Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 23 of 125
Found at i:4141330 original size:17 final size:17
Alignment explanation
Indices: 4141300--4141346 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
4141290 AAACCTTATG
*
4141300 ATTTTTAAATAAAAATTA
1 ATTTTTATA-AAAAATTA
4141318 ATTTTTATAAAAAATTA
1 ATTTTTATAAAAAATTA
*
4141335 ATTTTCATAAAA
1 ATTTTTATAAAA
4141347 TTCTACCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 19 0.70
18 8 0.30
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTTTATAAAAAATTA
Found at i:4142678 original size:3 final size:3
Alignment explanation
Indices: 4142670--4142713 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
4142660 TCTAGCCAAG
4142670 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4142714 CTAGTTATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4143056 original size:120 final size:120
Alignment explanation
Indices: 4142899--4143374 Score: 578
Period size: 119 Copynumber: 4.0 Consensus size: 120
4142889 AATAAAACAA
* * *
4142899 AAAGCTTTACCAATATATT-AAAAGCAATTTGATTTTTAAAATAAAGTTTTACCAACATATTAGA
1 AAAGCTTTACCAATATATTGGAAGGTAATTTGATTTTTAAAATAAAGTTTTACCAACATATTAGA
* * *
4142963 AAATCTTATTAATTTTTCATAAAAAATAAATTTCAATAAAAAAATAATTTTTAGT
66 AAACCTTATTAATTTTTTATAAAAAATAAATTTTAATAAAAAAATAATTTTTAGT
* *
4143018 AAAGCTTTACCAATATATTGGAAGGTAATTTGATTTTTATAAT-AAGATTTTACCAACATATTTG
1 AAAGCTTTACCAATATATTGGAAGGTAATTTGATTTTTAAAATAAAG-TTTTACCAACATATTAG
*
4143082 AAAACCTTATTAATTTTTTATAAAAAATAAATTTTAA-GAAAAAATAATTTTTAGT
65 AAAACCTTATTAATTTTTTATAAAAAATAAATTTTAATAAAAAAATAATTTTTAGT
** * * *
4143137 AAAGCTTTATTAATATATTGTAAGGTAATTTGATTTTTAAAATAAGGTTTTACCAACATATTTGA
1 AAAGCTTTACCAATATATTGGAAGGTAATTTGATTTTTAAAATAAAGTTTTACCAACATATTAGA
* *
4143202 AAACCTTACTAATTTTTTATAAAAAAT-AA--TT--TAAAAAAATGATTTTTAGT
66 AAACCTTATTAATTTTTTATAAAAAATAAATTTTAATAAAAAAATAATTTTTAGT
* * * * * * *
4143252 AAAGCCTTACCAACATATTGGAAGGTAATTTGGTTTTTAAGATAATG-TTTACTAAAATTATTAG
1 AAAGCTTTACCAATATATTGGAAGGTAATTTGATTTTTAAAATAAAGTTTTACCAACA-TATTAG
* ** * * *
4143316 AAAATCTTATGGA-TTTTTAAATAAAAATTAATTTTAGAAAAAAAAATAATTTTTA-T
65 AAAACCTTATTAATTTTTTATA-AAAAATAAATTTTA-ATAAAAAAATAATTTTTAGT
4143372 AAA
1 AAA
4143375 ATCTTACTAA
Statistics
Matches: 310, Mismatches: 35, Indels: 23
0.84 0.10 0.06
Matches are distributed among these distances:
114 15 0.05
115 75 0.24
116 4 0.01
118 4 0.01
119 122 0.39
120 75 0.24
121 15 0.05
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (120 bp):
AAAGCTTTACCAATATATTGGAAGGTAATTTGATTTTTAAAATAAAGTTTTACCAACATATTAGA
AAACCTTATTAATTTTTTATAAAAAATAAATTTTAATAAAAAAATAATTTTTAGT
Found at i:4143116 original size:17 final size:16
Alignment explanation
Indices: 4143096--4143139 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
4143086 CCTTATTAAT
4143096 TTTTTATAAAAAATAAA
1 TTTTTATAAAAAAT-AA
* *
4143113 TTTTAAGAAAAAATAA
1 TTTTTATAAAAAATAA
4143129 TTTTTAGTAAA
1 TTTTTA-TAAA
4143140 GCTTTATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (16 bp):
TTTTTATAAAAAATAA
Found at i:4143351 original size:234 final size:236
Alignment explanation
Indices: 4142924--4143374 Score: 610
Period size: 234 Copynumber: 1.9 Consensus size: 236
4142914 TATTAAAAGC
* *
4142924 AATTTGATTTTTAAAATAAAGTTTTACCAACATATTAGAAAATCTTATTAATTTTTCATAAAAAA
1 AATTTGATTTTTAAAATAAAGTTTTACCAACATATTAGAAAACCTTACTAATTTTTCATAAAAAA
* *
4142989 TAAATTTCAATAAAAAAATAATTTTTAGTAAAGCTTTACCAATATATTGGAAGGTAATTTGATTT
66 TAAATTT--ATAAAAAAATAATTTTTAGTAAAGCCTTACCAACATATTGGAAGGTAATTTGATTT
* * * *
4143054 TTATAATAAGATTTTACCAACATATTTGAAAACCTTATTAATTTTTTATAAAAAATAAATTTT-A
129 TTATAATAAGA-TTTACCAAAATATTAGAAAACCTTATGAATTTTTAATAAAAAATAAATTTTAA
*
4143118 AGAAAAAATAATTTTTAGTAAAGCTTTATTAATATATTGTAAGGT
193 AAAAAAAATAATTTTTA-TAAAGCTTTATTAATATATTGTAAGGT
* * *
4143163 AATTTGATTTTTAAAATAAGGTTTTACCAACATATTTGAAAACCTTACTAATTTTTTATAAAAAA
1 AATTTGATTTTTAAAATAAAGTTTTACCAACATATTAGAAAACCTTACTAATTTTTCATAAAAAA
* *
4143228 T-AA-TT-TAAAAAAATGATTTTTAGTAAAGCCTTACCAACATATTGGAAGGTAATTTGGTTTTT
66 TAAATTTATAAAAAAATAATTTTTAGTAAAGCCTTACCAACATATTGGAAGGTAATTTGATTTTT
* * * *
4143290 A-AGATAATG-TTTACTAAAATTATTAGAAAATCTTATGGATTTTTAA-ATAAAAATTAATTTTA
131 ATA-ATAA-GATTTACCAAAA-TATTAGAAAACCTTATGAATTTTTAATA-AAAAATAAATTTTA
4143352 GAAAAAAAAATAATTTTTATAAA
192 -AAAAAAAAATAATTTTTATAAA
4143375 ATCTTACTAA
Statistics
Matches: 188, Mismatches: 18, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
233 10 0.05
234 91 0.48
235 5 0.03
236 17 0.09
237 2 0.01
238 2 0.01
239 61 0.32
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (236 bp):
AATTTGATTTTTAAAATAAAGTTTTACCAACATATTAGAAAACCTTACTAATTTTTCATAAAAAA
TAAATTTATAAAAAAATAATTTTTAGTAAAGCCTTACCAACATATTGGAAGGTAATTTGATTTTT
ATAATAAGATTTACCAAAATATTAGAAAACCTTATGAATTTTTAATAAAAAATAAATTTTAAAAA
AAAAATAATTTTTATAAAGCTTTATTAATATATTGTAAGGT
Found at i:4143369 original size:19 final size:18
Alignment explanation
Indices: 4143328--4143375 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
4143318 AATCTTATGG
* *
4143328 ATTTTTAAATAAAAATTA
1 ATTTTTAAAAAAAAAATA
4143346 A-TTTTAGAAAAAAAAATA
1 ATTTTTA-AAAAAAAAATA
4143364 ATTTTTATAAAA
1 ATTTTTA-AAAA
4143376 TCTTACTAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 5 0.20
18 11 0.44
19 9 0.36
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
ATTTTTAAAAAAAAAATA
Found at i:4143402 original size:35 final size:35
Alignment explanation
Indices: 4143361--4143446 Score: 86
Period size: 38 Copynumber: 2.4 Consensus size: 35
4143351 AGAAAAAAAA
*
4143361 ATAATTTTTATAAAATCTTA-CTAACATATTGGAGG
1 ATAATTTTTAAAAAATCTTATC-AACATATTGGAGG
* *
4143396 ATAATTTCTAAAAAAAAATCTTATCAATATATTGGAGG
1 ATAATTT-T--TAAAAAATCTTATCAACATATTGGAGG
*
4143434 AT-ATTTTTGAAAA
1 ATAATTTTTAAAAA
4143447 TAAATAGTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
34 4 0.10
35 7 0.17
36 2 0.05
37 4 0.10
38 24 0.57
39 1 0.02
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.38
Consensus pattern (35 bp):
ATAATTTTTAAAAAATCTTATCAACATATTGGAGG
Found at i:4144510 original size:6 final size:6
Alignment explanation
Indices: 4144492--4144530 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
4144482 TATATCGTCC
* * *
4144492 ATAAAT ATGAAT ATAAAT ATAAAT ATATAT ATATAT ATA
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATA
4144531 TATGTATCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (6 bp):
ATAAAT
Found at i:4146859 original size:2 final size:2
Alignment explanation
Indices: 4146852--4146878 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4146842 TACTAACACC
4146852 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4146879 GTCCTTGATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4147093 original size:2 final size:2
Alignment explanation
Indices: 4147086--4147119 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4147076 AATGACTTCT
4147086 TA TA TA 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 TA TA TA
4147120 AGATTGTGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4152855 original size:21 final size:21
Alignment explanation
Indices: 4152831--4152877 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
4152821 AAAGTTTTTC
*
4152831 AAAAAACCCAAAAAATTCAAA
1 AAAAAACCCAAAAAAATCAAA
* * *
4152852 AAAAAATCTAAAAAAATCAAG
1 AAAAAACCCAAAAAAATCAAA
4152873 AAAAA
1 AAAAA
4152878 TTCTCAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.74, C:0.13, G:0.02, T:0.11
Consensus pattern (21 bp):
AAAAAACCCAAAAAAATCAAA
Found at i:4153716 original size:119 final size:119
Alignment explanation
Indices: 4153531--4153965 Score: 509
Period size: 119 Copynumber: 3.7 Consensus size: 119
4153521 GACTGAGATT
* * * * *
4153531 AAACTACGAGTC-AAATAAAATGATCAGAACCAAGTCGAGGTCAAGAATAAATGATCGAGACGGA
1 AAACTACAAGTCAAAATAAAACGACCAGAACCAAGTCAAGGTCAAGAATAAATGATCGAGACAGA
* * *
4153595 ACCATGAATCATAAGAAATGATCTGGACTGAGCTAAGATCAAGTGATTGGGATG
66 ACCACGAATCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGATCGGGATG
* ** * * * *
4153649 AAACTATAAGTCAAAATAAAGTGACCAGAATCGAGTCAAGGTCGAA-AATAAATGATCGGGACTG
1 AAACTACAAGTCAAAATAAAACGACCAGAACCAAGTCAAGGTC-AAGAATAAATGATCGAGACAG
*
4153713 AACCACGAATCATAAGAAATGATCTAGACTGAGCCAAGATCAAGTGATCGGGATG
65 AACCACGAATCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGATCGGGATG
* * * * *
4153768 AAACCACAAGTCAAAATAAAACGACCAGGACCAAGTTAAGGACAAGAATAAATGATCGGGACAGA
1 AAACTACAAGTCAAAATAAAACGACCAGAACCAAGTCAAGGTCAAGAATAAATGATCGAGACAGA
* * *
4153833 ATCACAAATCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGATCGGGACG
66 ACCACGAATCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGATCGGGATG
* * ** * ** *
4153887 AAA-TCACAAGTCAGAATAAAGCGACCTAG-ACTGAGTCAAGATTGAGAATAAATAATCGAGACA
1 AAACT-ACAAGTCAAAATAAAACGACC-AGAACCAAGTCAAGGTCAAGAATAAATGATCGAGACA
* *
4153950 AAACCATGAATCATAA
64 GAACCACGAATCATAA
4153966 TAAAGCGACC
Statistics
Matches: 269, Mismatches: 43, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
118 12 0.04
119 253 0.94
120 4 0.01
ACGTcount: A:0.45, C:0.16, G:0.22, T:0.17
Consensus pattern (119 bp):
AAACTACAAGTCAAAATAAAACGACCAGAACCAAGTCAAGGTCAAGAATAAATGATCGAGACAGA
ACCACGAATCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGATCGGGATG
Found at i:4154000 original size:63 final size:63
Alignment explanation
Indices: 4153901--4154028 Score: 166
Period size: 63 Copynumber: 2.0 Consensus size: 63
4153891 CACAAGTCAG
* * ** * * *
4153901 AATAAAGCGACCTAGACTGAGTCAAGATTGAGAATAAATAATCGAGACAAAACCATGAATCAT
1 AATAAAGCGACCAAGACTAAGTCAAGATAAAAAATAAATAATCAAAACAAAACCATGAATCAT
* * *
4153964 AATAAAGCGACCAAGACTAAGTCAAGGTAAAAAATAAATGATCAAAACGAAACCATGAATCAT
1 AATAAAGCGACCAAGACTAAGTCAAGATAAAAAATAAATAATCAAAACAAAACCATGAATCAT
4154027 AA
1 AA
4154029 GAAATAATCT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.17
Consensus pattern (63 bp):
AATAAAGCGACCAAGACTAAGTCAAGATAAAAAATAAATAATCAAAACAAAACCATGAATCAT
Found at i:4165243 original size:28 final size:28
Alignment explanation
Indices: 4165190--4165243 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
4165180 AAAAAAGGGT
*
4165190 TAAAAATAAAATAAAATAAATCAAAAAA
1 TAAAAATAAAATAAAATAAAGCAAAAAA
*
4165218 TAAAAATAAAATGAAAA-AAAGGAAAA
1 TAAAAATAAAAT-AAAATAAAGCAAAA
4165244 CCTGCGATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.15
Consensus pattern (28 bp):
TAAAAATAAAATAAAATAAAGCAAAAAA
Found at i:4166083 original size:3 final size:3
Alignment explanation
Indices: 4166052--4166103 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
4166042 GAAACAAAAA
* * * *
4166052 AAT AAA AAT AAA AAT AA- AAT AAC AAT AAT AAT AAT GAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4166099 AAT AA
1 AAT AA
4166104 ATCTAATTAG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:4166151 original size:15 final size:15
Alignment explanation
Indices: 4166131--4166162 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4166121 TGGGCTTAGT
*
4166131 TGGGCCTGACCAAAA
1 TGGGCCTAACCAAAA
4166146 TGGGCCTAACCAAAA
1 TGGGCCTAACCAAAA
4166161 TG
1 TG
4166163 AGCCCGATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.25, G:0.25, T:0.16
Consensus pattern (15 bp):
TGGGCCTAACCAAAA
Found at i:4166672 original size:12 final size:13
Alignment explanation
Indices: 4166656--4166692 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
4166646 TATAGATTTT
4166656 TATTTTTATTTAA
1 TATTTTTATTTAA
4166669 -ATTTTTATTTAA
1 TATTTTTATTTAA
*
4166681 TATTTTTTTTTA
1 TATTTTTATTTA
4166693 TAAAATTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TATTTTTATTTAA
Found at i:4166834 original size:24 final size:25
Alignment explanation
Indices: 4166784--4166834 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 25
4166774 TAAAATACAT
* * * *
4166784 AAAATGGGTAGTTTTTTTTTAATAA
1 AAAATGGGTAGTTTTCTATGAAAAA
4166809 AAAAT-GGTAGTTTTCTATGAAAAA
1 AAAATGGGTAGTTTTCTATGAAAAA
4166833 AA
1 AA
4166835 GAGGAAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.43, C:0.02, G:0.16, T:0.39
Consensus pattern (25 bp):
AAAATGGGTAGTTTTCTATGAAAAA
Found at i:4167360 original size:70 final size:70
Alignment explanation
Indices: 4167214--4167366 Score: 209
Period size: 70 Copynumber: 2.2 Consensus size: 70
4167204 ATGTATTGCT
* * * **
4167214 TTTTTAAGATAAAAATGTAGTGGATATTGTTACTTTATTTTCAAAATTTTGGAATGTTAATAAAA
1 TTTTTAAGATAAAAATGTAATGGATATTG-TAATTTATTTTCAAAATTCTAAAATGTTAATAAAA
*
4167279 ATCATG
65 ATCACG
* *
4167285 TTTTTAAGATAAAAATGTAATGGATATTG-AATTATATTTTCAAAATTCTAAAATTTTAATAAAG
1 TTTTTAAGATAAAAATGTAATGGATATTGTAATT-TATTTTCAAAATTCTAAAATGTTAATAAAA
4167349 ATCACG
65 ATCACG
4167355 TTTTTAAGATAA
1 TTTTTAAGATAA
4167367 GAAACATAAT
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
69 3 0.04
70 42 0.58
71 28 0.38
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.42
Consensus pattern (70 bp):
TTTTTAAGATAAAAATGTAATGGATATTGTAATTTATTTTCAAAATTCTAAAATGTTAATAAAAA
TCACG
Found at i:4168965 original size:15 final size:16
Alignment explanation
Indices: 4168937--4168970 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
4168927 TTTCATCCTA
4168937 TTATTTTTACTATTTT
1 TTATTTTTACTATTTT
4168953 TTATTTTTA-TATTTT
1 TTATTTTTACTATTTT
4168968 TTA
1 TTA
4168971 ACAAAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTTACTATTTT
Found at i:4169292 original size:3 final size:3
Alignment explanation
Indices: 4169286--4169320 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4169276 CTTTAAAAAC
4169286 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
4169321 GCATAAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:4172479 original size:4 final size:4
Alignment explanation
Indices: 4172470--4172517 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
4172460 GTTCATGTTG
* * * * *
4172470 ATAT ATAT ATAT ATGT ATGT ATGT ATAT ATGT ATAT ATGT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
4172518 TTGTAGAATG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (4 bp):
ATAT
Found at i:4172483 original size:8 final size:8
Alignment explanation
Indices: 4172470--4172515 Score: 74
Period size: 8 Copynumber: 5.8 Consensus size: 8
4172460 GTTCATGTTG
*
4172470 ATATATAT
1 ATATATGT
4172478 ATATATGT
1 ATATATGT
*
4172486 ATGTATGT
1 ATATATGT
4172494 ATATATGT
1 ATATATGT
4172502 ATATATGT
1 ATATATGT
4172510 ATATAT
1 ATATAT
4172516 ATTTGTAGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (8 bp):
ATATATGT
Found at i:4172725 original size:13 final size:13
Alignment explanation
Indices: 4172709--4172749 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
4172699 TTTTATTTTT
*
4172709 TTATTTTTATATA
1 TTATTTTAATATA
4172722 TTATTTTAATATA
1 TTATTTTAATATA
**
4172735 AAATTTTAATATA
1 TTATTTTAATATA
4172748 TT
1 TT
4172750 TAGAGTAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TTATTTTAATATA
Found at i:4173538 original size:32 final size:31
Alignment explanation
Indices: 4173502--4173605 Score: 86
Period size: 32 Copynumber: 3.3 Consensus size: 31
4173492 TAAAATTACA
4173502 TATCATTTTAAAAAATTGAGTAAAAATTTTTG
1 TATCATTTTAAAAAATT-AGTAAAAATTTTTG
* * * * * *
4173534 TATCAGTTTAAGAAATTAAATAAAAA-CTCTA
1 TATCATTTTAAAAAATT-AGTAAAAATTTTTG
* *
4173565 TATCATTTTCAAATATTATGTAAAAATTTTTAG
1 TATCATTTTAAAAAATTA-GTAAAAATTTTT-G
4173598 -ATCATTTT
1 TATCATTTT
4173606 GAACATAGAT
Statistics
Matches: 54, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
30 1 0.02
31 21 0.39
32 32 0.59
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (31 bp):
TATCATTTTAAAAAATTAGTAAAAATTTTTG
Found at i:4173908 original size:10 final size:10
Alignment explanation
Indices: 4173876--4173923 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
4173866 TCTTTGAATT
4173876 TTTTTTAGAA
1 TTTTTTAGAA
* *
4173886 CTTTTCA-ATA
1 TTTTTTAGA-A
4173896 TTTTTTAGAA
1 TTTTTTAGAA
4173906 TTTTTTAAGAA
1 TTTTTT-AGAA
4173917 TTTTTTA
1 TTTTTTA
4173924 AAAATTTTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
9 1 0.03
10 19 0.61
11 11 0.35
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.60
Consensus pattern (10 bp):
TTTTTTAGAA
Found at i:4173910 original size:11 final size:11
Alignment explanation
Indices: 4173895--4173931 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
4173885 ACTTTTCAAT
4173895 ATTTTTT-AGA
1 ATTTTTTAAGA
4173905 ATTTTTTAAGA
1 ATTTTTTAAGA
*
4173916 ATTTTTTAAAA
1 ATTTTTTAAGA
4173927 ATTTT
1 ATTTT
4173932 CTTTTTATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 7 0.28
11 18 0.72
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (11 bp):
ATTTTTTAAGA
Found at i:4175790 original size:21 final size:21
Alignment explanation
Indices: 4175751--4175790 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4175741 TGATATAATT
* *
4175751 TAAAATTATAATTAAATATAA
1 TAAAATTAAAAATAAATATAA
*
4175772 TAAAATTAAAAATATATAT
1 TAAAATTAAAAATAAATAT
4175791 TTCATCTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAATTAAAAATAAATATAA
Found at i:4175818 original size:15 final size:15
Alignment explanation
Indices: 4175800--4175856 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
4175790 TTTCATCTTT
4175800 TTATATTAATATAAA
1 TTATATTAATATAAA
*
4175815 TTATAAT-ATATAATA
1 TTATATTAATATAA-A
*
4175830 TAATATTAATATATAA
1 TTATATTAATATA-AA
*
4175846 AT-TATTAATAT
1 TTATATTAATAT
4175857 TTTACGTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 6 0.18
15 21 0.62
16 6 0.18
17 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTATATTAATATAAA
Found at i:4175839 original size:18 final size:15
Alignment explanation
Indices: 4175808--4175856 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 15
4175798 TTTTATATTA
4175808 ATATAAATTA-TAAT
1 ATATAAATTATTAAT
4175822 ATATAATATAATATTAAT
1 ATATAA-AT--TATTAAT
4175840 ATATAAATTATTAAT
1 ATATAAATTATTAAT
4175855 AT
1 AT
4175857 TTTACGTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.19
15 11 0.35
17 4 0.13
18 10 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATAAATTATTAAT
Found at i:4176636 original size:41 final size:40
Alignment explanation
Indices: 4176586--4176663 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 40
4176576 ATATGATATT
*
4176586 TATAAAATATTAT-TTTTTAATGTAAATT-ATATTTCAATTA
1 TATAAAATATAATATTTTT-AT-TAAATTAATATTTCAATTA
4176626 TATATAAATATAATATTTTTATTAAATTAATATTTCAA
1 TATA-AAATATAATATTTTTATTAAATTAATATTTCAA
4176664 ATTGAAATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
40 10 0.29
41 19 0.56
42 5 0.15
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (40 bp):
TATAAAATATAATATTTTTATTAAATTAATATTTCAATTA
Found at i:4180943 original size:26 final size:25
Alignment explanation
Indices: 4180914--4180994 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 25
4180904 AAAATTTTCA
4180914 AAAAAAATCAAAATTTTAATAAATAT
1 AAAAAAAT-AAAATTTTAATAAATAT
* * * *
4180940 -AAAAAA-AAAACTTTAGTAACTTT
1 AAAAAAATAAAATTTTAATAAATAT
*
4180963 CAAAAAATGAAAATTTTAATACAA-AT
1 AAAAAAAT-AAAATTTTAATA-AATAT
4180989 AAAAAA
1 AAAAAA
4180995 TTCTTAAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
23 13 0.31
24 6 0.14
25 6 0.14
26 16 0.38
27 1 0.02
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.27
Consensus pattern (25 bp):
AAAAAAATAAAATTTTAATAAATAT
Found at i:4180949 original size:23 final size:24
Alignment explanation
Indices: 4180923--4180994 Score: 67
Period size: 23 Copynumber: 3.0 Consensus size: 24
4180913 AAAAAAAATC
4180923 AAAATTTTAATAAATATAAAAAA-
1 AAAATTTTAATAAATATAAAAAAG
* * * *
4180946 AAAACTTTAGTAACTTTCAAAAAATG
1 AAAATTTTAATAAATAT-AAAAAA-G
4180972 AAAATTTTAATACAA-ATAAAAAA
1 AAAATTTTAATA-AATATAAAAAA
4180995 TTCTTAAAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
23 13 0.35
24 6 0.16
25 6 0.16
26 11 0.30
27 1 0.03
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.29
Consensus pattern (24 bp):
AAAATTTTAATAAATATAAAAAAG
Found at i:4181160 original size:2 final size:2
Alignment explanation
Indices: 4181153--4181177 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4181143 TTTAATTTTC
4181153 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4181178 TCAAAATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4181328 original size:19 final size:18
Alignment explanation
Indices: 4181278--4181328 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
4181268 ATTTATAATG
4181278 TTTTAG-AT-TTTTTATT
1 TTTTAGAATATTTTTATT
4181294 TTTTAGAATATTTTTATT
1 TTTTAGAATATTTTTATT
4181312 TTTTCAGAATATTTTTA
1 TTTT-AGAATATTTTTA
4181329 AAATTTTTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 12 0.38
19 12 0.38
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.67
Consensus pattern (18 bp):
TTTTAGAATATTTTTATT
Found at i:4181913 original size:24 final size:24
Alignment explanation
Indices: 4181876--4181922 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
4181866 ACAAAAAATA
*
4181876 TTAATTAAGTTATT-TTTTATATT
1 TTAATTAAGATATTATTTTATATT
4181899 TTAATTTAAGATATTAATTTTATA
1 TTAA-TTAAGATATT-ATTTTATA
4181923 ACATATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 9 0.45
26 7 0.35
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (24 bp):
TTAATTAAGATATTATTTTATATT
Found at i:4183348 original size:118 final size:117
Alignment explanation
Indices: 4183110--4183350 Score: 250
Period size: 118 Copynumber: 2.1 Consensus size: 117
4183100 ATTTATTAAA
* * *
4183110 TTTTTTATTTATATATATATATATATATTATATTAATTAAGTTATTATTTGATATCTTAATTTAA
1 TTTTTTATTTATATATATATATATATATTATATTAATAAAATTATTATTTGATATCTTAATATAA
* * * ** * * * *
4183175 ATTATTAACATTTTAAGCTCAATCAAAATGTCAATGTGGCACCTCAATGATC
66 AATATTAACATTTAAAGCTCAATCAAAATATCAACATGACACATCAATAAGC
* * * *
4183227 TTTTTTGTTTACTATATATAT-TTTTTATTTTTATTAATAAAATTATTATTTGATATCTTAATAT
1 TTTTTTATTTA-TATATATATATATATA-TTATATTAATAAAATTATTATTTGATATCTTAATAT
* * * * * **
4183291 AAAATATTAATATTTAAAGTTCAATTATAATATCAACATGATACATTTATAAGC
64 AAAATATTAACATTTAAAGCTCAATCAAAATATCAACATGACACATCAATAAGC
4183345 TTTTTT
1 TTTTTT
4183351 TTCCTTTTCT
Statistics
Matches: 99, Mismatches: 23, Indels: 3
0.79 0.18 0.02
Matches are distributed among these distances:
117 14 0.14
118 85 0.86
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.50
Consensus pattern (117 bp):
TTTTTTATTTATATATATATATATATATTATATTAATAAAATTATTATTTGATATCTTAATATAA
AATATTAACATTTAAAGCTCAATCAAAATATCAACATGACACATCAATAAGC
Found at i:4185144 original size:27 final size:28
Alignment explanation
Indices: 4185097--4185154 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
4185087 ATTTTTATTT
* *
4185097 TATATATTTAGATAATTTTTTTTATAAA
1 TATATATTTAGATAATATTTTTTAAAAA
4185125 TATATA-TTA-ATATATATTTTTTAAAAA
1 TATATATTTAGATA-ATATTTTTTAAAAA
4185152 TAT
1 TAT
4185155 TAATTTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 3 0.11
27 18 0.67
28 6 0.22
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (28 bp):
TATATATTTAGATAATATTTTTTAAAAA
Found at i:4185196 original size:20 final size:19
Alignment explanation
Indices: 4185172--4185216 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
4185162 AATTAATCTA
*
4185172 AAATAATAATTTATATTATT
1 AAATAAAAATTTAT-TTATT
*
4185192 TAATAAAAAATTTATTTATT
1 AAAT-AAAAATTTATTTATT
4185212 AAATA
1 AAATA
4185217 TATATAAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.05
20 11 0.52
21 9 0.43
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATAAAAATTTATTTATT
Found at i:4188145 original size:15 final size:15
Alignment explanation
Indices: 4188103--4188157 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
4188093 CCGCTGGGGC
**
4188103 CTTCTCGGCTTTCTT
1 CTTCTCGGCTGGCTT
*
4188118 C-TCTTCCGCTGGCTT
1 CTTC-TCGGCTGGCTT
*
4188133 TTTCTCGGCTGGCTT
1 CTTCTCGGCTGGCTT
4188148 CTTCTCGGCT
1 CTTCTCGGCT
4188158 TTAGGTGCCA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
14 2 0.06
15 28 0.88
16 2 0.06
ACGTcount: A:0.00, C:0.35, G:0.20, T:0.45
Consensus pattern (15 bp):
CTTCTCGGCTGGCTT
Found at i:4194940 original size:2 final size:2
Alignment explanation
Indices: 4194933--4194964 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4194923 TCTTGTACCA
4194933 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4194965 CAGAGCAAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4204179 original size:30 final size:30
Alignment explanation
Indices: 4204139--4204199 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
4204129 AAACGGATAA
*
4204139 TACCTAATAAGTTGGTATAAACTATAATAG
1 TACCTAATAAGTTGGTATAAACCATAATAG
*
4204169 TACCTTATAAGTTGGTATAAACCATAATAG
1 TACCTAATAAGTTGGTATAAACCATAATAG
4204199 T
1 T
4204200 TAGGTTGATC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.34
Consensus pattern (30 bp):
TACCTAATAAGTTGGTATAAACCATAATAG
Found at i:4209976 original size:115 final size:115
Alignment explanation
Indices: 4209774--4209994 Score: 361
Period size: 115 Copynumber: 1.9 Consensus size: 115
4209764 CTTGCACTAT
*
4209774 TTTTACTAAAATGACCATATCTCAAGATATCTAACTCAGAATTAAAATCTTTTTAATGCGTTAAA
1 TTTTACTAAAATGACCATATCTCAAGATATCCAACTCAGAATTAAAATCTTTTTAATGCGTTAAA
* * * *
4209839 AACTAGACTCGATAAGCTTTCTAACCATATATGGCCTATCTTATGATTCC
66 AACTACACTCGATAAACTTTCTAACAATATATGGCCCATCTTATGATTCC
* * * *
4209889 TTTTACTAAAATGACCATATTTCAAGATATCCAACTCGGAATTAAAATCTTTTTAATGCTTTAGA
1 TTTTACTAAAATGACCATATCTCAAGATATCCAACTCAGAATTAAAATCTTTTTAATGCGTTAAA
4209954 AACTACACTCGATAAACTTTCTAACAATATATGGCCCATCT
66 AACTACACTCGATAAACTTTCTAACAATATATGGCCCATCT
4209995 CGTGATTCAT
Statistics
Matches: 97, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
115 97 1.00
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.35
Consensus pattern (115 bp):
TTTTACTAAAATGACCATATCTCAAGATATCCAACTCAGAATTAAAATCTTTTTAATGCGTTAAA
AACTACACTCGATAAACTTTCTAACAATATATGGCCCATCTTATGATTCC
Found at i:4212483 original size:17 final size:17
Alignment explanation
Indices: 4212452--4212495 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
4212442 GATAAATAAA
*
4212452 ATTAACTTA-TTATCAT
1 ATTAATTTATTTATCAT
4212468 ATTAATTTATTTATCAT
1 ATTAATTTATTTATCAT
4212485 ATTAATTTATT
1 ATTAATTTATT
4212496 AATTAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 8 0.31
17 18 0.69
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTAATTTATTTATCAT
Found at i:4215339 original size:22 final size:22
Alignment explanation
Indices: 4215298--4215340 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4215288 AATTGAATAA
*
4215298 TAATTAAAAAAAAACCAAAAAG
1 TAATTAAAAAAAAACAAAAAAG
*
4215320 TAATTAAAAACAAA-AAAAAAG
1 TAATTAAAAAAAAACAAAAAAG
4215341 ATAAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.74, C:0.07, G:0.05, T:0.14
Consensus pattern (22 bp):
TAATTAAAAAAAAACAAAAAAG
Found at i:4226886 original size:17 final size:17
Alignment explanation
Indices: 4226857--4226904 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
4226847 GTCAAATGTC
4226857 TAAAACAAA-AAAAAAAA
1 TAAAA-AAAGAAAAAAAA
4226874 -AAAAAAGAGAAAAAAAA
1 TAAAAAA-AGAAAAAAAA
*
4226891 TAAAGAAAGAAAAA
1 TAAAAAAAGAAAAA
4226905 CATGCACTCG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 2 0.07
16 5 0.19
17 15 0.56
18 5 0.19
ACGTcount: A:0.85, C:0.02, G:0.08, T:0.04
Consensus pattern (17 bp):
TAAAAAAAGAAAAAAAA
Found at i:4226888 original size:19 final size:18
Alignment explanation
Indices: 4226858--4226904 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
4226848 TCAAATGTCT
*
4226858 AAAACAAAAAAAAAAAAA
1 AAAAGAAAAAAAAAAAAA
*
4226876 AAAAGAGAAAAAAAATAAA
1 AAAAGA-AAAAAAAAAAAA
*
4226895 GAAAGAAAAA
1 AAAAGAAAAA
4226905 CATGCACTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.87, C:0.02, G:0.09, T:0.02
Consensus pattern (18 bp):
AAAAGAAAAAAAAAAAAA
Found at i:4227119 original size:140 final size:148
Alignment explanation
Indices: 4226967--4227311 Score: 345
Period size: 151 Copynumber: 2.4 Consensus size: 148
4226957 GAATCCTAAG
* * *
4226967 AATT-AAGAAAATAGATTACTAAAGTTGAAGTTAGATGTTT-AAAAAA-AAA-GCAAATAAA-A-
1 AATTCAAGAAAATAGATTGCTAAAGTTGAAGTCAAATGTTTAAAAAAATAAAGGCAAA-AAATAT
* * * *
4227026 A-A-ATACATGTACCTCAAAAATGAA-AGT-TCGAGATAAAAAGTGAATAAAACATC-AGTAGAA
65 ATATATACATGCACCTCAAAAAT-AAGAGTATAG-GATAAAAAGTAAATAAAACATCAACTAGAA
*
4227086 TCTCAA-AAAAAAGAAGATAA
128 TCCCAAGAAAAAAGAAGATAA
* * *
4227106 AATTCAAGAAAATAGAATGCTTAGGTTGAAGTCAAATGTTTCCAAAAAAAATAAAGGCAAAAAAT
1 AATTCAAGAAAATAGATTGCTAAAGTTGAAGTCAAATGTTT---AAAAAAATAAAGGCAAAAAAT
* * * *
4227171 ATATATATACATGCACCTTAGAGATAAGAGTATAGGATAAAAAGTAAATAAAACTTCAACTAGAA
63 ATATATATACATGCACCTCAAAAATAAGAGTATAGGATAAAAAGTAAATAAAACATCAACTAGAA
* *
4227236 TCCCAAGTAAAAAGAAGATAG
128 TCCCAAGAAAAAAGAAGATAA
* * * *
4227257 AATTCAAGAAAGTAGATTGCTAAAGTTAAAGACAAATGTTTTCAAAAAAAAAAAG
1 AATTCAAGAAAATAGATTGCTAAAGTTGAAGTCAAATG-TTT-AAAAAAATAAAG
4227312 TAAAAAAAAA
Statistics
Matches: 165, Mismatches: 25, Indels: 21
0.78 0.12 0.10
Matches are distributed among these distances:
139 4 0.02
140 30 0.18
144 6 0.04
145 6 0.04
146 6 0.04
147 1 0.01
148 3 0.02
149 38 0.23
150 24 0.15
151 44 0.27
152 3 0.02
ACGTcount: A:0.54, C:0.09, G:0.14, T:0.22
Consensus pattern (148 bp):
AATTCAAGAAAATAGATTGCTAAAGTTGAAGTCAAATGTTTAAAAAAATAAAGGCAAAAAATATA
TATATACATGCACCTCAAAAATAAGAGTATAGGATAAAAAGTAAATAAAACATCAACTAGAATCC
CAAGAAAAAAGAAGATAA
Found at i:4228537 original size:12 final size:12
Alignment explanation
Indices: 4228504--4228555 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
4228494 ATAAAGAGAA
* *
4228504 AAAATCAACATA
1 AAAATCAAAATG
4228516 AAAATCAAAATTG
1 AAAATCAAAA-TG
*
4228529 AAAAT-AAAAAG
1 AAAATCAAAATG
*
4228540 AAAATGAAAATG
1 AAAATCAAAATG
4228552 AAAA
1 AAAA
4228556 AACTTTCGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
11 6 0.18
12 22 0.65
13 6 0.18
ACGTcount: A:0.71, C:0.06, G:0.08, T:0.15
Consensus pattern (12 bp):
AAAATCAAAATG
Found at i:4228549 original size:17 final size:19
Alignment explanation
Indices: 4228522--4228556 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4228512 CATAAAAATC
4228522 AAAATTGAAAAT-AAAAAG
1 AAAATTGAAAATGAAAAAG
4228540 AAAA-TGAAAATGAAAAA
1 AAAATTGAAAATGAAAAA
4228557 ACTTTCGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.14
Consensus pattern (19 bp):
AAAATTGAAAATGAAAAAG
Found at i:4229398 original size:19 final size:18
Alignment explanation
Indices: 4229376--4229418 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
4229366 TTTGACTTCT
4229376 TTTTTTTCTCAAC-TTTGAC
1 TTTTTTT-T-AACTTTTGAC
4229395 TTTTTTTTAACTTTTTGAC
1 TTTTTTTTAAC-TTTTGAC
4229414 TTTTT
1 TTTTT
4229419 AAATAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.14
18 1 0.05
19 18 0.82
ACGTcount: A:0.14, C:0.14, G:0.05, T:0.67
Consensus pattern (18 bp):
TTTTTTTTAACTTTTGAC
Found at i:4235207 original size:33 final size:35
Alignment explanation
Indices: 4235148--4235213 Score: 109
Period size: 33 Copynumber: 1.9 Consensus size: 35
4235138 GATAGAGCTA
*
4235148 ATTTTTTGGTCTAAAATTTTTTTAATTTGTTTAGT
1 ATTTTTTGGCCTAAAATTTTTTTAATTTGTTTAGT
4235183 ATTTTTTGGCCT-AAA-TTTTTTAATTTGTTTA
1 ATTTTTTGGCCTAAAATTTTTTTAATTTGTTTA
4235214 TACCATATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 16 0.53
34 3 0.10
35 11 0.37
ACGTcount: A:0.23, C:0.05, G:0.11, T:0.62
Consensus pattern (35 bp):
ATTTTTTGGCCTAAAATTTTTTTAATTTGTTTAGT
Found at i:4244899 original size:16 final size:16
Alignment explanation
Indices: 4244874--4244909 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
4244864 TTTTCGAAGC
4244874 TTTG-CTTCAATTTTT
1 TTTGTCTTCAATTTTT
4244889 TTTGTCTTCAATTTTT
1 TTTGTCTTCAATTTTT
4244905 TTTGT
1 TTTGT
4244910 GCTTGCCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.11, C:0.11, G:0.08, T:0.69
Consensus pattern (16 bp):
TTTGTCTTCAATTTTT
Found at i:4251873 original size:14 final size:13
Alignment explanation
Indices: 4251842--4251876 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
4251832 GAGTCTGTAC
4251842 TTTTTTTTCTTTT
1 TTTTTTTTCTTTT
*
4251855 CTTTTCTTTCTTTT
1 -TTTTTTTTCTTTT
4251869 TTTTTTTT
1 TTTTTTTT
4251877 TTTGGTTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (13 bp):
TTTTTTTTCTTTT
Found at i:4264944 original size:20 final size:21
Alignment explanation
Indices: 4264901--4264959 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 21
4264891 AAGTGCATTA
* *
4264901 ATATTTTATGAAAT-GAAATC
1 ATATTTAATGAAATATAAATC
4264921 ATATTTAATGAAATATAAAT-
1 ATATTTAATGAAATATAAATC
* *
4264941 ATA-TCAATCAAATATAAAT
1 ATATTTAATGAAATATAAAT
4264960 TAATAAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 14 0.41
20 16 0.47
21 4 0.12
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (21 bp):
ATATTTAATGAAATATAAATC
Found at i:4266770 original size:17 final size:17
Alignment explanation
Indices: 4266750--4266784 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4266740 ATTCTCCCTA
4266750 TATTTTTATA-TTATATT
1 TATTTTT-TACTTATATT
4266767 TATTTTTTACTTATATT
1 TATTTTTTACTTATATT
4266784 T
1 T
4266785 TATAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTTTTACTTATATT
Found at i:4271736 original size:3 final size:3
Alignment explanation
Indices: 4271728--4271753 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4271718 TTTAAAACCA
4271728 CTC CTC CTC CTC CTC CTC CTC CTC CT
1 CTC CTC CTC CTC CTC CTC CTC CTC CT
4271754 ACAGACGCAG
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:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (3 bp):
CTC
Found at i:4272747 original size:21 final size:22
Alignment explanation
Indices: 4272723--4272766 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
4272713 CAACAAAAAG
*
4272723 AAAAAACAAAAATT-TGATTTT
1 AAAAAACAAAAATTGTAATTTT
* *
4272744 AAAAATCTAAAATTGTAATTTT
1 AAAAAACAAAAATTGTAATTTT
4272766 A
1 A
4272767 GTTAAGGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (22 bp):
AAAAAACAAAAATTGTAATTTT
Found at i:4273650 original size:30 final size:30
Alignment explanation
Indices: 4273593--4273650 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
4273583 TTATATTATT
* *
4273593 AATAAATTAAATGTTATCATTTTTTAATAA
1 AATAAATTAAATGATATCATTTATTAATAA
*
4273623 AATAAATTAAAT-ATGTCATTTAATTAAT
1 AATAAATTAAATGATATCATTT-ATTAAT
4273651 GAGTAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (30 bp):
AATAAATTAAATGATATCATTTATTAATAA
Found at i:4273865 original size:13 final size:13
Alignment explanation
Indices: 4273826--4273884 Score: 52
Period size: 13 Copynumber: 4.8 Consensus size: 13
4273816 GTTAAATTTG
4273826 ATAAT-TAAAAAT
1 ATAATATAAAAAT
* **
4273838 ATAATATGATGAT
1 ATAATATAAAAAT
4273851 ATAATATAAAAAT
1 ATAATATAAAAAT
*
4273864 AT--TATTAAAAT
1 ATAATATAAAAAT
*
4273875 AAAATATAAA
1 ATAATATAAA
4273885 GGTGATATAT
Statistics
Matches: 35, Mismatches: 9, Indels: 5
0.71 0.18 0.10
Matches are distributed among these distances:
11 9 0.26
12 5 0.14
13 21 0.60
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (13 bp):
ATAATATAAAAAT
Found at i:4275666 original size:17 final size:17
Alignment explanation
Indices: 4275589--4275666 Score: 57
Period size: 17 Copynumber: 4.4 Consensus size: 17
4275579 GTTTTATATT
**
4275589 AATTTTTACGAAATTAA
1 AATTTTTATAAAATTAA
* **
4275606 AATTTTTTTAATTTTAA
1 AATTTTTATAAAATTAA
4275623 TATATTTATTATTAAAATTAA
1 -A-ATTT-TTA-TAAAATTAA
**
4275644 TTTTTTTATAAAATTAA
1 AATTTTTATAAAATTAA
4275661 AATTTT
1 AATTTT
4275667 CTAATTTTTA
Statistics
Matches: 45, Mismatches: 12, Indels: 8
0.69 0.18 0.12
Matches are distributed among these distances:
17 25 0.56
18 4 0.09
19 7 0.16
20 2 0.04
21 7 0.16
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (17 bp):
AATTTTTATAAAATTAA
Found at i:4276582 original size:15 final size:14
Alignment explanation
Indices: 4276560--4276589 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
4276550 CTTAATTGCA
4276560 ATTTTTAAAATTTT
1 ATTTTTAAAATTTT
4276574 ATTTGTTAAAATTTT
1 ATTT-TTAAAATTTT
4276589 A
1 A
4276590 ATTTAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (14 bp):
ATTTTTAAAATTTT
Found at i:4278257 original size:73 final size:73
Alignment explanation
Indices: 4278102--4278258 Score: 208
Period size: 73 Copynumber: 2.1 Consensus size: 73
4278092 AAACACAATT
* *
4278102 TTTATTAAAAATATGAAAAAATTTATTTTTCATAATTTAACAAAAATGATATTTTTAAAATAAAA
1 TTTATT-AAAATATGAAAAAAATTATTTTTCATAATTTAACAAAAATGACATTTTTAAAATAAAA
* *
4278167 AAAGTGACC
65 AAAATAACC
* ** *
4278176 TTTGTTAAAATATGAAAAAAATTATTTTTCATAATTTAA-AAATGTGACATTTTTAAGATAAAAA
1 TTTATTAAAATATGAAAAAAATTATTTTTCATAATTTAACAAAAATGACATTTTTAAAATAAAAA
*
4278240 AATATAATC
66 AA-ATAACC
4278249 TTTATTAAAA
1 TTTATTAAAA
4278259 AGATGATATT
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
72 23 0.32
73 44 0.61
74 5 0.07
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.39
Consensus pattern (73 bp):
TTTATTAAAATATGAAAAAAATTATTTTTCATAATTTAACAAAAATGACATTTTTAAAATAAAAA
AAATAACC
Found at i:4278320 original size:153 final size:151
Alignment explanation
Indices: 4278155--4278431 Score: 351
Period size: 153 Copynumber: 1.8 Consensus size: 151
4278145 AAATGATATT
* * * *
4278155 TTTAAAATAAAAAAAGTGACCTTTGTT-AAAATATGAAAAAAATTATTTTTCATAATTTAA-AAA
1 TTTAAAATAAAAAAAGTAACCTTTGTTAAAAATAT-AAAAAAAATATTTTTCAGAATTCAATAAA
** * * * *
4278218 TGTGACATTTTTAAGATAAAAAAATATAATCTTTATTAAAAAGATGATATTTTTAAGATAAAATT
65 AATAACATGTTTAAGAT--AAAAATATAATCTTTATTAAAAAAAT-ATATTTTTAAGAGAAAATT
4278283 GTAGTTTTTATTAATAATATAATAA
127 GTAGTTTTTATTAATAATATAATAA
* * ** *
4278308 TTTAAGATAAAAAATGTAATTTTTGTTAAAAATATAAAAAAAATATTTTTTAGAATTCAATAAAA
1 TTTAAAATAAAAAAAGTAACCTTTGTTAAAAATATAAAAAAAATATTTTTCAGAATTCAATAAAA
* *
4278373 ATAACATGTTTAAGATAAAAATATAATTTTTATTAAAAAAATATTTTTTTAAGAGAAAA
66 ATAACATGTTTAAGATAAAAATATAATCTTTATTAAAAAAATATATTTTTAAGAGAAAA
4278432 AAATTATTTT
Statistics
Matches: 105, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
151 15 0.14
152 24 0.23
153 43 0.41
154 23 0.22
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (151 bp):
TTTAAAATAAAAAAAGTAACCTTTGTTAAAAATATAAAAAAAATATTTTTCAGAATTCAATAAAA
ATAACATGTTTAAGATAAAAATATAATCTTTATTAAAAAAATATATTTTTAAGAGAAAATTGTAG
TTTTTATTAATAATATAATAA
Found at i:4278331 original size:40 final size:41
Alignment explanation
Indices: 4278227--4278344 Score: 132
Period size: 40 Copynumber: 2.9 Consensus size: 41
4278217 ATGTGACATT
* * * * *
4278227 TTTAAGATAAAAAAATATAATCTTTATTAAAAAGATGATATT
1 TTTAAGAT-AAAAAATGTAATTTTTATTAAAAATATAATATA
* * *
4278269 TTTAAGAT-AAAATTGTAGTTTTTATTAATAATATAATA-A
1 TTTAAGATAAAAAATGTAATTTTTATTAAAAATATAATATA
*
4278308 TTTAAGATAAAAAATGTAATTTTTGTTAAAAATATAA
1 TTTAAGATAAAAAATGTAATTTTTATTAAAAATATAA
4278345 AAAAAATATT
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
39 8 0.13
40 47 0.75
42 8 0.13
ACGTcount: A:0.50, C:0.01, G:0.08, T:0.42
Consensus pattern (41 bp):
TTTAAGATAAAAAATGTAATTTTTATTAAAAATATAATATA
Found at i:4278404 original size:20 final size:20
Alignment explanation
Indices: 4278367--4278442 Score: 57
Period size: 20 Copynumber: 3.9 Consensus size: 20
4278357 TTAGAATTCA
*
4278367 ATAAAAATA-ACATGTTTAAG
1 ATAAAAATATA-ATTTTTAAG
**
4278387 ATAAAAATATAATTTTTATT
1 ATAAAAATATAATTTTTAAG
* *
4278407 AAAAAAATAT-TTTTTTAAG
1 ATAAAAATATAATTTTTAAG
* * *
4278426 AGAAAAAAATTATTTTT
1 ATAAAAATATAATTTTT
4278443 GTTGAAAATG
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
19 14 0.32
20 29 0.66
21 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.41
Consensus pattern (20 bp):
ATAAAAATATAATTTTTAAG
Found at i:4278698 original size:23 final size:23
Alignment explanation
Indices: 4278672--4278728 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
4278662 TAGGGCAATA
4278672 ATTAAAATTAT-AAAATTATATTT
1 ATTAAAATTATAAAAATT-TATTT
*
4278695 ATTAAAAATATAAAAATTTATTT
1 ATTAAAATTATAAAAATTTATTT
* *
4278718 TTTATAATTAT
1 ATTAAAATTAT
4278729 TTAATTGTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 23 0.79
24 6 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTAAAATTATAAAAATTTATTT
Found at i:4280518 original size:21 final size:20
Alignment explanation
Indices: 4280481--4280522 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
4280471 ATAAAAAAAA
4280481 TTTAAAATATTAAATAATATT
1 TTTAAAATATTAAATAA-ATT
*
4280502 TTTAAAA-ATTATGATAAATT
1 TTTAAAATATTA-AATAAATT
4280522 T
1 T
4280523 AAATACTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
TTTAAAATATTAAATAAATT
Found at i:4280584 original size:233 final size:228
Alignment explanation
Indices: 4280166--4280840 Score: 951
Period size: 233 Copynumber: 2.9 Consensus size: 228
4280156 TTGTTATGGT
* * * * * *
4280166 ATTTATATATATATTTTTTCACATTTTTCTTATGAAATATATTTAAAAGCTAAAAATAATGCAAA
1 ATTTATATATATA-TTTTTCATA-TTTT-TTGTGAAATATATTTAAAAGTTAAAGATAATGTAAT
***
4280231 GATTATTTATAAAAAAATTAAATATATTAAATAATATTTTTAAAAATTGCAATAAATTTAAATAC
63 GATTATTTATAAAAAAATTAAATATATTAAATAATATTTTTAAAAATTATGATAAATTTAAATAC
* * *
4280296 TCATATTAACTATAGATAAATTAGAAAAGATAAATTACTTTAAAATTGGTTTTAAATTGAGATGA
128 TCATGTTAACT-TAGATAAATTAGAAAAGATAAATTACTTTAAAATTGATTTTAAATTAAGATGA
4280361 GGTGATGTATAGAATAAACTTTCCTGAAATTATTTTGGC
192 GGTGATGTATAGAA-AAACTTTCCT-AAATTATTTTGGC
* *
4280400 ATTTATATATATATATTTCATATTCTTTTGTGAAACATATTTAAAAGTTAAAGATAATGTAATGA
1 ATTTATATATATATTTTTCATATT-TTTTGTGAAATATATTTAAAAGTTAAAGATAATGTAATGA
4280465 TTATTTATAAAAAAAATTTAAA-ATATTAAATAATATTTTTAAAAATTATGATAAATTTAAATAC
65 TTATTTAT-AAAAAAA-TTAAATATATTAAATAATATTTTTAAAAATTATGATAAATTTAAATAC
4280529 TCATGTTAACTGTAGATAAATTAGAAAAGATAAATTACTTTAAAATTGATTTTAAATTAAGATGA
128 TCATGTTAACT-TAGATAAATTAGAAAAGATAAATTACTTTAAAATTGATTTTAAATTAAGATGA
* * * *
4280594 GGTGATGCATAGGAAAAATTTTTCTAAATTATTTTGGT
192 GGTGATGTATA-GAAAAACTTTCCTAAATTATTTTGGC
* *
4280632 ATTTATATAT-T-TTTTTCATATTTGATTTGTAAAATATATTTAAAAGTTAAAGATAATATAATG
1 ATTTATATATATATTTTTCATATTT--TTTGTGAAATATATTTAAAAGTTAAAGATAATGTAATG
* * *
4280695 ATTATTTATAAAAAAATTAAATATATTAAATAATATTTTTGAAAGTTATGATTAATTTAAATACT
64 ATTATTTATAAAAAAATTAAATATATTAAATAATATTTTTAAAAATTATGATAAATTTAAATACT
* * * *
4280760 CATGTTAACTTCAGATAAATTAAAAAAGATAAATTACTTCAAAATTAATTTTAAATTAAGATGAA
129 CATGTTAACTT-AGATAAATTAGAAAAGATAAATTACTTTAAAATTGATTTTAAATTAAGATGAG
*
4280825 GTGATGTACAGAAAAA
193 GTGATGTATAGAAAAA
4280841 AAATTTCATT
Statistics
Matches: 401, Mismatches: 32, Indels: 21
0.88 0.07 0.05
Matches are distributed among these distances:
229 13 0.03
230 124 0.31
231 45 0.11
232 64 0.16
233 134 0.33
234 21 0.05
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.41
Consensus pattern (228 bp):
ATTTATATATATATTTTTCATATTTTTTGTGAAATATATTTAAAAGTTAAAGATAATGTAATGAT
TATTTATAAAAAAATTAAATATATTAAATAATATTTTTAAAAATTATGATAAATTTAAATACTCA
TGTTAACTTAGATAAATTAGAAAAGATAAATTACTTTAAAATTGATTTTAAATTAAGATGAGGTG
ATGTATAGAAAAACTTTCCTAAATTATTTTGGC
Found at i:4280896 original size:30 final size:28
Alignment explanation
Indices: 4280849--4280912 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 28
4280839 AAAAATTTCA
*
4280849 TTAAAA-TTTAAATTAATTTTTGATTAAATT
1 TTAAAATTTTAAATTAA--TTT-AATAAATT
*
4280879 TTAAAATTTTAGA-TAATTTAATAAATT
1 TTAAAATTTTAAATTAATTTAATAAATT
4280906 TTAAAAT
1 TTAAAAT
4280913 AAATTTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 14 0.45
28 3 0.10
30 9 0.29
31 5 0.16
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (28 bp):
TTAAAATTTTAAATTAATTTAATAAATT
Found at i:4281051 original size:2 final size:2
Alignment explanation
Indices: 4281044--4281068 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4281034 ATTCTATAAT
4281044 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4281069 GATAGGAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4281722 original size:13 final size:13
Alignment explanation
Indices: 4281704--4281767 Score: 58
Period size: 13 Copynumber: 4.5 Consensus size: 13
4281694 AATTATGTAA
4281704 AATTAAATAAAAT
1 AATTAAATAAAAT
4281717 AATTAAATAAAA-
1 AATTAAATAAAAT
4281729 AATTTAATATGAAAAT
1 AA-TTAA-AT-AAAAT
*
4281745 CAATAATATATAAAAT
1 -AAT--TAAATAAAAT
4281761 AATTAAA
1 AATTAAA
4281768 AATATTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
12 2 0.05
13 19 0.45
14 2 0.05
15 7 0.17
16 6 0.14
17 4 0.10
18 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (13 bp):
AATTAAATAAAAT
Found at i:4281840 original size:12 final size:11
Alignment explanation
Indices: 4281811--4281871 Score: 61
Period size: 12 Copynumber: 5.4 Consensus size: 11
4281801 TATTTAATAG
4281811 TAAAAATTTAT
1 TAAAAATTTAT
*
4281822 T-AATATTTAT
1 TAAAAATTTAT
4281832 TAAAATATTTATT
1 TAAAA-ATTTA-T
*
4281845 TAAAAATATAT
1 TAAAAATTTAT
*
4281856 ATCAAAATTTAT
1 -TAAAAATTTAT
4281868 TAAA
1 TAAA
4281872 TTTTTTTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
10 9 0.22
11 7 0.17
12 18 0.45
13 6 0.15
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (11 bp):
TAAAAATTTAT
Found at i:4281947 original size:13 final size:13
Alignment explanation
Indices: 4281912--4281957 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
4281902 TAATGATACC
4281912 TTTTAATTTATTAA
1 TTTTAATTT-TTAA
* *
4281926 TTTTGATTTTTTA
1 TTTTAATTTTTAA
4281939 TTTTAA-TTTTAA
1 TTTTAATTTTTAA
4281951 -TTTAATT
1 TTTTAATT
4281958 ATTTTTAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
11 5 0.19
12 6 0.22
13 8 0.30
14 8 0.30
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (13 bp):
TTTTAATTTTTAA
Found at i:4294073 original size:24 final size:24
Alignment explanation
Indices: 4294024--4294089 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
4294014 TTACAAACAT
4294024 AACTGTCTATTTTGAATAGACAAA
1 AACTGTCTATTTTGAATAGACAAA
* **
4294048 AATTGTCTATTTTTGAATAG-TTAA
1 AACTGTCTA-TTTTGAATAGACAAA
4294072 AACTGT-TCATTTTGAATA
1 AACTGTCT-ATTTTGAATA
4294090 AACTTATCTC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 10 0.28
24 16 0.44
25 10 0.28
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (24 bp):
AACTGTCTATTTTGAATAGACAAA
Found at i:4294799 original size:23 final size:22
Alignment explanation
Indices: 4294773--4294820 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 22
4294763 TTTAAATTAC
4294773 TTTTTTGGACATTTTTTTTGGA-A
1 TTTTTTGGA-A-TTTTTTTGGAGA
4294796 TTTTTTGGAATTTTTTTGGAGA
1 TTTTTTGGAATTTTTTTGGAGA
4294818 TTT
1 TTT
4294821 CCATAGTCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 10 0.42
22 5 0.21
23 9 0.38
ACGTcount: A:0.17, C:0.02, G:0.19, T:0.62
Consensus pattern (22 bp):
TTTTTTGGAATTTTTTTGGAGA
Found at i:4294812 original size:11 final size:12
Alignment explanation
Indices: 4294773--4294820 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 12
4294763 TTTAAATTAC
4294773 TTTTTTGGACATT
1 TTTTTTGGACA-T
4294786 TTTTTTGGA-A-
1 TTTTTTGGACAT
4294796 TTTTTTGGA-AT
1 TTTTTTGGACAT
*
4294807 TTTTTTGGAGAT
1 TTTTTTGGACAT
4294819 TT
1 TT
4294821 CCATAGTCAG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.30
11 9 0.27
12 5 0.15
13 9 0.27
ACGTcount: A:0.17, C:0.02, G:0.19, T:0.62
Consensus pattern (12 bp):
TTTTTTGGACAT
Found at i:4295242 original size:16 final size:15
Alignment explanation
Indices: 4295221--4295265 Score: 58
Period size: 13 Copynumber: 3.1 Consensus size: 15
4295211 TTTTTTTTTC
4295221 ATTATTTATTTAGTTT
1 ATTATTTATTTA-TTT
4295237 ATTATTTA-TTA-TT
1 ATTATTTATTTATTT
*
4295250 ATTATTTTTTTATTT
1 ATTATTTATTTATTT
4295265 A
1 A
4295266 CTGATTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 9 0.35
14 3 0.12
15 6 0.23
16 8 0.31
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
ATTATTTATTTATTT
Found at i:4295344 original size:11 final size:11
Alignment explanation
Indices: 4295330--4295369 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
4295320 TTTTTTTAAT
*
4295330 AAAACTTCAAA
1 AAAATTTCAAA
4295341 AAAATTTC-AA
1 AAAATTTCAAA
4295351 AAAATTTCAAA
1 AAAATTTCAAA
4295362 AAATATTT
1 AAA-ATTT
4295370 TTGAGGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 10 0.38
11 12 0.46
12 4 0.15
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (11 bp):
AAAATTTCAAA
Found at i:4295352 original size:9 final size:10
Alignment explanation
Indices: 4295339--4295365 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
4295329 TAAAACTTCA
4295339 AAAAAATTTC
1 AAAAAATTTC
4295349 AAAAAATTTC
1 AAAAAATTTC
4295359 AAAAAAT
1 AAAAAAT
4295366 ATTTTTGAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAAAATTTC
Found at i:4295414 original size:32 final size:31
Alignment explanation
Indices: 4295376--4295474 Score: 84
Period size: 32 Copynumber: 3.2 Consensus size: 31
4295366 ATTTTTGAGG
4295376 AAAAATTAAAAGTATCAATTTTCCTTGAAAAT
1 AAAAATTAAAAGTATCAATTTT-CTTGAAAAT
* *
4295408 AAAAATTTCAAAA--AT-GATATTT-TTG-AGA-
1 AAAAA-TT-AAAAGTATCAAT-TTTCTTGAAAAT
*
4295436 AAAAATTGAAAGTATCAATTTTCTTTGAAAAT
1 AAAAATTAAAAGTATCAATTTTC-TTGAAAAT
4295468 AAAAATT
1 AAAAATT
4295475 TCAAAAATTT
Statistics
Matches: 52, Mismatches: 5, Indels: 20
0.68 0.06 0.26
Matches are distributed among these distances:
26 3 0.06
27 2 0.04
28 10 0.19
29 4 0.08
30 6 0.12
31 4 0.08
32 17 0.33
33 2 0.04
34 4 0.08
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (31 bp):
AAAAATTAAAAGTATCAATTTTCTTGAAAAT
Found at i:4295440 original size:60 final size:57
Alignment explanation
Indices: 4295350--4295676 Score: 343
Period size: 60 Copynumber: 5.8 Consensus size: 57
4295340 AAAAATTTCA
*
4295350 AAAAATTTCAAAAAATATTTTTGAGGAAAAATTAAAAGTATCAATTTTCCTTGAAAAT
1 AAAAATTTCAAAAAATA-TTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAAT
* * * *
4295408 AAAAATTTCAAAAATGATATTTTTGAGAAAAAATTGAAAGTATCAATTTTCTTTGAAAAT
1 AAAAATTTCAAAAA--ATA-TTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAAT
*
4295468 AAAAATTTC--AAAA-ATTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTAAAAAT
1 AAAAATTTCAAAAAATATTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAAT
* *
4295522 -AAAA-TTCAAAAAA-A-TTTGAGGAAATGTTAAAAGTATCAATTTTTCTTGAAAAT
1 AAAAATTTCAAAAAATATTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAAT
** * * *
4295575 -AAAATTAAAAAAAAATATTTTAAGGAAAAGTTGAAAGTATCAAATTTT-TTTGAAAAT
1 AAAAATT-TCAAAAAATATTTTGAGGAAAAGTTAAAAGTATC-AATTTTCCTTGAAAAT
* * ** * * *
4295632 AGAAATATC--AAAATGCTTTAAGAAAAAGTTGAAAGTATCAATTTT
1 AAAAATTTCAAAAAATATTTTGAGGAAAAGTTAAAAGTATCAATTTT
4295677 TCTTATATAA
Statistics
Matches: 235, Mismatches: 24, Indels: 24
0.83 0.08 0.08
Matches are distributed among these distances:
52 3 0.01
53 44 0.19
54 47 0.20
55 34 0.14
56 2 0.01
57 28 0.12
58 27 0.11
60 50 0.21
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (57 bp):
AAAAATTTCAAAAAATATTTTGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAAT
Found at i:4295483 original size:28 final size:28
Alignment explanation
Indices: 4295392--4295485 Score: 68
Period size: 28 Copynumber: 3.2 Consensus size: 28
4295382 TAAAAGTATC
*
4295392 AATTTTCCTTGAAAATAAAAATTTCAAA
1 AATTTTCTTTGAAAATAAAAATTTCAAA
* **
4295420 AATGATATT-TTTG-AGA-AAAAATTGAAAGTA
1 AAT--T-TTCTTTGAAAATAAAAATTTCAA--A
4295450 TCAATTTTCTTTGAAAATAAAAATTTCAAA
1 --AATTTTCTTTGAAAATAAAAATTTCAAA
4295480 AATTTT
1 AATTTT
4295486 GAGGAAAAGT
Statistics
Matches: 49, Mismatches: 7, Indels: 20
0.64 0.09 0.26
Matches are distributed among these distances:
28 18 0.37
29 4 0.08
30 11 0.22
31 4 0.08
32 12 0.24
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.38
Consensus pattern (28 bp):
AATTTTCTTTGAAAATAAAAATTTCAAA
Found at i:4295622 original size:27 final size:27
Alignment explanation
Indices: 4295591--4295677 Score: 79
Period size: 27 Copynumber: 3.2 Consensus size: 27
4295581 AAAAAAAAAT
4295591 ATTTTAAGGAAAAGTTGAAAGTATCAA
1 ATTTTAAGGAAAAGTTGAAAGTATCAA
*** *
4295618 ATTTTTTTGAAAA-TAGAAA-TATCAAA
1 ATTTTAAGGAAAAGTTGAAAGTATC-AA
*
4295644 ATGCTTTAAGAAAAAGTTGAAAGTATCAA
1 AT--TTTAAGGAAAAGTTGAAAGTATCAA
*
4295673 TTTTT
1 ATTTT
4295678 CTTATATAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 10
0.69 0.15 0.15
Matches are distributed among these distances:
25 4 0.09
26 9 0.20
27 13 0.29
28 7 0.16
29 8 0.18
30 4 0.09
ACGTcount: A:0.46, C:0.05, G:0.14, T:0.36
Consensus pattern (27 bp):
ATTTTAAGGAAAAGTTGAAAGTATCAA
Found at i:4299601 original size:13 final size:14
Alignment explanation
Indices: 4299582--4299614 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
4299572 AGAAAAATAA
*
4299582 AGAAAAAGGAAAAG
1 AGAAAAAGAAAAAG
4299596 -GAAAAAGAAAAAG
1 AGAAAAAGAAAAAG
4299609 AGAAAA
1 AGAAAA
4299615 TGAAGGATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AGAAAAAGAAAAAG
Found at i:4304250 original size:27 final size:28
Alignment explanation
Indices: 4304196--4304276 Score: 128
Period size: 27 Copynumber: 2.9 Consensus size: 28
4304186 ACAAAATCAT
* *
4304196 CACTTGTAAGATTTCAACCAATCTTTTG
1 CACTTGTAAGATTTCAAACAATCATTTG
*
4304224 CCCTTGTAAGA-TTCAAACAATCATTTG
1 CACTTGTAAGATTTCAAACAATCATTTG
4304251 CACTTGTAAGATTTCAAACAATCATT
1 CACTTGTAAGATTTCAAACAATCATT
4304277 CTTAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 24 0.50
28 24 0.50
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (28 bp):
CACTTGTAAGATTTCAAACAATCATTTG
Found at i:4308226 original size:17 final size:17
Alignment explanation
Indices: 4308206--4308362 Score: 88
Period size: 17 Copynumber: 9.2 Consensus size: 17
4308196 AATATGAAAA
*
4308206 TCTTACAAATCTTCAAT
1 TCTTACGAATCTTCAAT
*
4308223 TCTTACGAATC-TGAAT
1 TCTTACGAATCTTCAAT
** *
4308239 ATCTTGTGAATTTTCAAT
1 -TCTTACGAATCTTCAAT
** *
4308257 TCTTACGAATAC-AAAAA
1 TCTTACGAAT-CTTCAAT
*
4308274 TCTTACAAATCTTCAAT
1 TCTTACGAATCTTCAAT
*
4308291 TCTTACGAATC-TGAAT
1 TCTTACGAATCTTCAAT
*
4308307 GTCTTGCGAA-CTTCAAAT
1 -TCTTACGAATCTTC-AAT
** **
4308325 TCTTGTGAATCTGAAAT
1 TCTTACGAATCTTCAAT
* * *
4308342 TTTTATGAATATTCAAT
1 TCTTACGAATCTTCAAT
4308359 TCTT
1 TCTT
4308363 GCAAATATGA
Statistics
Matches: 103, Mismatches: 29, Indels: 16
0.70 0.20 0.11
Matches are distributed among these distances:
16 10 0.10
17 84 0.82
18 9 0.09
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (17 bp):
TCTTACGAATCTTCAAT
Found at i:4308243 original size:34 final size:34
Alignment explanation
Indices: 4308162--4308340 Score: 148
Period size: 34 Copynumber: 5.3 Consensus size: 34
4308152 ATGGATTTTC
* * * * *
4308162 AATCTAAAAATCTCACGAATCTTC-ATGTCTTGCA
1 AATCTGAAAATCTTACAAATCTTCAAT-TCTTACG
*
4308196 AATATGAAAATCTTACAAATCTTCAATTCTTACG
1 AATCTGAAAATCTTACAAATCTTCAATTCTTACG
* *** *
4308230 AATCTGAATATCTTGTGAATTTTCAATTCTTACG
1 AATCTGAAAATCTTACAAATCTTCAATTCTTACG
*
4308264 AATAC-AAAAATCTTACAAATCTTCAATTCTTACG
1 AAT-CTGAAAATCTTACAAATCTTCAATTCTTACG
** * * **
4308298 AATCTGAATGTCTTGCGAA-CTTCAAATTCTTGTG
1 AATCTGAAAATCTTACAAATCTTC-AATTCTTACG
4308332 AATCTGAAA
1 AATCTGAAA
4308341 TTTTTATGAA
Statistics
Matches: 115, Mismatches: 26, Indels: 8
0.77 0.17 0.05
Matches are distributed among these distances:
33 5 0.04
34 107 0.93
35 3 0.03
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (34 bp):
AATCTGAAAATCTTACAAATCTTCAATTCTTACG
Found at i:4308326 original size:68 final size:68
Alignment explanation
Indices: 4308202--4308328 Score: 211
Period size: 68 Copynumber: 1.9 Consensus size: 68
4308192 TGCAAATATG
* *
4308202 AAAATCTTACAAATCTTCAATTCTTACGAATCTGAATATCTTGTGAATTTTCAATTCTTACGAAT
1 AAAATCTTACAAATCTTCAATTCTTACGAATCTGAATATCTTGCGAATCTTCAATTCTTACGAAT
4308267 ACA
66 ACA
*
4308270 AAAATCTTACAAATCTTCAATTCTTACGAATCTGAATGTCTTGCGAA-CTTCAAATTCTT
1 AAAATCTTACAAATCTTCAATTCTTACGAATCTGAATATCTTGCGAATCTTC-AATTCTT
4308329 GTGAATCTGA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
67 3 0.05
68 52 0.95
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (68 bp):
AAAATCTTACAAATCTTCAATTCTTACGAATCTGAATATCTTGCGAATCTTCAATTCTTACGAAT
ACA
Found at i:4308717 original size:86 final size:85
Alignment explanation
Indices: 4308620--4308912 Score: 309
Period size: 86 Copynumber: 3.4 Consensus size: 85
4308610 CCTATGCCAG
* * * * * ** *
4308620 ATCTTTTTTTGGCTCAGTCAAAGTTATTCATTAT-ATACTTCAGTTTAATCCAGGTCATTTTATT
1 ATCTTTCTTTGGCTCAATCCAAGTTATTCATT-TCAGACTTC-GTTCAATCCAGGTTGTTTTGTT
* *
4308684 TTTGGATTTTGACTAATGTCAA
64 TTCGGATTTTGACTTATGTCAA
* * * * * *
4308706 ATCCTTCTTTGGCTCAGTCTAGGGTATTCATTTCAGACTTCGATTCAATCTAGGTTGTTTTGTTT
1 ATCTTTCTTTGGCTCAATCCAAGTTATTCATTTCAGACTTCG-TTCAATCCAGGTTGTTTTGTTT
* *
4308771 TCAGATTTTGACTTATGTAAA
65 TCGGATTTTGACTTATGTCAA
* * *
4308792 ATCTTTTTTTGGCTCAATCCAGGTTATTCATTTCAGACTTCGGTTCAATCCAGGTTGTTTTGTCT
1 ATCTTTCTTTGGCTCAATCCAAGTTATTCATTTCAGACTTC-GTTCAATCCAGGTTGTTTTGTTT
* *
4308857 TCGAATTTTAACTTATGTCAA
65 TCGGATTTTGACTTATGTCAA
** *
4308878 ATCTTTCTTCAGCTTAATCCAAGTTATTCATTTCA
1 ATCTTTCTTTGGCTCAATCCAAGTTATTCATTTCA
4308913 AATTATGATT
Statistics
Matches: 173, Mismatches: 31, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
85 2 0.01
86 170 0.98
87 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.46
Consensus pattern (85 bp):
ATCTTTCTTTGGCTCAATCCAAGTTATTCATTTCAGACTTCGTTCAATCCAGGTTGTTTTGTTTT
CGGATTTTGACTTATGTCAA
Found at i:4308908 original size:172 final size:172
Alignment explanation
Indices: 4308620--4308938 Score: 372
Period size: 172 Copynumber: 1.9 Consensus size: 172
4308610 CCTATGCCAG
* * * *
4308620 ATCTTTTTTTGGCTCAGTCAAAGTTATTCATTATATACTTCAGTTTAATCCAGGTCATTTTATTT
1 ATCTTTTTTTGGCTCAATCAAAGTTATTCATTATAGACTTCAGTTCAATCCAGGTCATTTTATCT
* * * ** * * * *
4308685 TTGGATTTTGACTAATGTCAAATCCTTCTTTGGCTCAGTCTAGGGTATTCATTTCAGACTT-CGA
66 TCGAATTTTAACTAATGTCAAATCCTTCTTCAGCTCAATCCAAGGTATTCATTTCA-AATTACGA
*
4308749 TTCAATCTAGGTTGTTTTGTTTTCAGATTTTGACTTATGTAAA
130 TTCAATCTAGGTTATTTTGTTTTCAGATTTTGACTTATGTAAA
* * * ** *
4308792 ATCTTTTTTTGGCTCAATCCAGGTTATTCATT-TCAGACTTCGGTTCAATCCAGGTTGTTTTGTC
1 ATCTTTTTTTGGCTCAATCAAAGTTATTCATTAT-AGACTTCAGTTCAATCCAGGTCATTTTATC
* * * * *
4308856 TTCGAATTTTAACTTATGTCAAATCTTTCTTCAGCTTAATCCAAGTTATTCATTTCAAATTATGA
65 TTCGAATTTTAACTAATGTCAAATCCTTCTTCAGCTCAATCCAAGGTATTCATTTCAAATTACGA
*
4308921 TTCAGTCTAGGTTATTTT
130 TTCAATCTAGGTTATTTT
4308939 ATGTTGAATT
Statistics
Matches: 119, Mismatches: 26, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
171 4 0.03
172 115 0.97
ACGTcount: A:0.23, C:0.16, G:0.14, T:0.46
Consensus pattern (172 bp):
ATCTTTTTTTGGCTCAATCAAAGTTATTCATTATAGACTTCAGTTCAATCCAGGTCATTTTATCT
TCGAATTTTAACTAATGTCAAATCCTTCTTCAGCTCAATCCAAGGTATTCATTTCAAATTACGAT
TCAATCTAGGTTATTTTGTTTTCAGATTTTGACTTATGTAAA
Found at i:4308933 original size:86 final size:86
Alignment explanation
Indices: 4308730--4308938 Score: 260
Period size: 86 Copynumber: 2.4 Consensus size: 86
4308720 CAGTCTAGGG
* *
4308730 TATTCATTTCAGACTTCGATTCAATCTAGGTTGTTTTGTTTTCAGATTTTGACTTATGTAAAATC
1 TATTCATTTCAGACTTCGATTCAATCTAGGTTGTTTTGTCTTCAGATTTTAACTTATGTAAAATC
* ** *
4308795 TTTTTTTGGCTCAATCCAGGT
66 TTTCTTCAGCTCAATCCAAGT
* * *
4308816 TATTCATTTCAGACTTCGGTTCAATCCAGGTTGTTTTGTCTTC-GAATTTTAACTTATGTCAAAT
1 TATTCATTTCAGACTTCGATTCAATCTAGGTTGTTTTGTCTTCAG-ATTTTAACTTATGTAAAAT
*
4308880 CTTTCTTCAGCTTAATCCAAGT
65 CTTTCTTCAGCTCAATCCAAGT
* * * *
4308902 TATTCATTTCA-AATTATGATTCAGTCTAGGTTATTTT
1 TATTCATTTCAGACTT-CGATTCAATCTAGGTTGTTTT
4308939 ATGTTGAATT
Statistics
Matches: 105, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
85 4 0.04
86 101 0.96
ACGTcount: A:0.23, C:0.16, G:0.13, T:0.47
Consensus pattern (86 bp):
TATTCATTTCAGACTTCGATTCAATCTAGGTTGTTTTGTCTTCAGATTTTAACTTATGTAAAATC
TTTCTTCAGCTCAATCCAAGT
Found at i:4310055 original size:14 final size:15
Alignment explanation
Indices: 4310031--4310059 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4310021 TAAAACTTCA
4310031 AAAAAATATATATTT
1 AAAAAATATATATTT
4310046 AAAAAA-ATATATTT
1 AAAAAATATATATTT
4310060 TCAAAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAAAATATATATTT
Found at i:4310065 original size:14 final size:16
Alignment explanation
Indices: 4310030--4310068 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
4310020 ATAAAACTTC
4310030 AAAAAAATATATATTT
1 AAAAAAATATATATTT
4310046 AAAAAAATATAT-TTT
1 AAAAAAATATATATTT
*
4310061 CAAAAAAT
1 AAAAAAAT
4310069 TTCAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAAAAATATATATTT
Found at i:4310168 original size:59 final size:60
Alignment explanation
Indices: 4310062--4310288 Score: 204
Period size: 59 Copynumber: 3.9 Consensus size: 60
4310052 ATATATTTTC
* * * ** * *
4310062 AAAAAATTTCAAAAA-ATA-TTTTAAGAAAAAATTGAAAGTATCAATTTTCCTTGAAAAT
1 AAAAATTTTAAAAAAGATATTTTTGAGAAAATGTTAAAAGTATCAATTTTTCTTGAAAAT
* * *
4310120 AAAAATTTTAAAAAAG-TGTTTTTGAGGAAGA-GTTCAAAGTATCAATTTTTCTTGAAAAT
1 AAAAATTTTAAAAAAGATATTTTTGA-GAAAATGTTAAAAGTATCAATTTTTCTTGAAAAT
** * * *
4310179 AAAAAACTCAAAAAAGATATTTTTGAGAAAATTTTAAAAATATCAATTTTTCTTGAAAAT
1 AAAAATTTTAAAAAAGATATTTTTGAGAAAATGTTAAAAGTATCAATTTTTCTTGAAAAT
** *
4310239 AAAAAATTTT--AAAA-AT-TTTAAG-GAAAA-GTTGAAAGTATCAATTTTTCTTG
1 -AAAAATTTTAAAAAAGATATTTTTGAGAAAATGTTAAAAGTATCAATTTTTCTTG
4310289 TATAAAAGCA
Statistics
Matches: 139, Mismatches: 24, Indels: 15
0.78 0.13 0.08
Matches are distributed among these distances:
55 20 0.14
56 5 0.04
57 4 0.03
58 16 0.12
59 51 0.37
60 37 0.27
61 6 0.04
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (60 bp):
AAAAATTTTAAAAAAGATATTTTTGAGAAAATGTTAAAAGTATCAATTTTTCTTGAAAAT
Found at i:4310202 original size:60 final size:59
Alignment explanation
Indices: 4310070--4310288 Score: 200
Period size: 60 Copynumber: 3.8 Consensus size: 59
4310060 TCAAAAAATT
* ** * * **
4310070 TCAAAAAA-TA-TTTTAAGAAAAAATTGAAAGTATCAATTTTCCTTGAAAATAAAAATT
1 TCAAAAAAGTATTTTTGAGAAAATGTTAAAAGTATCAATTTTTCTTGAAAATAAAAAAC
* * * *
4310127 TTAAAAAAGTGTTTTTGAGGAAGA-GTTCAAAGTATCAATTTTTCTTGAAAATAAAAAAC
1 TCAAAAAAGTATTTTTGA-GAAAATGTTAAAAGTATCAATTTTTCTTGAAAATAAAAAAC
* * *
4310186 TCAAAAAAGATATTTTTGAGAAAATTTTAAAAATATCAATTTTTCTTGAAAATAAAAAAT
1 TCAAAAAAG-TATTTTTGAGAAAATGTTAAAAGTATCAATTTTTCTTGAAAATAAAAAAC
** ** *
4310246 TTTAAAAA-T-TTTAAG-GAAAA-GTTGAAAGTATCAATTTTTCTTG
1 TCAAAAAAGTATTTTTGAGAAAATGTTAAAAGTATCAATTTTTCTTG
4310289 TATAAAAGCA
Statistics
Matches: 134, Mismatches: 23, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
55 20 0.15
56 5 0.04
57 11 0.08
58 2 0.01
59 47 0.35
60 49 0.37
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (59 bp):
TCAAAAAAGTATTTTTGAGAAAATGTTAAAAGTATCAATTTTTCTTGAAAATAAAAAAC
Found at i:4316130 original size:23 final size:24
Alignment explanation
Indices: 4316073--4316132 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
4316063 TATGCCTATC
*
4316073 TATTTTGAATAGACAAAAATTGTT
1 TATTTTGAATAGACAAAAACTGTT
**
4316097 TATTTTTGAATAG-TTAAAACTGTT
1 TA-TTTTGAATAGACAAAAACTGTT
4316121 TATTTTGAATAG
1 TATTTTGAATAG
4316133 GCTTATCTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 10 0.31
24 12 0.38
25 10 0.31
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.47
Consensus pattern (24 bp):
TATTTTGAATAGACAAAAACTGTT
Found at i:4322424 original size:21 final size:21
Alignment explanation
Indices: 4322398--4322437 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4322388 TCACAAACCA
4322398 AGAAAAGAAAGA-AGAAAAGCC
1 AGAAAA-AAAGAGAGAAAAGCC
*
4322419 AGAAAAATAGAGAGAAAAG
1 AGAAAAAAAGAGAGAAAAG
4322438 GGAGAAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.68, C:0.05, G:0.25, T:0.03
Consensus pattern (21 bp):
AGAAAAAAAGAGAGAAAAGCC
Found at i:4327692 original size:11 final size:12
Alignment explanation
Indices: 4327638--4327694 Score: 55
Period size: 12 Copynumber: 4.7 Consensus size: 12
4327628 AAAAATTTTG
4327638 AATTTAAAATAT
1 AATTTAAAATAT
4327650 AATTTAATTAAT-T
1 AATTTAA--AATAT
*
4327663 ATTTTTAAAATAT
1 A-ATTTAAAATAT
*
4327676 AATTTATAATA-
1 AATTTAAAATAT
4327687 AATTTAAA
1 AATTTAAA
4327695 TTTATATTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
11 7 0.19
12 18 0.49
13 4 0.11
14 8 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AATTTAAAATAT
Found at i:4328116 original size:14 final size:14
Alignment explanation
Indices: 4328097--4328124 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4328087 GCCAATTTGG
4328097 TAACAAGTCAAGCA
1 TAACAAGTCAAGCA
4328111 TAACAAGTCAAGCA
1 TAACAAGTCAAGCA
4328125 CCAAGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.21, G:0.14, T:0.14
Consensus pattern (14 bp):
TAACAAGTCAAGCA
Found at i:4332261 original size:6 final size:6
Alignment explanation
Indices: 4332250--4332290 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
4332240 TATTATTTTT
*
4332250 TAAATA TAAATA TAAA-A TTAA-A TAAATA TAAAATA TAAATA
1 TAAATA TAAATA TAAATA TAAATA TAAATA T-AAATA TAAATA
4332291 AATAAATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 8 0.26
6 17 0.55
7 6 0.19
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
TAAATA
Found at i:4332278 original size:22 final size:21
Alignment explanation
Indices: 4332257--4332298 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 21
4332247 TTTTAAATAT
4332257 AAATATAAAATTAAATAAATATA
1 AAATAT-AAA-TAAATAAATATA
4332280 AAATATAAATAAATAAATA
1 AAATATAAATAAATAAATA
4332299 ATATTACGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.53
22 3 0.16
23 6 0.32
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
AAATATAAATAAATAAATATA
Found at i:4332302 original size:17 final size:17
Alignment explanation
Indices: 4332255--4332294 Score: 73
Period size: 16 Copynumber: 2.4 Consensus size: 17
4332245 TTTTTTAAAT
4332255 ATAAATATAAAAT-TAA
1 ATAAATATAAAATATAA
4332271 ATAAATATAAAATATAA
1 ATAAATATAAAATATAA
4332288 ATAAATA
1 ATAAATA
4332295 AATAATATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAAATATAAAATATAA
Found at i:4338127 original size:23 final size:23
Alignment explanation
Indices: 4338109--4338152 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
4338099 AAATTATGTG
4338109 CCATGAATGCCCTCTATTAAGTA
1 CCATGAATGCCCTCTATTAAGTA
*
4338132 CCATGAATGCTCTCTATTAAG
1 CCATGAATGCCCTCTATTAAG
4338153 AGTTAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (23 bp):
CCATGAATGCCCTCTATTAAGTA
Found at i:4350470 original size:3 final size:3
Alignment explanation
Indices: 4350462--4350499 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4350452 GGAAATGCCA
4350462 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4350500 ATATAAGTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4357754 original size:38 final size:38
Alignment explanation
Indices: 4357703--4357788 Score: 102
Period size: 38 Copynumber: 2.3 Consensus size: 38
4357693 TTATATATAT
* * * *
4357703 ATATAT-ATATATATTATAATAGAATTTCAGTTATCCCG
1 ATATATGAT-TATATTATAAGAAAACTTCAATTATCCCG
*
4357741 ATATATGATTATATTATAAGAAAACTTCAATTATCTCG
1 ATATATGATTATATTATAAGAAAACTTCAATTATCCCG
*
4357779 ATGTATGATT
1 ATATATGATT
4357789 GAGGTATCAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 39 0.95
39 2 0.05
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (38 bp):
ATATATGATTATATTATAAGAAAACTTCAATTATCCCG
Found at i:4358469 original size:19 final size:20
Alignment explanation
Indices: 4358435--4358473 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
4358425 ATTCCTTTAC
4358435 TCCTTTACGTTATCATTTGT
1 TCCTTTACGTTATCATTTGT
4358455 TCCTTTACG-TATCATTTGT
1 TCCTTTACGTTATCATTTGT
4358474 AAATGAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.15, C:0.21, G:0.10, T:0.54
Consensus pattern (20 bp):
TCCTTTACGTTATCATTTGT
Found at i:4362112 original size:26 final size:26
Alignment explanation
Indices: 4362076--4362129 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
4362066 TTGAACATTT
*
4362076 AATTGTTATAAATTTATAATATCATC
1 AATTATTATAAATTTATAATATCATC
4362102 AATTATTATAAATTTATAATATCATC
1 AATTATTATAAATTTATAATATCATC
4362128 AA
1 AA
4362130 AAGCGTCAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.44
Consensus pattern (26 bp):
AATTATTATAAATTTATAATATCATC
Found at i:4369232 original size:11 final size:11
Alignment explanation
Indices: 4369216--4369256 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
4369206 TTCTTATGGT
4369216 AATATAAAATA
1 AATATAAAATA
*
4369227 AATATAATATA
1 AATATAAAATA
*
4369238 AAAATAAAATA
1 AATATAAAATA
4369249 AA-ATAAAA
1 AATATAAAA
4369257 ATATATTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 6 0.22
11 21 0.78
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AATATAAAATA
Found at i:4369257 original size:16 final size:17
Alignment explanation
Indices: 4369216--4369259 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
4369206 TTCTTATGGT
4369216 AATATAAAATAAATATAA
1 AATA-AAAATAAATATAA
*
4369234 TATAAAAATAAA-ATAA
1 AATAAAAATAAATATAA
4369250 AATAAAAATA
1 AATAAAAATA
4369260 TATTTTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 13 0.54
17 8 0.33
18 3 0.12
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
AATAAAAATAAATATAA
Found at i:4380576 original size:11 final size:11
Alignment explanation
Indices: 4380560--4380597 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
4380550 AATTACACTC
4380560 AAAATATATAT
1 AAAATATATAT
4380571 AAAATATATAT
1 AAAATATATAT
*
4380582 AATATA-AT-T
1 AAAATATATAT
4380591 AAAATAT
1 AAAATAT
4380598 CAAATCATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 6 0.25
10 2 0.08
11 16 0.67
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AAAATATATAT
Found at i:4385611 original size:23 final size:22
Alignment explanation
Indices: 4385576--4385619 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
4385566 AAATTTTAAA
* *
4385576 TTTTATATTATTTGAATATAAT
1 TTTTATATAATTTAAATATAAT
4385598 TTTTAATATAATTTAAATATAA
1 TTTT-ATATAATTTAAATATAA
4385620 AATAATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTTATATAATTTAAATATAAT
Found at i:4387006 original size:29 final size:31
Alignment explanation
Indices: 4386933--4387011 Score: 90
Period size: 29 Copynumber: 2.6 Consensus size: 31
4386923 AATCTCATAA
* *
4386933 ATAATTTTTAAATTATAATAAAATATTTAAT
1 ATAATATTTAAATTATAAAAAAATATTTAAT
* **
4386964 ATGATACATAAATT-TAAAAAAAT-TTTAAT
1 ATAATATTTAAATTATAAAAAAATATTTAAT
*
4386993 ATAATATTTGAATTATAAA
1 ATAATATTTAAATTATAAA
4387012 TTTATTAATT
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
29 16 0.42
30 12 0.32
31 10 0.26
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (31 bp):
ATAATATTTAAATTATAAAAAAATATTTAAT
Found at i:4387044 original size:18 final size:19
Alignment explanation
Indices: 4387011--4387047 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
4387001 TGAATTATAA
4387011 ATTTATTAATTAATATGAT
1 ATTTATTAATTAATATGAT
*
4387030 ATTTATTCA-TAATATGAT
1 ATTTATTAATTAATATGAT
4387048 TAATTTCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
ATTTATTAATTAATATGAT
Found at i:4387991 original size:31 final size:32
Alignment explanation
Indices: 4387918--4387993 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
4387908 ATTAAATATT
*** *
4387918 GATTTCATTTGATAAAATATTAATGGATGTTT
1 GATTTCATTTGATAAAATATTAACACATGTTG
*
4387950 GATTTCATTTGATAAAATATTAGCACATG-TG
1 GATTTCATTTGATAAAATATTAACACATGTTG
*
4387981 GATTTTATTTGAT
1 GATTTCATTTGAT
4387994 TTCATTTGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
31 13 0.34
32 25 0.66
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.46
Consensus pattern (32 bp):
GATTTCATTTGATAAAATATTAACACATGTTG
Found at i:4392449 original size:11 final size:11
Alignment explanation
Indices: 4392433--4392462 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
4392423 TTTATGAATA
4392433 TATTTATTTTT
1 TATTTATTTTT
4392444 TATTTA-TTTT
1 TATTTATTTTT
4392454 TATTTATTT
1 TATTTATTT
4392463 ATTAAACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (11 bp):
TATTTATTTTT
Found at i:4393249 original size:22 final size:24
Alignment explanation
Indices: 4393219--4393285 Score: 75
Period size: 22 Copynumber: 2.8 Consensus size: 24
4393209 TTTTATATAT
*
4393219 AAATTTATTTAAAT-ATAT-TAAA
1 AAATTTATTAAAATAATATATAAA
*
4393241 AATTTTATTAAAATAATATATAAA
1 AAATTTATTAAAATAATATATAAA
4393265 AAATTTAAATTAAAATGAATA
1 AAATTT--ATTAAAAT-AATA
4393286 AACTAAGTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 12 0.32
23 4 0.11
24 9 0.24
26 8 0.22
27 4 0.11
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (24 bp):
AAATTTATTAAAATAATATATAAA
Found at i:4393266 original size:25 final size:27
Alignment explanation
Indices: 4393230--4393285 Score: 80
Period size: 25 Copynumber: 2.1 Consensus size: 27
4393220 AATTTATTTA
* *
4393230 AATATATTAAAAATTT-TATTAAAAT-
1 AATATATAAAAAATTTAAATTAAAATG
4393255 AATATATAAAAAATTTAAATTAAAATG
1 AATATATAAAAAATTTAAATTAAAATG
4393282 AATA
1 AATA
4393286 AACTAAGTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 15 0.56
26 8 0.30
27 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (27 bp):
AATATATAAAAAATTTAAATTAAAATG
Found at i:4395023 original size:32 final size:32
Alignment explanation
Indices: 4394961--4395023 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
4394951 TTGTATTATA
* *
4394961 TTATTTTTATTTTTAATATCATTATCATTCTT
1 TTATATTTATTTTTAATATCATTATAATTCTT
* *
4394993 TTATATTTATTTTTTTATTTCATTA-AATTCT
1 TTATATTTA-TTTTTAATATCATTATAATTCT
4395024 AATTCCTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (32 bp):
TTATATTTATTTTTAATATCATTATAATTCTT
Found at i:4396441 original size:23 final size:23
Alignment explanation
Indices: 4396408--4396468 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
4396398 AGTAAAAAAA
4396408 ATAAAATTAAATAGTTAAATTTAT
1 ATAAAA-TAAATAGTTAAATTTAT
* * *
4396432 ATAAAATAAACAGATAAATTTGT
1 ATAAAATAAATAGTTAAATTTAT
4396455 -TCAAAA-AAATAGTT
1 AT-AAAATAAATAGTT
4396469 TCAACTACTC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
22 7 0.23
23 18 0.58
24 6 0.19
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.34
Consensus pattern (23 bp):
ATAAAATAAATAGTTAAATTTAT
Done.