCTTATAA
Found at i:6842430 original size:22 final size:22
Alignment explanation
Indices: 6842355--6842457 Score: 84
Period size: 22 Copynumber: 4.7 Consensus size: 22
6842345 ATACCCAGAT
* *
6842355 GTCTTATAAATTATACCTGGAG
1 GTCTTACAAATTATGCCTGGAG
* ** *
6842377 G-CTTATAAATTATGTTTGGAA
1 GTCTTACAAATTATGCCTGGAG
* *
6842398 G-CTTTAAAAATTATGTCTGGAG
1 GTC-TTACAAATTATGCCTGGAG
*
6842420 GTCTTACAAATTATGCCCGGAG
1 GTCTTACAAATTATGCCTGGAG
* *
6842442 ATCTTACAAATCATGC
1 GTCTTACAAATTATGC
6842458 TCGAAAGTCT
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
21 18 0.27
22 48 0.72
23 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (22 bp):
GTCTTACAAATTATGCCTGGAG
Found at i:6842468 original size:22 final size:22
Alignment explanation
Indices: 6842420--6842512 Score: 75
Period size: 22 Copynumber: 4.2 Consensus size: 22
6842410 ATGTCTGGAG
* *
6842420 GTCTTACAAATTATGCCCG-GA
1 GTCTTACAAATTATGCTCGAAA
*
6842441 GATCTTACAAATCATGCTCGAAA
1 G-TCTTACAAATTATGCTCGAAA
*
6842464 GTCTTGA-AAATTAT-ATCCGAAA
1 GTCTT-ACAAATTATGCT-CGAAA
** *
6842486 ACCATACAAATTATGCTCGAAA
1 GTCTTACAAATTATGCTCGAAA
6842508 GTCTT
1 GTCTT
6842513 GAAACTTATG
Statistics
Matches: 54, Mismatches: 12, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
21 3 0.06
22 47 0.87
23 4 0.07
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (22 bp):
GTCTTACAAATTATGCTCGAAA
Found at i:6842468 original size:44 final size:44
Alignment explanation
Indices: 6842427--6842540 Score: 147
Period size: 44 Copynumber: 2.6 Consensus size: 44
6842417 GAGGTCTTAC
*
6842427 AAATTATGCCCGGAGATCTTACAAATCATGCTCGAAAGTCTTGA
1 AAATTATGCCCGGAGACCTTACAAATCATGCTCGAAAGTCTTGA
** * * * *
6842471 AAATTATATCCGAAAACCATACAAATTATGCTCGAAAGTCTTGA
1 AAATTATGCCCGGAGACCTTACAAATCATGCTCGAAAGTCTTGA
* *
6842515 AACTTATGCCTGGAGACCTTACAAAT
1 AAATTATGCCCGGAGACCTTACAAAT
6842541 TATATCTGGA
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 56 1.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (44 bp):
AAATTATGCCCGGAGACCTTACAAATCATGCTCGAAAGTCTTGA
Found at i:6847429 original size:21 final size:23
Alignment explanation
Indices: 6847393--6847444 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
6847383 GCAAATAGAG
6847393 AATAGAATATTTAAAA-CTTGAAA
1 AATA-AATATTTAAAAGCTTGAAA
*
6847416 AATAAATA-TTAAAAGCTTGACA
1 AATAAATATTTAAAAGCTTGAAA
6847438 AATAAAT
1 AATAAAT
6847445 TAAAAAAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 6 0.22
22 17 0.63
23 4 0.15
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.29
Consensus pattern (23 bp):
AATAAATATTTAAAAGCTTGAAA
Found at i:6847451 original size:22 final size:21
Alignment explanation
Indices: 6847405--6847450 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
6847395 TAGAATATTT
6847405 AAAACTTGAAAAATAAATATTA
1 AAAACTTGAAAAATAAATA-TA
* *
6847427 AAAGCTTGACAAATAAAT-TA
1 AAAACTTGAAAAATAAATATA
6847447 AAAA
1 AAAA
6847451 AATCTTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 5 0.24
22 16 0.76
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.24
Consensus pattern (21 bp):
AAAACTTGAAAAATAAATATA
Found at i:6862616 original size:23 final size:23
Alignment explanation
Indices: 6862564--6862871 Score: 84
Period size: 23 Copynumber: 12.9 Consensus size: 23
6862554 TTTACTTATA
6862564 AATAATAT--TATATAAATAAAT
1 AATAATATAATATATAAATAAAT
* *
6862585 ATTAATATAATATATTAATAAAT
1 AATAATATAATATATAAATAAAT
* *
6862608 AATATTATATTA-ATAAAATAATAT
1 AATAATATAATATAT-AAATAA-AT
* * *
6862632 ATTAATA-AATAT-TATATCAAT
1 AATAATATAATATATAAATAAAT
* * *
6862653 ATATAATTTTAATAAATAATATATTATT
1 A-ATAA-TATAATATATAA-ATA--AAT
6862681 AATAA-ATAATATACTATTAATAAAT
1 AATAATATAATATA-TA--AATAAAT
** *
6862706 AATAATATTGTATTATAAACAATAT
1 AATAATATAATA-TATAAATAA-AT
* ** **
6862731 AATAATA-AATCT-T-GTTATTTT
1 AATAATATAATATATAAATA-AAT
6862752 AATTAATA-AATAT-TATAATAATAT
1 AA-TAATATAATATATA-AATAA-AT
* *
6862776 ATTAATA-AATAATATACCATAATAT
1 AATAATATAAT-ATATA-AATAA-AT
*
6862801 AATATATTGATAAATATTATTAATAAAT
1 AATA-A-T-AT-AATA-TATAAATAAAT
* *
6862829 AATATTATAATATATGAATAAAT
1 AATAATATAATATATAAATAAAT
*
6862852 AATATATAGAATA-ATAAATA
1 AATA-ATATAATATATAAATA
6862872 GTTTTATTTT
Statistics
Matches: 208, Mismatches: 47, Indels: 62
0.66 0.15 0.20
Matches are distributed among these distances:
21 14 0.07
22 20 0.10
23 60 0.29
24 32 0.15
25 38 0.18
26 12 0.06
27 10 0.05
28 11 0.05
29 5 0.02
30 6 0.03
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
AATAATATAATATATAAATAAAT
Found at i:6862639 original size:57 final size:57
Alignment explanation
Indices: 6862561--6862835 Score: 181
Period size: 60 Copynumber: 4.7 Consensus size: 57
6862551 AATTTTACTT
6862561 ATAAATAATATTATATAAATAAATATTAAT-ATAATATATTAATAAATAATATTATATTA
1 ATAAATAATA-TAT-T-AATAAATATTAATAATAATATATTAATAAATAATATTATATTA
*
6862620 ATAAAATAATATATTAATAAATATTATATCAATATATAATTTTAATAAATAATA-TATTATTA
1 AT-AAATAATATATTAATAAATATTA-AT-AATA-AT-ATATTAATAAATAATATTA-TATTA
* * * * * * * *
6862682 ATAAATAATATACT-ATTAATAAATAATAATATTGTATT-ATAAACAATATAATAATAA
1 ATAAATAATATATTAATAAAT-ATTAATAATAATATATTAATAAATAATATTAT-ATTA
*** * * *
6862739 ATCTTGTTATTTTAATTAATAAATATT-ATAATAATATATTAATAAATAATA-TACCA-TA
1 A--TAAATAATAT-ATTAATAAATATTAATAATAATATATTAATAAATAATATTA-TATTA
* *
6862797 AT--ATAATATATTGATAAATATTATTAATAAATAATATTA
1 ATAAATAATATATTAATAAATATTAATAAT-AAT-ATATTA
6862836 TAATATATGA
Statistics
Matches: 168, Mismatches: 29, Indels: 41
0.71 0.12 0.17
Matches are distributed among these distances:
53 12 0.07
54 8 0.05
55 3 0.02
56 17 0.10
57 19 0.11
58 6 0.04
59 27 0.16
60 31 0.18
61 23 0.14
62 22 0.13
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (57 bp):
ATAAATAATATATTAATAAATATTAATAATAATATATTAATAAATAATATTATATTA
Found at i:6862665 original size:62 final size:61
Alignment explanation
Indices: 6862561--6862858 Score: 180
Period size: 62 Copynumber: 4.9 Consensus size: 61
6862551 AATTTTACTT
*
6862561 ATAAAT-A-ATATTATATAAATAAATATTAATATAATATATTAATAAATAATAT-TATATTA
1 ATAAATAATATATTATATAAATAAATATCAATATAATATATTAATAAATAATATAT-TATTA
* *
6862620 ATAAAATAATATATTA-ATAAATATTATATCAATAT-ATAATTTTAATAAATAATATATTATTA
1 AT-AAATAATATATTATATAAATA-AATATCAATATAAT-ATATTAATAAATAATATATTATTA
* * *
6862682 ATAAATAATATACTAT-T-AATAAATAAT-AATAT--TGTATT-ATAAACAATATA--A-TA
1 ATAAATAATATATTATATAAATAAAT-ATCAATATAATATATTAATAAATAATATATTATTA
** * * * * **
6862735 ATAAATCTTGTTATTTTAATTAATAAATAT-TATAATAATATATTAATAAATAATATACCA-TA
1 ATAAATAAT-ATATTAT-ATAAATAAATATCAAT-ATAATATATTAATAAATAATATATTATTA
* * * *
6862797 ATATAATATATTGATAAATATTATTAATAAATAAT-ATTATAATATATGAATAAATAATATAT
1 ATA-AATA-A-T-AT-ATTA-TATAAATAAAT-ATCAATATAATATATTAATAAATAATATAT
6862859 AGAATAATAA
Statistics
Matches: 190, Mismatches: 25, Indels: 41
0.74 0.10 0.16
Matches are distributed among these distances:
53 9 0.05
54 5 0.03
56 16 0.08
57 12 0.06
58 1 0.01
59 14 0.07
60 21 0.11
61 23 0.12
62 44 0.23
63 4 0.02
65 3 0.02
66 34 0.18
67 4 0.02
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (61 bp):
ATAAATAATATATTATATAAATAAATATCAATATAATATATTAATAAATAATATATTATTA
Found at i:6862670 original size:28 final size:31
Alignment explanation
Indices: 6862591--6862693 Score: 97
Period size: 31 Copynumber: 3.3 Consensus size: 31
6862581 AAATATTAAT
*
6862591 ATAATATATTAATAAATAATATTATATTAATAAA
1 ATAATATATTAAT--A-AATATTATATCAATAAA
*
6862625 ATAATATATTAATAAATATTATATCAAT-AT
1 ATAATATATTAATAAATATTATATCAATAAA
*
6862655 ATAAT-T-TTAATAAATAATATATTATTAAT-AA
1 ATAATATATTAATAAAT-AT-TA-TATCAATAAA
6862686 ATAATATA
1 ATAATATA
6862694 CTATTAATAA
Statistics
Matches: 60, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
28 9 0.15
29 3 0.05
30 8 0.13
31 25 0.42
32 2 0.03
34 13 0.22
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (31 bp):
ATAATATATTAATAAATATTATATCAATAAA
Found at i:6862706 original size:15 final size:14
Alignment explanation
Indices: 6862561--6862871 Score: 98
Period size: 15 Copynumber: 21.5 Consensus size: 14
6862551 AATTTTACTT
6862561 ATAAATA-ATATTA
1 ATAAATATATATTA
*
6862574 TATAAATAAATATTA
1 -ATAAATATATATTA
*
6862589 ATATA-ATATATTA
1 ATAAATATATATTA
6862602 ATAAATAATATTATATTA
1 AT--A-AATA-TATATTA
6862620 ATAAAATAATATATTA
1 AT-AAAT-ATATATTA
*
6862636 ATAAATATTATATCA
1 ATAAATA-TATATTA
* *
6862651 ATATATA-ATTTTA
1 ATAAATATATATTA
6862664 ATAAATAATATATTATTA
1 AT--A-AATATA-TATTA
*
6862682 ATAAATAATATACT-
1 ATAAAT-ATATATTA
*
6862696 ATTAATA-A-A-TA
1 ATAAATATATATTA
*
6862707 AT-AATATTGTATT-
1 ATAAATA-TATATTA
* *
6862720 ATAAACAATATAATA
1 ATAAA-TATATATTA
* *
6862735 ATAAATCTTGTTATTTTA
1 ATAAA---T-ATATATTA
* *
6862753 ATTAATAAATATT-
1 ATAAATATATATTA
6862766 AT-AATAATATATTA
1 ATAAAT-ATATATTA
6862780 ATAAATA-ATA-TA
1 ATAAATATATATTA
*
6862792 CCATAATATAATATATTG
1 --ATAA-AT-ATATATTA
6862810 ATAAATAT-TATTA
1 ATAAATATATATTA
6862823 ATAAATA-ATATT-
1 ATAAATATATATTA
*
6862835 AT-AATATATGAATAA
1 ATAAATATAT--ATTA
* *
6862850 ATAATATATAGAATA
1 ATAA-ATATATATTA
6862865 ATAAATA
1 ATAAATA
6862872 GTTTTATTTT
Statistics
Matches: 225, Mismatches: 31, Indels: 82
0.67 0.09 0.24
Matches are distributed among these distances:
10 5 0.02
11 7 0.03
12 10 0.04
13 45 0.20
14 42 0.19
15 52 0.23
16 26 0.12
17 13 0.06
18 25 0.11
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (14 bp):
ATAAATATATATTA
Found at i:6862719 original size:21 final size:18
Alignment explanation
Indices: 6862587--6862858 Score: 118
Period size: 18 Copynumber: 14.4 Consensus size: 18
6862577 AAATAAATAT
6862587 TAATATAATATATTAATAAA
1 TAATAT-AT-TATTAATAAA
6862607 TAATAT-TATATTAATAAAA
1 TAATATAT-TATTAAT-AAA
*
6862626 TAATATATTAATAAATATTATA
1 TAATATATT-ATTAATA--A-A
*
6862648 TCAATATATAATTTTAATAAA
1 T-AATATAT--TATTAATAAA
6862669 TAATATATTATTAATAAA
1 TAATATATTATTAATAAA
*
6862687 TAATATACTATTAATAAA
1 TAATATATTATTAATAAA
6862705 TAATAATATTGTATT-ATAAA
1 TAAT-ATA-T-TATTAATAAA
*
6862725 CAATATA--A-TAATAAA
1 TAATATATTATTAATAAA
** * *
6862740 TCTTGTTATT-TTAATTAA
1 TAAT-ATATTATTAATAAA
6862758 TAA-ATATTA-TAATAATA
1 TAATATATTATTAATAA-A
* * *
6862775 TATTA-ATAAATAATATACCA
1 TAATATATTATTAATA-A--A
* **
6862795 TAATATAATA-T-ATTGA
1 TAATATATTATTAATAAA
6862811 TAA-ATATTATTAATAAA
1 TAATATATTATTAATAAA
6862828 TAATATTATAATATATGAATAAA
1 TAATA-TAT--TAT-T-AATAAA
6862851 TAATATAT
1 TAATATAT
6862859 AGAATAATAA
Statistics
Matches: 193, Mismatches: 27, Indels: 62
0.68 0.10 0.22
Matches are distributed among these distances:
14 1 0.01
15 12 0.06
16 16 0.08
17 12 0.06
18 53 0.27
19 23 0.12
20 33 0.17
21 12 0.06
22 7 0.04
23 18 0.09
24 5 0.03
25 1 0.01
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.42
Consensus pattern (18 bp):
TAATATATTATTAATAAA
Found at i:6862964 original size:15 final size:15
Alignment explanation
Indices: 6862944--6862984 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
6862934 TATAATTATT
*
6862944 TTTTAATATTAATAA
1 TTTTAATATAAATAA
6862959 TTTTAATAATAAATAA
1 TTTTAAT-ATAAATAA
*
6862975 TTTCAATATA
1 TTTTAATATA
6862985 TTTTAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTTAATATAAATAA
Found at i:6862987 original size:26 final size:26
Alignment explanation
Indices: 6862954--6863017 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
6862944 TTTTAATATT
6862954 AATA-ATTTTAATAATAAATAATTTC
1 AATATATTTTAATAATAAATAATTTC
* *
6862979 AATATATTTTAATAATAAATATTTTT
1 AATATATTTTAATAATAAATAATTTC
*
6863005 TA-ATATTTTAATA
1 AATATATTTTAATA
6863018 GTTATATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
25 15 0.43
26 20 0.57
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (26 bp):
AATATATTTTAATAATAAATAATTTC
Found at i:6863263 original size:15 final size:16
Alignment explanation
Indices: 6863245--6863278 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6863235 ATATAATTAT
*
6863245 TTTTAAT-ATTAATAA
1 TTTTAATAATAAATAA
6863260 TTTTAATAATAAATAA
1 TTTTAATAATAAATAA
6863276 TTT
1 TTT
6863279 CGGTATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTAATAATAAATAA
Found at i:6863276 original size:25 final size:25
Alignment explanation
Indices: 6863248--6863318 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
6863238 TAATTATTTT
6863248 TAATATTAATA-ATTTTAATAATAAA
1 TAAT-TTAATATATTTTAATAATAAA
**
6863273 TAATTTCGGTATATTTTAATAATAAA
1 TAATTT-AATATATTTTAATAATAAA
*
6863299 TATTTTTAA-ATATTTTAATA
1 TA-ATTTAATATATTTTAATA
6863319 GTTATATTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
24 2 0.05
25 17 0.45
26 16 0.42
27 3 0.08
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (25 bp):
TAATTTAATATATTTTAATAATAAA
Found at i:6868683 original size:23 final size:26
Alignment explanation
Indices: 6868634--6868684 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
6868624 ACCTTTTGTT
* *
6868634 TTATTTATTAAAAAAGTATCATTATA
1 TTATTAATTAAAAAAGTATCATAATA
6868660 TTATTAATT-AAAAA-TAT-ATAATA
1 TTATTAATTAAAAAAGTATCATAATA
6868683 TT
1 TT
6868685 TAAATATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 7 0.30
24 3 0.13
25 5 0.22
26 8 0.35
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (26 bp):
TTATTAATTAAAAAAGTATCATAATA
Found at i:6876395 original size:61 final size:61
Alignment explanation
Indices: 6876329--6876444 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
6876319 TAATAAAAAT
*
6876329 CTCATAAATTCTCATCATAAATAATAGAATTATAAAATACATAAAA-TATAGTAAATTCAAA
1 CTCATAAATTCTCACCATAAATAATAGAATTATAAAATACATAAAACT-TAGTAAATTCAAA
* * * * * *
6876390 CTCATAAATTCTTACCATAGATGATGGAATTATGAAATATATAAAACTTAGTAAA
1 CTCATAAATTCTCACCATAAATAATAGAATTATAAAATACATAAAACTTAGTAAA
6876445 CTAAAATTCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
61 46 0.98
62 1 0.02
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.32
Consensus pattern (61 bp):
CTCATAAATTCTCACCATAAATAATAGAATTATAAAATACATAAAACTTAGTAAATTCAAA
Found at i:6876719 original size:15 final size:15
Alignment explanation
Indices: 6876699--6876755 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
6876689 TAAATCTCAT
6876699 AAAATAATATATTTA
1 AAAATAATATATTTA
*
6876714 AAAATAATA-ATATA
1 AAAATAATATATTTA
*
6876728 AAAATGAAT-TAATTA
1 AAAAT-AATATATTTA
6876743 AAAA-AATAATATT
1 AAAATAAT-ATATT
6876756 ATTTACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 3 0.09
14 9 0.26
15 22 0.65
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (15 bp):
AAAATAATATATTTA
Found at i:6876756 original size:14 final size:14
Alignment explanation
Indices: 6876699--6876757 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
6876689 TAAATCTCAT
*
6876699 AAAATAATATATTTA
1 AAAATAATAT-TATA
*
6876714 AAAATAATAATATA
1 AAAATAATATTATA
*
6876728 AAAATGAATTAATTAAA
1 AAAAT-AA-T-ATTATA
6876745 AAAATAATATTAT
1 AAAATAATATTAT
6876758 TTACCAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
14 12 0.33
15 12 0.33
16 3 0.08
17 9 0.25
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (14 bp):
AAAATAATATTATA
Done.