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 24 of 325
Found at i:7256220 original size:17 final size:17
Alignment explanation
Indices: 7256198--7256255 Score: 77
Period size: 17 Copynumber: 3.5 Consensus size: 17
7256188 CTACAATATA
7256198 AATATTAAATTTAATTT
1 AATATTAAATTTAATTT
*
7256215 AATATT-TATCTTAA--T
1 AATATTAAAT-TTAATTT
7256230 AATATTAAATTTAATTT
1 AATATTAAATTTAATTT
7256247 AATATTAAA
1 AATATTAAA
7256256 ATATTAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
15 11 0.31
16 4 0.11
17 20 0.57
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
AATATTAAATTTAATTT
Found at i:7256268 original size:19 final size:18
Alignment explanation
Indices: 7256227--7256272 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
7256217 TATTTATCTT
7256227 AATAATATT-AAATTTAA
1 AATAATATTAAAATTTAA
**
7256244 TTTAATATTAAAATATTAA
1 AATAATATTAAAAT-TTAA
7256263 AATAATATTA
1 AATAATATTA
7256273 TTTTTGGAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 7 0.30
18 4 0.17
19 12 0.52
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AATAATATTAAAATTTAA
Found at i:7258477 original size:22 final size:23
Alignment explanation
Indices: 7258430--7258488 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
7258420 AAAGCCTAGC
*
7258430 TATATACGAATAATTTTAAAGAAAA
1 TATATAC-AATAAATTT-AAGAAAA
7258455 TATATACAATAAATTT-AGAAAA
1 TATATACAATAAATTTAAGAAAA
*
7258477 TATTTAC-ATAAA
1 TATATACAATAAA
7258489 ATAATATGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 5 0.16
22 12 0.38
24 8 0.25
25 7 0.22
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (23 bp):
TATATACAATAAATTTAAGAAAA
Found at i:7258606 original size:13 final size:13
Alignment explanation
Indices: 7258584--7258616 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
7258574 AATAACATAC
7258584 AAAA-AAAAATAA
1 AAAATAAAAATAA
7258596 AAAATAAAAATAA
1 AAAATAAAAATAA
7258609 AACAATAA
1 AA-AATAA
7258617 TGTTTTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.21
13 10 0.53
14 5 0.26
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:7260107 original size:45 final size:44
Alignment explanation
Indices: 7260036--7260153 Score: 119
Period size: 45 Copynumber: 2.7 Consensus size: 44
7260026 TATCCTCAGT
* * ** * * * *
7260036 CTGCTCCATTGCGACTTCAGAAAGATAAAATTTTTAATTTTGAGC
1 CTGCTCCACTGCAACTTCAGGGAGATAAAACTTATAACTTCGA-C
* * * *
7260081 CTGCTCCGCTGCATCTTCAGGGAGATAAGACTTATCACTTCGAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAAACTTATAACTTCGAC
7260125 CTGCTCCACTGCAACTTCAGGGAGATAAA
1 CTGCTCCACTGCAACTTCAGGGAGATAAA
7260154 GTTTGCTATG
Statistics
Matches: 58, Mismatches: 15, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
44 27 0.47
45 31 0.53
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAAACTTATAACTTCGAC
Found at i:7260582 original size:133 final size:133
Alignment explanation
Indices: 7260330--7260649 Score: 534
Period size: 133 Copynumber: 2.4 Consensus size: 133
7260320 CTTCATAGCC
* * *
7260330 GATAAGACT-ACCATTCCTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCA
1 GATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTTCA
*
7260394 GTCTGCTTCCTACAACTTCAGGAAGATAAGACTTGTGGCTAAAATCTGCTTCATAGCCGATACAT
66 GTCTGCTTCCTACAACTTCAGGAAGATAAGACTTGTGGCTAAAATCTGCTCCATAGCCGATACAT
7260459 AAA
131 AAA
* *
7260462 GATAAGACTCGCCATTTCTGATTTGCTCCATAGCTGATACATGGAGATAAGATCTATAATTTTCA
1 GATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTTCA
* **
7260527 GTCTGCTTCCTGCAACTTCAGGAAGATAAGACTTGTGGCTAAAATCTGCTCCATAGTGGATACAT
66 GTCTGCTTCCTACAACTTCAGGAAGATAAGACTTGTGGCTAAAATCTGCTCCATAGCCGATACAT
*
7260592 AGA
131 AAA
*
7260595 GATAAGACTCGCCATTTCAGATCTGCTCCATAGCCGATACATGGAGATAAGATCT
1 GATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATGGAGATAAGATCT
7260650 GGTATTTAGC
Statistics
Matches: 174, Mismatches: 13, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
132 9 0.05
133 165 0.95
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (133 bp):
GATAAGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTTCA
GTCTGCTTCCTACAACTTCAGGAAGATAAGACTTGTGGCTAAAATCTGCTCCATAGCCGATACAT
AAA
Found at i:7260751 original size:133 final size:133
Alignment explanation
Indices: 7260639--7261319 Score: 954
Period size: 133 Copynumber: 5.1 Consensus size: 133
7260629 CGATACATGG
* *
7260639 AGATAAGATCTGGTATTTAGCCTGCTCTACTCCTGCTCAGTGAAGATAATGCTGATGATTGGAAT
1 AGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAAT
* * * * * *
7260704 CTGCTCCATCGTCGGTACGTGAAGATAAGATTCTCCAAAGTTCGATCTGCTTCACTCCTGCTCAG
66 CTGCTCCATTGCCGGTACATGAAGATAAGATTCGCCAAAATTTGATCTGCTTCACTCCTGCTCAG
*
7260769 TTA
131 TGA
* * ** *
7260772 AGATAAGATCTAGTATTTAGCCTGCTCCACTCTTGCTCAGTGAAGATAAGGCTGATGGCTGAAAT
1 AGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAAT
* * *
7260837 CTACTCCATTACCGGTACATGAAGATAAGACTT-GCCAAAATTTGATCTACTTCACTCCTGCTCA
66 CTGCTCCATTGCCGGTACATGAAGATAAGA-TTCGCCAAAATTTGATCTGCTTCACTCCTGCTCA
7260901 GTGA
130 GTGA
*
7260905 AGATAATATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGA
1 AGATAAGATCTGGTA--TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGA
* * * *
7260970 ATTTGCTCCATTGCCGGTACGTGGAGATAAGATTCTCC-AAATTTCGATCTGCTTCACTCCTGCT
64 ATCTGCTCCATTGCCGGTACATGAAGATAAGATTCGCCAAAATTT-GATCTGCTTCACTCCTGCT
7261034 CAGTGA
128 CAGTGA
* * ** *
7261040 AGATAAGATATGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAAATAAGGCTGATGGCTGAAAT
1 AGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAAT
* *
7261105 CTGCTCCATTGCTGATACATGAAGATAAGACTT-GCCAAAATTTGATCTGCTTCACTCCTGCTCA
66 CTGCTCCATTGCCGGTACATGAAGATAAGA-TTCGCCAAAATTTGATCTGCTTCACTCCTGCTCA
7261169 GTGA
130 GTGA
*
7261173 AGATAAGATCTGGTATGTTTAGCCTACTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGA
1 AGATAAGATCTGGTA--TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGA
* * * * *
7261238 ATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTC
64 ATCTGCTCCATTGCCGGTACATGAAGATAAGATTCGCCAAAATTTGATCTGCTTCACTCCTGCTC
*
7261303 AGCGA
129 AGTGA
7261308 AGATAAGATCTG
1 AGATAAGATCTG
7261320 TAATTTTAGC
Statistics
Matches: 484, Mismatches: 54, Indels: 18
0.87 0.10 0.03
Matches are distributed among these distances:
133 238 0.49
134 20 0.04
135 226 0.47
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (133 bp):
AGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAAT
CTGCTCCATTGCCGGTACATGAAGATAAGATTCGCCAAAATTTGATCTGCTTCACTCCTGCTCAG
TGA
Found at i:7260963 original size:268 final size:267
Alignment explanation
Indices: 7260639--7261331 Score: 1102
Period size: 268 Copynumber: 2.6 Consensus size: 267
7260629 CGATACATGG
* *
7260639 AGATAAGATCTGGTA--TTTAGCCTGCTCTACTCCTGCTCAGTGAAGATAATGCTGATGATTGGA
1 AGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGA
* * * *
7260702 ATCTGCTCCATCGTCGGTACGTGAAGATAAGATTCTCCAAAGTTCGATCTGCTTCACTCCTGCTC
66 ATCTGCTCCATTGCCGGTACGTGGAGATAAGATTCTCCAAAATTCGATCTGCTTCACTCCTGCTC
* * *
7260767 AGTTAAGATAAGATCTAGTATTTAGCCTGCTCCACTCTTGCTCAGTGAAGATAAGGCTGATGGCT
131 AGTGAAGATAAGATCT-GTATTTAGCCTGCTCCACTCCTGCTCAGTGAAAATAAGGCTGATGGCT
*
7260832 GAAATCTACTCCATTACCGGTACATGAAGATAAGACTTGCCAAAATTTGATCTACTTCACTCCTG
195 GAAATCTACTCCATTACCGATACATGAAGATAAGACTTGCCAAAATTTGATCTACTTCACTCCTG
7260897 CTCAGTGA
260 CTCAGTGA
*
7260905 AGATAATATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGA
1 AGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGA
* *
7260970 ATTTGCTCCATTGCCGGTACGTGGAGATAAGATTCTCCAAATTTCGATCTGCTTCACTCCTGCTC
66 ATCTGCTCCATTGCCGGTACGTGGAGATAAGATTCTCCAAAATTCGATCTGCTTCACTCCTGCTC
*
7261035 AGTGAAGATAAGATATGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAAATAAGGCTGATGGCT
131 AGTGAAGATAAGATCT-GTATTTAGCCTGCTCCACTCCTGCTCAGTGAAAATAAGGCTGATGGCT
* * * *
7261100 GAAATCTGCTCCATTGCTGATACATGAAGATAAGACTTGCCAAAATTTGATCTGCTTCACTCCTG
195 GAAATCTACTCCATTACCGATACATGAAGATAAGACTTGCCAAAATTTGATCTACTTCACTCCTG
7261165 CTCAGTGA
260 CTCAGTGA
*
7261173 AGATAAGATCTGGTATGTTTAGCCTACTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGA
1 AGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGA
* * * * * *
7261238 ATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTC
66 ATCTGCTCCATTGCCGGTACGTGGAGATAAGATTCTCCAAAATTCGATCTGCTTCACTCCTGCTC
*
7261303 AGCGAAGATAAGATCTGTAATTTTAGCCT
131 AGTGAAGATAAGATCTGT-A-TTTAGCCT
7261332 ATTACCCTAT
Statistics
Matches: 393, Mismatches: 30, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
266 14 0.04
267 2 0.01
268 369 0.94
269 8 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (267 bp):
AGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGA
ATCTGCTCCATTGCCGGTACGTGGAGATAAGATTCTCCAAAATTCGATCTGCTTCACTCCTGCTC
AGTGAAGATAAGATCTGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAAATAAGGCTGATGGCTG
AAATCTACTCCATTACCGATACATGAAGATAAGACTTGCCAAAATTTGATCTACTTCACTCCTGC
TCAGTGA
Found at i:7262799 original size:16 final size:16
Alignment explanation
Indices: 7262774--7262804 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7262764 CTCCAGTTTC
7262774 TTTTTATTTTTTTTTA
1 TTTTTATTTTTTTTTA
*
7262790 TTTTTCTTTTTTTTT
1 TTTTTATTTTTTTTT
7262805 GAAACTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.03, G:0.00, T:0.90
Consensus pattern (16 bp):
TTTTTATTTTTTTTTA
Found at i:7263351 original size:28 final size:28
Alignment explanation
Indices: 7263298--7263352 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
7263288 CTTTTTGTTG
* * *
7263298 TTTTTTTTTTGTTTTTTGCCTTCCTTTT
1 TTTTTTTTTTCTTTTTGGCCTGCCTTTT
7263326 TTTTGTTTTTTCTTTTTGGCC-GCCTTT
1 TTTT-TTTTTTCTTTTTGGCCTGCCTTT
7263353 GTTGTATTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.00, C:0.16, G:0.11, T:0.73
Consensus pattern (28 bp):
TTTTTTTTTTCTTTTTGGCCTGCCTTTT
Found at i:7266816 original size:22 final size:23
Alignment explanation
Indices: 7266769--7266827 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
7266759 AAAGCCTAGC
*
7266769 TATATACGAATAATTTTAAAGAAAA
1 TATATAC-AATAAATTT-AAGAAAA
7266794 TATATACAATAAATTT-AGAAAA
1 TATATACAATAAATTTAAGAAAA
*
7266816 TATTTAC-ATAAA
1 TATATACAATAAA
7266828 ATAATATGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 5 0.16
22 12 0.38
24 8 0.25
25 7 0.22
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (23 bp):
TATATACAATAAATTTAAGAAAA
Found at i:7267688 original size:27 final size:25
Alignment explanation
Indices: 7267658--7267710 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
7267648 TCACGCAAGA
*
7267658 AGAAAATGAAAGAATAATAACAAAATC
1 AGAAAAGGAAAGAA-AATAA-AAAATC
* *
7267685 AGAAAGGGAAAGAAACTAAAAAATC
1 AGAAAAGGAAAGAAAATAAAAAATC
7267710 A
1 A
7267711 CCTTTAACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 4 0.17
27 12 0.52
ACGTcount: A:0.66, C:0.08, G:0.15, T:0.11
Consensus pattern (25 bp):
AGAAAAGGAAAGAAAATAAAAAATC
Found at i:7270805 original size:67 final size:67
Alignment explanation
Indices: 7270731--7270872 Score: 248
Period size: 67 Copynumber: 2.1 Consensus size: 67
7270721 TTGAATGAAT
*
7270731 TGAATCAGAACATACTTGAAATTGAGAGAAATTGAAAACTAGGATAAAAATCAACAGCTAAATAT
1 TGAATCAGAACATACTTGAAATTGAGAGAAATTGAAAACTACGATAAAAATCAACAGCTAAATAT
7270796 GC
66 GC
* *
7270798 TGAATCAGAACATACTTGAAATTGATAGAAATTGAAAATTACGATAAAAATCAACAGCTAAATAT
1 TGAATCAGAACATACTTGAAATTGAGAGAAATTGAAAACTACGATAAAAATCAACAGCTAAATAT
*
7270863 GT
66 GC
7270865 TGAATCAG
1 TGAATCAG
7270873 TTTAATTTTC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 71 1.00
ACGTcount: A:0.49, C:0.11, G:0.15, T:0.25
Consensus pattern (67 bp):
TGAATCAGAACATACTTGAAATTGAGAGAAATTGAAAACTACGATAAAAATCAACAGCTAAATAT
GC
Found at i:7272034 original size:26 final size:26
Alignment explanation
Indices: 7272011--7272060 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
7272001 AATATTTATT
7272011 TATATAATATC-ATTAGTTATTTTAAA
1 TATATAATATCGATTA-TTATTTTAAA
* *
7272037 TATGTAATATCGTTTATTATTTTA
1 TATATAATATCGATTATTATTTTA
7272061 GTTAAAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 18 0.86
27 3 0.14
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.54
Consensus pattern (26 bp):
TATATAATATCGATTATTATTTTAAA
Found at i:7276617 original size:19 final size:19
Alignment explanation
Indices: 7276593--7276635 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
7276583 CCTAATTGAT
7276593 TATTTAA-TTATTTTATAAA
1 TATTTAATTTATTTT-TAAA
*
7276612 TATTTAATTTATTTTTAAT
1 TATTTAATTTATTTTTAAA
7276631 TATTT
1 TATTT
7276636 TATAAGAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TATTTAATTTATTTTTAAA
Found at i:7276741 original size:25 final size:25
Alignment explanation
Indices: 7276678--7276760 Score: 80
Period size: 25 Copynumber: 3.2 Consensus size: 25
7276668 AATTCTTTTA
*
7276678 AAAAAAT-TTAAAATTCTAATTTTT
1 AAAAAATATTAAAATTCTAATATTT
* *
7276702 AAAAAATATGAAAATTTTAATATTT
1 AAAAAATATTAAAATTCTAATATTT
7276727 -AAAAATATTATAAATTAGCCTAATATTAT
1 AAAAAATATTA-AAATT---CTAATATT-T
7276756 AAAAA
1 AAAAA
7276761 TTACTAGAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
24 16 0.34
25 19 0.40
28 7 0.15
29 1 0.02
30 4 0.09
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (25 bp):
AAAAAATATTAAAATTCTAATATTT
Found at i:7282808 original size:17 final size:17
Alignment explanation
Indices: 7282788--7282821 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7282778 AATATTTGAT
7282788 AAAAATATATATTTTTG
1 AAAAATATATATTTTTG
* *
7282805 AAAATTATTTATTTTTG
1 AAAAATATATATTTTTG
7282822 CAATTTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
AAAAATATATATTTTTG
Found at i:7285697 original size:40 final size:40
Alignment explanation
Indices: 7285645--7285723 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
7285635 GAAATGAATC
7285645 AATGAATGAATAGAGTTTAATTTATTTGAATGAAATATTT
1 AATGAATGAATAGAGTTTAATTTATTTGAATGAAATATTT
*
7285685 AATGAATGAATAGAGTTTAATTTGTTTGAATGAAATATT
1 AATGAATGAATAGAGTTTAATTTATTTGAATGAAATATT
7285724 ATGGAAATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (40 bp):
AATGAATGAATAGAGTTTAATTTATTTGAATGAAATATTT
Found at i:7285705 original size:18 final size:18
Alignment explanation
Indices: 7285645--7285705 Score: 50
Period size: 20 Copynumber: 3.2 Consensus size: 18
7285635 GAAATGAATC
7285645 AATGAATGAATAGAGTTT
1 AATGAATGAATAGAGTTT
* * * *
7285663 AATTTATTTGAATGAAATATTT
1 AA-TGA-ATGAAT-AGA-GTTT
7285685 AATGAATGAATAGAGTTT
1 AATGAATGAATAGAGTTT
7285703 AAT
1 AAT
7285706 TTGTTTGAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 8
0.66 0.17 0.17
Matches are distributed among these distances:
18 8 0.26
19 4 0.13
20 10 0.32
21 4 0.13
22 5 0.16
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.39
Consensus pattern (18 bp):
AATGAATGAATAGAGTTT
Found at i:7286038 original size:75 final size:75
Alignment explanation
Indices: 7285883--7286027 Score: 202
Period size: 75 Copynumber: 1.9 Consensus size: 75
7285873 GTACATCCAG
* * *
7285883 CTAGTGCTGGGCACACCATTATATTTGTCGGTTTATCCGACTAGCGTTAGCCGTAACCTTTGGCA
1 CTAGTGCTGGGCACACCATTATATTTGTCGATTTACCCGACTAGCGTTAGCCGCAACCTTTGGCA
* *
7285948 GTTTAGAGAA
66 GATTACAGAA
* * *
7285958 CTAGTGTTGGGCACACCATTATATTTGTCGATTTACCCGACTAGCGTTGAG-CGCAACTTTTGTC
1 CTAGTGCTGGGCACACCATTATATTTGTCGATTTACCCGACTAGCGTT-AGCCGCAACCTTTGGC
7286022 AGATTA
65 AGATTA
7286028 TCTGCCTAGT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
75 60 0.97
76 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (75 bp):
CTAGTGCTGGGCACACCATTATATTTGTCGATTTACCCGACTAGCGTTAGCCGCAACCTTTGGCA
GATTACAGAA
Found at i:7300780 original size:4 final size:4
Alignment explanation
Indices: 7300768--7300846 Score: 51
Period size: 4 Copynumber: 20.0 Consensus size: 4
7300758 ATAAGTAAAT
* * *
7300768 GAAA TAAA GAAA GAAA GAAA GTAA -AAC GAAA G--A GAAA GGAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA -GAAA GAAA
*
7300814 GAAA -ATAA AAAA GGGAAA GAAA GAAA G-AA GAAA
1 GAAA GA-AA GAAA --GAAA GAAA GAAA GAAA GAAA
7300847 CGCACAACCT
Statistics
Matches: 59, Mismatches: 7, Indels: 18
0.70 0.08 0.21
Matches are distributed among these distances:
2 2 0.03
3 5 0.08
4 44 0.75
5 5 0.08
6 3 0.05
ACGTcount: A:0.71, C:0.01, G:0.24, T:0.04
Consensus pattern (4 bp):
GAAA
Found at i:7300835 original size:26 final size:28
Alignment explanation
Indices: 7300773--7300842 Score: 90
Period size: 30 Copynumber: 2.5 Consensus size: 28
7300763 TAAATGAAAT
*
7300773 AAAGAAAGAAAGAAAGTAAAACGAAAGAG
1 AAAGAAAGAAAGAAAATAAAAC-AAAGAG
*
7300802 AAAGGAAAGAAAGAAAAT-AAA-AAAGGG
1 AAA-GAAAGAAAGAAAATAAAACAAAGAG
7300829 AAAGAAAGAAAGAA
1 AAAGAAAGAAAGAA
7300843 GAAACGCACA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
26 11 0.29
27 8 0.21
29 6 0.16
30 13 0.34
ACGTcount: A:0.71, C:0.01, G:0.24, T:0.03
Consensus pattern (28 bp):
AAAGAAAGAAAGAAAATAAAACAAAGAG
Found at i:7305168 original size:3 final size:3
Alignment explanation
Indices: 7305160--7305298 Score: 88
Period size: 3 Copynumber: 45.0 Consensus size: 3
7305150 AGGTGTAAAT
* * * *
7305160 ATA ATA ATA ATA AT- ATA TTG ATA ATAA ATA ATA ATA A-A AGGA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA A-TA ATA
* * * * * *
7305205 AAA ATA ATA GTA ATA ATA AGA ATA TTTA ATA ATA GTA ATA ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
7305251 ATA AT- ATAA ATA ATA ATA TATA CATGA ATA ATA ATA AT- ATAA ATA
1 ATA ATA AT-A ATA ATA ATA -ATA -AT-A ATA ATA ATA ATA AT-A ATA
7305296 ATA
1 ATA
7305299 GAAAAAATAA
Statistics
Matches: 108, Mismatches: 17, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
2 8 0.07
3 81 0.75
4 18 0.17
5 1 0.01
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:7309277 original size:49 final size:48
Alignment explanation
Indices: 7309189--7309308 Score: 134
Period size: 49 Copynumber: 2.5 Consensus size: 48
7309179 TATTCGGCCT
* * * ** * *
7309189 AGCAACGCCATTATATGGCCTAACATTCTGGCCTGCACCATTAGGTCT
1 AGCAAGGCCATCATATGGCCCAACATTCAAGCCTACACCATTAGGTCG
* *
7309237 AG-AAGGGTCATCCATATGGCCCAACATTCAAGCCTACACCATTTGGTCG
1 AGCAA-GGCCAT-CATATGGCCCAACATTCAAGCCTACACCATTAGGTCG
7309286 AGCAAGGCCATCATATGGCCCAA
1 AGCAAGGCCATCATATGGCCCAA
7309309 AATTTTTGCC
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
47 2 0.03
48 18 0.31
49 37 0.63
50 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (48 bp):
AGCAAGGCCATCATATGGCCCAACATTCAAGCCTACACCATTAGGTCG
Found at i:7315224 original size:26 final size:26
Alignment explanation
Indices: 7315175--7315251 Score: 111
Period size: 26 Copynumber: 3.0 Consensus size: 26
7315165 TTTGTCACCC
* *
7315175 CAATTTTA-CCTCAATAAAAATTTGA
1 CAATTTTACCCTTAATAAAATTTTGA
7315200 CAATTTTACCCTTAATAAAATTTTGA
1 CAATTTTACCCTTAATAAAATTTTGA
* *
7315226 CGATTTTACCCTTGATAAAATTTTGA
1 CAATTTTACCCTTAATAAAATTTTGA
7315252 GAAAATTCGT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
25 8 0.17
26 39 0.83
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.40
Consensus pattern (26 bp):
CAATTTTACCCTTAATAAAATTTTGA
Found at i:7319066 original size:13 final size:14
Alignment explanation
Indices: 7319050--7319078 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
7319040 CACCTCTCTA
7319050 TTTTATCTTT-TAT
1 TTTTATCTTTATAT
7319063 TTTTATCTTTATAT
1 TTTTATCTTTATAT
7319077 TT
1 TT
7319079 CCCATGCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTATCTTTATAT
Found at i:7321735 original size:31 final size:31
Alignment explanation
Indices: 7321697--7321774 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
7321687 TTTTTCCTAA
* *
7321697 TTTGATACTTGAGTTTGGCTTCAATATTCAT
1 TTTGATACTTGAGTTTAGCTTCAATATTCAC
* *
7321728 TTTGATACTTGAGTTTAGCTTCAATTTTTAC
1 TTTGATACTTGAGTTTAGCTTCAATATTCAC
*
7321759 TTTGGTACTTGAGTTT
1 TTTGATACTTGAGTTT
7321775 TTTCAATTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.21, C:0.12, G:0.17, T:0.51
Consensus pattern (31 bp):
TTTGATACTTGAGTTTAGCTTCAATATTCAC
Found at i:7327079 original size:56 final size:57
Alignment explanation
Indices: 7326999--7327131 Score: 173
Period size: 56 Copynumber: 2.3 Consensus size: 57
7326989 AACTAATAAA
* * *
7326999 TTTAATATAATATATTTTTTAAAAGTTATATAGAATTTTTAAA-TTATTTTTATTAC
1 TTTAATATAATATATTTTTAAAAAGTTATATAAAAATTTTAAATTTATTTTTATTAC
* *
7327055 TTTAATATAGTAT-TTTTTAAAAAAGTTATATAAAAATTTTAAATTTATTTTTATTAT
1 TTTAATATAATATATTTTT-AAAAAGTTATATAAAAATTTTAAATTTATTTTTATTAC
7327112 TTTAAATATTAA-ATATTTTT
1 TTT-AATA-TAATATATTTTT
7327132 TATATTGTAA
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
55 5 0.08
56 33 0.50
57 15 0.23
58 6 0.09
59 7 0.11
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.56
Consensus pattern (57 bp):
TTTAATATAATATATTTTTAAAAAGTTATATAAAAATTTTAAATTTATTTTTATTAC
Found at i:7327151 original size:26 final size:26
Alignment explanation
Indices: 7327093--7327149 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
7327083 TATAAAAATT
* * *
7327093 TTAAATTTATTTTTATTATTTTAAATA
1 TTAAATAT-TTTTTATTATTGTAAAAA
7327120 TTAAATATTTTTTA-TATTGTAAAAA
1 TTAAATATTTTTTATTATTGTAAAAA
7327145 TTAAA
1 TTAAA
7327150 ATTAATTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 14 0.52
26 6 0.22
27 7 0.26
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (26 bp):
TTAAATATTTTTTATTATTGTAAAAA
Found at i:7327210 original size:27 final size:32
Alignment explanation
Indices: 7327153--7327221 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 32
7327143 AATTAAAATT
*
7327153 AATTATATATAAATTAATAAAAATAATTTTTA
1 AATTATATTTAAATTAATAAAAATAATTTTTA
7327185 AATTA-ATTTAAA-TAAT-AAAA-AA-TTTTA
1 AATTATATTTAAATTAATAAAAATAATTTTTA
*
7327212 ATTTATATTT
1 AATTATATTT
7327222 CGTAAAACGT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 9 0.26
28 6 0.18
29 4 0.12
30 4 0.12
31 6 0.18
32 5 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (32 bp):
AATTATATTTAAATTAATAAAAATAATTTTTA
Found at i:7333812 original size:7 final size:7
Alignment explanation
Indices: 7333781--7333805 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7333771 CGTCTCATTC
7333781 CTCTCTT
1 CTCTCTT
7333788 CTCTCTT
1 CTCTCTT
7333795 CTCTCTT
1 CTCTCTT
7333802 CTCT
1 CTCT
7333806 ACTCTCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (7 bp):
CTCTCTT
Found at i:7334164 original size:22 final size:22
Alignment explanation
Indices: 7334136--7334180 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
7334126 GGGTGATGCC
7334136 ACCTCTCCACCACCCACAACAT
1 ACCTCTCCACCACCCACAACAT
7334158 ACCTCTCCACCACCCACAACAT
1 ACCTCTCCACCACCCACAACAT
7334180 A
1 A
7334181 ATATTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.53, G:0.00, T:0.13
Consensus pattern (22 bp):
ACCTCTCCACCACCCACAACAT
Found at i:7334585 original size:21 final size:21
Alignment explanation
Indices: 7334544--7334586 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
7334534 ACATTATATT
* *
7334544 TTTATTAATATAAAATCTAAA
1 TTTATTAATAAAAAATATAAA
7334565 TTTATT-ATAAAAAGATATAAA
1 TTTATTAATAAAAA-ATATAAA
7334586 T
1 T
7334587 CTTAAATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
TTTATTAATAAAAAATATAAA
Found at i:7335054 original size:22 final size:22
Alignment explanation
Indices: 7335029--7335083 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
7335019 AATATCTCAG
7335029 CATACCCCCACTACAACAGCCC
1 CATACCCCCACTACAACAGCCC
*
7335051 CATACCCCCACTACAACAGTCC
1 CATACCCCCACTACAACAGCCC
*
7335073 CATACCTCCAC
1 CATACCCCCAC
7335084 AGTCCTCGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.31, C:0.53, G:0.04, T:0.13
Consensus pattern (22 bp):
CATACCCCCACTACAACAGCCC
Found at i:7339161 original size:38 final size:38
Alignment explanation
Indices: 7339110--7339186 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
7339100 TCTGATCTAA
7339110 AAGGGTTACCTCACTTGATACTATTGATCACAATGTAT
1 AAGGGTTACCTCACTTGATACTATTGATCACAATGTAT
7339148 AAGGGTTACCTCACTTGATACTATTGATCACAATGTAT
1 AAGGGTTACCTCACTTGATACTATTGATCACAATGTAT
7339186 A
1 A
7339187 GATCATGTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (38 bp):
AAGGGTTACCTCACTTGATACTATTGATCACAATGTAT
Found at i:7341223 original size:20 final size:21
Alignment explanation
Indices: 7341184--7341223 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
7341174 TTCATGATAA
*
7341184 TTGATGAAATATTGATAATAC
1 TTGATGAAATATTGAAAATAC
*
7341205 TTGATGTAA-ATTGAAAATA
1 TTGATGAAATATTGAAAATA
7341224 AATCTCGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.45, C:0.03, G:0.15, T:0.38
Consensus pattern (21 bp):
TTGATGAAATATTGAAAATAC
Found at i:7341613 original size:46 final size:46
Alignment explanation
Indices: 7341561--7341876 Score: 436
Period size: 46 Copynumber: 6.9 Consensus size: 46
7341551 TTCTGAAATG
*
7341561 AAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
* *
7341607 AAATGTGTAAGACCATGGTTGAAAGATACCGTGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
*
7341653 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
* *
7341699 TAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
***
7341745 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-CGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
* ** ** * *
7341790 GAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCCGACAGA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
* * * * *
7341836 AAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
7341877 TCAAAGATAA
Statistics
Matches: 242, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 37 0.15
46 205 0.85
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
Found at i:7342178 original size:16 final size:17
Alignment explanation
Indices: 7342157--7342189 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7342147 ATGATGGAGC
7342157 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
7342173 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
7342190 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:7343996 original size:9 final size:9
Alignment explanation
Indices: 7343952--7343995 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
7343942 TTTGAACAAA
7343952 AATTGAGA-
1 AATTGAGAG
7343960 AATTTGAGAG
1 AA-TTGAGAG
7343970 AATTGAGAG
1 AATTGAGAG
7343979 AATTGAGAG
1 AATTGAGAG
7343988 --TTGAGAG
1 AATTGAGAG
7343995 A
1 A
7343996 GAATAAAGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.21
8 2 0.06
9 22 0.67
10 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.25
Consensus pattern (9 bp):
AATTGAGAG
Found at i:7351130 original size:1 final size:1
Alignment explanation
Indices: 7351124--7351149 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
7351114 GGGTGCATGC
7351124 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
7351150 GGGAAGAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:7354451 original size:84 final size:85
Alignment explanation
Indices: 7354293--7354539 Score: 248
Period size: 88 Copynumber: 2.9 Consensus size: 85
7354283 CAACATAAGG
* * * * * * * *
7354293 TTCGAGATTTTTGCCAAGGTTTTTTCAGCCTTCTCAATTATTTAATCTTACAAGTTAAAT-TCAT
1 TTCGAGATTTCTGTCAAGGTTGTTTCAGCATTTTCAATTATTTAATTTTAAAACTTAAATCTC-T
* * * * *
7354357 TTTCTCAAAAAT-GAGTTGAGT
65 TTTTTGAAAAATAAAG-AGAGC
* *
7354378 TTCGAGATTTCTGT-GAGGTTGTTTCAGCATTTTCAATTATTTAATTTTAAAACTTGAATCTCTT
1 TTCGAGATTTCTGTCAAGGTTGTTTCAGCATTTTCAATTATTTAATTTTAAAACTTAAATCTCTT
7354442 TTTTGAAAAAAATACAAGAGAGC
66 TTTTG--AAAAATA-AAGAGAGC
* * * * *
7354465 TTCGAGATTTCTGTCAAGGTCGTTTTAGCATTTTTAATTATTTAATTTTAGAACTCAAATCTCTT
1 TTCGAGATTTCTGTCAAGGTTGTTTCAGCATTTTCAATTATTTAATTTTAAAACTTAAATCTCTT
7354530 TTTTGAAAAA
66 TTTTGAAAAA
7354540 ATATAAGAAA
Statistics
Matches: 134, Mismatches: 22, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
84 42 0.31
85 14 0.10
86 11 0.08
87 17 0.13
88 50 0.37
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (85 bp):
TTCGAGATTTCTGTCAAGGTTGTTTCAGCATTTTCAATTATTTAATTTTAAAACTTAAATCTCTT
TTTTGAAAAATAAAGAGAGC
Found at i:7354506 original size:88 final size:87
Alignment explanation
Indices: 7354378--7354540 Score: 254
Period size: 88 Copynumber: 1.9 Consensus size: 87
7354368 TGAGTTGAGT
* * **
7354378 TTCGAGATTTCTGTGAGGTTGTTTCAGCATTTTCAATTATTTAATTTTAAAACTTGAATCTCTTT
1 TTCGAGATTTCTGTAAGGTCGTTTCAGCATTTTCAATTATTTAATTTTAAAACTCAAATCTCTTT
7354443 TTTGAAAAAAATACAAGAGAGC
66 TTTGAAAAAAATACAAGAGAGC
* * *
7354465 TTCGAGATTTCTGTCAAGGTCGTTTTAGCATTTTTAATTATTTAATTTTAGAACTCAAATCTCTT
1 TTCGAGATTTCTGT-AAGGTCGTTTCAGCATTTTCAATTATTTAATTTTAAAACTCAAATCTCTT
7354530 TTTTGAAAAAA
65 TTTTGAAAAAA
7354541 TATAAGAAAG
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
87 14 0.21
88 54 0.79
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (87 bp):
TTCGAGATTTCTGTAAGGTCGTTTCAGCATTTTCAATTATTTAATTTTAAAACTCAAATCTCTTT
TTTGAAAAAAATACAAGAGAGC
Found at i:7356781 original size:23 final size:24
Alignment explanation
Indices: 7356751--7356803 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
7356741 TTTTAAAATG
*
7356751 TATATACATGATATA-TATGAAAA
1 TATATACATAATATAGTATGAAAA
*
7356774 TATATACATAATATAGTATTAAAA
1 TATATACATAATATAGTATGAAAA
*
7356798 AATATA
1 TATATA
7356804 TATATACAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.36
Consensus pattern (24 bp):
TATATACATAATATAGTATGAAAA
Found at i:7359855 original size:16 final size:16
Alignment explanation
Indices: 7359834--7359867 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
7359824 ATGGGTTCGT
*
7359834 ATCATTTTAAGTTTAG
1 ATCATTTTAAGTATAG
7359850 ATCATTTTAAGTATAG
1 ATCATTTTAAGTATAG
7359866 AT
1 AT
7359868 GTTAACTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (16 bp):
ATCATTTTAAGTATAG
Found at i:7364976 original size:22 final size:23
Alignment explanation
Indices: 7364941--7364989 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
7364931 ATTGTAGAGT
* *
7364941 TTAAATCTTTTAGGACTCTCATC
1 TTAAATCTCTTAGGACTCCCATC
7364964 TTAAA-CTCTTAGGACTCCCATC
1 TTAAATCTCTTAGGACTCCCATC
7364986 TTAA
1 TTAA
7364990 TCTTGACCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (23 bp):
TTAAATCTCTTAGGACTCCCATC
Found at i:7368035 original size:17 final size:16
Alignment explanation
Indices: 7367994--7368038 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
7367984 ATTTTTTACA
7367994 ATAATTAATAT-AATTT
1 ATAA-TAATATAAATTT
7368010 A-AA-AATATAAATTAT
1 ATAATAATATAAATT-T
7368025 ATAATAATATAAAT
1 ATAATAATATAAAT
7368039 ACAATTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
13 5 0.20
14 4 0.16
15 4 0.16
16 3 0.12
17 9 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAATAATATAAATTT
Found at i:7371472 original size:21 final size:21
Alignment explanation
Indices: 7371443--7371508 Score: 66
Period size: 19 Copynumber: 3.3 Consensus size: 21
7371433 CTTTGGACCA
* * *
7371443 TGAACCTTGAACCCTTAATCT
1 TGAAACTTGAACCCTTAAACC
*
7371464 TGAAACTTGAACTC-TAAACC
1 TGAAACTTGAACCCTTAAACC
7371484 T-AAACTTGAA-CCTTAAACC
1 TGAAACTTGAACCCTTAAACC
*
7371503 TTAAAC
1 TGAAAC
7371509 CCCTAAACTT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
18 1 0.03
19 16 0.42
20 9 0.24
21 12 0.32
ACGTcount: A:0.38, C:0.26, G:0.08, T:0.29
Consensus pattern (21 bp):
TGAAACTTGAACCCTTAAACC
Found at i:7371761 original size:39 final size:39
Alignment explanation
Indices: 7371685--7371763 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 39
7371675 AATAAATATA
* *
7371685 ACTAGATAAATTAAAAATAATAAAAATTTAAACTCTATC
1 ACTAAATAAATTAAAAATAATAAAAATCTAAACTCTATC
**
7371724 ACTAAATAAA-TATAAAATAATAAAAATCTAATTTCTATC
1 ACTAAATAAATTA-AAAATAATAAAAATCTAAACTCTATC
7371763 A
1 A
7371764 ACTCTTTGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.06
39 33 0.94
ACGTcount: A:0.57, C:0.10, G:0.01, T:0.32
Consensus pattern (39 bp):
ACTAAATAAATTAAAAATAATAAAAATCTAAACTCTATC
Found at i:7373695 original size:14 final size:14
Alignment explanation
Indices: 7373676--7373705 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7373666 AATTAGCACA
7373676 ATTTTTAAAAAAAT
1 ATTTTTAAAAAAAT
*
7373690 ATTTTTATAAAAAT
1 ATTTTTAAAAAAAT
7373704 AT
1 AT
7373706 CAAAATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTTTTAAAAAAAT
Found at i:7373834 original size:6 final size:6
Alignment explanation
Indices: 7373815--7373859 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
7373805 TTTAAAAAAA
** *
7373815 ATAATT ATTAATT ATAATT ATAATT ATTTTT AAAATT ATAATT AT
1 ATAATT A-TAATT ATAATT ATAATT ATAATT ATAATT ATAATT AT
7373860 TTTTCAATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
6 26 0.81
7 6 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
ATAATT
Found at i:7373875 original size:24 final size:23
Alignment explanation
Indices: 7373822--7373900 Score: 89
Period size: 24 Copynumber: 3.7 Consensus size: 23
7373812 AAAATAATTA
7373822 TTAAT-TATAATTATAATTA-TT
1 TTAATATATAATTATAATTATTT
7373843 TT--TA-A-AATTATAATTATTT
1 TTAATATATAATTATAATTATTT
*
7373862 TTCAATATGTAATTATAATTATTT
1 TT-AATATATAATTATAATTATTT
*
7373886 TTAATGTATAATTAT
1 TTAATATATAATTAT
7373901 CACAACTTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
18 11 0.23
19 6 0.12
21 2 0.04
22 2 0.04
23 11 0.23
24 16 0.33
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.56
Consensus pattern (23 bp):
TTAATATATAATTATAATTATTT
Found at i:7373877 original size:18 final size:18
Alignment explanation
Indices: 7373798--7373863 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
7373788 GCATTGCTTA
**
7373798 AATTATTTTTAAAAAAAAT
1 AATTATTTTT-AAAATTAT
* *
7373817 AATTATTAATTATAATTAT
1 AATTATT-TTTAAAATTAT
7373836 AATTATTTTTAAAATTAT
1 AATTATTTTTAAAATTAT
7373854 AATTATTTTT
1 AATTATTTTT
7373864 CAATATGTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
18 19 0.47
19 19 0.47
20 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AATTATTTTTAAAATTAT
Found at i:7387714 original size:559 final size:559
Alignment explanation
Indices: 7386611--7387725 Score: 2027
Period size: 559 Copynumber: 2.0 Consensus size: 559
7386601 TCGAGCAATT
7386611 TGAAGGTATTTTTCATGTTTTTACTTAGTTTTAGTTCTTTGCTTTAATAAGTGAATTAGTGTGTT
1 TGAAGGTATTTTTCATGTTTTTACTTAGTTTTAGTTCTTTGCTTTAATAAGTGAATTAGTGTGTT
* * *
7386676 TTATACTATTTTTGAAACTCAAGCTGGTCAAGTGTGCCAAAGGAAACCTAATGGGTTGATTGAGT
66 TTACACTATTTTTGAAACCCAAGCTGGTCAAGTGCGCCAAAGGAAACCTAATGGGTTGATTGAGT
7386741 GTTGTAGGGAGTCGATGGCGGCCTAAACGTGAAGAAAACATCACTTAGAATAGGGGTATCGTGAT
131 GTTGTAGGGAGTCGATGGCGGCCTAAACGTGAAGAAAACATCACTTAGAATAGGGGTATCGTGAT
* * *
7386806 ATTGAAGCATAGAAGTCGTGATACCCCTAACAGACTGAAACGATGAGGATTAAGGCCATCTGCAG
196 ATCGAAGCAAAGAAGTCGTGATAACCCTAACAGACTGAAACGATGAGGATTAAGGCCATCTGCAG
7386871 TGGTATCGCGATACTAGCCATGGGTATTGCAATACCCAACCTCCCAAGGCTCCCCCATTTCAAGA
261 TGGTATCGCGATACTAGCCATGGGTATTGCAATACCCAACCTCCCAAGGCTCCCCCATTTCAAGA
*
7386936 TTGTTGTGGGTATCTCGGTACCAGACCATGGTTATCACAATACCCCTAATGAGAGGAGACCAAAA
326 TTATTGTGGGTATCTCGGTACCAGACCATGGTTATCACAATACCCCTAATGAGAGGAGACCAAAA
7387001 AAAAAACTGATTGCAGGGGTAATCCTTGTACAACTTTAACATCAATCAAATTTAGACGTTGAGAG
391 AAAAAACTGATTGCAGGGGTAATCCTTGTACAACTTTAACATCAATCAAATTTAGACGTTGAGAG
* * *
7387066 GCATTTTGGTTACAAAAATTAGGTTGTAATCAAATTAAACAGCCACTTGTGTCTGAGAATTGGAG
456 GCATTTTGGTCACAAAAATTAGGTTGTAATCAAATTAAAAAGCCACTTGTGTCTGAGAATTGAAG
7387131 GAAAAGCTTTTATTTAGGTTTTTTTTTTCATATTTTTCA
521 GAAAAGCTTTTATTTAGGTTTTTTTTTTCATATTTTTCA
7387170 TGAAGGTATTTTTCATGTTTTTACTTAGTTTTAGTTCTTTGCTTTAATAAGTGAATTAGTGTGTT
1 TGAAGGTATTTTTCATGTTTTTACTTAGTTTTAGTTCTTTGCTTTAATAAGTGAATTAGTGTGTT
* *
7387235 TTACACTATTTTTGAGACCCAAGTTGGTCAAGTGCGCCAAAGGAAACCTAATGGGTTGATTGAGT
66 TTACACTATTTTTGAAACCCAAGCTGGTCAAGTGCGCCAAAGGAAACCTAATGGGTTGATTGAGT
*
7387300 GTTGTAGGGAGTCGATGGTGGCCTAAACGTGAAGAAAACATCACTTAGAATAGGGGTATCGTGAT
131 GTTGTAGGGAGTCGATGGCGGCCTAAACGTGAAGAAAACATCACTTAGAATAGGGGTATCGTGAT
* * * *
7387365 ATCGAAGCAAAGAAGTCGTGATAACCCTGACAGTGCTGAAGCGATGAGGATTAAGGCCATCTGTA
196 ATCGAAGCAAAGAAGTCGTGATAACCCTAACAG-ACTGAAACGATGAGGATTAAGGCCATCTGCA
*
7387430 GTGGTATGGCGATACTAGCCATGGGTATTGCAATACCCAACCTCCCAAGGCTCCCCCATTTCAAG
260 GTGGTATCGCGATACTAGCCATGGGTATTGCAATACCCAACCTCCCAAGGCTCCCCCATTTCAAG
7387495 ATTATTGTGGGTATCTCGGTACCAGACCATGGTTATCACAATACCCCTAATGAGAGGAGA-C-AA
325 ATTATTGTGGGTATCTCGGTACCAGACCATGGTTATCACAATACCCCTAATGAGAGGAGACCAAA
*
7387558 AAAAAAACTGATTGCAGGGGTAATCCTTGTACAACTTTAACATCAATCAAATTTAGACGTTGAGG
390 AAAAAAACTGATTGCAGGGGTAATCCTTGTACAACTTTAACATCAATCAAATTTAGACGTTGAGA
*
7387623 GGCATTTTGGTCACAAAAATTAGGTTGTAATCAAATTAAAAAGCTACTTGTGTCTGAGAATTGAA
455 GGCATTTTGGTCACAAAAATTAGGTTGTAATCAAATTAAAAAGCCACTTGTGTCTGAGAATTGAA
7387688 GGAAAAGCTTTTATTTAGGTTTTTTTTTTCATATTTTT
520 GGAAAAGCTTTTATTTAGGTTTTTTTTTTCATATTTTT
7387726 AGCTTAGGTT
Statistics
Matches: 535, Mismatches: 20, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
558 165 0.31
559 219 0.41
560 151 0.28
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (559 bp):
TGAAGGTATTTTTCATGTTTTTACTTAGTTTTAGTTCTTTGCTTTAATAAGTGAATTAGTGTGTT
TTACACTATTTTTGAAACCCAAGCTGGTCAAGTGCGCCAAAGGAAACCTAATGGGTTGATTGAGT
GTTGTAGGGAGTCGATGGCGGCCTAAACGTGAAGAAAACATCACTTAGAATAGGGGTATCGTGAT
ATCGAAGCAAAGAAGTCGTGATAACCCTAACAGACTGAAACGATGAGGATTAAGGCCATCTGCAG
TGGTATCGCGATACTAGCCATGGGTATTGCAATACCCAACCTCCCAAGGCTCCCCCATTTCAAGA
TTATTGTGGGTATCTCGGTACCAGACCATGGTTATCACAATACCCCTAATGAGAGGAGACCAAAA
AAAAAACTGATTGCAGGGGTAATCCTTGTACAACTTTAACATCAATCAAATTTAGACGTTGAGAG
GCATTTTGGTCACAAAAATTAGGTTGTAATCAAATTAAAAAGCCACTTGTGTCTGAGAATTGAAG
GAAAAGCTTTTATTTAGGTTTTTTTTTTCATATTTTTCA
Found at i:7389431 original size:21 final size:22
Alignment explanation
Indices: 7389390--7389437 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
7389380 ATAAAAATTC
7389390 AAAAA-ATAAAATATTTCTAAA
1 AAAAATATAAAATATTTCTAAA
*
7389411 AAAAATATAAAATGTTT-TAAA
1 AAAAATATAAAATATTTCTAAA
7389432 AAAAAT
1 AAAAAT
7389438 TACCTATGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAAATATAAAATATTTCTAAA
Found at i:7396872 original size:31 final size:29
Alignment explanation
Indices: 7396796--7396872 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
7396786 TGAATCAAAT
* *
7396796 CAAAATTTTATGTATAGAATTACATAAAAT
1 CAAAA-TTTATGTATAAAATTACATAAAAC
* *
7396826 CAAAATTCATGTATAAAATTATATATTAAAC
1 CAAAATTTATGTATAAAATTACATA--AAAC
*
7396857 CAAAATTTATATATAA
1 CAAAATTTATGTATAA
7396873 TTTTAAGATT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
29 17 0.44
30 5 0.13
31 17 0.44
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.36
Consensus pattern (29 bp):
CAAAATTTATGTATAAAATTACATAAAAC
Found at i:7398328 original size:38 final size:38
Alignment explanation
Indices: 7398254--7398328 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 38
7398244 ATGTTATCCT
**
7398254 ACTACATCAATTGGATTAATTCAACCAAGAGTAAATGC
1 ACTACATCAATTGGATTAATTCAACCAAGACCAAATGC
* * * *
7398292 ACTACATTAATTGGATTTATTTAACCAATACCAAATG
1 ACTACATCAATTGGATTAATTCAACCAAGACCAAATG
7398329 TTACATCACA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.31
Consensus pattern (38 bp):
ACTACATCAATTGGATTAATTCAACCAAGACCAAATGC
Found at i:7403520 original size:32 final size:32
Alignment explanation
Indices: 7403479--7403542 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
7403469 CCTACGCTTT
*
7403479 CGCCTCCGTACTCCTCACGCCAAACGCCAGCA
1 CGCCTCCGTACCCCTCACGCCAAACGCCAGCA
*
7403511 CGCCTCCGTACCCCTCACGCCAAGCGCCAGCA
1 CGCCTCCGTACCCCTCACGCCAAACGCCAGCA
7403543 TGACCCCCGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.20, C:0.52, G:0.17, T:0.11
Consensus pattern (32 bp):
CGCCTCCGTACCCCTCACGCCAAACGCCAGCA
Found at i:7404605 original size:13 final size:14
Alignment explanation
Indices: 7404587--7404615 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
7404577 TTAGATTCAT
7404587 TTCATGTTT-TTTA
1 TTCATGTTTATTTA
7404600 TTCATGTTTATTTA
1 TTCATGTTTATTTA
7404614 TT
1 TT
7404616 TGTATAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.69
Consensus pattern (14 bp):
TTCATGTTTATTTA
Found at i:7406110 original size:131 final size:131
Alignment explanation
Indices: 7405936--7406296 Score: 429
Period size: 131 Copynumber: 2.7 Consensus size: 131
7405926 TTCATTCAAC
* * * *
7405936 AATTCTTCAAAACAAAGACGAGATTCGATGTTCGGCAATTCGCGGAATCATGCCCTAACGTGTTG
1 AATTCTTCAAAACGAAGACGAGATTCGATATT-TGCAATTCGCGGAATCATGCCCTAACGTGCTG
** * *
7406001 GGTTGCAATTTCGCACTTGCTCAAAATAATCGAATATCACTTCAAAATTTCATTCATGTCTT-TT
65 GGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCATTCATATCTTCTA
7406065 AA
130 AA
* * * *
7406067 AATTCTTCAAAACGAAGACGAGATTCGATATTTAGTAATTCGCGGAATCGTGCCTTAACGCGCTG
1 AATTCTTCAAAACGAAGACGAGATTCGATATTT-GCAATTCGCGGAATCATGCCCTAACGTGCTG
* * *
7406132 GGTTGCAATTTCGCGTTTGCTCAAAATAATCGAGTATCCCTTCAAGATTTCATTCATATCTTCTA
65 GGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCATTCATATCTTCTA
7406197 AA
130 AA
* * * * * ** * *
7406199 AATTATTTAAAACGAAGGCAATATTCGGCATTTGACAATTCG-AGAATCATGCCCTATCGTGCTG
1 AATTCTTCAAAACGAAGACGAGATTCGATATTTG-CAATTCGCGGAATCATGCCCTAACGTGCTG
** * *
7406263 GGTTGTGATTTCTCGTTTGCTCAAAATGATCGAA
65 GGTTGCAATTTCGCGTTTGCTCAAAATAATCGAA
7406297 CATTCCTTTA
Statistics
Matches: 194, Mismatches: 33, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
131 159 0.82
132 35 0.18
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (131 bp):
AATTCTTCAAAACGAAGACGAGATTCGATATTTGCAATTCGCGGAATCATGCCCTAACGTGCTGG
GTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCATTCATATCTTCTAA
A
Found at i:7408118 original size:18 final size:18
Alignment explanation
Indices: 7408095--7408130 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
7408085 TGAAGTAGGA
7408095 GTCTTGAACCCATCGTTG
1 GTCTTGAACCCATCGTTG
7408113 GTCTTGAACCCATCGTTG
1 GTCTTGAACCCATCGTTG
7408131 TCGTTTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.28, G:0.22, T:0.33
Consensus pattern (18 bp):
GTCTTGAACCCATCGTTG
Found at i:7421898 original size:21 final size:21
Alignment explanation
Indices: 7421860--7421914 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 21
7421850 TTTTTTATTT
* *
7421860 TTAATAAAAAAAGTAAAATTAA
1 TTAAT-AAAAAAGCAAAATAAA
7421882 TT-ATAAAAAAGACAAAATAAA
1 TTAATAAAAAAG-CAAAATAAA
7421903 TTAAATAAAAAA
1 TT-AATAAAAAA
7421915 TGAAGGGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 7 0.25
21 11 0.39
22 2 0.07
23 8 0.29
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.24
Consensus pattern (21 bp):
TTAATAAAAAAGCAAAATAAA
Found at i:7423546 original size:3 final size:3
Alignment explanation
Indices: 7423540--7423594 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
7423530 GTTGTTGTTG
7423540 TTA TTA TTA 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
7423588 TTA TTA T
1 TTA TTA T
7423595 GTAATCACCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7424067 original size:21 final size:21
Alignment explanation
Indices: 7424043--7424083 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
7424033 TATGGTTAGT
*
7424043 CAAGTGGTTAGTTTTTGTTAC
1 CAAGTGGTTAGTGTTTGTTAC
7424064 CAAGTGGTTAGTGTTTGTTA
1 CAAGTGGTTAGTGTTTGTTA
7424084 TCACTCACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.07, G:0.27, T:0.46
Consensus pattern (21 bp):
CAAGTGGTTAGTGTTTGTTAC
Found at i:7424281 original size:41 final size:42
Alignment explanation
Indices: 7424223--7424330 Score: 175
Period size: 41 Copynumber: 2.6 Consensus size: 42
7424213 ACGAAAAGGA
*
7424223 AAGAAGGGAGCAGCACAGGGTCTTTAGAGATACTTGCAGGTG
1 AAGAAGGGAGCAGCACAGGGTCCTTAGAGATACTTGCAGGTG
7424265 AAGAA-GGAGCAGCACAGGGTCCTTAGAGATACTTGCAGGTG
1 AAGAAGGGAGCAGCACAGGGTCCTTAGAGATACTTGCAGGTG
*
7424306 AAGAATGGAGCAGCAC-GTGGTCCTT
1 AAGAAGGGAGCAGCACAG-GGTCCTT
7424331 TTCAAATAAA
Statistics
Matches: 63, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
41 41 0.65
42 22 0.35
ACGTcount: A:0.31, C:0.17, G:0.34, T:0.19
Consensus pattern (42 bp):
AAGAAGGGAGCAGCACAGGGTCCTTAGAGATACTTGCAGGTG
Found at i:7427193 original size:21 final size:21
Alignment explanation
Indices: 7427169--7427209 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
7427159 TATGGTTAGT
7427169 CAAGTGGTTAGTATTTGTTAC
1 CAAGTGGTTAGTATTTGTTAC
*
7427190 CAAGTGGTTAGTGTTTGTTA
1 CAAGTGGTTAGTATTTGTTA
7427210 TCACTCACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.22, C:0.07, G:0.27, T:0.44
Consensus pattern (21 bp):
CAAGTGGTTAGTATTTGTTAC
Found at i:7429856 original size:3 final size:3
Alignment explanation
Indices: 7429850--7429900 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
7429840 ATGTGAAATG
* * * *
7429850 TAT TAT TAT TAT TCT TAT CAT TAT CAT TAT CAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7429898 TAT
1 TAT
7429901 GTAATCTCCG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:7430374 original size:21 final size:21
Alignment explanation
Indices: 7430344--7430393 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
7430334 CTGGTATATG
7430344 GTTATTCAAGTGGTTAGTATTT
1 GTTA-TCAAGTGGTTAGTATTT
*
7430366 GTTATCAAGTGGTTAGTGTTT
1 GTTATCAAGTGGTTAGTATTT
*
7430387 ATTATCA
1 GTTATCA
7430394 CTCACTAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.24, C:0.06, G:0.22, T:0.48
Consensus pattern (21 bp):
GTTATCAAGTGGTTAGTATTT
Found at i:7430594 original size:42 final size:42
Alignment explanation
Indices: 7430530--7430626 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
7430520 ACGAAAAGGA
* * * *
7430530 AAGAAGGGAGCAGCATAGGGTCCTTAGATATACTTACAAGTG
1 AAGAAGGGAGCAGCACAAGGTCCTTAGAGAAACTTACAAGTG
* * *
7430572 AAGAAGGGAGCAGCCCAAGGTCCTTAGAGAAACTTGCAGGTG
1 AAGAAGGGAGCAGCACAAGGTCCTTAGAGAAACTTACAAGTG
*
7430614 AAGAATGGAGCAG
1 AAGAAGGGAGCAG
7430627 TATGTGGTCC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.36, C:0.15, G:0.32, T:0.16
Consensus pattern (42 bp):
AAGAAGGGAGCAGCACAAGGTCCTTAGAGAAACTTACAAGTG
Found at i:7434371 original size:155 final size:155
Alignment explanation
Indices: 7434132--7434442 Score: 559
Period size: 155 Copynumber: 2.0 Consensus size: 155
7434122 GTTTATTCCT
*
7434132 GGTTGGGTTGGGTTCATTGATTTGTTGCTGGGATTATTTTGATTGTGTGTGAGTTGTGTAATGGG
1 GGTTGGGTTGGGTTCATTGATTTGCTGCTGGGATTATTTTGATTGTGTGTGAGTTGTGTAATGGG
* *
7434197 GTTTTTGGCTGTGGTTCATCTTGAAGGTGGCCTTTTTTCCTGGTTGTTTGCTGGGTTTATTTTCT
66 GTTTTTGGCTGCGGGTCATCTTGAAGGTGGCCTTTTTTCCTGGTTGTTTGCTGGGTTTATTTTCT
7434262 GGTTATCGTGCAGAGGAGATCATGG
131 GGTTATCGTGCAGAGGAGATCATGG
* *
7434287 GGTTGGTTTGGGTTCATTGATTTGCTGTTGGGATTATTTTGATTGTGTGTGAGTTGTGTAATGGG
1 GGTTGGGTTGGGTTCATTGATTTGCTGCTGGGATTATTTTGATTGTGTGTGAGTTGTGTAATGGG
* *
7434352 GTTTTTGGTTGCGGGTCATCTTGAGGGTGGCCTTTTTTCCTGGTTGTTTGCTGGGTTTATTTTCT
66 GTTTTTGGCTGCGGGTCATCTTGAAGGTGGCCTTTTTTCCTGGTTGTTTGCTGGGTTTATTTTCT
7434417 GGTTATCGTGCAGAGGAGATCATGG
131 GGTTATCGTGCAGAGGAGATCATGG
7434442 G
1 G
7434443 AAGTGTAGTC
Statistics
Matches: 149, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
155 149 1.00
ACGTcount: A:0.11, C:0.09, G:0.35, T:0.45
Consensus pattern (155 bp):
GGTTGGGTTGGGTTCATTGATTTGCTGCTGGGATTATTTTGATTGTGTGTGAGTTGTGTAATGGG
GTTTTTGGCTGCGGGTCATCTTGAAGGTGGCCTTTTTTCCTGGTTGTTTGCTGGGTTTATTTTCT
GGTTATCGTGCAGAGGAGATCATGG
Found at i:7435156 original size:15 final size:15
Alignment explanation
Indices: 7435124--7435152 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
7435114 CATGTGTCAC
7435124 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
7435139 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
7435153 TATTATACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:7435779 original size:9 final size:8
Alignment explanation
Indices: 7435758--7435796 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
7435748 TAAAAAAATG
7435758 TAATTTTA
1 TAATTTTA
7435766 TAATTTTAA
1 TAATTTT-A
7435775 TAA-TTTA
1 TAATTTTA
*
7435782 TATTTTTA
1 TAATTTTA
7435790 TAATTTT
1 TAATTTT
7435797 GAAAAGATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 3 0.11
8 20 0.74
9 4 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TAATTTTA
Found at i:7435792 original size:15 final size:16
Alignment explanation
Indices: 7435762--7435795 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
7435752 AAAATGTAAT
7435762 TTTATAATTTTAATAA
1 TTTATAATTTTAATAA
*
7435778 TTTAT-ATTTTTATAA
1 TTTATAATTTTAATAA
7435793 TTT
1 TTT
7435796 TGAAAAGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTATAATTTTAATAA
Found at i:7436492 original size:17 final size:17
Alignment explanation
Indices: 7436470--7436502 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7436460 TAATTATAAT
7436470 TTTTTGGAT-TTTTTATA
1 TTTTT-GATATTTTTATA
7436487 TTTTTGATATTTTTAT
1 TTTTTGATATTTTTAT
7436503 TTATATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (17 bp):
TTTTTGATATTTTTATA
Found at i:7437126 original size:15 final size:14
Alignment explanation
Indices: 7437077--7437126 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
7437067 ATTCAAACAC
7437077 TAAAAAA-TATTTT
1 TAAAAAATTATTTT
*
7437090 AAAAAAAATTATTTT
1 -TAAAAAATTATTTT
*
7437105 TCAAAAATTATTTT
1 TAAAAAATTATTTT
7437119 TAATAAAA
1 TAA-AAAA
7437127 CATACATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 20 0.67
15 10 0.33
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (14 bp):
TAAAAAATTATTTT
Found at i:7438595 original size:20 final size:20
Alignment explanation
Indices: 7438572--7438611 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
7438562 TGAAATTTTA
7438572 AAAGATAAAT-ACAAATAAAT
1 AAAGATAAATGA-AAATAAAT
7438592 AAAGATAAATGAAAATAAAT
1 AAAGATAAATGAAAATAAAT
7438612 CCTAGAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (20 bp):
AAAGATAAATGAAAATAAAT
Found at i:7440250 original size:18 final size:17
Alignment explanation
Indices: 7440217--7440264 Score: 66
Period size: 15 Copynumber: 2.9 Consensus size: 17
7440207 TTAATATCTG
7440217 AAAATAATAAAT--AAT
1 AAAATAATAAATAAAAT
7440232 AAAATAATAAGATAAAAT
1 AAAATAATAA-ATAAAAT
7440250 AAAATAA-AAATAAAA
1 AAAATAATAAATAAAA
7440265 ATTGGGTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.33
16 8 0.27
17 2 0.07
18 10 0.33
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (17 bp):
AAAATAATAAATAAAAT
Found at i:7452885 original size:10 final size:10
Alignment explanation
Indices: 7452844--7452890 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
7452834 AAATTCTAAT
7452844 AGATAAATACA
1 AGATAAATA-A
7452855 A-ATAAATAA
1 AGATAAATAA
*
7452864 AGAT-ATTAA
1 AGATAAATAA
7452873 AGATAAATAA
1 AGATAAATAA
7452883 AGATAAAT
1 AGATAAAT
7452891 GAAAATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 10 0.31
10 21 0.66
11 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (10 bp):
AGATAAATAA
Found at i:7460089 original size:3 final size:3
Alignment explanation
Indices: 7460081--7460156 Score: 59
Period size: 3 Copynumber: 25.7 Consensus size: 3
7460071 TGAAACTAAA
** * *
7460081 AAT AAT AAT TCT AAT AAT AGT AA- AGAT -AT ACT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
* *
7460125 AAT AAT AAC GAT AAT AAT AA- ATAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AA
7460157 ATCATATTAA
Statistics
Matches: 56, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
2 4 0.07
3 51 0.91
4 1 0.02
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7460157 original size:12 final size:12
Alignment explanation
Indices: 7460112--7460171 Score: 61
Period size: 12 Copynumber: 5.0 Consensus size: 12
7460102 AAAGATATAC
7460112 TAATAAT-AATAA
1 TAATAATAAAT-A
**
7460124 TAATAATAACGA
1 TAATAATAAATA
7460136 TAATAATAAATA
1 TAATAATAAATA
7460148 TAATAATAAATCA
1 TAATAATAAAT-A
*
7460161 TATTAA-AAATA
1 TAATAATAAATA
7460172 AAAAATAGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
11 1 0.02
12 33 0.80
13 7 0.17
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (12 bp):
TAATAATAAATA
Found at i:7461963 original size:86 final size:85
Alignment explanation
Indices: 7461748--7461994 Score: 245
Period size: 86 Copynumber: 2.8 Consensus size: 85
7461738 CAATCTTTAT
*
7461748 CCTCGGCGTGTGACCCGAGGCTCAACTCACCTC-TAGTAATATGAGTTGACTTTTGAAAAACAAA
1 CCTCCGCGTGTGACCCGAGGCTCAACTCACCTCTTA-TAATATGAGTTGA-TTTTG-AAAACAAA
7461812 AATTAAAACAGAATTTTGAAAATA
63 AATTAAAACAGAA-TTTGAAAATA
* * * * **
7461836 CCTCCGCATG-GAGCCCGGGGTTCAACTCACCTCTCATAATATGAGTTGATTGTTG-AAACATGA
1 CCTCCGCGTGTGA-CCCGAGGCTCAACTCACCTCTTATAATATGAGTTGATT-TTGAAAACAAAA
7461899 ATTGAAAAACAGGAA-TTG-AAATA
64 ATT--AAAACA-GAATTTGAAAATA
* * *
7461922 CTTCAC-CGTGTGACCCGAGGCTCAACTCACCTCTTACAATATGAGTTGATTTTTTGAAAAACAG
1 CCTC-CGCGTGTGACCCGAGGCTCAACTCACCTCTTATAATATGAGTTGA--TTTTG-AAAACAA
7461986 AAATTAAAA
62 AAATTAAAA
7461995 ATACCTCAGT
Statistics
Matches: 132, Mismatches: 15, Indels: 25
0.77 0.09 0.15
Matches are distributed among these distances:
86 52 0.39
87 17 0.13
88 50 0.38
89 13 0.10
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (85 bp):
CCTCCGCGTGTGACCCGAGGCTCAACTCACCTCTTATAATATGAGTTGATTTTGAAAACAAAAAT
TAAAACAGAATTTGAAAATA
Found at i:7462084 original size:75 final size:75
Alignment explanation
Indices: 7461938--7462347 Score: 581
Period size: 75 Copynumber: 5.5 Consensus size: 75
7461928 CGTGTGACCC
**
7461938 GAGGCTCAACTCACCTCTTACAATATGAGTTGA-TTTTTTGAAAAACAGAAATTAAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTC
* *
7462002 AGTGTGAATT
66 AGCGTGAACT
* * *
7462012 GAGGCTCAACTCACCCCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTAAAAATACCTA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTC
7462077 AGCGTGAACT
66 AGCGTGAACT
* *
7462087 GAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCCC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTC
**
7462152 AGCGTGTCCT
66 AGCGTGAACT
* *
7462162 GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAAACAAAAATTAAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTC
**
7462227 AGCGTGTCCT
66 AGCGTGAACT
* * *
7462237 GAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTTAAAAAACAAAAATTAAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAACAGAAATTAAAAATACCT
* *
7462302 CGGCGT-ATCCT
65 CAGCGTGA-ACT
* * *
7462313 GAGGCTCAAGTCACCTCTCGTAATACGAGTTGATT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
7462348 ATTGGAATAA
Statistics
Matches: 308, Mismatches: 25, Indels: 5
0.91 0.07 0.01
Matches are distributed among these distances:
74 30 0.10
75 209 0.68
76 69 0.22
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (75 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCTC
AGCGTGAACT
Found at i:7474591 original size:25 final size:25
Alignment explanation
Indices: 7474500--7474678 Score: 101
Period size: 26 Copynumber: 7.4 Consensus size: 25
7474490 AATGACGATA
*
7474500 TATAAATATATACAT-ATAT-GTGT
1 TATAAATATATACATAATATAGTAT
* *
7474523 TA-AAATATATACGTAATAATAGGA-
1 TATAAATATATACATAAT-ATAGTAT
** * *
7474547 -ATAAA-AGGTATAT-ACATAGTAT
1 TATAAATATATACATAATATAGTAT
*
7474569 TATAAATATGTACATAATATAGTTAT
1 TATAAATATATACATAATATAG-TAT
* * *
7474595 TAAAAATATATACATAAAATAATAT
1 TATAAATATATACATAATATAGTAT
* * *
7474620 GTTTAATATATATATAAATATATAGTAT
1 -TATAA-ATATATACATA-ATATAGTAT
*
7474648 TA-AAATATATACATGATATA-TA-
1 TATAAATATATACATAATATAGTAT
7474670 TA-AAATATA
1 TATAAATATA
7474679 ATATTAAAAA
Statistics
Matches: 118, Mismatches: 26, Indels: 25
0.70 0.15 0.15
Matches are distributed among these distances:
21 5 0.04
22 21 0.18
23 16 0.14
24 16 0.14
25 17 0.14
26 26 0.22
27 10 0.08
28 7 0.06
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.37
Consensus pattern (25 bp):
TATAAATATATACATAATATAGTAT
Found at i:7474642 original size:23 final size:27
Alignment explanation
Indices: 7474599--7474658 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 27
7474589 AGTTATTAAA
*
7474599 AATATATACATAAAATAATAT-GT-TT
1 AATATATATATAAAATAATATAGTATT
7474624 AATATATATAT-AAAT-ATATAGTATT
1 AATATATATATAAAATAATATAGTATT
*
7474649 AAAATATATA
1 AATATATATA
7474659 CATGATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 4 0.13
24 6 0.19
25 21 0.68
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (27 bp):
AATATATATATAAAATAATATAGTATT
Found at i:7474653 original size:15 final size:12
Alignment explanation
Indices: 7474624--7474713 Score: 67
Period size: 13 Copynumber: 7.2 Consensus size: 12
7474614 TAATATGTTT
7474624 AATATATATATA
1 AATATATATATA
*
7474636 AATATATAGTATT
1 AATATATA-TATA
7474649 AA-A-ATATATA
1 AATATATATATA
*
7474659 CATGATATATATAA
1 AAT-ATATATAT-A
*
7474673 AATATAATATTAAA
1 AATAT-ATA-TATA
*
7474687 AAGATATATATA
1 AATATATATATA
*
7474699 AGTAATATATATA
1 AAT-ATATATATA
7474712 AA
1 AA
7474714 AATGTATACA
Statistics
Matches: 60, Mismatches: 10, Indels: 15
0.71 0.12 0.18
Matches are distributed among these distances:
10 4 0.07
11 3 0.05
12 14 0.23
13 26 0.43
14 11 0.18
15 2 0.03
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (12 bp):
AATATATATATA
Found at i:7474707 original size:36 final size:36
Alignment explanation
Indices: 7474627--7474709 Score: 96
Period size: 36 Copynumber: 2.2 Consensus size: 36
7474617 TATGTTTAAT
* * *
7474627 ATATATATAAATATATAGTATTAAAATATATACATG
1 ATATATATAAATATATAATATTAAAAGATATACATA
*
7474663 ATATATATAAA-ATATAATATTAAAAAGATATATATA
1 ATATATATAAATATATAATATT-AAAAGATATACATA
7474699 AGTAATATATA
1 A-T-ATATATA
7474710 TAAAAATGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
35 9 0.22
36 23 0.57
37 1 0.03
38 7 0.17
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.37
Consensus pattern (36 bp):
ATATATATAAATATATAATATTAAAAGATATACATA
Found at i:7474713 original size:27 final size:27
Alignment explanation
Indices: 7474662--7474739 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
7474652 ATATATACAT
7474662 GATATATATAAAATATAATATTAAAAA
1 GATATATATAAAATATAATATTAAAAA
7474689 GATATATATAAGTAATAT-ATA-TAAAAA
1 GATATATATAA--AATATAATATTAAAAA
* *
7474716 TG-TATACAT--AATATAGTATTAAAA
1 -GATATATATAAAATATAATATTAAAA
7474740 TATTTACATA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
23 5 0.11
24 2 0.05
25 5 0.11
27 23 0.52
28 4 0.09
29 5 0.11
ACGTcount: A:0.58, C:0.01, G:0.06, T:0.35
Consensus pattern (27 bp):
GATATATATAAAATATAATATTAAAAA
Found at i:7474747 original size:24 final size:23
Alignment explanation
Indices: 7474623--7474879 Score: 90
Period size: 23 Copynumber: 10.8 Consensus size: 23
7474613 ATAATATGTT
* *
7474623 TAATATATATATAAATATATAGTA
1 TAATATATATAAAAATATATA-CA
* ** *
7474647 TTAAAATATATACATGATATATATA
1 -TAATATATATA-AAAATATATACA
* *
7474672 AAATATAATATTAAAAAGATATATATAA
1 TAATAT-ATA-T-AAAA-ATATATA-CA
*
7474700 GTAATATATATAAAAATGTATACA
1 -TAATATATATAAAAATATATACA
* *
7474724 TAATATAGTATTAAAATATTTACA
1 TAATATA-TATAAAAATATATACA
7474748 TAATATATACATATTAGAAATA-ATA-A
1 TAATATAT--ATA--A-AAATATATACA
* *
7474774 TAATGT-TAAAAACAACTAT-TA-A
1 TAATATATATAAA-AA-TATATACA
*
7474796 TAATACTACAT--AAATATATACA
1 TAATA-TATATAAAAATATATACA
*
7474818 T-ATATATATTAAAGATATATACA
1 TAATATATA-TAAAAATATATACA
*
7474841 T-ATATA-AT-AAAACATATAC-
1 TAATATATATAAAAATATATACA
7474860 TAATAT-TAATAACAAATATA
1 TAATATAT-ATAA-AAATATA
7474880 ATAGGGGTAA
Statistics
Matches: 177, Mismatches: 27, Indels: 58
0.68 0.10 0.22
Matches are distributed among these distances:
19 1 0.01
20 20 0.11
21 14 0.08
22 14 0.08
23 33 0.19
24 26 0.15
25 24 0.14
26 19 0.11
27 12 0.07
28 9 0.05
29 5 0.03
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.36
Consensus pattern (23 bp):
TAATATATATAAAAATATATACA
Found at i:7475032 original size:3 final size:3
Alignment explanation
Indices: 7475024--7475103 Score: 67
Period size: 3 Copynumber: 27.0 Consensus size: 3
7475014 TAATTGAAAC
** * *
7475024 TAA TAA TAA TAA TTC TAA TAA TAG TAA -AGA T-A TAC TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
**
7475068 TAA TAA TAA TAA CGA TAA TAA TAA -ATA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
7475104 ATAACATTAA
Statistics
Matches: 60, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
2 4 0.07
3 55 0.92
4 1 0.02
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7486625 original size:12 final size:12
Alignment explanation
Indices: 7486608--7486632 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7486598 AGGCCTTTTT
7486608 ATGTTTAAAATA
1 ATGTTTAAAATA
7486620 ATGTTTAAAATA
1 ATGTTTAAAATA
7486632 A
1 A
7486633 CACAATTATA
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:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
ATGTTTAAAATA
Found at i:7487070 original size:13 final size:13
Alignment explanation
Indices: 7487054--7487087 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
7487044 TTATTTTTTT
7487054 TATTTTTCAT-GTC
1 TATTTTT-ATGGTC
7487067 TATTTTTATGGTC
1 TATTTTTATGGTC
7487080 TATTTTTA
1 TATTTTTA
7487088 GAGTTCGAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 2 0.10
13 18 0.90
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.65
Consensus pattern (13 bp):
TATTTTTATGGTC
Found at i:7491664 original size:25 final size:23
Alignment explanation
Indices: 7491631--7491677 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
7491621 ACGCCATTTT
* *
7491631 TTTTTTATTTCTCTTCTATTTTCTC
1 TTTTGTATTT-TCTT-TAGTTTCTC
7491656 TTTTGTATTTTCTTTAGTTTCT
1 TTTTGTATTTTCTTTAGTTTCT
7491678 TCATGCTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 4 0.20
25 9 0.45
ACGTcount: A:0.09, C:0.15, G:0.04, T:0.72
Consensus pattern (23 bp):
TTTTGTATTTTCTTTAGTTTCTC
Found at i:7497909 original size:7 final size:6
Alignment explanation
Indices: 7497882--7497907 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
7497872 AATATAATTT
7497882 AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AA
7497908 ATTTAATCAT
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:7501126 original size:34 final size:34
Alignment explanation
Indices: 7501083--7501150 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
7501073 TCAAATCTTA
7501083 GTATAAACTCAATTATCCTTTAACAATCATATAT
1 GTATAAACTCAATTATCCTTTAACAATCATATAT
7501117 GTATAAACTCAATTATCCTTTAACAATCATATAT
1 GTATAAACTCAATTATCCTTTAACAATCATATAT
7501151 AATTTTAGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (34 bp):
GTATAAACTCAATTATCCTTTAACAATCATATAT
Found at i:7501853 original size:21 final size:21
Alignment explanation
Indices: 7501808--7501855 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
7501798 TATAGATATT
*
7501808 ATAAAAATAATATTGTTTAAA
1 ATAAAAATAATATTGTATAAA
7501829 ATAAAAA-AAT-TTGTAATAAA
1 ATAAAAATAATATTGT-ATAAA
7501849 GATAAAA
1 -ATAAAA
7501856 TAAAATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 4 0.17
20 7 0.29
21 13 0.54
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (21 bp):
ATAAAAATAATATTGTATAAA
Found at i:7505227 original size:30 final size:30
Alignment explanation
Indices: 7505187--7505262 Score: 93
Period size: 30 Copynumber: 2.5 Consensus size: 30
7505177 TTATTCTAAC
7505187 ACTATTATTATTTATCTATTTATATTT-CA-
1 ACTATTATTATTT-TCTATTTATATTTACAT
* *
7505216 ACTATTTATTATATTTCTATTTCTATTTATAT
1 ACTA-TTATTAT-TTTCTATTTATATTTACAT
7505248 ACTATTATTATTTTC
1 ACTATTATTATTTTC
7505263 ATTATTATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
29 4 0.10
30 23 0.56
31 10 0.24
32 4 0.10
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.61
Consensus pattern (30 bp):
ACTATTATTATTTTCTATTTATATTTACAT
Found at i:7505245 original size:18 final size:20
Alignment explanation
Indices: 7505201--7505247 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
7505191 TTATTATTTA
7505201 TCTATTTATATTTCAACTAT
1 TCTATTTATATTTCAACTAT
*
7505221 T-TA-TTATATTTCTA-T-T
1 TCTATTTATATTTCAACTAT
7505237 TCTATTTATAT
1 TCTATTTATAT
7505248 ACTATTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 2 0.08
17 3 0.12
18 16 0.67
19 2 0.08
20 1 0.04
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.62
Consensus pattern (20 bp):
TCTATTTATATTTCAACTAT
Found at i:7507506 original size:19 final size:19
Alignment explanation
Indices: 7507482--7507527 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
7507472 CTATCTTTCT
7507482 TTTGCATT-CATCCCATGCA
1 TTTGCATTGCATCCCAT-CA
**
7507501 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATCCCATCA
7507520 TTTGCATT
1 TTTGCATT
7507528 AGATTTTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (19 bp):
TTTGCATTGCATCCCATCA
Found at i:7512186 original size:44 final size:44
Alignment explanation
Indices: 7512136--7512544 Score: 209
Period size: 44 Copynumber: 9.2 Consensus size: 44
7512126 TCCTATCTCT
*
7512136 CTAAGCAGCAGTGGAGTAGGTTGAAGACAGTAAGCCTTATCCCC
1 CTAAGCAGTAGTGGAGTAGGTTGAAGACAGTAAGCCTTATCCCC
* * * * *
7512180 CTAAGCAGTAG-GGAAATAGGCTGAA-A-ATTACAGATCTTATCTCC
1 CTAAGCAGTAGTGG-AGTAGGTTGAAGACAGTA-AG-CCTTATCCCC
* * *
7512224 CTAAGCAGTAGTGGAGTAGATCGAAGACGGTAAGCCTTATCCCC
1 CTAAGCAGTAGTGGAGTAGGTTGAAGACAGTAAGCCTTATCCCC
** * * * *
7512268 CTAAGCAGTAG-GGAACAGGCTGAA-A-ATGATAGACCACCCTATCTCC
1 CTAAGCAGTAGTGGAGTAGGTTGAAGACA-G-TA-A--GCCTTATCCCC
* * *
7512314 CTAAGCAGTAATGGAGTAGGTTGAAGACGGTGAGCCTTATCCCC
1 CTAAGCAGTAGTGGAGTAGGTTGAAGACAGTAAGCCTTATCCCC
* * * * *
7512358 CTAAGCAGTAG-GGAAATAGGCTGAA-A-ATTACAGATCTTATCTCC
1 CTAAGCAGTAGTGG-AGTAGGTTGAAGACAGTA-AG-CCTTATCCCC
* * * *
7512402 CTAAGCAGTAGTGGAGCAGATCGAAGAC-GATGAGCCTTATCCCC
1 CTAAGCAGTAGTGGAGTAGGTTGAAGACAG-TAAGCCTTATCCCC
* * ** * * *
7512446 ATAAACAGTAG-GGAAACAGGCT--AGA-AGTTACAGATCTTATCTCC
1 CTAAGCAGTAGTGG-AGTAGGTTGAAGACAG-TA-AG-CCTTATCCCC
* * * * *
7512490 CTAAGCAGTAGTGGAGCAGATCGAAGAGC-GTGAGCCTTATCTCC
1 CTAAGCAGTAGTGGAGTAGGTTGAAGA-CAGTAAGCCTTATCCCC
7512534 CTAAGCAGTAG
1 CTAAGCAGTAG
7512545 AGAAATAGGC
Statistics
Matches: 268, Mismatches: 67, Indels: 60
0.68 0.17 0.15
Matches are distributed among these distances:
42 11 0.04
43 24 0.09
44 179 0.67
45 14 0.05
46 26 0.10
47 12 0.04
48 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (44 bp):
CTAAGCAGTAGTGGAGTAGGTTGAAGACAGTAAGCCTTATCCCC
Found at i:7512258 original size:88 final size:88
Alignment explanation
Indices: 7512106--7512627 Score: 636
Period size: 88 Copynumber: 5.9 Consensus size: 88
7512096 CGTAACGAAC
* * * * * * * *
7512106 AGGCTGAAAATGACAGACCATCCTATCTCTCTAAGCAGCAGTGGAGTAGGTTGAAGACAGTAAGC
1 AGGCTGAAAATTACAG---ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAAGC
7512171 CTTATCCCCCTAAGCAGTAGGGAAAT
63 CTTATCCCCCTAAGCAGTAGGGAAAT
*
7512197 AGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGTAAGCCTT
1 AGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAAGCCTT
*
7512262 ATCCCCCTAAGCAGTAGGG-AAC
66 ATCCCCCTAAGCAGTAGGGAAAT
* * * * * * * * *
7512284 AGGCTGAAAATGATAGACCACCCTATCTCCCTAAGCAGTAATGGAGTAGGTTGAAGACGGTGAGC
1 AGGCTGAAAAT--TACA-GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAAGC
7512349 CTTATCCCCCTAAGCAGTAGGGAAAT
63 CTTATCCCCCTAAGCAGTAGGGAAAT
* *
7512375 AGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGATGAGCCTT
1 AGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAAGCCTT
* * *
7512440 ATCCCCATAAACAGTAGGGAAAC
66 ATCCCCCTAAGCAGTAGGGAAAT
* *
7512463 AGGCT-AGAAGTTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-GCGTGAGCC
1 AGGCTGA-AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG-GTAAGCC
* *
7512526 TTATCTCCCTAAGCAGTAGAGAAAT
64 TTATCCCCCTAAGCAGTAGGGAAAT
* * * * * *
7512551 AGGCTGAAAATTACAGATCTTATATCCCTAAGTAGTAGTGGAACAGATAGCAGACGGTAATCCTT
1 AGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAAGCCTT
*
7512616 ATCTCCCTAAGC
66 ATCCCCCTAAGC
7512628 CTTATCTCTA
Statistics
Matches: 379, Mismatches: 44, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
87 15 0.04
88 266 0.70
89 8 0.02
90 62 0.16
91 28 0.07
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (88 bp):
AGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAAGCCTT
ATCCCCCTAAGCAGTAGGGAAAT
Found at i:7512401 original size:178 final size:178
Alignment explanation
Indices: 7512102--7512627 Score: 745
Period size: 178 Copynumber: 3.0 Consensus size: 178
7512092 AAACCGTAAC
* * * *
7512102 GAACAGGCTGAAAATGACAGACCATCCTATCTCTCTAAGCAGCAGTGGAGTAGGTTGAAGACAGT
1 GAACAGGCTGAAAATGATAGACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGACGGT
*
7512167 AAGCCTTATCCCCCTAAGCAGTAGGGAAATAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAG
66 GAGCCTTATCCCCCTAAGCAGTAGGGAAATAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAG
*
7512232 TAGTGGAGTAGATCGAAGACGGTAAGCCTTATCCCCCTAAGCAGTAGG
131 TAGTGGAGCAGATCGAAGACGGTAAGCCTTATCCCCCTAAGCAGTAGG
* *
7512280 GAACAGGCTGAAAATGATAGACCACCCTATCTCCCTAAGCAGTAATGGAGTAGGTTGAAGACGGT
1 GAACAGGCTGAAAATGATAGACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGACGGT
7512345 GAGCCTTATCCCCCTAAGCAGTAGGGAAATAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAG
66 GAGCCTTATCCCCCTAAGCAGTAGGGAAATAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAG
* * * *
7512410 TAGTGGAGCAGATCGAAGACGATGAGCCTTATCCCCATAAACAGTAGG
131 TAGTGGAGCAGATCGAAGACGGTAAGCCTTATCCCCCTAAGCAGTAGG
* * * * * * * *
7512458 GAAACAGGCT-AGAA-GTTACA-GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-GC
1 G-AACAGGCTGAAAATGATAGACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGACG-
* * * *
7512519 GTGAGCCTTATCTCCCTAAGCAGTAGAGAAATAGGCTGAAAATTACAGATCTTATATCCCTAAGT
64 GTGAGCCTTATCCCCCTAAGCAGTAGGGAAATAGGCTGAAAATTACAGATCTTATCTCCCTAAGC
* * * * *
7512584 AGTAGTGGAACAGATAGCAGACGGTAATCCTTATCTCCCTAAGC
129 AGTAGTGGAGCAGATCGAAGACGGTAAGCCTTATCCCCCTAAGC
7512628 CTTATCTCTA
Statistics
Matches: 311, Mismatches: 35, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
175 1 0.00
176 128 0.41
177 4 0.01
178 170 0.55
179 8 0.03
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (178 bp):
GAACAGGCTGAAAATGATAGACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGACGGT
GAGCCTTATCCCCCTAAGCAGTAGGGAAATAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAG
TAGTGGAGCAGATCGAAGACGGTAAGCCTTATCCCCCTAAGCAGTAGG
Found at i:7512573 original size:44 final size:44
Alignment explanation
Indices: 7512106--7512593 Score: 187
Period size: 44 Copynumber: 11.0 Consensus size: 44
7512096 CGTAACGAAC
* * * * *
7512106 AGGCTGAAAATGACAGACCATCCTATCTCTCTAAGCAGCAGTGGAGT
1 AGGCTGAAAATTACAGACC-T--TATCTCCCTAAGCAGTAGGGGAAT
* * * *
7512153 AGGTTGAAGACAGTA-AG-CCTTATCCCCCTAAGCAGTAGGGAAAT
1 AGGCTGAA-A-ATTACAGACCTTATCTCCCTAAGCAGTAGGGGAAT
* * *
7512197 AGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGT
1 AGGCTGAAAATTACAGACCTTATCTCCCTAAGCAGTAGGGGAAT
* ** * *
7512241 A-GATCGAAGACGGTA-AG-CCTTATCCCCCTAAGCAGTA-GGGAAC
1 AGGCT-GAA-A-ATTACAGACCTTATCTCCCTAAGCAGTAGGGGAAT
* * * ** *
7512284 AGGCTGAAAATGATAGACCACCCTATCTCCCTAAGCAGTAATGGAGT
1 AGGCTGAAAAT--TACA-GACCTTATCTCCCTAAGCAGTAGGGGAAT
* ** * * *
7512331 AGGTTGAAGACGGT-GAG-CCTTATCCCCCTAAGCAGTAGGGAAAT
1 AGGCTGAA-A-ATTACAGACCTTATCTCCCTAAGCAGTAGGGGAAT
* * **
7512375 AGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGC
1 AGGCTGAAAATTACAGACCTTATCTCCCTAAGCAGTAGGGGAAT
* * ** * * * *
7512419 A-GATCGAAGACGA-TGAGCCTTATC-CCCATAAACAGTAGGGAAAC
1 AGGCT-GAAAATTACAGA-CCTTATCTCCC-TAAGCAGTAGGGGAAT
* * * **
7512463 AGGCT-AGAAGTTACAGATCTTATCTCCCTAAGCAGTAGTGGAGC
1 AGGCTGA-AAATTACAGACCTTATCTCCCTAAGCAGTAGGGGAAT
* * * * * *
7512507 A-GATCGAAGA--GCGTGAGCCTTATCTCCCTAAGCAGTAGAGAAAT
1 AGGCT-GAAAATTAC-AGA-CCTTATCTCCCTAAGCAGTAGGGGAAT
* * * *
7512551 AGGCTGAAAATTACAGATCTTATATCCCTAAGTAGTAGTGGAA
1 AGGCTGAAAATTACAGACCTTATCTCCCTAAGCAGTAGGGGAA
7512594 CAGATAGCAG
Statistics
Matches: 316, Mismatches: 93, Indels: 67
0.66 0.20 0.14
Matches are distributed among these distances:
42 6 0.02
43 29 0.09
44 216 0.68
45 15 0.05
46 24 0.08
47 20 0.06
48 4 0.01
49 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (44 bp):
AGGCTGAAAATTACAGACCTTATCTCCCTAAGCAGTAGGGGAAT
Found at i:7514907 original size:105 final size:101
Alignment explanation
Indices: 7514798--7514995 Score: 245
Period size: 105 Copynumber: 1.9 Consensus size: 101
7514788 TACACTTGTA
* * *
7514798 ATGCCATAACCTAGTTATGGTCTTATCATCAG-GATGTCATAGCCCAACTATGGTCTTACACTTA
1 ATGCCATAACCCAGTTATGATCTTATCA-CAGAAATGTCATAGCCCAACTATGGTCTTACA-TT-
7514862 TACATACACTACCATGGTCCAACCATGGTCTTACAATCACG
63 TA-A-ACACTACCATGGTCCAACCATGGTCTTACAATCACG
* * * **
7514903 ATGCCATAACCCAGTTATGATCTTTTCACTGAAATGTCATTGCCCAGTTATGGTCTTACATTTAA
1 ATGCCATAACCCAGTTATGATCTTATCACAGAAATGTCATAGCCCAACTATGGTCTTACATTTAA
* * *
7514968 ATATTGCCATGGTCCAACCATGGTCTTA
66 ACACTACCATGGTCCAACCATGGTCTTA
7514996 TCCGTAAATT
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
101 25 0.31
102 1 0.01
103 2 0.02
104 4 0.05
105 49 0.60
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (101 bp):
ATGCCATAACCCAGTTATGATCTTATCACAGAAATGTCATAGCCCAACTATGGTCTTACATTTAA
ACACTACCATGGTCCAACCATGGTCTTACAATCACG
Found at i:7515989 original size:36 final size:36
Alignment explanation
Indices: 7515942--7516014 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
7515932 CTCCTCCAGC
7515942 AAGCAAATAAACATAACTTGATATGGATTTCATGCT
1 AAGCAAATAAACATAACTTGATATGGATTTCATGCT
*
7515978 AAGCAGATAAACATAACTTGATATGGATTTCATGCT
1 AAGCAAATAAACATAACTTGATATGGATTTCATGCT
7516014 A
1 A
7516015 TCTTGGCATC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (36 bp):
AAGCAAATAAACATAACTTGATATGGATTTCATGCT
Found at i:7520149 original size:20 final size:22
Alignment explanation
Indices: 7520126--7520167 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
7520116 ATGACATGTA
7520126 TTTTAAAAT-ATTTCA-ATTTT
1 TTTTAAAATAATTTCATATTTT
*
7520146 TTTTATAATAATTTCATATTTT
1 TTTTAAAATAATTTCATATTTT
7520168 CATTTTATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 6 0.32
22 5 0.26
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTAAAATAATTTCATATTTT
Found at i:7525530 original size:27 final size:27
Alignment explanation
Indices: 7525472--7525534 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
7525462 CATTATCGAG
* * *
7525472 GGGACCCGACATGAACCCTCTCTCGAT
1 GGGACCCGACATAAACCCTCTCTCCAA
* *
7525499 CGGACCCGACATAAACCCTCTTTCCAA
1 GGGACCCGACATAAACCCTCTCTCCAA
7525526 GGGACCCGA
1 GGGACCCGA
7525535 ACCTGAAACT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.25, C:0.38, G:0.21, T:0.16
Consensus pattern (27 bp):
GGGACCCGACATAAACCCTCTCTCCAA
Found at i:7536740 original size:21 final size:22
Alignment explanation
Indices: 7536702--7536759 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
7536692 TTTAAAACAA
7536702 ATATT-TTTATTTTTACAT-TT
1 ATATTATTTATTTTTACATATT
7536722 ATATTATTT-TTTATTACATATT
1 ATATTATTTATTT-TTACATATT
*
7536744 A-ATTATATATTATTTA
1 ATATTATTTATT-TTTA
7536760 AAAGTTATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
20 8 0.25
21 15 0.47
22 8 0.25
23 1 0.03
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (22 bp):
ATATTATTTATTTTTACATATT
Found at i:7537870 original size:48 final size:48
Alignment explanation
Indices: 7537789--7537881 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
7537779 TTAGGGGATA
* *
7537789 CATTAATTTGGCTTCGGGCCATGATATCGGCACTTCGAGTGCGAGCTT
1 CATTAATTTGGCTTCGGGCCATGATATCAGCACTTAGAGTGCGAGCTT
* *
7537837 CATTGATTTGGCTTCGGGCCATGATATTAGCACTTAGAGTGCGAG
1 CATTAATTTGGCTTCGGGCCATGATATCAGCACTTAGAGTGCGAG
7537882 ATTCCTGAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.31
Consensus pattern (48 bp):
CATTAATTTGGCTTCGGGCCATGATATCAGCACTTAGAGTGCGAGCTT
Found at i:7545467 original size:2 final size:2
Alignment explanation
Indices: 7545462--7545492 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7545452 GATTACACAC
7545462 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7545493 GTTTGGGGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7546276 original size:22 final size:22
Alignment explanation
Indices: 7546234--7546306 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
7546224 TATCTAAAAG
* *
7546234 AATAACAACAAAATATTAGCAA
1 AATAACAACAAAATGTCAGCAA
* * *
7546256 TATAATAGCAAAATGTCAGCAA
1 AATAACAACAAAATGTCAGCAA
7546278 AATAACAACAAAATGGT-AGCAA
1 AATAACAACAAAAT-GTCAGCAA
*
7546300 AAAAACA
1 AATAACA
7546307 GCAGGAGAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
22 39 0.95
23 2 0.05
ACGTcount: A:0.60, C:0.14, G:0.10, T:0.16
Consensus pattern (22 bp):
AATAACAACAAAATGTCAGCAA
Found at i:7553584 original size:179 final size:176
Alignment explanation
Indices: 7553256--7553611 Score: 595
Period size: 179 Copynumber: 2.0 Consensus size: 176
7553246 ACATGTCATC
7553256 ATCATGTGAGGCCAAATAAAGGCCAAAAAACTTATTATTTCAAAAGATCATGTCTTGTCTTGCCA
1 ATCATGTGAGGCCAAATAAAGGCCAAAAAACTTATTATTTCAAAAGATCATGTCTTGTCTTGCCA
* * * *
7553321 AAATAAATAACCAATTGCTAGTAAAAAAGAAGCTCTAGAGCATAACCAACGATATGGGTGACAAA
66 AAAAAAAAAACCAATTGCTAGCAAAAAAGAAGCTCTAGAGCATAAACAACGATATGGGTGACAAA
*
7553386 TGACTACTCAACGATAAAACCACCGGCTACCATTAACAATCTAAAA
131 TGACTACTCAACAATAAAACCACCGGCTACCATTAACAATCTAAAA
* *
7553432 ATCATGTGAGGCCAAATAAAGGCCAAAAAACTTATTATTTTAAAAGATCTTGTCTTGTCTTGCCA
1 ATCATGTGAGGCCAAATAAAGGCCAAAAAACTTATTATTTCAAAAGATCATGTCTTGTCTTGCC-
*
7553497 AAAAAAAAAAAAACCAATTGCTAGCAAAAGAGAAGCTCTAGAGCATAAACAACGATATGGGTGAC
65 --AAAAAAAAAAACCAATTGCTAGCAAAAAAGAAGCTCTAGAGCATAAACAACGATATGGGTGAC
* *
7553562 GAATGACTACTCAACAATAAAACCACTGGCTACCATTAACAATCTAAAA
128 AAATGACTACTCAACAATAAAACCACCGGCTACCATTAACAATCTAAAA
7553611 A
1 A
7553612 AGCTCTAGAG
Statistics
Matches: 167, Mismatches: 10, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
176 62 0.37
179 105 0.63
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.22
Consensus pattern (176 bp):
ATCATGTGAGGCCAAATAAAGGCCAAAAAACTTATTATTTCAAAAGATCATGTCTTGTCTTGCCA
AAAAAAAAAACCAATTGCTAGCAAAAAAGAAGCTCTAGAGCATAAACAACGATATGGGTGACAAA
TGACTACTCAACAATAAAACCACCGGCTACCATTAACAATCTAAAA
Found at i:7557155 original size:30 final size:31
Alignment explanation
Indices: 7557131--7557189 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
7557121 GTAAATACTC
* * *
7557131 AAAATTTGAGGGATTAA-AGTGTAAATATGA
1 AAAAGTTGAAGGACTAATAGTGTAAATATGA
7557161 AAAAGTTGAAGGACTAATAGTGTAAATAT
1 AAAAGTTGAAGGACTAATAGTGTAAATAT
7557190 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.47, C:0.02, G:0.22, T:0.29
Consensus pattern (31 bp):
AAAAGTTGAAGGACTAATAGTGTAAATATGA
Found at i:7557448 original size:28 final size:26
Alignment explanation
Indices: 7557388--7557434 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
7557378 GATGTTGGTG
7557388 ATATTTT-ATAATTATTATTTATTTA
1 ATATTTTAATAATTATTATTTATTTA
7557413 ATATTTTAATAA-TA-TATTTATT
1 ATATTTTAATAATTATTATTTATT
7557435 ATTTTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.38
25 9 0.43
26 4 0.19
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (26 bp):
ATATTTTAATAATTATTATTTATTTA
Found at i:7557450 original size:20 final size:19
Alignment explanation
Indices: 7557399--7557452 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
7557389 TATTTTATAA
7557399 TTATTATTTATTTAATATT
1 TTATTATTTATTTAATATT
* * *
7557418 TTAATAATATATTTATTATT
1 TT-ATTATTTATTTAATATT
7557438 TTATTATTTTATTTA
1 TTATTA-TTTATTTA
7557453 GTCTATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 5 0.18
20 23 0.82
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATTATTTATTTAATATT
Found at i:7560749 original size:16 final size:15
Alignment explanation
Indices: 7560726--7560761 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
7560716 TGATATAATG
7560726 AAATATA-AAAATTA
1 AAATATATAAAATTA
*
7560740 AATTATATAAAATTA
1 AAATATATAAAATTA
7560755 AAATATA
1 AAATATA
7560762 GAGAATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATATATAAAATTA
Found at i:7567336 original size:23 final size:23
Alignment explanation
Indices: 7567301--7567373 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 23
7567291 TATATAATAA
* *
7567301 ATATATATTTTTTATTTTTAATT
1 ATATATATATTTTAATTTTAATT
*
7567324 ATATTTATATTTTAATTTTAATT
1 ATATATATATTTTAATTTTAATT
* * * *
7567347 TTA-ATATA-ATCAATTTTTATT
1 ATATATATATTTTAATTTTAATT
7567368 ATATAT
1 ATATAT
7567374 TTTCAATTTG
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
21 12 0.30
22 6 0.15
23 22 0.55
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (23 bp):
ATATATATATTTTAATTTTAATT
Found at i:7567379 original size:20 final size:19
Alignment explanation
Indices: 7567325--7567382 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
7567315 TTTTTAATTA
7567325 TATTTATATTTT-AATTTT
1 TATTTATATTTTCAATTTT
* **
7567343 AATTTTAATATAATCAATTTT
1 TA-TTT-ATATTTTCAATTTT
7567364 TATTATATATTTTCAATTT
1 TATT-TATATTTTCAATTT
7567383 GTGTATTGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
18 1 0.03
19 3 0.10
20 18 0.60
21 8 0.27
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTTATATTTTCAATTTT
Found at i:7567412 original size:40 final size:40
Alignment explanation
Indices: 7567368--7567448 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
7567358 AATTTTTATT
7567368 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
** * * * *
7567408 ATATATTTTTTATTTGTTTCTTGTTTTAATATTTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
7567448 A
1 A
7567449 ATGTATTTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.25, C:0.02, G:0.10, T:0.63
Consensus pattern (40 bp):
ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
Found at i:7572158 original size:19 final size:20
Alignment explanation
Indices: 7572117--7572165 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
7572107 ATTATTTAAG
* **
7572117 ATAAAAAAAGCTTATATGTA
1 ATAAAAAAAACTTATATAAA
7572137 ATAAAAAAAACTTA-ATAAA
1 ATAAAAAAAACTTATATAAA
7572156 ATACAAAAAA
1 ATA-AAAAAA
7572166 TCAATTAAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.22
Consensus pattern (20 bp):
ATAAAAAAAACTTATATAAA
Found at i:7572540 original size:39 final size:40
Alignment explanation
Indices: 7572485--7572569 Score: 109
Period size: 39 Copynumber: 2.1 Consensus size: 40
7572475 TCAAATACAT
7572485 TTAAAACAAATATTAAAACAAAAAACAAA-TAAAAATATA
1 TTAAAACAAATATTAAAACAAAAAACAAATTAAAAATATA
* * * * *
7572524 TTAAAACAATTTTTAAAACAATACACAAATTGAAAATATA
1 TTAAAACAAATATTAAAACAAAAAACAAATTAAAAATATA
*
7572564 ATAAAA
1 TTAAAA
7572570 ATTAATTATA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 25 0.64
40 14 0.36
ACGTcount: A:0.66, C:0.08, G:0.01, T:0.25
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAAAAACAAATTAAAAATATA
Found at i:7572960 original size:17 final size:18
Alignment explanation
Indices: 7572918--7572966 Score: 73
Period size: 19 Copynumber: 2.7 Consensus size: 18
7572908 TATTTTTTAT
7572918 AAAAATATTAAAAAATCA
1 AAAAATATTAAAAAATCA
7572936 AAATAATATTAAAAAAT-A
1 AAA-AATATTAAAAAATCA
7572954 AAAAATATATAAA
1 AAAAATAT-TAAA
7572967 CTTGAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.17
18 11 0.38
19 13 0.45
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAAATATTAAAAAATCA
Done.