Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, 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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 73 of 100
Found at i:12982567 original size:26 final size:28
Alignment explanation
Indices: 12982534--12982585 Score: 90
Period size: 26 Copynumber: 1.9 Consensus size: 28
12982524 GATATGAAAA
12982534 TTTTTTATTTT-TTAATATA-CAAGTAT
1 TTTTTTATTTTATTAATATATCAAGTAT
12982560 TTTTTTATTTTATTAATATATCAAGT
1 TTTTTTATTTTATTAATATATCAAGT
12982586 TTATTAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 11 0.46
27 8 0.33
28 5 0.21
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (28 bp):
TTTTTTATTTTATTAATATATCAAGTAT
Found at i:12988740 original size:74 final size:74
Alignment explanation
Indices: 12988619--12988767 Score: 298
Period size: 74 Copynumber: 2.0 Consensus size: 74
12988609 GAAATTTCCT
12988619 AGTACTGTACAAGATATTTACAAGTGGATGTTGTCAGGCCAACGCTTCCATACACTTTTCCAAAA
1 AGTACTGTACAAGATATTTACAAGTGGATGTTGTCAGGCCAACGCTTCCATACACTTTTCCAAAA
12988684 CCTTCTCGA
66 CCTTCTCGA
12988693 AGTACTGTACAAGATATTTACAAGTGGATGTTGTCAGGCCAACGCTTCCATACACTTTTCCAAAA
1 AGTACTGTACAAGATATTTACAAGTGGATGTTGTCAGGCCAACGCTTCCATACACTTTTCCAAAA
12988758 CCTTCTCGA
66 CCTTCTCGA
12988767 A
1 A
12988768 TAAGGGTGCT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (74 bp):
AGTACTGTACAAGATATTTACAAGTGGATGTTGTCAGGCCAACGCTTCCATACACTTTTCCAAAA
CCTTCTCGA
Found at i:12989365 original size:2 final size:2
Alignment explanation
Indices: 12989358--12989394 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
12989348 AAGATCTCCC
*
12989358 AT AT AT AT AT AT AT AT AT CT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12989395 GATGTGAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:12991149 original size:123 final size:123
Alignment explanation
Indices: 12990930--12991175 Score: 447
Period size: 123 Copynumber: 2.0 Consensus size: 123
12990920 GTGATTGCAG
*
12990930 GATTGCTATCTTGTTTACATTTTGACTGAAATGTCAGGATGTACATGTATGGTTTTCACTCGAAC
1 GATTGCTATCTTGTTTACATTTTGACTGAAATGTCAGGATGTACATCTATGGTTTTCACTCGAAC
* * *
12990995 GTGTGATGCAACTTGTCTTTTATACTTTATTCTTCGGAATCTTAATATATGGGCCATT
66 ATGTGATGCAACTCGTCTTTTATACTTTATTCTTCGGAATCTTAATATACGGGCCATT
12991053 GATTGCTATCTTGTTTACATTTTGACTGAAATGTCAGGATGTACATCTATGGTTTTCACTCGAAC
1 GATTGCTATCTTGTTTACATTTTGACTGAAATGTCAGGATGTACATCTATGGTTTTCACTCGAAC
*
12991118 ATGTGATGCAACTCGTCTTTTATCCTTTATTCTTCGGAATCTTAATATACGGGCCATT
66 ATGTGATGCAACTCGTCTTTTATACTTTATTCTTCGGAATCTTAATATACGGGCCATT
12991176 CCCATTAGTG
Statistics
Matches: 118, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 118 1.00
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (123 bp):
GATTGCTATCTTGTTTACATTTTGACTGAAATGTCAGGATGTACATCTATGGTTTTCACTCGAAC
ATGTGATGCAACTCGTCTTTTATACTTTATTCTTCGGAATCTTAATATACGGGCCATT
Found at i:12993083 original size:6 final size:6
Alignment explanation
Indices: 12993072--12993116 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
12993062 GAACTTCTGA
* *
12993072 TGTGAT TGTGAT TGTGAT TATGAT TGTGAT TGTGAT TGTAAT TGT
1 TGTGAT TGTGAT TGTGAT TGTGAT TGTGAT TGTGAT TGTGAT TGT
12993117 AATTCTAGCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (6 bp):
TGTGAT
Found at i:12997281 original size:13 final size:12
Alignment explanation
Indices: 12997262--12997291 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
12997252 TACTTGATCC
12997262 AAAAAAATAAAA
1 AAAAAAATAAAA
12997274 ATAAAAAATAAAA
1 A-AAAAAATAAAA
12997287 AAAAA
1 AAAAA
12997292 TTCTTGCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (12 bp):
AAAAAAATAAAA
Found at i:12999090 original size:21 final size:22
Alignment explanation
Indices: 12999051--12999098 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
12999041 TCATAATAAC
*
12999051 TTAAAATTAAATCAATTTGATT
1 TTAAAATTAAATCAATTTGAAT
*
12999073 TTAAAATTTAAT-AATTTGAAT
1 TTAAAATTAAATCAATTTGAAT
12999094 TTAAA
1 TTAAA
12999099 GTGATCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (22 bp):
TTAAAATTAAATCAATTTGAAT
Found at i:13000644 original size:18 final size:18
Alignment explanation
Indices: 13000593--13000644 Score: 58
Period size: 16 Copynumber: 3.1 Consensus size: 18
13000583 TGAGATATAT
*
13000593 ATTTACTATATTGA--AA
1 ATTTATTATATTGATGAA
13000609 ATTTATTATATT--TGAA
1 ATTTATTATATTGATGAA
*
13000625 ATTTGTTATATTGATGAA
1 ATTTATTATATTGATGAA
13000643 AT
1 AT
13000645 AATGTGATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
16 24 0.80
18 6 0.20
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (18 bp):
ATTTATTATATTGATGAA
Found at i:13007079 original size:18 final size:19
Alignment explanation
Indices: 13007040--13007079 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
13007030 TAAATATTTC
13007040 TATTGTAATTTTTAAAATA
1 TATTGTAATTTTTAAAATA
13007059 TATT-TAATATTTTAATAATA
1 TATTGTAAT-TTTTAA-AATA
13007079 T
1 T
13007080 CAAGTAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 10 0.53
20 5 0.26
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
TATTGTAATTTTTAAAATA
Found at i:13011492 original size:20 final size:20
Alignment explanation
Indices: 13011467--13011506 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
13011457 TAAGACTTAT
13011467 CCAAATCAAA-ACAAGAGAAG
1 CCAAATCAAATA-AAGAGAAG
13011487 CCAAATCAAATAAAGAGAAG
1 CCAAATCAAATAAAGAGAAG
13011507 ATAAGTCAGC
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:0.60, C:0.17, G:0.15, T:0.07
Consensus pattern (20 bp):
CCAAATCAAATAAAGAGAAG
Found at i:13012307 original size:16 final size:15
Alignment explanation
Indices: 13012281--13012310 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
13012271 AAGCTTAAAT
13012281 TTAATAGTTTATGCA
1 TTAATAGTTTATGCA
13012296 TTAATCAGTTTATGC
1 TTAAT-AGTTTATGC
13012311 TAGAAGTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (15 bp):
TTAATAGTTTATGCA
Found at i:13017560 original size:2 final size:2
Alignment explanation
Indices: 13017553--13017583 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
13017543 GATCCTCTCC
13017553 TA TA TA TA TA TA TA TA TA TA TA TA TGA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
13017584 CTTAGGAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:13018495 original size:17 final size:18
Alignment explanation
Indices: 13018463--13018496 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13018453 TTGAATTAAA
13018463 CATAACTAAATAGTTGAT
1 CATAACTAAATAGTTGAT
*
13018481 CATAAC-AAATTGTTGA
1 CATAACTAAATAGTTGA
13018497 CAAAATGCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (18 bp):
CATAACTAAATAGTTGAT
Found at i:13020842 original size:2 final size:2
Alignment explanation
Indices: 13020835--13020867 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
13020825 ATTTGCCATA
13020835 AT 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 AT A
13020868 GAGTTGAACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13027536 original size:15 final size:14
Alignment explanation
Indices: 13027516--13027560 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
13027506 AAATAATAAT
13027516 TTTAGAGTAATGATA
1 TTTAGAGTAA-GATA
13027531 TTTAGAGTAA-A-A
1 TTTAGAGTAAGATA
13027543 TTT-GAGTAAAGATA
1 TTTAGAGT-AAGATA
13027557 TTTA
1 TTTA
13027561 AGTTAATCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
11 4 0.15
12 6 0.23
13 2 0.08
14 4 0.15
15 10 0.38
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.40
Consensus pattern (14 bp):
TTTAGAGTAAGATA
Found at i:13027708 original size:15 final size:15
Alignment explanation
Indices: 13027688--13027718 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13027678 CATAACTTGA
13027688 AAAATCCACCTAACT
1 AAAATCCACCTAACT
*
13027703 AAAATCCAGCTAACT
1 AAAATCCACCTAACT
13027718 A
1 A
13027719 GCTTGAACTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.29, G:0.03, T:0.19
Consensus pattern (15 bp):
AAAATCCACCTAACT
Found at i:13027816 original size:16 final size:16
Alignment explanation
Indices: 13027795--13027826 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13027785 TGAAACCAAA
13027795 TAATCTAAATTTAAAT
1 TAATCTAAATTTAAAT
*
13027811 TAATCTAATTTTAAAT
1 TAATCTAAATTTAAAT
13027827 CAAAAGTCCA
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:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATCTAAATTTAAAT
Found at i:13028519 original size:3 final size:3
Alignment explanation
Indices: 13028511--13028544 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
13028501 GCTTCATTTG
13028511 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13028545 ACATTTTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13032277 original size:15 final size:13
Alignment explanation
Indices: 13032248--13032272 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13032238 ATTTTATGGC
13032248 ATCTTTAAAAAAA
1 ATCTTTAAAAAAA
13032261 ATCTTTAAAAAA
1 ATCTTTAAAAAA
13032273 TAAATAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (13 bp):
ATCTTTAAAAAAA
Found at i:13032455 original size:390 final size:385
Alignment explanation
Indices: 13031702--13032486 Score: 998
Period size: 390 Copynumber: 2.0 Consensus size: 385
13031692 AACTCTGACT
* * *
13031702 TTTGTATATATAAAATAATAAATTTAAAATTTTTATAAATAATATTAATTTATCATATTTTTTAT
1 TTTGTATAAATAAAATAATAAATTTAAAATTTTTATAAATAATATTAATGTATCATATTTTTTAC
* * *
13031767 TATAACAAAGTAAAAATATTTGAAAAAAATTTTAATATAAGAAAAATGTTAGGTGTTCAAAAATG
66 TATAACAAAGTAAAAATATTTGAAAAAAATTTAAATACAAGAAAAATGTTAAGTGTTCAAAAATG
* *
13031832 TAAACAAAAACTTTATTTTATGACATCTTTAACAAATCTTTAAAAAATAAGACAAAAGGAATATT
131 AAAACAAAAACTTTATTTTATGACATCTTTAAAAAATCTTTAAAAAATAAGACAAAAGGAATATT
* * *
13031897 AACTTTAACCTAACCTCTATTAGCAATTAGGCTATTTTTGGTTCAATCGAACTGTATTGAAATAC
196 AACTTTAACCTAACCTCTATT---AATTAGGC-ATATTAGGTTCAATCGAACTGTACTGAAATAC
* *
13031962 CAAACTACATTTACTATTGATTTTTTATTATTTATTTTGCCCTTATATTTAAAATTATGTGATTA
257 CAAACTACATATACTATTGATTTTTTATTATTTATTTTGCCCTTATATTCAAAATTATGTGATTA
* * *
13032027 AGATCAATACAAAAAAATATAGTACTATCGATAAAAATTTTCATTGGTAATATTTCATTTTCCA
322 AGATCAATACAAAAAAATACAGTACTAGCGACAAAAATTTTCATTGGTAATATTTCATTTTCCA
*
13032091 TTTGTATAAATAATATAATAAATTT-AAA-TTTTATAAATAATATTAATGTATCATA-TTTTTAC
1 TTTGTATAAATAAAATAATAAATTTAAAATTTTTATAAATAATATTAATGTATCATATTTTTTAC
**
13032153 TATAACAGGGTAAAAAAATATTTGTAAAATAAATTTAAAGTACAAGAAACAATGTTAAGTGTTCA
66 TATAACAAAGT--AAAAATATTTG-AAAA-AAATTTAAA-TACAAGAAA-AATGTTAAGTGTTCA
*
13032218 AAAATGAAAACAAAAACTTTATTTTATGGCATCTTTAAAAAAAATCTTTAAAAAATAAATAATAA
125 AAAATGAAAACAAAAACTTTATTTTATGACATCTTT--AAAAAATCTTT-----A-AAA-AATAA
* *
13032283 GACAAAAGGAATATTAACTTTAA-CTCA-CTCT-TT-ATTTGG-A-ATTAGG-TCAATC-ACACT
181 GACAAAAGGAATATTAACTTTAACCTAACCTCTATTAATTAGGCATATTAGGTTCAATCGA-ACT
* * ***
13032340 GTACTGAAATACCAAACTACATATAGTATTGATTTTTTATTGTTTATTTTGTTTTTATATTCAAA
245 GTACTGAAATACCAAACTACATATACTATTGATTTTTTATTATTTATTTTGCCCTTATATTCAAA
* * ** * * *
13032405 ATTATGTGATTCATATCTCTACTAAAAAATACAGTATTAGCGACAAAAATTTTCATTGTTAATAT
310 ATTATGTGATTAAGATCAATACAAAAAAATACAGTACTAGCGACAAAAATTTTCATTGGTAATAT
*
13032470 TTTATTTTCCA
375 TTCATTTTCCA
13032481 TTTGTA
1 TTTGTA
13032487 ATAACATTAC
Statistics
Matches: 345, Mismatches: 35, Indels: 31
0.84 0.09 0.08
Matches are distributed among these distances:
386 15 0.04
387 26 0.08
388 14 0.04
389 28 0.08
390 145 0.42
391 12 0.03
392 49 0.14
394 15 0.04
398 2 0.01
399 5 0.01
400 6 0.02
401 28 0.08
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (385 bp):
TTTGTATAAATAAAATAATAAATTTAAAATTTTTATAAATAATATTAATGTATCATATTTTTTAC
TATAACAAAGTAAAAATATTTGAAAAAAATTTAAATACAAGAAAAATGTTAAGTGTTCAAAAATG
AAAACAAAAACTTTATTTTATGACATCTTTAAAAAATCTTTAAAAAATAAGACAAAAGGAATATT
AACTTTAACCTAACCTCTATTAATTAGGCATATTAGGTTCAATCGAACTGTACTGAAATACCAAA
CTACATATACTATTGATTTTTTATTATTTATTTTGCCCTTATATTCAAAATTATGTGATTAAGAT
CAATACAAAAAAATACAGTACTAGCGACAAAAATTTTCATTGGTAATATTTCATTTTCCA
Found at i:13036050 original size:41 final size:41
Alignment explanation
Indices: 13035988--13036073 Score: 120
Period size: 41 Copynumber: 2.1 Consensus size: 41
13035978 ATGAACACAT
*
13035988 GTAATTGAATTAAATCATAATTTAACCTAAATTAAATGCAA
1 GTAATTGAATTAAATCATAATTTAACCGAAATTAAATGCAA
* * *
13036029 GTAATT-ACATTAAATCTTAATTTAACCGAAATTAATTGCAT
1 GTAATTGA-ATTAAATCATAATTTAACCGAAATTAAATGCAA
13036070 GTAA
1 GTAA
13036074 AATAACTTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 1 0.03
41 39 0.98
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.36
Consensus pattern (41 bp):
GTAATTGAATTAAATCATAATTTAACCGAAATTAAATGCAA
Found at i:13037199 original size:19 final size:19
Alignment explanation
Indices: 13037177--13037216 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
13037167 ATTCGATTTA
13037177 GGAATTCCTAGT-TTGACTT
1 GGAATTCCTA-TCTTGACTT
*
13037196 GGAATTCTTATCTTGACTT
1 GGAATTCCTATCTTGACTT
13037215 GG
1 GG
13037217 TTTTCCTACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.20, C:0.15, G:0.23, T:0.42
Consensus pattern (19 bp):
GGAATTCCTATCTTGACTT
Found at i:13038721 original size:64 final size:63
Alignment explanation
Indices: 13038651--13038815 Score: 176
Period size: 63 Copynumber: 2.6 Consensus size: 63
13038641 ATTGAATGTG
13038651 TTTTTGGCTAAAAATGCCTTTAATAATCCAT-TCAAAAAATTTT-GGAGAGACAATATTGAAGGC
1 TTTTTGGCTAAAAATGCCTTTAATAATCCATAT-AAAAAATTTTAGG-G-GACAATATTGAAGGC
13038714 A
63 A
** ** *
13038715 TTTTTGG-TAAAAAATGTATTTAATAATCCATATAAAAAATTTTAGGGGGGATTATTGAAGGCA
1 TTTTTGGCT-AAAAATGCCTTTAATAATCCATATAAAAAATTTTAGGGGACAATATTGAAGGCA
** * *
13038778 TTTTTATC-CAAAATCACCTTTAATAATCCATATAAAAA
1 TTTTTGGCTAAAAAT-GCCTTTAATAATCCATATAAAAA
13038816 CAAAAATGCC
Statistics
Matches: 85, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
62 5 0.06
63 39 0.46
64 38 0.45
65 3 0.04
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (63 bp):
TTTTTGGCTAAAAATGCCTTTAATAATCCATATAAAAAATTTTAGGGGACAATATTGAAGGCA
Found at i:13038756 original size:369 final size:367
Alignment explanation
Indices: 13038076--13038757 Score: 857
Period size: 369 Copynumber: 1.9 Consensus size: 367
13038066 ATTTTTACTA
*** * * *
13038076 ATGAATTTTTAATGTTGTCAGAATATAGCATACTTATGCCAATACTTTATTTAACCGTCGATATA
1 ATGAATTTTTAATACCGTCAGAATATAGCATACTTATACCAACACTTTATTTAACCATCGATATA
* *
13038141 AATAAACTTTTTCTAATGATATATGACTATTCGTCAGTATAAATATGTTATATACTACGATTATT
66 AATAAACTTTTTCTAATGATATATGACTATCCATCAGTATAAATATGTTATATACTACGATTATT
*
13038206 AACGTAACCATTAGTATAGGCTTAAAACAAAAAAACTATTAGCTTACAAAAAATTGAATAGGATT
131 AACGTAACCATCAGTATAGGCTTAAAACAAAAAAACTATTAGCTTACAAAAAATTGAATAGGATT
* * * * * * * *
13038271 ATTGAAGGCATTTTTTTTTATCTAAAACTCCTTCAATAATCTATTTAAAAAAATTGAAAAGAGAT
196 ATTGAA-G-ATGTGTTTTTAGCTAAAAATCCTTCAATAATCCATTCAAAAAAATTGAAAAGACAA
* ** * * *
13038336 TATTAAATGTGTTTTTACCCAAAAAATGCCTTCAATAATTCATACAAAATTTTTTTGTATGAATT
259 TATTAAAGGCATTTTTACCCAAAAAATGCATTCAATAATCCATAAAAAATTTTTTTGTATGAATT
13038401 ATTTACTGATGATTAAATTCTGTCCATAAAAGAAACTTCGAATG
324 ATTTACTGATGATTAAATTCTGTCCATAAAAGAAACTTCGAATG
*
13038445 ATGAATTTTTAATACCGTTAGAATATAGCATACTTATACCAACACTTTATTTAACCATCGATATA
1 ATGAATTTTTAATACCGTCAGAATATAGCATACTTATACCAACACTTTATTTAACCATCGATATA
* * * * * *
13038510 AATAAACTTTTTTTGATGGTATATGACTATCCATTAGTATAAATATGTTATATACTGATGGTTAT
66 AATAAACTTTTTCTAATGATATATGACTATCCATCAGTATAAATATGTTATATACT-ACGATTAT
* * * * * *
13038575 TAATGTAACCATCATTATAGGTTTAAAATAAAAAAACTATTGGCTTACAAAAAATTGAATGGGAT
130 TAACGTAACCATCAGTATAGGCTTAAAACAAAAAAACTATTAGCTTACAAAAAATTGAATAGGAT
* * * * *
13038640 TATTG-A-ATGTGTTTTTGGCTAAAAATGCCTTTAATAATCCATTCAAAAAATTTTGGAGAGACA
195 TATTGAAGATGTGTTTTTAGCTAAAAAT-CCTTCAATAATCCATTCAAAAAA-ATTGAAAAGACA
* *** * * *
13038703 ATATTGAAGGCATTTTT-GGTAAAAAATGTATTTAATAATCCATATAAAAAATTTT
258 ATATTAAAGGCATTTTTACCCAAAAAATGCATTCAATAATCCATA-AAAAATTTTT
13038758 AGGGGGGATT
Statistics
Matches: 261, Mismatches: 48, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
366 15 0.06
367 40 0.15
368 28 0.11
369 109 0.42
370 69 0.26
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (367 bp):
ATGAATTTTTAATACCGTCAGAATATAGCATACTTATACCAACACTTTATTTAACCATCGATATA
AATAAACTTTTTCTAATGATATATGACTATCCATCAGTATAAATATGTTATATACTACGATTATT
AACGTAACCATCAGTATAGGCTTAAAACAAAAAAACTATTAGCTTACAAAAAATTGAATAGGATT
ATTGAAGATGTGTTTTTAGCTAAAAATCCTTCAATAATCCATTCAAAAAAATTGAAAAGACAATA
TTAAAGGCATTTTTACCCAAAAAATGCATTCAATAATCCATAAAAAATTTTTTTGTATGAATTAT
TTACTGATGATTAAATTCTGTCCATAAAAGAAACTTCGAATG
Found at i:13038776 original size:63 final size:64
Alignment explanation
Indices: 13038635--13038782 Score: 169
Period size: 64 Copynumber: 2.3 Consensus size: 64
13038625 AAAATTGAAT
* ** *
13038635 GGGATTATTGAATGTGTTTTTGGCTAAAAATGCCTTTAATAATCCATTCAAAAAATTTTGGAGA
1 GGGATTATTGAAGGCATTTTTGGCTAAAAATGCATTTAATAATCCATTCAAAAAATTTTGGAGA
** * *
13038699 GACAATATTGAAGGCATTTTTGG-TAAAAAATGTATTTAATAATCCATAT-AAAAAATTTTAGG-
1 GGGATTATTGAAGGCATTTTTGGCT-AAAAATGCATTTAATAATCCAT-TCAAAAAATTTT-GGA
13038761 G-
63 GA
13038762 GGGATTATTGAAGGCATTTTT
1 GGGATTATTGAAGGCATTTTT
13038783 ATCCAAAATC
Statistics
Matches: 70, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
63 19 0.27
64 48 0.69
65 3 0.04
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.37
Consensus pattern (64 bp):
GGGATTATTGAAGGCATTTTTGGCTAAAAATGCATTTAATAATCCATTCAAAAAATTTTGGAGA
Found at i:13038936 original size:62 final size:61
Alignment explanation
Indices: 13038815--13039026 Score: 196
Period size: 62 Copynumber: 3.4 Consensus size: 61
13038805 CCATATAAAA
* * *
13038815 ACAAAAATGCCTTCAATAATCCCTTTAATAAAATTTGAAAGTGATTA-TAAAGGCATTTTTTG
1 ACAAAAATGCCTTCAATAATCCCTTGAA-AAAATTTTAAAGGGATTATTAAAGGCA-TTTTTG
* * * * **
13038877 TCAAAAATGCCTTCAATAAT-CCTCTGAAAAAATTTTAAAGGGGTTATTGAATGTGTTTTTG
1 ACAAAAATGCCTTCAATAATCCCT-TGAAAAAATTTTAAAGGGATTATTAAAGGCATTTTTG
* * * * *
13038938 ACAAAAAAACGCTTTCAATAATCCCCTTGAAAAAATTTTGAAGGGATTATTAAAGGCTTTTTTA
1 AC--AAAAATGCCTTCAATAAT-CCCTTGAAAAAATTTTAAAGGGATTATTAAAGGCATTTTTG
*
13039002 ACCAAAGAT-CTCTTCAATAATCCCT
1 A-CAAAAATGC-CTTCAATAATCCCT
13039027 CATACTTCAA
Statistics
Matches: 120, Mismatches: 22, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
61 25 0.21
62 31 0.26
63 29 0.24
64 31 0.26
65 4 0.03
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.34
Consensus pattern (61 bp):
ACAAAAATGCCTTCAATAATCCCTTGAAAAAATTTTAAAGGGATTATTAAAGGCATTTTTG
Found at i:13039018 original size:63 final size:61
Alignment explanation
Indices: 13038816--13039130 Score: 182
Period size: 62 Copynumber: 5.0 Consensus size: 61
13038806 CATATAAAAA
* * **
13038816 CAAAAATGCCTTCAATAAT-CCCTTTAATAAAA-TTTGAAAGTGATTA-TAAAGGCATTTTTTGT
1 CAAAAAT-CCTTCAATAATCCCCTTGAA-AAAATTTTG-AAGGGATTATTAAAGGC-TTTTTTAC
* * * * *
13038878 CAAAAATGCCTTCAATAATCCTC-TGAAAAAATTTTAAAGGGGTTATTGAATGTG-TTTTTGAC
1 CAAAAAT-CCTTCAATAATCCCCTTGAAAAAATTTTGAAGGGATTATT-AAAG-GCTTTTTTAC
* *
13038940 AAAAAAACGCTTTCAATAATCCCCTTGAAAAAATTTTGAAGGGATTATTAAAGGCTTTTTTAAC
1 CAAAAATC-C-TTCAATAATCCCCTTGAAAAAATTTTGAAGGGATTATTAAAGGCTTTTTT-AC
* * *
13039004 CAAAGATCTCTTCAATAATCCCTCATACTTCAACAAAATTTGGAA-GGATTATTAAAAGTGC--T
1 CAAAAATC-CTTCAATAAT-CC-C---CTTGAA-AAAATTTTGAAGGGATTATT-AAAG-GCTTT
13039066 TTTAGC
57 TTTA-C
* * * * * *
13039072 CAAAAATGCCTACAATAAT--TCTGTGAAAAAATTTGGAAGAGATTATTGAAGGCGTTTTT
1 CAAAAAT-CCTTCAATAATCCCCT-TGAAAAAATTTTGAAGGGATTATTAAAGGCTTTTTT
13039131 GTCAATAAAC
Statistics
Matches: 201, Mismatches: 28, Indels: 48
0.73 0.10 0.17
Matches are distributed among these distances:
60 2 0.01
61 28 0.14
62 52 0.26
63 34 0.17
64 33 0.16
65 1 0.00
67 1 0.00
68 33 0.16
69 15 0.07
70 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (61 bp):
CAAAAATCCTTCAATAATCCCCTTGAAAAAATTTTGAAGGGATTATTAAAGGCTTTTTTAC
Found at i:13039493 original size:17 final size:17
Alignment explanation
Indices: 13039463--13039515 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
13039453 AAAATATTAA
*
13039463 TAGATAACAAAAAATAAT
1 TAGATAA-ATAAAATAAT
* *
13039481 TAGATAAATAAAAGAAA
1 TAGATAAATAAAATAAT
13039498 TAGATAAATAATAATAAT
1 TAGATAAATAA-AATAAT
13039516 AAAAAATAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
17 18 0.62
18 11 0.38
ACGTcount: A:0.66, C:0.02, G:0.08, T:0.25
Consensus pattern (17 bp):
TAGATAAATAAAATAAT
Found at i:13039494 original size:45 final size:42
Alignment explanation
Indices: 13039445--13039567 Score: 110
Period size: 45 Copynumber: 2.9 Consensus size: 42
13039435 ATCAAAATGA
* *
13039445 AAAAGATAAAAATATTAATAGATAACAAAAAATAATTAGATAAAT
1 AAAAGATAAAAATATTAATAGATAA-AAAAAATAA-AAG-CAAAT
* * *
13039490 AAAAGA-AATAGATAAATAATA-ATAATAAAAAATAAAAGCAGAT
1 AAAAGATAA-AAAT-ATTAATAGATAA-AAAAAATAAAAGCAAAT
13039533 AAATA-ATAAAAATATTAATAGAT-AAAAAAATAAAA
1 AAA-AGATAAAAATATTAATAGATAAAAAAAATAAAA
13039568 AAATATTAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
41 11 0.17
42 7 0.11
43 12 0.18
44 7 0.11
45 22 0.34
46 6 0.09
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (42 bp):
AAAAGATAAAAATATTAATAGATAAAAAAAATAAAAGCAAAT
Found at i:13039556 original size:53 final size:53
Alignment explanation
Indices: 13039496--13039597 Score: 129
Period size: 53 Copynumber: 1.9 Consensus size: 53
13039486 AAATAAAAGA
* *
13039496 AATAGATAAATAATAATAATAAAAA-A-TAA-AAGCAGATAAATAATAAAAATATT
1 AATAGATAAA-AA-AATAA-AAAAATATTAATAAACAGAAAAATAATAAAAATATT
*
13039549 AATAGATAAAAAAATAAAAAAATATTAATAAATAGAAAAATAATAAAAA
1 AATAGATAAAAAAATAAAAAAATATTAATAAACAGAAAAATAATAAAAA
13039598 AATGAAAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
50 5 0.12
51 6 0.14
52 5 0.12
53 27 0.63
ACGTcount: A:0.72, C:0.01, G:0.05, T:0.23
Consensus pattern (53 bp):
AATAGATAAAAAAATAAAAAAATATTAATAAACAGAAAAATAATAAAAATATT
Found at i:13039576 original size:26 final size:27
Alignment explanation
Indices: 13039533--13039597 Score: 105
Period size: 26 Copynumber: 2.4 Consensus size: 27
13039523 AAAAGCAGAT
*
13039533 AAATAATAAAAATATTAATAGATAAAA
1 AAATAATAAAAATATTAATAAATAAAA
*
13039560 AAATAA-AAAAATATTAATAAATAGAA
1 AAATAATAAAAATATTAATAAATAAAA
13039586 AAATAATAAAAA
1 AAATAATAAAAA
13039598 AATGAAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 24 0.69
27 11 0.31
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (27 bp):
AAATAATAAAAATATTAATAAATAAAA
Found at i:13039604 original size:18 final size:18
Alignment explanation
Indices: 13039549--13039605 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
13039539 TAAAAATATT
13039549 AATAGATAAAAAAAT-AAA
1 AATA-ATAAAAAAATGAAA
*
13039567 AA-AATATTAATAAATAGAAA
1 AATAATA--AAAAAAT-GAAA
13039587 AATAATAAAAAAATGAAA
1 AATAATAAAAAAATGAAA
13039605 A
1 A
13039606 TAAAAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
16 3 0.09
17 1 0.03
18 13 0.41
19 6 0.19
20 5 0.16
21 4 0.12
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.19
Consensus pattern (18 bp):
AATAATAAAAAAATGAAA
Found at i:13039607 original size:29 final size:30
Alignment explanation
Indices: 13039549--13039616 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
13039539 TAAAAATATT
*
13039549 AATAGATAAAAAAATAAAAAAATATTAATA
1 AATAGATAAAAAAATAAAAAAATATAAATA
*
13039579 AATAGA-AAAATAATAAAAAAATGA-AAATA
1 AATAGATAAAAAAATAAAAAAAT-ATAAATA
13039608 AA-A-ATAAAA
1 AATAGATAAAA
13039617 GCCAATTGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 1 0.03
28 5 0.15
29 21 0.62
30 7 0.21
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.19
Consensus pattern (30 bp):
AATAGATAAAAAAATAAAAAAATATAAATA
Found at i:13039614 original size:23 final size:23
Alignment explanation
Indices: 13039487--13039614 Score: 64
Period size: 25 Copynumber: 5.1 Consensus size: 23
13039477 TAATTAGATA
*
13039487 AATAAAAGAAATAGATAAATAATAAT
1 AATAAAA-AAAT-GA-AAATAAAAAT
*
13039513 AAT-AAAAAAT-AAAAGCAGATAAAT
1 AATAAAAAAATGAAAA-TA-A-AAAT
* *
13039537 AATAAAAATATTAATAGATAAAAA-
1 AATAAAAAAATGAA-A-ATAAAAAT
*
13039561 AATAAAAAAATATTAATAAATAGAAAAAT
1 AAT-AAAAAA-A-TGA-AAAT--AAAAAT
13039590 AATAAAAAAATGAAAATAAAAAT
1 AATAAAAAAATGAAAATAAAAAT
13039613 AA
1 AA
13039615 AAGCCAATTG
Statistics
Matches: 81, Mismatches: 7, Indels: 31
0.68 0.06 0.26
Matches are distributed among these distances:
21 3 0.04
22 2 0.02
23 9 0.11
24 13 0.16
25 21 0.26
26 11 0.14
27 6 0.07
28 13 0.16
29 3 0.04
ACGTcount: A:0.73, C:0.01, G:0.05, T:0.21
Consensus pattern (23 bp):
AATAAAAAAATGAAAATAAAAAT
Found at i:13043437 original size:124 final size:125
Alignment explanation
Indices: 13043272--13043506 Score: 314
Period size: 124 Copynumber: 1.9 Consensus size: 125
13043262 CAAAAAAAAA
* * ** *
13043272 TTACGGATTATTAAAGGTATTTTTGACAGAAAACATCTTCAATAATCT-TTTTTAAATAATTGAA
1 TTACAGATTATTAAAGGTATTTTTGACAGAAAACACCTTCAATAATCTCTTGATAAA-AATTAAA
* * *
13043336 AGGGATTATTGAAGGCATTTTTTGCCATAAATGCCTTTAAT-ATCCCCATTCAATATTTTG
65 AGGGATTATTAAAGGCATTTTTGGCCATAAATGCCTTGAATAATCCCCATTCAATATTTTG
* *
13043396 TTACAGATTATTCAAGGTATTTTTGAGCA-AAAATACCTTCAATAATCTCTTGATAAAAATTAAA
1 TTACAGATTATTAAAGGTATTTTTGA-CAGAAAACACCTTCAATAATCTCTTGATAAAAATTAAA
* **
13043460 AGGGATTATTAAAGGTATTTTTGGTTATAAATGCCTTGAATAATCCC
65 AGGGATTATTAAAGGCATTTTTGGCCATAAATGCCTTGAATAATCCC
13043507 TTTTAAATGA
Statistics
Matches: 95, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
124 82 0.86
125 13 0.14
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (125 bp):
TTACAGATTATTAAAGGTATTTTTGACAGAAAACACCTTCAATAATCTCTTGATAAAAATTAAAA
GGGATTATTAAAGGCATTTTTGGCCATAAATGCCTTGAATAATCCCCATTCAATATTTTG
Found at i:13043697 original size:62 final size:64
Alignment explanation
Indices: 13043574--13043732 Score: 177
Period size: 63 Copynumber: 2.5 Consensus size: 64
13043564 TAATTCATAA
* * **
13043574 ATTATTCAAGGTATTTT-TAGCTAGAAATGCCTTCAATAACCCCATTCAGTATTTTGTAAA-GG
1 ATTATTCAAGGTATTTTCTGGCTAAAAATGCCTTCAATAACCCCATTCAGTAAATTGTAAAGGG
* *
13043636 ATTATTCAAGGAATTTTCTGGCTAAAAATGCCTTCAATAATCCCATT-A-TAAAAATTG-AAAGG
1 ATTATTCAAGGTATTTTCTGGCTAAAAATGCCTTCAATAACCCCATTCAGT--AAATTGTAAAGG
13043698 G
64 G
* *
13043699 ATTATTCAAGGTGTTTTCTAGG-TAAAAATACCTT
1 ATTATTCAAGGTATTTTCT-GGCTAAAAATGCCTT
13043733 GAAAATTTTA
Statistics
Matches: 83, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
61 1 0.01
62 20 0.24
63 60 0.72
64 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
Consensus pattern (64 bp):
ATTATTCAAGGTATTTTCTGGCTAAAAATGCCTTCAATAACCCCATTCAGTAAATTGTAAAGGG
Found at i:13044368 original size:293 final size:292
Alignment explanation
Indices: 13043796--13044415 Score: 761
Period size: 293 Copynumber: 2.1 Consensus size: 292
13043786 ACACCTTCAA
* * * * ** * *
13043796 ATTCAAGGTGTTTTCTAGGTAAAAATACCTTGAATATTCCAAAAAAAATGCTAGGATTATTGAAG
1 ATTCAAGGTATTTTTTAGGCAAAAACACCTTGAATATTAAAAAAAAAATGCTAAGATTATTAAAG
* * * * *
13043861 ATGTTTTGATAGAAAACGCTTTCAATAATCCCCTCTAAATGAATAATTCATGGGTTATAGAAAGT
66 ATGTTTTGATAGAAAACGCCTACAATAATCCCCTATAAATGAATAATTCATGAGTTATAGAAAGG
* *
13043926 GTTTTTGGCCAAAAATGCCTTGAATAATCCATGAATTATTCAAGGTATTTTTAGCCAAATACGCC
131 GTTTTTGGCAAAAAATGCCTTGAATAATCCATGAATTATTCAAGGCATTTTTAGCCAAATACGCC
13043991 TTCAATAACCTTATTCAATATTTTGTAAGAGATTATTCAAAGTATTTTCTAGCTAAAAACACATT
196 TTCAATAACCTTATTCAATATTTTGTAAGAGATTATTCAAAGTATTTTCTAGCTAAAAACACATT
*
13044056 CAATAATCCCATTATAAAAATTA-GA-GGAATT
261 CAATAATCCCATCATAAAAA-TAGGAGGGAATT
*
13044087 ATTCAAGGTATTTTTTAGGCAAAAACACCTTGAATATTTAAAAAAAAAATGCTAAGATTCTTAAA
1 ATTCAAGGTATTTTTTAGGCAAAAACACCTTGAATA-TTAAAAAAAAAATGCTAAGATTATTAAA
* ** * * *
13044152 GGTAT-TTTTGATAGAAAATGCCTACAATAAT-CGTTAATGAATGAATAATTCGTGAGTTATATA
65 -G-ATGTTTTGATAGAAAACGCCTACAATAATCCCCT-ATAAATGAATAATTCATGAGTTATAGA
* * *
13044215 AGGGGTTTTTGGCAAAAAATGCCTTGAATAATCCATGAATTATTCAATGCATTTTTAGCTAGAA-
127 AAGGGTTTTTGGCAAAAAATGCCTTGAATAATCCATGAATTATTCAAGGCATTTTTAGCCA-AAT
* * * * * *
13044279 ATGCCTTCAATAACCTTATTTAATATTTTGTAA-AGGATTATTTAAGGTGTTTTCTGGCTAAAAA
191 ACGCCTTCAATAACCTTATTCAATATTTTGTAAGA-GATTATTCAAAGTATTTTCTAGCTAAAAA
** * *
13044343 TGCCTTCAATAATCCCATCATAAAAATAGGAGGGGATT
255 CACATTCAATAATCCCATCATAAAAATAGGAGGGAATT
* * *
13044381 ATTGAAGGCA-TTTTT-GGTCAAAAACCCCTTGAATA
1 ATTCAAGGTATTTTTTAGG-CAAAAACACCTTGAATA
13044416 ATCCTATCTA
Statistics
Matches: 281, Mismatches: 39, Indels: 16
0.84 0.12 0.05
Matches are distributed among these distances:
291 32 0.11
292 30 0.11
293 202 0.72
294 17 0.06
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.35
Consensus pattern (292 bp):
ATTCAAGGTATTTTTTAGGCAAAAACACCTTGAATATTAAAAAAAAAATGCTAAGATTATTAAAG
ATGTTTTGATAGAAAACGCCTACAATAATCCCCTATAAATGAATAATTCATGAGTTATAGAAAGG
GTTTTTGGCAAAAAATGCCTTGAATAATCCATGAATTATTCAAGGCATTTTTAGCCAAATACGCC
TTCAATAACCTTATTCAATATTTTGTAAGAGATTATTCAAAGTATTTTCTAGCTAAAAACACATT
CAATAATCCCATCATAAAAATAGGAGGGAATT
Found at i:13044418 original size:62 final size:63
Alignment explanation
Indices: 13044345--13044492 Score: 167
Period size: 62 Copynumber: 2.4 Consensus size: 63
13044335 GCTAAAAATG
* * * ** * *
13044345 CCTTCAATAATCCCATCATAAAAATA-GGAGGGGATTATTGAAGGCATTTTTGGTCAAAAACC
1 CCTTCAATAATCCCATCATAAAAATATAGAGAGAATTATTGAAGGCATTTTTCATAAAAAACA
* * * *
13044407 CCTTGAATAATCCTATC-TAAAAATATAGAGAGAATTATTGGAGGCATTTTTCATAAAAAATA
1 CCTTCAATAATCCCATCATAAAAATATAGAGAGAATTATTGAAGGCATTTTTCATAAAAAACA
13044469 CCTTCAATAAT-CCATTCATAAAAA
1 CCTTCAATAATCCCA-TCATAAAAA
13044493 ATTTAAGGGG
Statistics
Matches: 70, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
61 10 0.14
62 54 0.77
63 6 0.09
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (63 bp):
CCTTCAATAATCCCATCATAAAAATATAGAGAGAATTATTGAAGGCATTTTTCATAAAAAACA
Found at i:13048333 original size:15 final size:15
Alignment explanation
Indices: 13048313--13048349 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
13048303 GGTGTAACTC
* *
13048313 TTTATCTATGTTTGT
1 TTTATCAATATTTGT
13048328 TTTATCAATATTTGT
1 TTTATCAATATTTGT
13048343 TTTATCA
1 TTTATCA
13048350 GACTCGATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.22, C:0.08, G:0.08, T:0.62
Consensus pattern (15 bp):
TTTATCAATATTTGT
Found at i:13049468 original size:16 final size:16
Alignment explanation
Indices: 13049447--13049488 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
13049437 TTAGGTTTTC
13049447 TTTAAGTTTTATTATT
1 TTTAAGTTTTATTATT
*
13049463 TTTAAGTTTTATTCTT
1 TTTAAGTTTTATTATT
13049479 TTTAAGTTTT
1 TTTAAGTTTT
13049489 CTTTACTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.69
Consensus pattern (16 bp):
TTTAAGTTTTATTATT
Found at i:13051790 original size:18 final size:17
Alignment explanation
Indices: 13051767--13051800 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13051757 GTAAGATTGC
13051767 AAAAGCAAAAGTAAAAAA
1 AAAAGCAAAAG-AAAAAA
*
13051785 AAAAGCCAAAGAAAAA
1 AAAAGCAAAAGAAAAA
13051801 GATAACTCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.76, C:0.09, G:0.12, T:0.03
Consensus pattern (17 bp):
AAAAGCAAAAGAAAAAA
Found at i:13052511 original size:124 final size:124
Alignment explanation
Indices: 13052307--13052606 Score: 304
Period size: 124 Copynumber: 2.4 Consensus size: 124
13052297 AAAAAACGCC
* * * * *
13052307 TTCAATAATCCACTTATAAATTTTTATGACGTGATTACTCAAGGCATTTTTTACGAAAAGATGTC
1 TTCAATAATCCTCTCATAAATTTTTATGTCGTAATTACTCAAGGCATTTTTTACCAAAAGATGTC
* * *
13052372 TTGAATAATCTAAAAT-TTTTTAAAAAAG-GGTTATTGAAGGCATTTTT-TCAAAAAAAACA
66 TCGAATAATCAAAAATATTTTT---AAAGTGGTTATTGAAGGCATTTTTGGCAAAAAAAACA
* * *
13052431 TTCAATAATCCTCTCATAAATTTTTATGTTGTAATTACTCAATGCATTTTTTGCCAAAA-ACT-T
1 TTCAATAATCCTCTCATAAATTTTTATGTCGTAATTACTCAAGGCATTTTTTACCAAAAGA-TGT
* * * * * ** *
13052494 CTCGAATGATCCAAAAATAATTTTTAATGTTGTTATTGAAGGCGTTTTTGGCCAAAAATGCC
65 CTCGAATAAT-CAAAAAT-ATTTTTAAAGTGGTTATTGAAGGCATTTTTGGCAAAAAAAACA
* * * *
13052556 TTTAATAATCATTTCATAAATTTTTATGTCGTAATTACTCAAGGTATTTTT
1 TTCAATAATCCTCTCATAAATTTTTATGTCGTAATTACTCAAGGCATTTTT
13052607 ATTAAAAATT
Statistics
Matches: 145, Mismatches: 25, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
123 13 0.09
124 75 0.52
125 52 0.36
126 5 0.03
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (124 bp):
TTCAATAATCCTCTCATAAATTTTTATGTCGTAATTACTCAAGGCATTTTTTACCAAAAGATGTC
TCGAATAATCAAAAATATTTTTAAAGTGGTTATTGAAGGCATTTTTGGCAAAAAAAACA
Found at i:13052993 original size:29 final size:28
Alignment explanation
Indices: 13052949--13053007 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
13052939 AAATTAAATG
** *
13052949 TTATATTTTGATTTTATTATTTATTAAT
1 TTATATTTTGATTTTAAAATTTAATAAT
13052977 TTATAATTTT-ATCTTTAAAATTTAATAAT
1 TTAT-ATTTTGAT-TTTAAAATTTAATAAT
13053006 TT
1 TT
13053008 TTTTATTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (28 bp):
TTATATTTTGATTTTAAAATTTAATAAT
Found at i:13055197 original size:3 final size:3
Alignment explanation
Indices: 13055191--13055246 Score: 62
Period size: 3 Copynumber: 19.3 Consensus size: 3
13055181 TTATAGTATA
* * * *
13055191 TAT TAT TAA TAT TAT TAA TAT TAT TAT TAT CA- TAT CAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13055237 TAT TAT TAT T
1 TAT TAT TAT T
13055247 CATATTTATA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 3 0.07
3 40 0.93
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:13055204 original size:9 final size:9
Alignment explanation
Indices: 13055190--13055252 Score: 56
Period size: 9 Copynumber: 6.6 Consensus size: 9
13055180 GTTATAGTAT
13055190 ATATTATTA
1 ATATTATTA
13055199 ATATTATTA
1 ATATTATTA
13055208 ATATTATTA
1 ATATTATTA
13055217 TTATCATATCATT-
1 --AT-AT-T-ATTA
13055230 ATATTATTA
1 ATATTATTA
* *
13055239 TTATTATTC
1 ATATTATTA
13055248 ATATT
1 ATATT
13055253 TATATTCTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
8 3 0.07
9 30 0.67
10 2 0.04
11 4 0.09
12 2 0.04
13 1 0.02
14 3 0.07
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (9 bp):
ATATTATTA
Found at i:13067759 original size:119 final size:118
Alignment explanation
Indices: 13067543--13068124 Score: 474
Period size: 119 Copynumber: 4.9 Consensus size: 118
13067533 TCCACTCATC
* * * * **
13067543 TAATATTGGCTTAGTCTAGATAATTTTTTATGATTCGTGGTTTCATCTTGATCATTTATTTTCGA
1 TAATCTTGGCTTAGTCTAGATCATTTCTTATGATTCGTGGTTTCATC-CGATCATTTATTTTTTA
* * * * * * * *
13067608 CCTCAAATCAATCCTAGTCTCTTTATTCTGACTCTTGGTTTTGTTCCAGTCACT
65 CCTCGACTCAATCCTGGTCACTTTATTTTGACTCGTGGTTTTCTTCCGGTCACT
* *
13067662 TAATCTTGGCTTAGTCCAGATCATTTCTTATGATTCATGGTTTCATCTCGATCATTTATTTTTTA
1 TAATCTTGGCTTAGTCTAGATCATTTCTTATGATTCGTGGTTTCATC-CGATCATTTATTTTTTA
*** * * * * *
13067727 CCTCGACTTGGTCTTGGTCATTTTATTTTGACTCATGG-TTTCATTTCGGCCACT
65 CCTCGACTCAATCCTGGTCACTTTATTTTGACTCGTGGTTTTC-TTCCGGTCACT
* * * * ** *
13067781 CAATTTTGGCTTAGTCTAGATCATTTCTTACGACTCGTGGTTTTGTCCTAATCATTTATTTTTTA
1 TAATCTTGGCTTAGTCTAGATCATTTCTTATGATTCGTGGTTTCATCC-GATCATTTATTTTTTA
* ** * * ** * *
13067846 CCTCGACTCAGTCCTGGTTGCTTCATTCTAGACTCGTGG-TTTCACCCCGATCATT
65 CCTCGACTCAATCCTGGTCACTTTATT-TTGACTCGTGGTTTTC-TTCCGGTCACT
* * * * *
13067901 TGATGTTGGCTTAGTCTAGATCATTTATTATGATTCGTGGTCTT-ATCCCAATCATTTATTTTTG
1 TAATCTTGGCTTAGTCTAGATCATTTCTTATGATTCGTGGT-TTCAT-CCGATCATTTATTTTTT
* * * *
13067965 ACAT-GACTCGATCTTTGTCACTTTATTTTGACTCGTGGTTTCATCTT--GGTCACT
64 ACCTCGACTCAATCCTGGTCACTTTATTTTGACTCGTGGTTT--TCTTCCGGTCACT
* * * *
13068019 TGATCTTGGCTTAGTCCAGATCATTTCTGATGATTCATGGTTTCATCCAGATCATTTATTTTTTA
1 TAATCTTGGCTTAGTCTAGATCATTTCTTATGATTCGTGGTTTCATCC-GATCATTTATTTTTTA
* * * * * * * *
13068084 CTTTGACCCGATCTTGGTCGCTTCATCTTGACTCGTGGTTT
65 CCTCGACTCAATCCTGGTCACTTTATTTTGACTCGTGGTTT
13068125 AGTCACAGTT
Statistics
Matches: 371, Mismatches: 81, Indels: 22
0.78 0.17 0.05
Matches are distributed among these distances:
117 4 0.01
118 73 0.20
119 216 0.58
120 72 0.19
121 6 0.02
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (118 bp):
TAATCTTGGCTTAGTCTAGATCATTTCTTATGATTCGTGGTTTCATCCGATCATTTATTTTTTAC
CTCGACTCAATCCTGGTCACTTTATTTTGACTCGTGGTTTTCTTCCGGTCACT
Found at i:13067992 original size:238 final size:238
Alignment explanation
Indices: 13067667--13068124 Score: 575
Period size: 238 Copynumber: 1.9 Consensus size: 238
13067657 TCACTTAATC
* * * * *
13067667 TTGGCTTAGTCCAGATCATTTCTTATGATTCATGGTTTCATCTCGATCATTTATTTTTTACCTCG
1 TTGGCTTAGTCCAGATCATTTATTATGATTCATGGTTTCATCCCAATCATTTATTTTTGACATCG
* * * *
13067732 ACTTGGTCTTGGTCATTTTATTTTGACTCATGGTTTCAT-TTCGGCCACTCAATTTTGGCTTAGT
66 ACTCGATCTTGGTCACTTTATTTTGACTCATGGTTTCATCTT-GGCCACTCAATCTTGGCTTAGT
* * * **
13067796 CTAGATCATTTCTTACGACTCGTGGTTTTGTCCTA-ATCATTTATTTTTTACCTCGACTCAG-TC
130 CCAGATCATTTCTGACGACTCATGGTTTCATCC-AGATCATTTATTTTTTACCTCGAC-CAGATC
*
13067859 CTGGTTGCTTCATTCTAGACTCGTGGTTTCACCCCGATCATTTGATG
193 CTGGTCGCTTCA-TCTAGACTCGTGGTTTCACCCCGATCATTTGATG
* *
13067906 TTGGCTTAGTCTAGATCATTTATTATGATTCGTGGTCTT-ATCCCAATCATTTATTTTTGACAT-
1 TTGGCTTAGTCCAGATCATTTATTATGATTCATGGT-TTCATCCCAATCATTTATTTTTGACATC
* * * **
13067969 GACTCGATCTTTGTCACTTTATTTTGACTCGTGGTTTCATCTTGGTCACTTGATCTTGGCTTAGT
65 GACTCGATCTTGGTCACTTTATTTTGACTCATGGTTTCATCTTGGCCACTCAATCTTGGCTTAGT
* * * * * *
13068034 CCAGATCATTTCTGATGATTCATGGTTTCATCCAGATCATTTATTTTTTACTTTGACCCGATCTT
130 CCAGATCATTTCTGACGACTCATGGTTTCATCCAGATCATTTATTTTTTACCTCGACCAGATCCT
*
13068099 GGTCGCTTCATCTTGACTCGTGGTTT
195 GGTCGCTTCATCTAGACTCGTGGTTT
13068125 AGTCACAGTT
Statistics
Matches: 186, Mismatches: 29, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
237 18 0.10
238 111 0.60
239 55 0.30
240 2 0.01
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.45
Consensus pattern (238 bp):
TTGGCTTAGTCCAGATCATTTATTATGATTCATGGTTTCATCCCAATCATTTATTTTTGACATCG
ACTCGATCTTGGTCACTTTATTTTGACTCATGGTTTCATCTTGGCCACTCAATCTTGGCTTAGTC
CAGATCATTTCTGACGACTCATGGTTTCATCCAGATCATTTATTTTTTACCTCGACCAGATCCTG
GTCGCTTCATCTAGACTCGTGGTTTCACCCCGATCATTTGATG
Found at i:13068156 original size:119 final size:118
Alignment explanation
Indices: 13067918--13068163 Score: 273
Period size: 119 Copynumber: 2.1 Consensus size: 118
13067908 GGCTTAGTCT
* * * *
13067918 AGATCATTTATTATGATTCGTGGTCTTATCCCAATCATTTATTTTTGACATGACTCGATCTTTGT
1 AGATCATTTATGATGATTCATGGTCTTATCCCAATCATTTATTTTTGACATGACCCGATCTTGGT
* * *** * * *
13067983 CACTTTATTTTGACTCGTGGTTTCATCTTGGTCACTTGATCTTGGCTTAGTCC
66 CACTTCATCTTGACTCGTGGTTTCATCACAGTCACTTGATCTTAGCTCAATCC
* * *
13068036 AGATCATTTCTGATGATTCATGGT-TTCAT-CCAGATCATTTATTTTTTACTTTGACCCGATCTT
1 AGATCATTTATGATGATTCATGGTCTT-ATCCCA-ATCATTTATTTTTGAC-ATGACCCGATCTT
* *
13068099 GGTCGCTTCATCTTGACTCGTGGTTT-AGTCACAGTTACTTGATCTTAGCTCAATCC
63 GGTCACTTCATCTTGACTCGTGGTTTCA-TCACAGTCACTTGATCTTAGCTCAATCC
*
13068155 AGGTCATTT
1 AGATCATTT
13068164 TTTAGATTCG
Statistics
Matches: 106, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
117 5 0.05
118 39 0.37
119 62 0.58
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (118 bp):
AGATCATTTATGATGATTCATGGTCTTATCCCAATCATTTATTTTTGACATGACCCGATCTTGGT
CACTTCATCTTGACTCGTGGTTTCATCACAGTCACTTGATCTTAGCTCAATCC
Found at i:13068484 original size:15 final size:15
Alignment explanation
Indices: 13068443--13068484 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
13068433 TTATTATTCG
*
13068443 TATTTATATTTTATTT
1 TATTT-TATTCTATTT
13068459 TATTTTATTCTATTT
1 TATTTTATTCTATTT
13068474 TCATTTT-TTCT
1 T-ATTTTATTCT
13068485 CTTTACTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (15 bp):
TATTTTATTCTATTT
Found at i:13068764 original size:16 final size:15
Alignment explanation
Indices: 13068725--13068769 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 15
13068715 ATGGACATGG
13068725 AAAAATTTT-AAGAA
1 AAAAATTTTGAAGAA
*
13068739 AAAAAGTTTGAAGAA
1 AAAAATTTTGAAGAA
*
13068754 AGAAAATTTTGGAGAA
1 A-AAAATTTTGAAGAA
13068770 TTTTGGCAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 8 0.31
15 6 0.23
16 12 0.46
ACGTcount: A:0.58, C:0.00, G:0.18, T:0.24
Consensus pattern (15 bp):
AAAAATTTTGAAGAA
Found at i:13071621 original size:18 final size:18
Alignment explanation
Indices: 13071598--13071712 Score: 125
Period size: 18 Copynumber: 6.7 Consensus size: 18
13071588 ATGATTATTA
*
13071598 TCCACCACAAATGTATCC
1 TCCACCTCAAATGTATCC
*
13071616 TCCACCTCAAATGCATCC
1 TCCACCTCAAATGTATCC
*
13071634 TTCACCTCAAATGTAT-C
1 TCCACCTCAAATGTATCC
*
13071651 -CCACCACAAATGTATCC
1 TCCACCTCAAATGTATCC
* *
13071668 -CCACCACAAATGTATCA
1 TCCACCTCAAATGTATCC
*
13071685 T---CCTCAAATATATCC
1 TCCACCTCAAATGTATCC
13071700 TCCACCTCAAATG
1 TCCACCTCAAATG
13071713 CATCAAGAAC
Statistics
Matches: 81, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
15 12 0.15
16 13 0.16
17 18 0.22
18 38 0.47
ACGTcount: A:0.33, C:0.37, G:0.05, T:0.24
Consensus pattern (18 bp):
TCCACCTCAAATGTATCC
Found at i:13071705 original size:33 final size:33
Alignment explanation
Indices: 13071598--13071717 Score: 109
Period size: 33 Copynumber: 3.5 Consensus size: 33
13071588 ATGATTATTA
* *
13071598 TCCACCACAAATGTATCCTCCACCTCAAATGCATCC
1 TCCACCACAAATGTATCAT---CCTCAAATGTATCC
* * *
13071634 TTCACCTCAAATGTATCCCA-CCACAAATGTATCC
1 TCCACCACAAATGTAT--CATCCTCAAATGTATCC
*
13071668 -CCACCACAAATGTATCATCCTCAAATATATCC
1 TCCACCACAAATGTATCATCCTCAAATGTATCC
* *
13071700 TCCACCTCAAATGCATCA
1 TCCACCACAAATGTATCA
13071718 AGAACAAAGG
Statistics
Matches: 69, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
31 2 0.03
32 12 0.17
33 28 0.41
34 12 0.17
36 14 0.20
38 1 0.01
ACGTcount: A:0.33, C:0.38, G:0.05, T:0.24
Consensus pattern (33 bp):
TCCACCACAAATGTATCATCCTCAAATGTATCC
Found at i:13079079 original size:16 final size:16
Alignment explanation
Indices: 13079060--13079128 Score: 58
Period size: 15 Copynumber: 4.4 Consensus size: 16
13079050 TAAAAAAACT
13079060 ATTTTAATAATATTTA
1 ATTTTAATAATATTTA
13079076 A-TTT--TAAT-TTTA
1 ATTTTAATAATATTTA
*
13079088 ATTTTATTAACTAATATTA
1 ATTTTAATAA-T-AT-TTA
*
13079107 TTTTTAAT-ATATTTA
1 ATTTTAATAATATTTA
13079122 ATTTTAA
1 ATTTTAA
13079129 ATTAATTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 15
0.70 0.05 0.25
Matches are distributed among these distances:
12 5 0.12
13 7 0.16
15 15 0.35
16 4 0.09
17 1 0.02
18 2 0.05
19 9 0.21
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTTAATAATATTTA
Found at i:13084811 original size:166 final size:166
Alignment explanation
Indices: 13084537--13084952 Score: 539
Period size: 166 Copynumber: 2.5 Consensus size: 166
13084527 CAAGCTTGGG
* * * *
13084537 TTCAATTTATAGGTTTGGATTTACTGGGTATTGTGTAT-GGATTTCTTGATTGTGTGTAGGATTT
1 TTCAATTTCTAAGTTTGGATTTACTAGGTATTGTGTATAGG-TTTCTTGATTGTGTGCAGGATTT
* **
13084601 GGGTTCAAGTGTGCTAAATTATTTGTGTATTGCTTTGATTTGCTAAAAATTGTTTGCTTTCTTTG
65 GGGTTCAAGTGTACTAAATTATTTGTGTATTGCTTTGATTTGCTAAAAATTGTTTGCTTTCCCTG
* * *
13084666 TTGGTTGCTTGATTTTAAGAATTAAACTATTTATGAT
130 TTGGCTGCTTGATTCTAAGAATTAAACTATTTAGGAT
* * * * * * *
13084703 TTCAATTTTTTAGTTTGGATTTACTATGTATTGTGTATAGGCTTCTTAATTATGTGCAGGAATTG
1 TTCAATTTCTAAGTTTGGATTTACTAGGTATTGTGTATAGGTTTCTTGATTGTGTGCAGGATTTG
* * * *
13084768 GGTT-TAGTTGTACTAAATTATTTTTGTATTTCTTTGATTTGCTAAAATTTGTTTGCTTTCCCTG
66 GGTTCAAG-TGTACTAAATTATTTGTGTATTGCTTTGATTTGCTAAAAATTGTTTGCTTTCCCTG
* * *
13084832 TTGGCTGCTTGATTCTAGGAATTAAACTATTTGGGGT
130 TTGGCTGCTTGATTCTAAGAATTAAACTATTTAGGAT
* * *
13084869 TTCAATTTCTAAGTTTGGATTTACTAGGTATTATGTATAGGTTTTTTGGTTGTGTGCAGGATTTG
1 TTCAATTTCTAAGTTTGGATTTACTAGGTATTGTGTATAGGTTTCTTGATTGTGTGCAGGATTTG
* *
13084934 GGTTCGAGTGTGCTAAATT
66 GGTTCAAGTGTACTAAATT
13084953 TTCATTCAAT
Statistics
Matches: 212, Mismatches: 35, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
165 2 0.01
166 206 0.97
167 4 0.02
ACGTcount: A:0.21, C:0.08, G:0.22, T:0.49
Consensus pattern (166 bp):
TTCAATTTCTAAGTTTGGATTTACTAGGTATTGTGTATAGGTTTCTTGATTGTGTGCAGGATTTG
GGTTCAAGTGTACTAAATTATTTGTGTATTGCTTTGATTTGCTAAAAATTGTTTGCTTTCCCTGT
TGGCTGCTTGATTCTAAGAATTAAACTATTTAGGAT
Found at i:13093493 original size:6 final size:6
Alignment explanation
Indices: 13093482--13093512 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
13093472 AAAAAATTTC
13093482 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A
13093513 TTTTCTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:13093600 original size:17 final size:17
Alignment explanation
Indices: 13093578--13093611 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13093568 ATTTTGAGTT
13093578 CTTTAATTTCCATGTTC
1 CTTTAATTTCCATGTTC
*
13093595 CTTTAATTTCTATGTTC
1 CTTTAATTTCCATGTTC
13093612 GTGAATGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.21, G:0.06, T:0.56
Consensus pattern (17 bp):
CTTTAATTTCCATGTTC
Found at i:13098531 original size:49 final size:50
Alignment explanation
Indices: 13098468--13098580 Score: 160
Period size: 51 Copynumber: 2.3 Consensus size: 50
13098458 ACCAATTACT
* *
13098468 TATTTCTTTTAATAA-TTTTTTTATTTTTT-AGGAAAATACT-CACATTATC
1 TATTCCTTTTAATAATTTTTTTTATTTTTTAAGG-AAACACTAC-CATTATC
13098517 TATTCCTTTTAATAATTTTTTTTTATTTTTTAAGGAAACACTACCATTATC
1 TATTCCTTTTAATAA-TTTTTTTTATTTTTTAAGGAAACACTACCATTATC
13098568 TATTCCTTTTAAT
1 TATTCCTTTTAAT
13098581 TTTTGTCAAT
Statistics
Matches: 58, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
49 14 0.24
51 40 0.69
52 4 0.07
ACGTcount: A:0.29, C:0.12, G:0.04, T:0.55
Consensus pattern (50 bp):
TATTCCTTTTAATAATTTTTTTTATTTTTTAAGGAAACACTACCATTATC
Found at i:13098667 original size:36 final size:37
Alignment explanation
Indices: 13098610--13098694 Score: 95
Period size: 36 Copynumber: 2.4 Consensus size: 37
13098600 AATCATTCTC
* *
13098610 ATTACTTGTTC-ACCTATTTTTTCAA-AAAACATTTTA
1 ATTACTTGTTCTACCTACTTTTT-AAGAAAACACTTTA
* *
13098646 ATTACTTGTTCTA-CTACTTTTTAAGGAAACACTTTC
1 ATTACTTGTTCTACCTACTTTTTAAGAAAACACTTTA
*
13098682 ATTACTTATTCTA
1 ATTACTTGTTCTA
13098695 TGCATTTAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
35 2 0.05
36 39 0.93
37 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.05, T:0.47
Consensus pattern (37 bp):
ATTACTTGTTCTACCTACTTTTTAAGAAAACACTTTA
Found at i:13103300 original size:2 final size:2
Alignment explanation
Indices: 13103290--13103320 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
13103280 AAAAAAAAAA
*
13103290 AG AG TG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
13103321 AAATCACCAA
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:0.48, C:0.00, G:0.48, T:0.03
Consensus pattern (2 bp):
AG
Found at i:13106959 original size:24 final size:25
Alignment explanation
Indices: 13106900--13106948 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
13106890 TCAAAGAGTA
*
13106900 AAAATA-AAAAATTTAAATAGTTTT
1 AAAATATAAAAATATAAATAGTTTT
13106924 AAAATATAAAAATATAAA-AGTTTT
1 AAAATATAAAAATATAAATAGTTTT
13106948 A
1 A
13106949 TATATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
AAAATATAAAAATATAAATAGTTTT
Found at i:13108401 original size:54 final size:54
Alignment explanation
Indices: 13108343--13108588 Score: 205
Period size: 54 Copynumber: 4.5 Consensus size: 54
13108333 AATTTAAAAG
* * *
13108343 TTTTTTTAAAATTGTTGAGTCTCTATTTAGAAGAGCCCATTTTCTTAATTCAAT
1 TTTTTTTAAAATTGTTGAGCCTCTATTTAGAAGAACCCATTTTCCTAATTCAAT
* * * *
13108397 TTTTTTT--AGTTGTTGAGCCTTTATTTAG-AGAAGCCCATTTTCTTCTCCTAATT-TAG
1 TTTTTTTAAAATTGTTGAGCCTCTATTTAGAAGAA-CCCA---T-TT-TCCTAATTCAAT
* ** *
13108453 TTTTTTTAAATTTGTTGAGTTTCTATTTAGAAGAACTCATTTTCCTAATTCAAT
1 TTTTTTTAAAATTGTTGAGCCTCTATTTAGAAGAACCCATTTTCCTAATTCAAT
** * * * ** * *
13108507 TTTTTTTTTAATTGTTAAGCCTCTGTTTAGAGGAATTCATTTTCCCAATTTAA-
1 TTTTTTTAAAATTGTTGAGCCTCTATTTAGAAGAACCCATTTTCCTAATTCAAT
* *
13108560 TATTTTTAAAGTTGTTGAGCCTCTATTTA
1 TTTTTTTAAAATTGTTGAGCCTCTATTTA
13108589 AAGGAGCTCA
Statistics
Matches: 151, Mismatches: 31, Indels: 21
0.74 0.15 0.10
Matches are distributed among these distances:
51 3 0.02
52 22 0.15
53 31 0.21
54 52 0.34
55 2 0.01
56 10 0.07
57 7 0.05
58 20 0.13
59 4 0.03
ACGTcount: A:0.25, C:0.13, G:0.12, T:0.50
Consensus pattern (54 bp):
TTTTTTTAAAATTGTTGAGCCTCTATTTAGAAGAACCCATTTTCCTAATTCAAT
Found at i:13108515 original size:58 final size:57
Alignment explanation
Indices: 13108343--13108515 Score: 155
Period size: 58 Copynumber: 3.1 Consensus size: 57
13108333 AATTTAAAAG
* * *
13108343 TTTTTTTAAAATTGTTGAGTCTCTATTTAGAAGAGCCCATTTTCTTAATTCAA---T
1 TTTTTTTAAAATTGTTGAGTTTCTATTTAGAAGAACCCATTTTCCTAATTCAATTTT
* * ** * *
13108397 TTTTTTT--AGTTGTTGAGCCTT-TATTTAG-AGAAGCCCATTTT-CTTCTCCTAATTTAG
1 TTTTTTTAAAATTGTTGAG-TTTCTATTTAGAAGAA-CCCATTTTCCTAATTC-AATTT-T
* *
13108453 TTTTTTTAAATTTGTTGAGTTTCTATTTAGAAGAACTCATTTTCCTAATTCAATTTT
1 TTTTTTTAAAATTGTTGAGTTTCTATTTAGAAGAACCCATTTTCCTAATTCAATTTT
13108510 TTTTTT
1 TTTTTT
13108516 AATTGTTAAG
Statistics
Matches: 91, Mismatches: 16, Indels: 21
0.71 0.12 0.16
Matches are distributed among these distances:
51 6 0.07
52 26 0.29
53 1 0.01
54 7 0.08
56 7 0.08
57 8 0.09
58 28 0.31
59 8 0.09
ACGTcount: A:0.24, C:0.13, G:0.11, T:0.53
Consensus pattern (57 bp):
TTTTTTTAAAATTGTTGAGTTTCTATTTAGAAGAACCCATTTTCCTAATTCAATTTT
Found at i:13108609 original size:52 final size:53
Alignment explanation
Indices: 13108343--13108609 Score: 193
Period size: 52 Copynumber: 5.0 Consensus size: 53
13108333 AATTTAAAAG
* * * * *
13108343 TTTTTTTAAAATTGTTGAGTCTCTATTTAGAA-GAGCCCATTTTCTTAATTCAA
1 TTTTTTTAAAGTTGTTGAGCCTCTATTTA-AAGGAGCTCATTTTCCTAATTTAA
* * * * * *
13108396 TTTTTTT-TAGTTGTTGAGCCTTTATTTAGAGAAGCCCATTTTCTTCTCCTAATTTAG
1 TTTTTTTAAAGTTGTTGAGCCTCTATTTAAAGGAGCTCA---T-TT-TCCTAATTTAA
* ** * *
13108453 TTTTTTTAAATTTGTTGAGTTTCTATTTAGAA-GAACTCATTTTCCTAATTCAA
1 TTTTTTTAAAGTTGTTGAGCCTCTATTTA-AAGGAGCTCATTTTCCTAATTTAA
* * * * ** *
13108506 TTTTTTTTTTAA-TTGTTAAGCCTCTGTTTAGAGGAATTCATTTTCCCAATTTAA
1 --TTTTTTTAAAGTTGTTGAGCCTCTATTTAAAGGAGCTCATTTTCCTAATTTAA
* *
13108560 TATTTTTAAAGTTGTTGAGCCTCTATTTAAAGGAGCTCA-CTTCCTAATTT
1 TTTTTTTAAAGTTGTTGAGCCTCTATTTAAAGGAGCTCATTTTCCTAATTT
13108610 GTATTTAAAG
Statistics
Matches: 164, Mismatches: 38, Indels: 25
0.72 0.17 0.11
Matches are distributed among these distances:
51 1 0.01
52 40 0.24
53 40 0.24
54 34 0.21
55 11 0.07
56 2 0.01
57 15 0.09
58 20 0.12
59 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.49
Consensus pattern (53 bp):
TTTTTTTAAAGTTGTTGAGCCTCTATTTAAAGGAGCTCATTTTCCTAATTTAA
Found at i:13110124 original size:21 final size:21
Alignment explanation
Indices: 13110098--13110138 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13110088 TTTAATTGGT
13110098 TTTTTTCAAAATAAA-AAATTA
1 TTTTTTCAAAA-AAATAAATTA
*
13110119 TTTTTTGAAAAAAATAAATT
1 TTTTTTCAAAAAAATAAATT
13110139 CATAAGCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
TTTTTTCAAAAAAATAAATTA
Found at i:13110414 original size:12 final size:12
Alignment explanation
Indices: 13110397--13110421 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13110387 TCTACATCAT
13110397 TATATTAATGAA
1 TATATTAATGAA
13110409 TATATTAATGAA
1 TATATTAATGAA
13110421 T
1 T
13110422 CCAACGACGA
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:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (12 bp):
TATATTAATGAA
Found at i:13111667 original size:21 final size:21
Alignment explanation
Indices: 13111643--13111728 Score: 95
Period size: 21 Copynumber: 4.1 Consensus size: 21
13111633 GGGCATTCTT
13111643 CTTGAAAGAGGGGATCGATCC
1 CTTGAAAGAGGGGATCGATCC
13111664 CTTGAAAGAGGGGATCGATCC
1 CTTGAAAGAGGGGATCGATCC
** * * *
13111685 CTTGCCATAGGTGATCGATCT
1 CTTGAAAGAGGGGATCGATCC
*
13111706 CTT--ATGTAGGGGATCGATCC
1 CTTGAAAG-AGGGGATCGATCC
13111726 CTT
1 CTT
13111729 TTCTAGAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
20 14 0.26
21 40 0.74
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (21 bp):
CTTGAAAGAGGGGATCGATCC
Found at i:13112693 original size:39 final size:38
Alignment explanation
Indices: 13112626--13112703 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 38
13112616 TAATTAATGC
*
13112626 ATGGCAAAACTCTCCCTTAATTTGTGCATCCTAATCCA
1 ATGGCAAAACTCTCCCTTAATTTATGCATCCTAATCCA
*
13112664 ATGGCAAAACTC-CCCTTTTAATTTATGCATCTTAATCCA
1 ATGGCAAAACTCTCCC--TTAATTTATGCATCCTAATCCA
13112703 A
1 A
13112704 CACAACTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
37 3 0.08
38 12 0.33
39 21 0.58
ACGTcount: A:0.31, C:0.27, G:0.09, T:0.33
Consensus pattern (38 bp):
ATGGCAAAACTCTCCCTTAATTTATGCATCCTAATCCA
Found at i:13117549 original size:21 final size:20
Alignment explanation
Indices: 13117503--13117556 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
13117493 TTGAACAACC
13117503 GATCGATCCCTTGAAAGAGG
1 GATCGATCCCTTGAAAGAGG
** *
13117523 GAATCGATCCCTTGCCATAGG
1 G-ATCGATCCCTTGAAAGAGG
13117544 TGATCGATCCCTT
1 -GATCGATCCCTT
13117557 ATGTAGGGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.03
21 27 0.93
22 1 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (20 bp):
GATCGATCCCTTGAAAGAGG
Found at i:13120558 original size:32 final size:33
Alignment explanation
Indices: 13120491--13120559 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 33
13120481 AAATTATATT
* * *
13120491 AAATCTTCCAATAGTTTGCTAAGATTTAAAATAC
1 AAATCCTCCAATAATTTGATAAGA-TTAAAATAC
13120525 AAATCCTCCAATAATTTGATAAGA-TAAAATAC
1 AAATCCTCCAATAATTTGATAAGATTAAAATAC
13120557 AAA
1 AAA
13120560 AGATTTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 11 0.34
34 21 0.66
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.30
Consensus pattern (33 bp):
AAATCCTCCAATAATTTGATAAGATTAAAATAC
Found at i:13120789 original size:8 final size:8
Alignment explanation
Indices: 13120776--13120856 Score: 63
Period size: 8 Copynumber: 9.0 Consensus size: 8
13120766 AAACAAGTAG
13120776 AATAAAAA
1 AATAAAAA
13120784 AATAAAAA
1 AATAAAAA
13120792 AATAAAACA
1 AATAAAA-A
*
13120801 AGTAAAATGA
1 AATAAAA--A
13120811 AATAGAAAA
1 AATA-AAAA
13120820 TAAGTAAGAAA
1 -AA-TAA-AAA
*
13120831 ATATATAAA
1 A-ATAAAAA
13120840 AATAAAAAA
1 AAT-AAAAA
13120849 AATAAAAA
1 AATAAAAA
13120857 TGTAATTGAA
Statistics
Matches: 60, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
8 22 0.37
9 19 0.32
10 10 0.17
11 9 0.15
ACGTcount: A:0.77, C:0.01, G:0.06, T:0.16
Consensus pattern (8 bp):
AATAAAAA
Found at i:13122068 original size:64 final size:64
Alignment explanation
Indices: 13121992--13122144 Score: 159
Period size: 64 Copynumber: 2.4 Consensus size: 64
13121982 AAACAATGAA
* * * *
13121992 TCAG-AAATTAAAATGATCTGGACTAAGCT-AAGATTAAAACATATGACCAGAATTGAAC-CTAA
1 TCAGAAAAATAAAATGATCTGGACTAAGCTGAA-ATCAAAACAGATGACCAAAATTGAACTC-AA
13122054 G
64 G
* * * * *
13122055 TCAGAAAAATAAAATGATCTAGATTGAGCTGAAATCAAAATAGGTGACCAAAATTGAACTGCAAG
1 TCAGAAAAATAAAATGATCTGGACTAAGCTGAAATCAAAACAGATGACCAAAATTGAACT-CAAG
* *
13122120 TCAGAAAAATAAATTGATTTGGACT
1 TCAGAAAAATAAAATGATCTGGACT
13122145 TACAATAGAT
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
63 4 0.05
64 42 0.58
65 26 0.36
66 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.24
Consensus pattern (64 bp):
TCAGAAAAATAAAATGATCTGGACTAAGCTGAAATCAAAACAGATGACCAAAATTGAACTCAAG
Found at i:13133977 original size:19 final size:18
Alignment explanation
Indices: 13133950--13133997 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
13133940 AAACAAGTAG
*
13133950 AATAAAAAAAGTAAAATG-A
1 AATATAAAAA-TAAAA-GAA
13133969 AATATAAAATATAAAAGAA
1 AATATAAAA-ATAAAAGAA
13133988 AATATAAAAA
1 AATATAAAAA
13133998 AATAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 2 0.08
19 23 0.88
20 1 0.04
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (18 bp):
AATATAAAAATAAAAGAA
Found at i:13134008 original size:19 final size:20
Alignment explanation
Indices: 13133951--13134014 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
13133941 AACAAGTAGA
*
13133951 ATAAAAAAAGTAAAATGAAAT
1 ATAAAAAAA-TAAAATAAAAT
* *
13133972 AT-AAAATATAAAAGAAAAT
1 ATAAAAAAATAAAATAAAAT
13133991 ATAAAAAAAT-AAATAAAAAT
1 ATAAAAAAATAAAAT-AAAAT
13134011 ATAA
1 ATAA
13134015 TTGAAAATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 14 0.39
20 20 0.56
21 2 0.06
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (20 bp):
ATAAAAAAATAAAATAAAAT
Found at i:13134046 original size:19 final size:19
Alignment explanation
Indices: 13133955--13134052 Score: 64
Period size: 19 Copynumber: 5.3 Consensus size: 19
13133945 AGTAGAATAA
* *
13133955 AAAAAGTAAAATGAAATAT
1 AAAAATTAAAATGAAAAAT
13133974 -AAAATATAAAA-GAAAATAT
1 AAAAAT-TAAAATGAAAA-AT
*
13133993 AAAAA-AATAAAT-AAAAAT
1 AAAAATTA-AAATGAAAAAT
* *
13134011 -ATAATTGAAAAT-TAAAAT
1 AAAAATT-AAAATGAAAAAT
*
13134029 AAAAATTAAAATGAAAAAG
1 AAAAATTAAAATGAAAAAT
13134048 AAAAA
1 AAAAA
13134053 AGAAAAACCT
Statistics
Matches: 61, Mismatches: 9, Indels: 18
0.69 0.10 0.20
Matches are distributed among these distances:
17 3 0.05
18 25 0.41
19 29 0.48
20 4 0.07
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.20
Consensus pattern (19 bp):
AAAAATTAAAATGAAAAAT
Found at i:13134051 original size:12 final size:11
Alignment explanation
Indices: 13133962--13134051 Score: 51
Period size: 12 Copynumber: 7.8 Consensus size: 11
13133952 TAAAAAAAGT
13133962 AAAATGAAATATA
1 AAAAT-AAA-ATA
*
13133975 AAATATAAAA-G
1 AAA-ATAAAATA
*
13133986 AAAATATAA-A
1 AAAATAAAATA
13133996 AAAAT-AAATA
1 AAAATAAAATA
*
13134006 AAAATATAATTGA
1 AAAATA-AAAT-A
*
13134019 AAATTAAAATA
1 AAAATAAAATA
13134030 AAAATTAAAATGA
1 AAAA-TAAAAT-A
*
13134043 AAAAGAAAA
1 AAAATAAAA
13134052 AAGAAAAACC
Statistics
Matches: 61, Mismatches: 9, Indels: 15
0.72 0.11 0.18
Matches are distributed among these distances:
9 2 0.03
10 16 0.26
11 7 0.11
12 17 0.28
13 17 0.28
14 2 0.03
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:13134369 original size:10 final size:10
Alignment explanation
Indices: 13134354--13134403 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
13134344 TAAAACTCAA
13134354 AATTTTCTAG
1 AATTTTCTAG
13134364 AATTTT-TAG
1 AATTTTCTAG
*
13134373 AATTTT-TAA
1 AATTTTCTAG
* *
13134382 AATTCTCTAA
1 AATTTTCTAG
13134392 AATTTTCTAG
1 AATTTTCTAG
13134402 AA
1 AA
13134404 AATTTCCCTC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
9 16 0.46
10 19 0.54
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (10 bp):
AATTTTCTAG
Found at i:13134834 original size:3 final size:3
Alignment explanation
Indices: 13134828--13134853 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13134818 AATAATAATA
13134828 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
13134854 AATAATCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:13134864 original size:3 final size:3
Alignment explanation
Indices: 13134858--13134892 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
13134848 GATGATAATA
*
13134858 ATC ATC ATC ATC ATT ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
13134893 AACAAAAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:13144518 original size:2 final size:2
Alignment explanation
Indices: 13144472--13144499 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13144462 TTATGTCTGT
13144472 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13144500 AAATAAGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13152959 original size:34 final size:35
Alignment explanation
Indices: 13152920--13153002 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 35
13152910 CTTAACTATA
* *
13152920 CAGAAAATTCATTTT-GAAAAGCATTGTAATTATC
1 CAGAAAATTCATTTTCGAAAAGCACTGCAATTATC
* *
13152954 TAG-AAACTCATTTTCGAAAAGCACTGCAATTATC
1 CAGAAAATTCATTTTCGAAAAGCACTGCAATTATC
*
13152988 CA-AAAATACATTTTC
1 CAGAAAATTCATTTTC
13153003 AGAAGTAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
33 10 0.25
34 30 0.75
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.33
Consensus pattern (35 bp):
CAGAAAATTCATTTTCGAAAAGCACTGCAATTATC
Found at i:13154131 original size:17 final size:17
Alignment explanation
Indices: 13154105--13154139 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
13154095 AAGCTTGGAC
*
13154105 ATAGATTTTTAGGTCAA
1 ATAGAATTTTAGGTCAA
13154122 ATAGAATTTTAGGTCAA
1 ATAGAATTTTAGGTCAA
13154139 A
1 A
13154140 GCTCGACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (17 bp):
ATAGAATTTTAGGTCAA
Found at i:13154225 original size:12 final size:12
Alignment explanation
Indices: 13154194--13154222 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
13154184 TATATATTTA
13154194 TTTAAATATAAT
1 TTTAAATATAAT
13154206 TTTAAATA-AAT
1 TTTAAATATAAT
13154217 TTTAAA
1 TTTAAA
13154223 ATATTAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
TTTAAATATAAT
Found at i:13154509 original size:20 final size:20
Alignment explanation
Indices: 13154477--13154532 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
13154467 TTTTAATTTT
13154477 AATTTTAAAATATTTTTTTCA
1 AATTTT-AAATATTTTTTTCA
13154498 AATTTTAAATATTTTTTTCA
1 AATTTTAAATATTTTTTTCA
13154518 AATTTTAAATATTTT
1 AATTTTAAATATTTT
13154533 AATATATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 29 0.83
21 6 0.17
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.59
Consensus pattern (20 bp):
AATTTTAAATATTTTTTTCA
Found at i:13156215 original size:14 final size:14
Alignment explanation
Indices: 13156196--13156225 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
13156186 ATGGTCTACC
13156196 TACTCCACCTTGTA
1 TACTCCACCTTGTA
13156210 TACTCCACCTTGTA
1 TACTCCACCTTGTA
13156224 TA
1 TA
13156226 GTATGTGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.33, G:0.07, T:0.37
Consensus pattern (14 bp):
TACTCCACCTTGTA
Found at i:13156968 original size:20 final size:20
Alignment explanation
Indices: 13156943--13157000 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
13156933 TAGATTATGC
* *
13156943 TATCATGCAAATATATTAAT
1 TATCATGCAAATATATAAAA
13156963 TATCATGC-AATAATATAAAA
1 TATCATGCAAAT-ATATAAAA
13156983 TATCATGCAAATATATAA
1 TATCATGCAAATATATAA
13157001 TCATAAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.09
20 28 0.82
21 3 0.09
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.34
Consensus pattern (20 bp):
TATCATGCAAATATATAAAA
Found at i:13157028 original size:34 final size:34
Alignment explanation
Indices: 13156967--13157051 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 34
13156957 ATTAATTATC
* *
13156967 ATGCAATAATATAAA-AT-ATCATGCAAATATATA
1 ATGC-ATAAAATAAATATAATCATACAAATATATA
*
13157000 AT-CATAAAATCAAATATAATCATACAAATATATT
1 ATGCATAAAAT-AAATATAATCATACAAATATATA
*
13157034 ATGCATACAATAAATATA
1 ATGCATAAAATAAATATA
13157052 GAAACATGCA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
31 6 0.14
32 4 0.09
33 4 0.09
34 23 0.52
35 7 0.16
ACGTcount: A:0.55, C:0.11, G:0.04, T:0.31
Consensus pattern (34 bp):
ATGCATAAAATAAATATAATCATACAAATATATA
Found at i:13157065 original size:20 final size:20
Alignment explanation
Indices: 13157042--13157125 Score: 57
Period size: 20 Copynumber: 4.2 Consensus size: 20
13157032 TTATGCATAC
13157042 AATAAATATAGAAACATGCA
1 AATAAATATAGAAACATGCA
* **
13157062 AATATAT-TAGTAATTATGCA
1 AATAAATATAG-AAACATGCA
* *
13157082 ATTAAATAT--AATCATGCA
1 AATAAATATAGAAACATGCA
* *
13157100 ATTAAATATAAAATACAATGCA
1 AATAAATATAGAA-AC-ATGCA
13157122 AATA
1 AATA
13157126 TATTAATAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
18 17 0.34
19 3 0.06
20 20 0.40
21 2 0.04
22 8 0.16
ACGTcount: A:0.55, C:0.08, G:0.07, T:0.30
Consensus pattern (20 bp):
AATAAATATAGAAACATGCA
Found at i:13157066 original size:36 final size:34
Alignment explanation
Indices: 13156961--13157070 Score: 107
Period size: 36 Copynumber: 3.1 Consensus size: 34
13156951 AAATATATTA
*
13156961 ATTATCATGCAAT-AATATAAAATATCATGCAAATAT
1 ATTATCATACAATAAATAT-AAA-A-CATGCAAATAT
* * * *
13156997 ATAATCATAAAATCAAATAT-AATCATACAAATAT
1 ATTATCATACAAT-AAATATAAAACATGCAAATAT
13157031 ATTATGCATACAATAAATATAGAAACATGCAAATAT
1 ATTAT-CATACAATAAATATA-AAACATGCAAATAT
13157067 ATTA
1 ATTA
13157071 GTAATTATGC
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
34 20 0.33
35 7 0.12
36 28 0.47
38 5 0.08
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.31
Consensus pattern (34 bp):
ATTATCATACAATAAATATAAAACATGCAAATAT
Found at i:13157098 original size:18 final size:18
Alignment explanation
Indices: 13157072--13157110 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
13157062 AATATATTAG
*
13157072 TAATTATGCAATTAAATA
1 TAATCATGCAATTAAATA
13157090 TAATCATGCAATTAAATA
1 TAATCATGCAATTAAATA
13157108 TAA
1 TAA
13157111 AATACAATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (18 bp):
TAATCATGCAATTAAATA
Found at i:13157239 original size:23 final size:24
Alignment explanation
Indices: 13157211--13157321 Score: 82
Period size: 23 Copynumber: 4.5 Consensus size: 24
13157201 ATGTATTAGG
13157211 TAATCATGCAAATAAATATA-AAA
1 TAATCATGCAAATAAATATATAAA
* * *
13157234 TAATCACGCAAGTAAATATATTAA
1 TAATCATGCAAATAAATATATAAA
* * * *
13157258 TAGTCATGCAAACATGTAATTAAATATA
1 TAATCATGC-AA-A--TAAATATATAAA
* *
13157286 TTATCATGCAAAATAAATATATTAA
1 TAATCATGC-AAATAAATATATAAA
13157311 TAATCAT-CAAA
1 TAATCATGCAAA
13157322 CATACAATTA
Statistics
Matches: 66, Mismatches: 17, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
23 21 0.32
24 10 0.15
25 16 0.24
27 1 0.02
28 18 0.27
ACGTcount: A:0.52, C:0.11, G:0.06, T:0.31
Consensus pattern (24 bp):
TAATCATGCAAATAAATATATAAA
Found at i:13157419 original size:34 final size:32
Alignment explanation
Indices: 13157356--13157472 Score: 130
Period size: 32 Copynumber: 3.6 Consensus size: 32
13157346 AATGCAAATC
* * *
13157356 TATATTATTATGTAAATAAATATGCAATTAAA
1 TATATTATCATGCAAATAAACATGCAATTAAA
*
13157388 TATGTTATCATGCAAATAAACATGCGCAATTAAA
1 TATATTATCATGCAAATAAACAT--GCAATTAAA
* *
13157422 TATATTGA-CATTCATGA-AAACATGCAATTAAA
1 TATATT-ATCATGCA-AATAAACATGCAATTAAA
13157454 TATATTATCATGCAAATAA
1 TATATTATCATGCAAATAA
13157473 TAAACCAAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
31 2 0.03
32 41 0.59
34 25 0.36
35 2 0.03
ACGTcount: A:0.47, C:0.10, G:0.09, T:0.34
Consensus pattern (32 bp):
TATATTATCATGCAAATAAACATGCAATTAAA
Found at i:13157634 original size:16 final size:16
Alignment explanation
Indices: 13157625--13157658 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
13157615 AACAGAAAAC
13157625 AAAATTAACAAAACAA
1 AAAATTAACAAAACAA
13157641 AAAATTAA-AAAATCAA
1 AAAATTAACAAAA-CAA
13157657 AA
1 AA
13157659 TCAAATTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAATTAACAAAACAA
Found at i:13158566 original size:17 final size:16
Alignment explanation
Indices: 13158540--13158580 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
13158530 CAATTCACAC
13158540 TTTTTTTTTTTT-ACT
1 TTTTTTTTTTTTCACT
13158555 TTTTTCTTTTTTTCACT
1 TTTTT-TTTTTTTCACT
13158572 TTTTTTTTT
1 TTTTTTTTT
13158581 AGAAAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.21
16 11 0.46
17 8 0.33
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTTTTTTTTCACT
Found at i:13158667 original size:19 final size:18
Alignment explanation
Indices: 13158600--13158691 Score: 67
Period size: 19 Copynumber: 4.9 Consensus size: 18
13158590 ATAATGACAA
13158600 CAAAATCAAAATTTAAATT
1 CAAAATCAAAA-TTAAATT
13158619 CAAAATCAAAATTAGAATT
1 CAAAATCAAAATTA-AATT
* ** *
13158638 CCATTTAAAAATTAAAGTT
1 CAAAATCAAAATTAAA-TT
* **
13158657 AAAAATCAAAATCCCAATT
1 CAAAATCAAAAT-TAAATT
* *
13158676 GACAATCAAAATTAAA
1 CAAAATCAAAATTAAA
13158692 AATTAAAGTC
Statistics
Matches: 55, Mismatches: 15, Indels: 7
0.71 0.19 0.09
Matches are distributed among these distances:
18 7 0.13
19 46 0.84
20 2 0.04
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (18 bp):
CAAAATCAAAATTAAATT
Found at i:13158720 original size:32 final size:32
Alignment explanation
Indices: 13158645--13158722 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 32
13158635 ATTCCATTTA
*
13158645 AAAATTAAAGTTAAAAATCAAAATCCCAATTG
1 AAAATTAAAATTAAAAATCAAAATCCCAATTG
* * * * *
13158677 ACAATCAAAATTAAAAATTAAAGTCTCAATT-
1 AAAATTAAAATTAAAAATCAAAATCCCAATTG
13158708 AAAATTAGAAATTAA
1 AAAATTA-AAATTAA
13158723 CATCAAGGTT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
31 5 0.14
32 32 0.86
ACGTcount: A:0.58, C:0.10, G:0.05, T:0.27
Consensus pattern (32 bp):
AAAATTAAAATTAAAAATCAAAATCCCAATTG
Found at i:13159043 original size:43 final size:41
Alignment explanation
Indices: 13158996--13159086 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 41
13158986 TTTATTTTGA
*
13158996 AAAATGCTCCTCC-ACAACTAAGGCTTTGAAATTTTTGAAAAAT
1 AAAATGCT--TCCAACAACTAAGGCTTTGAAA-CTTTGAAAAAT
*
13159039 AAAATGCTTCCAAATAACTAAGGCTTTGAAACTTTGAAAAAT
1 AAAATGCTTCC-AACAACTAAGGCTTTGAAACTTTGAAAAAT
13159081 AAAATG
1 AAAATG
13159087 AGATCATTCT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
41 3 0.07
42 16 0.36
43 25 0.57
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (41 bp):
AAAATGCTTCCAACAACTAAGGCTTTGAAACTTTGAAAAAT
Found at i:13162382 original size:16 final size:16
Alignment explanation
Indices: 13162361--13162404 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
13162351 TTGTTTTTCA
*
13162361 TTTTTTTTTTTACTTC
1 TTTTTTTTTTTACCTC
*
13162377 TTTTTTTTTTCACCTC
1 TTTTTTTTTTTACCTC
13162393 TTATTTTTTTTT
1 TT-TTTTTTTTT
13162405 CAAAATATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 16 0.67
17 8 0.33
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTTTTTTTACCTC
Found at i:13162447 original size:19 final size:18
Alignment explanation
Indices: 13162420--13162456 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
13162410 TATTAAAAGC
13162420 AAAAACAAAATCAAAATT
1 AAAAACAAAATCAAAATT
13162438 AAAAATCAAAATCAAAATT
1 AAAAA-CAAAATCAAAATT
13162457 CCATTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.70, C:0.11, G:0.00, T:0.19
Consensus pattern (18 bp):
AAAAACAAAATCAAAATT
Found at i:13172386 original size:30 final size:30
Alignment explanation
Indices: 13172350--13172413 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
13172340 AAAGCTTGAC
13172350 TAGTTCTTTCTGCATAAGCCAGAAACTTAT
1 TAGTTCTTTCTGCATAAGCCAGAAACTTAT
*
13172380 TAGTTCTTTCTGCATAAGCCAGAAACTTTT
1 TAGTTCTTTCTGCATAAGCCAGAAACTTAT
13172410 TAGT
1 TAGT
13172414 AATTGTATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (30 bp):
TAGTTCTTTCTGCATAAGCCAGAAACTTAT
Found at i:13175475 original size:20 final size:20
Alignment explanation
Indices: 13175452--13175492 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13175442 AATTTTTAAA
*
13175452 AATGCGATTAAATTAAATTT
1 AATGAGATTAAATTAAATTT
* *
13175472 AATGAGATTATATTTAATTT
1 AATGAGATTAAATTAAATTT
13175492 A
1 A
13175493 TATATATAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (20 bp):
AATGAGATTAAATTAAATTT
Found at i:13175516 original size:13 final size:13
Alignment explanation
Indices: 13175500--13175557 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 13
13175490 TTATATATAT
13175500 AAATTAAAAATAA
1 AAATTAAAAATAA
* * *
13175513 AAATTATATATAT
1 AAATTAAAAATAA
** **
13175526 TTATTAAACGTAA
1 AAATTAAAAATAA
13175539 AAATTAAAAATAA
1 AAATTAAAAATAA
13175552 AAATTA
1 AAATTA
13175558 TATAAGTTTA
Statistics
Matches: 32, Mismatches: 13, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (13 bp):
AAATTAAAAATAA
Found at i:13175519 original size:26 final size:26
Alignment explanation
Indices: 13175490--13175544 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
13175480 TATATTTAAT
13175490 TTATATATATAAATTAAAAATAAAAA
1 TTATATATATAAATTAAAAATAAAAA
** **
13175516 TTATATATATTTATTAAACGTAAAAA
1 TTATATATATAAATTAAAAATAAAAA
13175542 TTA
1 TTA
13175545 AAAATAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (26 bp):
TTATATATATAAATTAAAAATAAAAA
Found at i:13175579 original size:20 final size:19
Alignment explanation
Indices: 13175550--13175587 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
13175540 AATTAAAAAT
13175550 AAAAATTATATAAGTTTAA
1 AAAAATTATATAAGTTTAA
*
13175569 AAAAATATATATAATTTTA
1 AAAAAT-TATATAAGTTTA
13175588 TTTTAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (19 bp):
AAAAATTATATAAGTTTAA
Found at i:13175625 original size:15 final size:15
Alignment explanation
Indices: 13175597--13175644 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
13175587 ATTTTAATTT
*
13175597 TATATATGTGAATTAA
1 TATATATAT-AATTAA
*
13175613 TTTATATATAATTAA
1 TATATATATAATTAA
* *
13175628 CATATATATAAATAA
1 TATATATATAATTAA
13175643 TA
1 TA
13175645 ATTTTATATA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (15 bp):
TATATATATAATTAA
Found at i:13177112 original size:2 final size:2
Alignment explanation
Indices: 13177105--13177136 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
13177095 ATGAGTCAAT
*
13177105 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13177137 AAAGTAGCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:13179808 original size:12 final size:12
Alignment explanation
Indices: 13179790--13179819 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
13179780 GATGCAGATA
13179790 AATTTAAGAATT
1 AATTTAAGAATT
*
13179802 GATTTAAGAATT
1 AATTTAAGAATT
13179814 AATTTA
1 AATTTA
13179820 CACCAACAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (12 bp):
AATTTAAGAATT
Found at i:13185709 original size:18 final size:18
Alignment explanation
Indices: 13185639--13185709 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 18
13185629 ATTTGAAGAT
*
13185639 GATACATTTGTGGTGGGG
1 GATACATTTGTGGTGGAG
* **
13185657 GATACATTTGTGATAAAG
1 GATACATTTGTGGTGGAG
* * *
13185675 AATACATTTGAGTTGGAG
1 GATACATTTGTGGTGGAG
*
13185693 GACACATTTGTGGTGGA
1 GATACATTTGTGGTGGA
13185710 TAATAACCAT
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.28, C:0.07, G:0.32, T:0.32
Consensus pattern (18 bp):
GATACATTTGTGGTGGAG
Found at i:13187047 original size:19 final size:19
Alignment explanation
Indices: 13187016--13187053 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
13187006 TATAAGCATA
13187016 AAAATAAACATAT-TTTTT
1 AAAATAAACATATATTTTT
*
13187034 AAAATACAATATATATTTTT
1 AAAATA-AACATATATTTTT
13187054 GGTTTACCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 6 0.35
20 5 0.29
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
AAAATAAACATATATTTTT
Found at i:13189232 original size:14 final size:15
Alignment explanation
Indices: 13189215--13189247 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
13189205 TAAAAATAAA
13189215 AATAAGAATTAA-TT
1 AATAAGAATTAATTT
13189229 AATAAGAATTAATTT
1 AATAAGAATTAATTT
13189244 AATA
1 AATA
13189248 GCAAAAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (15 bp):
AATAAGAATTAATTT
Found at i:13189885 original size:577 final size:578
Alignment explanation
Indices: 13188946--13190098 Score: 1750
Period size: 577 Copynumber: 2.0 Consensus size: 578
13188936 ACTCTTTATG
* *
13188946 TGGTGGCATGCTTACTATTTTGTATAAAAACAAAATAAATTTATATTTAAAAATATTAATGTTAC
1 TGGTGGCATGCTTACTATTTTGTATAAAAACAAAATAAAATTATATTTAAAAATATTAATATTAC
* * *
13189011 TTATTCTATTATTAAAAATTGAATCTACATTAAATTTTTTAATTTTTAGTTTTTAATCTCAAGAG
66 TTATTCTATCATTAAAAATTGAATCTACATTAAA-TTTTT-ATTTTTAATTTTTAATCTCAAAAG
* *
13189076 CAATAGATCATAAAAAGCTAAATTTGTTAGGTAACTTAATCTTTTTGATACACTAATTGATGTAA
129 CAATAGATCATAAAAAGCTAAATTTATTAAGTAACTTAATCTTTTTGATACACTAATTGATGTAA
* *
13189141 AAACTTTTTTATCACAAATTACTTTCAATACATTATATAATAAATAGAATCTTCAATAATTACAT
194 AAACTTTTTTATCACAAATTACTTTAAATACATTATATAATAAATAGAATCTTCAATAATTACAC
13189206 AAAAATAAAAATAAGAATTAATTAATAAGAATTAATTTAATAGCAAAAGAATTGACAACAATATA
259 AAAAAT--AAATAAGAA-TAATTAATAAGAATTAATTTAATAGCAAAAGAATTGACAACAATATA
*
13189271 AATACCAAAACAACAAAAAAATTATTAAATTTCAAATATAAAATTATAAATGAATAAATAACAAA
321 AATACCAAAAAAACAAAAAAATTATTAAATTTCAAATATAAAATTATAAATGAATAAATAACAAA
* * * *
13189336 AGCAAAATATAACAATTAATTTTAATTATTTTTCATCTGACTTATACAAAAAAATTTATTAACAT
386 AGCAAAATATAACAATTAATTTTAATTAATTTTCATCTAACTTATACAAAAAAATTTATTAAAAA
* *
13189401 TTTTCATCTAAAATCCCTATATATATCATATTAAATTATTAATCTC-TTAATTTTTTTTAATTGT
451 TTTTCATCTAAAATCCCTATATATATCATATTAAATTATTAATCTCTTTAA---TTTTCAATTAT
*
13189465 AAATTCTCAATCCCCCTAAATAAATTTTATCTAAAAAAT-TTTTAAAAATTACAAAATTATATAA
513 AAAATCTCAATCCCCCTAAATAAATTTTAT-TAAAAAATATTTTAAAAATTACAAAATTATATAA
13189529 CT
577 CT
*
13189531 TGGTGGCATGCTTACTATTTTGTATAAAAACAAAATAAAATTATATTTAGAAATATTAATAATTA
1 TGGTGGCATGCTTACTATTTTGTATAAAAACAAAATAAAATTATATTTAAAAATATTAAT-ATTA
* *
13189596 CTTATT-TCATCATTAAAAATTGAATCTACGTTAAA-TTTT-TTTTTAATTTTTAATCTTAAAAG
65 CTTATTCT-ATCATTAAAAATTGAATCTACATTAAATTTTTATTTTTAATTTTTAATCTCAAAAG
* ** * *
13189658 TAATAGATTGTAAAACA-CTAAATTTATTAAGTAACTTAATCTTTTTGATACGCTAATTGGTGTA
129 CAATAGATCATAAAA-AGCTAAATTTATTAAGTAACTTAATCTTTTTGATACACTAATTGATGTA
* * *
13189722 AAAATTTTTTTATCACAAATTACTTTTAATATATATTATATAATAAATAGAATCTTCAATTATTA
193 AAAACTTTTTTATCACAAATTAC-TTTAA-ATACATTATATAATAAATAGAATCTTCAATAATTA
*
13189787 CACAAAAAT-AA-AA-CA-AATTAATAAGAATTAATTTAATAGCAAAAGAATTGACAACAATATA
256 CACAAAAATAAATAAGAATAATTAATAAGAATTAATTTAATAGCAAAAGAATTGACAACAATATA
* *
13189848 AATACCAAAAAAACAAAAAAATTGTTAAATTTCAAATATAAAATTATAAATTAATAAATAACAAA
321 AATACCAAAAAAACAAAAAAATTATTAAATTTCAAATATAAAATTATAAATGAATAAATAACAAA
* * *
13189913 ATCAAAATATAATATTTAATTTTAATTAATTTTCATCTAACTTATACAAAAAAATTTATTAAAAA
386 AGCAAAATATAACAATTAATTTTAATTAATTTTCATCTAACTTATACAAAAAAATTTATTAAAAA
*
13189978 TTTTCATCTAAAATCCCTATATATATTATATTAAATTATTAATCTCTTTAATTTTCAATTATAAA
451 TTTTCATCTAAAATCCCTATATATATCATATTAAATTATTAATCTCTTTAATTTTCAATTATAAA
** * * *
13190043 ATCTCAATTTCTCTAACTAAATTTTATTTAAAAATATTTTAAAAATTACAAAATTA
516 ATCTCAATCCCCCTAAATAAATTTTATTAAAAAATATTTTAAAAATTACAAAATTA
13190099 CAAAATTTAT
Statistics
Matches: 521, Mismatches: 40, Indels: 24
0.89 0.07 0.04
Matches are distributed among these distances:
574 7 0.01
575 54 0.10
577 211 0.40
578 4 0.01
579 1 0.00
580 2 0.00
581 2 0.00
582 97 0.19
583 5 0.01
584 45 0.09
585 59 0.11
586 34 0.07
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.39
Consensus pattern (578 bp):
TGGTGGCATGCTTACTATTTTGTATAAAAACAAAATAAAATTATATTTAAAAATATTAATATTAC
TTATTCTATCATTAAAAATTGAATCTACATTAAATTTTTATTTTTAATTTTTAATCTCAAAAGCA
ATAGATCATAAAAAGCTAAATTTATTAAGTAACTTAATCTTTTTGATACACTAATTGATGTAAAA
ACTTTTTTATCACAAATTACTTTAAATACATTATATAATAAATAGAATCTTCAATAATTACACAA
AAATAAATAAGAATAATTAATAAGAATTAATTTAATAGCAAAAGAATTGACAACAATATAAATAC
CAAAAAAACAAAAAAATTATTAAATTTCAAATATAAAATTATAAATGAATAAATAACAAAAGCAA
AATATAACAATTAATTTTAATTAATTTTCATCTAACTTATACAAAAAAATTTATTAAAAATTTTC
ATCTAAAATCCCTATATATATCATATTAAATTATTAATCTCTTTAATTTTCAATTATAAAATCTC
AATCCCCCTAAATAAATTTTATTAAAAAATATTTTAAAAATTACAAAATTATATAACT
Found at i:13190173 original size:15 final size:15
Alignment explanation
Indices: 13190153--13190181 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13190143 ACCAACCAAC
13190153 CATCCCACCCCACTG
1 CATCCCACCCCACTG
13190168 CATCCCACCCCACT
1 CATCCCACCCCACT
13190182 CTGAGACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.62, G:0.03, T:0.14
Consensus pattern (15 bp):
CATCCCACCCCACTG
Found at i:13194409 original size:17 final size:18
Alignment explanation
Indices: 13194377--13194414 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
13194367 AAATAAGAGA
*
13194377 TTAACAAATATTTTATTT
1 TTAACAAATATTTTATAT
*
13194395 TTAACGAAT-TTTTATAT
1 TTAACAAATATTTTATAT
13194412 TTA
1 TTA
13194415 TTTTTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (18 bp):
TTAACAAATATTTTATAT
Found at i:13196757 original size:10 final size:10
Alignment explanation
Indices: 13196742--13196808 Score: 55
Period size: 10 Copynumber: 6.3 Consensus size: 10
13196732 ATTCATATCT
*
13196742 TTTTTTTTTG
1 TTTTTTTTTC
13196752 TTTTTTTTTC
1 TTTTTTTTTC
13196762 TTTTCTTTCTTC
1 TTTT-TTT-TTC
* *
13196774 TAATCTTTTTC
1 T-TTTTTTTTC
13196785 TTTTTCTTTT-
1 TTTTT-TTTTC
13196795 TTATTTTTTTC
1 TT-TTTTTTTC
13196806 TTT
1 TTT
13196809 CATTTTTTTC
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
10 22 0.48
11 16 0.35
12 7 0.15
13 1 0.02
ACGTcount: A:0.04, C:0.12, G:0.01, T:0.82
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:13200625 original size:4 final size:4
Alignment explanation
Indices: 13200616--13200641 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
13200606 TCTTTCACCT
13200616 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
13200642 GATATGGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:13203140 original size:21 final size:20
Alignment explanation
Indices: 13203107--13203155 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 20
13203097 GTTTTTCTTA
*
13203107 TATATTATTTTAATAGGATTTT
1 TATA-TATTTAAATA-GATTTT
13203129 TAATATATTTAAATAGATTTT
1 T-ATATATTTAAATAGATTTT
13203150 TATATA
1 TATATA
13203156 AAATAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 5 0.20
21 7 0.28
22 10 0.40
23 3 0.12
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (20 bp):
TATATATTTAAATAGATTTT
Found at i:13205291 original size:3 final size:3
Alignment explanation
Indices: 13205283--13205330 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
13205273 GGGTTTCTAT
13205283 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13205331 AATTAATAGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13207128 original size:30 final size:28
Alignment explanation
Indices: 13207094--13207151 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 28
13207084 ATTTTTTTAG
*
13207094 CAAAAATCAATATAATTGAAAGTACAATAA
1 CAAAAATCAATAAAATTG-AAGTA-AATAA
*
13207124 CAAAATTCAATAAAATTGAAGTAAATAA
1 CAAAAATCAATAAAATTGAAGTAAATAA
13207152 AAATTAATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 5 0.19
29 5 0.19
30 16 0.62
ACGTcount: A:0.60, C:0.09, G:0.07, T:0.24
Consensus pattern (28 bp):
CAAAAATCAATAAAATTGAAGTAAATAA
Found at i:13209151 original size:305 final size:305
Alignment explanation
Indices: 13208603--13209174 Score: 707
Period size: 305 Copynumber: 1.9 Consensus size: 305
13208593 ACCGAACTCA
13208603 CCTTCAATAATCCAATCAATAAGTTTTTAGTTTGGATTATTAAAGGTGATTTTTGTCAAAAATGC
1 CCTTCAATAATCCAATCAATAAGTTTTTAGTTTGGATTATTAAAGGTGATTTTTGTCAAAAATGC
* * ** * *
13208668 CTTCAATAATCTATACACAAAAGTTGAAACGGATTCTTGAAGGTGTTTTTGGCTCAAAATGACTT
66 CTTCAATAATCCATACAAAAAAGTTGAAACGGATTCTTGAAGGCATTTTTGGCCCAAAATCACTT
* * **
13208733 TAATATTCAAACCGATAAATTTGAATAGGCAGATTATTGAAGGTAATTTTTTTCAAAAATGCCTT
131 TAATATTCAAACCGATAAATTT-AATAGGCAGATTATTGAAGGCAATTTTGTAAAAAAATGCCTT
*
13208798 CAACAACATTTTGTTAGGAATTATTCAAGGTATTTTCAGTAGAAAAATGCCCTT-AATAAT-CCA
195 CAACAACATTTTGTTAGGAATGATTCAAGGTATTTTCAGTAGAAAAATG-CCTTCAATAATCCCA
13208861 TACAAAAAATATGGAATGGATTATTGAAGGTGTTTTCGGCCGAAAATG
259 T-CAAAAAATATGGAATGGATTATTGAAGGTGTTTTCGGCCGAAAATG
* * * ***
13208909 CCTTCAATAATCCATTTAATTAA-TTTTTAG-TTGTTATTATTAAAGGTGATTTTT-TTTTAAAT
1 CCTTCAATAATCCAATCAA-TAAGTTTTTAGTTTG-GATTATTAAAGGTGATTTTTGTCAAAAAT
*
13208971 GCCTTCAATAATCCATACAAAAAAGTTGAAACGGATTCTTGAAGGCATTTTTTGCCCAAAA-CAC
64 GCCTTCAATAATCCATACAAAAAAGTTGAAACGGATTCTTGAAGGCATTTTTGGCCCAAAATCA-
* * * * *
13209035 CTTTAATATTC-CACAC-ATTAAATTT-TTAGGTGAGGTTATTGAAGGCGATTTTGGTAAAAAAA
128 CTTTAATATTCAAAC-CGA-TAAATTTAATAGG-CAGATTATTGAAGGCAATTTT-GTAAAAAAA
* * * * *
13209097 TGCCTTCAATAACATTTTGTTAATG-ATGATTCAAGGTATTTTC-TTACTAAAAATGCCTTCATT
189 TGCCTTCAACAACATTTTGTT-AGGAATGATTCAAGGTATTTTCAGTA-GAAAAATGCCTTCAAT
13209160 AATCCCATCAAAAAA
252 AATCCCATCAAAAAA
13209175 ATATTTTTGA
Statistics
Matches: 227, Mismatches: 28, Indels: 23
0.82 0.10 0.08
Matches are distributed among these distances:
303 4 0.02
304 27 0.12
305 144 0.63
306 49 0.22
307 3 0.01
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.37
Consensus pattern (305 bp):
CCTTCAATAATCCAATCAATAAGTTTTTAGTTTGGATTATTAAAGGTGATTTTTGTCAAAAATGC
CTTCAATAATCCATACAAAAAAGTTGAAACGGATTCTTGAAGGCATTTTTGGCCCAAAATCACTT
TAATATTCAAACCGATAAATTTAATAGGCAGATTATTGAAGGCAATTTTGTAAAAAAATGCCTTC
AACAACATTTTGTTAGGAATGATTCAAGGTATTTTCAGTAGAAAAATGCCTTCAATAATCCCATC
AAAAAATATGGAATGGATTATTGAAGGTGTTTTCGGCCGAAAATG
Found at i:13213661 original size:187 final size:185
Alignment explanation
Indices: 13213261--13214183 Score: 902
Period size: 187 Copynumber: 5.0 Consensus size: 185
13213251 AAAAGACGCT
* *
13213261 TTTAATAATCCCAAAAATTTTTAAAAGAAAATTGTTAAAGGCGTTTGTTCTCAAAAAATGCCTTC
1 TTTAATAATCCCAAAAATTTTTAAAAG-AAATTATTGAAGGCGTTTGTTCTCAAAAAATGCCTTC
* * * *
13213326 AATAATTATGTAAAAAAAATTAAAATG-AATTAATGAAGGCATATTTCTAGAATAAATGCCTTTA
65 AATAATTATGT--ACAAAATTAAAA-GAAATTAATGAAGGTATTTTTCTAGAATAAATGCCTTCA
* * * * * *
13213390 CTAACCGTTTTAAAATTT--G----AG---ATCGAAGGCATTTTTTACTAGAAGATACA
127 CTAACCATCTTAAAATTTAAGTATTAGAATATTGAAGGCATTTTTCACTAGAAGACACC
** * * * *
13213440 TTTAATAATCCCAACTATTTTTACAAGAAAATTATTGAAGGCATTTGTTCCCAAAAAATGCCTTT
1 TTTAATAATCCCAAAAATTTTTAAAAG-AAATTATTGAAGGCGTTTGTTCTCAAAAAATGCCTTC
* * *
13213505 AATAATTATGTACAAAATTTAAAAGAAATTATTGAAGGTATTTTTATGGAATAAATGCCTTCACT
65 AATAATTATGTACAAAA-TTAAAAGAAATTAATGAAGGTATTTTTCTAGAATAAATGCCTTCACT
* * * *
13213570 AGCCATCTTAAAATTTAAGCATTAGTATATTAAAGGCATTTTTCACTAGAAGACACC
129 AACCATCTTAAAATTTAAGTATTAGAATATTGAAGGCATTTTTCACTAGAAGACACC
* * * *
13213627 TTTAATAATCCCCAAAATTTTTAAAATGAAATTATTGAAGGCGTTTGTTCTCAAACAATACCCTC
1 TTTAATAATCCCAAAAATTTTTAAAA-GAAATTATTGAAGGCGTTTGTTCTCAAAAAATGCCTTC
* * * **
13213692 AATAATTATGTACATAAATTAAATGGAATCAATGAAGGCT-TTTTTCTAGAATAAATATCTTCAC
65 AATAATTATGTACA-AAATTAAAAGAAATTAATGAAGG-TATTTTTCTAGAATAAATGCCTTCAC
* * ** *
13213756 TAACCATCTTAAAATTTGAGTAGTAGAATATTGAAGGTGTTTTTCACTAGAAGACACT
128 TAACCATCTTAAAATTTAAGTATTAGAATATTGAAGGCATTTTTCACTAGAAGACACC
* * * *
13213814 TTTAATGATCCCAAAAAATTTTAAAAAAAAATTATTGAGGGCGTTTGTTCTCAAAAAATGCCTTC
1 TTTAATAATCCC-AAAAATTTTTAAAAGAAATTATTGAAGGCGTTTGTTCTCAAAAAATGCCTTC
* * * ** * * *
13213879 AATAATTATATACAAAATTTAAAAGAAATTATTAAAAATGTTTTTCTAGAATAAACGCCTTTACT
65 AATAATTATGTACAAAA-TTAAAAGAAATTAATGAAGGTATTTTTCTAGAATAAATGCCTTCACT
* * * * * * * **
13213944 AATCATCTCAAAATTTGAGTACTGGTATATT-AAGG--TGTTTTCACTAGAATATGCC
129 AACCATCTTAAAATTTAAGTATTAGAATATTGAAGGCAT-TTTTCACTAGAAGACACC
* * * * * *
13213999 TTTAATAATCCCAAAAATTTTCTAAATGAAATTATTGAAAGTGTTTGTTCTTAAAAAATGTCTTG
1 TTTAATAATCCCAAAAATTTT-TAAAAGAAATTATTGAAGGCGTTTGTTCTCAAAAAATGCCTTC
* * *
13214064 AA-CA--AT-T-----ATTAAAAGGAATTAGTGAAGGTATTTTTCTAGAATAAATGCCTTCACTA
65 AATAATTATGTACAAAATTAAAAGAAATTAATGAAGGTATTTTTCTAGAATAAATGCCTTCACTA
* * * *
13214120 ACTATCTTAAAATTTAAGTATTGGAATATTGAAGGCATTTTTTACTAGAAGACGCC
130 ACCATCTTAAAATTTAAGTATTAGAATATTGAAGGCATTTTTCACTAGAAGACACC
*
13214176 TTCAATAA
1 TTTAATAA
13214184 ATTTTTTTAA
Statistics
Matches: 614, Mismatches: 108, Indels: 46
0.80 0.14 0.06
Matches are distributed among these distances:
175 64 0.10
176 5 0.01
177 28 0.05
178 53 0.09
179 68 0.11
180 1 0.00
181 1 0.00
182 2 0.00
184 13 0.02
185 61 0.10
186 8 0.01
187 293 0.48
188 17 0.03
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (185 bp):
TTTAATAATCCCAAAAATTTTTAAAAGAAATTATTGAAGGCGTTTGTTCTCAAAAAATGCCTTCA
ATAATTATGTACAAAATTAAAAGAAATTAATGAAGGTATTTTTCTAGAATAAATGCCTTCACTAA
CCATCTTAAAATTTAAGTATTAGAATATTGAAGGCATTTTTCACTAGAAGACACC
Found at i:13214307 original size:124 final size:125
Alignment explanation
Indices: 13214073--13214307 Score: 316
Period size: 125 Copynumber: 1.9 Consensus size: 125
13214063 GAACAATTAT
* * * * *
13214073 TAAAAGGAATTAGTGAAGGTATTTTTCTAGAATAAATGCCTTCACTAACTATCTTAAAATTTAAG
1 TAAAACGAATTAGTCAAAGTATTTTTCTAGAATAAATGCCTTCAATAACTACCTTAAAATTTAAG
* *
13214138 TATTGGAATATTGAAGGCATTTTTTACTAGAAGACGCCTTCAATAAATTTTTTTAAAAAA
66 TAGTGGAATATTAAAGGCATTTTTTACTAGAAGACGCCTTCAATAAATTTTTTTAAAAAA
*
13214198 TAAAACGAATTAGTCAAAGTATTTTTCTAGAATAAATGCCTTCAATAAC-CCCTTAAAA-TT-AG
1 TAAAACGAATTAGTCAAAGTATTTTTCTAGAATAAATGCCTTCAATAACTACCTTAAAATTTAAG
* * *
13214260 CTTAGTGTAATATTAAAGGCCTTTTTGTA-TAGAAGACGCCTTTAATAA
66 --TAGTGGAATATTAAAGGCATTTTT-TACTAGAAGACGCCTTCAATAA
13214308 GACCAAACAA
Statistics
Matches: 96, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
122 2 0.02
123 2 0.02
124 45 0.47
125 47 0.49
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (125 bp):
TAAAACGAATTAGTCAAAGTATTTTTCTAGAATAAATGCCTTCAATAACTACCTTAAAATTTAAG
TAGTGGAATATTAAAGGCATTTTTTACTAGAAGACGCCTTCAATAAATTTTTTTAAAAAA
Done.